WorldWideScience

Sample records for factorial analysis revealed

  1. Frantic activity revealed in dusty stellar factories

    Science.gov (United States)

    2009-01-01

    Thanks to the Very Large Telescope's acute and powerful near-infrared eye, astronomers have uncovered a host of new young, massive and dusty stellar nurseries in nearby galaxy NGC 253. The centre of this galaxy appears to harbour a twin of our own Milky Way's supermassive black hole. ESO PR Photo 02a/09 The Spiral Galaxy NGC 253 Astronomers from the Instituto de Astrofísica de Canarias (Spain) used NACO, a sharp-eyed adaptive optics instrument on ESO's Very Large Telescope (VLT), to study the fine detail in NGC 253, one of the brightest and dustiest spiral galaxies in the sky. Adaptive Optics (AO) corrects for the blurring effect introduced by the Earth's atmosphere. This turbulence causes the stars to twinkle in a way that delights poets, but frustrates astronomers, since it smears out the images. With AO in action the telescope can produce images that are as sharp as is theoretically possible, as if the telescope were in space. NACO revealed features in the galaxy that were only 11 light-years across. "Our observations provide us with so much spatially resolved detail that we can, for the first time, compare them with the finest radio maps for this galaxy -- maps that have existed for more than a decade," says Juan Antonio Fernández-Ontiveros, the lead author of the paper reporting the results [1]. Astronomers identified 37 distinct bright regions, a threefold increase on previous results, packed into a tiny region at the core of the galaxy, comprising just one percent of the galaxy's total size. The astronomers combined their NACO images with data from another VLT instrument, VISIR, as well as with images from the NASA/ESA Hubble Space Telescope and radio observations made by the Very Large Array and the Very Large Baseline Interferometer. Combining these observations, taken in different wavelength regimes, provided a clue to the nature of these regions. "We now think that these are probably very active nurseries that contain many stars bursting from their

  2. Factorial invariance in multilevel confirmatory factor analysis.

    Science.gov (United States)

    Ryu, Ehri

    2014-02-01

    This paper presents a procedure to test factorial invariance in multilevel confirmatory factor analysis. When the group membership is at level 2, multilevel factorial invariance can be tested by a simple extension of the standard procedure. However level-1 group membership raises problems which cannot be appropriately handled by the standard procedure, because the dependency between members of different level-1 groups is not appropriately taken into account. The procedure presented in this article provides a solution to this problem. This paper also shows Muthén's maximum likelihood (MUML) estimation for testing multilevel factorial invariance across level-1 groups as a viable alternative to maximum likelihood estimation. Testing multilevel factorial invariance across level-2 groups and testing multilevel factorial invariance across level-1 groups are illustrated using empirical examples. SAS macro and Mplus syntax are provided.

  3. Bayesian analysis of factorial designs.

    Science.gov (United States)

    Rouder, Jeffrey N; Morey, Richard D; Verhagen, Josine; Swagman, April R; Wagenmakers, Eric-Jan

    2017-06-01

    This article provides a Bayes factor approach to multiway analysis of variance (ANOVA) that allows researchers to state graded evidence for effects or invariances as determined by the data. ANOVA is conceptualized as a hierarchical model where levels are clustered within factors. The development is comprehensive in that it includes Bayes factors for fixed and random effects and for within-subjects, between-subjects, and mixed designs. Different model construction and comparison strategies are discussed, and an example is provided. We show how Bayes factors may be computed with BayesFactor package in R and with the JASP statistical package. (PsycINFO Database Record (c) 2017 APA, all rights reserved).

  4. Analysis of reproductive performance of sows in the factory farming

    OpenAIRE

    Němec, Petr

    2013-01-01

    The work deals with the analysis of some conditions to increase the level of piglets in factory farms. In addition to the genetic material used in crossing the farm, there is really important material support: good nutrition, breeding environment and nursing care. All these requirements were fullfilled in evaulated plant. In the breeding herd, were revealed a significant effect of early estrus and early pregnancy rate in the interval weaning of piglets. The obtained data showed that the perce...

  5. Ergonomic analysis jobs in recovered factories.

    Science.gov (United States)

    Cuenca, Gabriela; Zotta, Gastón

    2012-01-01

    With the advent of the deep economic crisis in Argentina on 2001, the recovery of companies through to the creation of the Cooperatives Working Self-Management or Factories Recovered by its workers was constituted as one of the ways in which the salaried disobeyed the increasing unemployment. When the companies turn into recovered factories they tend to leave of side practices that have been seen like imposed by the previous organization and not understanding them as a primary condition for the execution of his tasks. Safety and ergonomics are two disciplines that are no longer considered relevant to the daily work. Therefore this investigation aims to revalue, undergo semantic to give back to a place in every organization analyzed. This research developed a self-diagnostic tool for working conditions, and the environment, present in the recovered factories.

  6. Confirmatory factorial analysis of TEOSQp / Análise factorial confirmatória do TEOSQp

    Directory of Open Access Journals (Sweden)

    Helder M. Fernandes

    2010-01-01

    Full Text Available The present research assessed the reliability, factorial validity and measurement invariance (by gender of the Portuguese version of TEOSQ –Task and Ego Orientation in Sport Questionnaire (Fonseca & Biddle, 2001. Data were collected from 1010 physical education students with a mean age of 15.42 ( SD=1.91. Factorial and invariance measurements were tested via confirmatory factorial analysis. Results supported internal consistency for the two proposed subscales (task and ego. Based on modification indices and theoretical justification the TEOSQ p was reduced to 12 items with better goodness-of-fit indices for the oblique model. The results of gender invariance did not provide full empirical support to the multi-group equivalence assumption, being suggested that TEOSQ p does not measure in the same way goal orientations for boys (orthogonal model and girls (oblique model. In light of these results, conceptual, empirical and practical issues were discussed.

  7. Factorial kriging analysis applied to geological data from petroleum exploration

    Energy Technology Data Exchange (ETDEWEB)

    Jaquet, O.

    1989-10-01

    A regionalized variable, thickness of the reservoir layer, from a gas field is decomposed by factorial kriging analysis. Maps of the obtained components may be associated with depositional environments that are favorable for petroleum exploration.

  8. PowerFactory applications for power system analysis

    CERN Document Server

    Gonzalez-Longatt, Francisco

    2014-01-01

    This book presents a comprehensive set of guidelines and applications of DIgSILENT PowerFactory, an advanced power system simulation software package, for different types of power systems studies. Written by specialists in the field, it combines expertise and years of experience in the use of DIgSILENT PowerFactory with a deep understanding of power systems analysis. These complementary approaches therefore provide a fresh perspective on how to model, simulate and analyse power systems. It presents methodological approaches for modelling of system components, including both classical and non-

  9. Factorial Analysis of Albanian Housing Market

    Directory of Open Access Journals (Sweden)

    Luciana Kabello Koprencka

    2014-08-01

    Full Text Available Housing market and housing price dynamics are very important to the economy. About 65% of households in the western world and 85% of Albania's own private apartment. The market of residential estates is very complex and influenced by many factors, some of which are hard to be measured. Such factors include handling of taxes and remittances. The analysis of such factors becomes more complicated by the interference of temporary trends during the period that some explanatory variables have at their disposal. This generates an important identification problem, which prevents the accurate evaluation of long-term changes in the housing prices. The data used in this study are extracted from reports of Bank of Albania, INSTAT, IMF and newspaper “Celes” as well as from surveys to individual purchasers, investors and developers. Through the model it is analyzed the development of residential estates‟ market compared to the historical trend of housing prices and to the theoretical determinant. The econometric model used is a generalized multiple regression equation. The model allows us to see the dynamic interaction between the housing prices and the variables selected according to hypotheses on the very complex economic structure associated with this market.

  10. Systems analysis and futuristic designs of advanced biofuel factory concepts.

    Energy Technology Data Exchange (ETDEWEB)

    Chianelli, Russ; Leathers, James; Thoma, Steven George; Celina, Mathias C.; Gupta, Vipin P.

    2007-10-01

    The U.S. is addicted to petroleum--a dependency that periodically shocks the economy, compromises national security, and adversely affects the environment. If liquid fuels remain the main energy source for U.S. transportation for the foreseeable future, the system solution is the production of new liquid fuels that can directly displace diesel and gasoline. This study focuses on advanced concepts for biofuel factory production, describing three design concepts: biopetroleum, biodiesel, and higher alcohols. A general schematic is illustrated for each concept with technical description and analysis for each factory design. Looking beyond current biofuel pursuits by industry, this study explores unconventional feedstocks (e.g., extremophiles), out-of-favor reaction processes (e.g., radiation-induced catalytic cracking), and production of new fuel sources traditionally deemed undesirable (e.g., fusel oils). These concepts lay the foundation and path for future basic science and applied engineering to displace petroleum as a transportation energy source for good.

  11. Photosynthesis energy factory: analysis, synthesis, and demonstration. Final report

    Energy Technology Data Exchange (ETDEWEB)

    1978-11-01

    This quantitative assessment of the potential of a combined dry-land Energy Plantation, wood-fired power plant, and algae wastewater treatment system demonstrates the cost-effectiveness of recycling certain by-products and effluents from one subsystem to another. Designed to produce algae up to the limit of the amount of carbon in municipal wastewater, the algae pond provides a positive cash credit, resulting mainly from the wastewater treatment credit, which may be used to reduce the cost of the Photosynthesis Energy Factory (PEF)-generated electricity. The algae pond also produces fertilizer, which reduces the cost of the biomass produced on the Energy Plantation, and some gas. The cost of electricity was as low as 35 mills per kilowatt-hour for a typical municipally-owned PEF consisting of a 65-MWe power plant, a 144-acre algae pond, and a 33,000-acre Energy Plantation. Using only conventional or near-term technology, the most cost-effective algae pond for a PEF is the carbon-limited secondary treatment system. This system does not recycle CO/sub 2/ from the flue gas. Analysis of the Energy Plantation subsystem at 15 sites revealed that plantations of 24,000 to 36,000 acres produce biomass at the lowest cost per ton. The following sites are recommended for more detailed evaluation as potential demonstration sites: Pensacola, Florida; Jamestown, New York; Knoxville, Tennessee; Martinsville, Virginia, and Greenwood, South Carolina. A major possible extension of the PEF concept is to include the possibility for irrigation.

  12. A factorial analysis experimentation of inappropriate waste disposal

    Directory of Open Access Journals (Sweden)

    S. A. Oke, K. O. Awofeso

    2006-04-01

    Full Text Available This paper presents a statistical approach to estimating the effects of psychological factors on humans due to inappropriate waste disposal in the environment. Factorial experimental analysis is combined with the concepts of transition matrix and steady state conditions. An adequate understanding into the statistical quantification of the waste disposal concept would aid policy makers in effective decision making and the proper control of environment. The feasibility of developing statistical parameters for assessing the waste disposal concept is confirmed. The work shows the novelty of the approach.

  13. FACTORIAL CORRESPONDENCES ANALYSIS – A TOOL IN TOURISM MOTIVATION RESEARCH

    Directory of Open Access Journals (Sweden)

    Ion Danut I. JUGANARU

    2016-05-01

    Full Text Available This study aims at analyzing the distribution of tourist flows in 2014, from 25 European countries, on three main categories of trip purposes, and assumes that there are differences or similarities between the tourists’ countries of residence and their trip purposes. "Purpose'' is a multidimensional concept used in marketing research, most often for understanding consumer behavior, and for identifying market segments or customer target groups, reunited in terms of similar characteristics. Being aware that the decision of choice/ purchase is based on purposes, their knowledge proves useful in designing strategies to increase the satisfaction level provided to the customer. The statistical method used in this paper is the factorial correspondences analysis. In our opinion, the identification, by this method, of the existence of differences or similarities between the tourists’ countries of residence and their trip purposes can represent a useful step in studying the tourism market and the choice/ reformulation of strategies.

  14. Factorial Analysis of Mass Media Influence on Academic Sports Development

    Directory of Open Access Journals (Sweden)

    Benar Noshin

    2016-06-01

    Full Text Available Purpose: Main objective of this research was factorial analysis of mass media influence on academic sports development. Material: Methodology of the research was descriptive- correlation. Population of the research was composed of all referees, coaches and athletes participating in students' sports Olympiad of Iran Payam e Noor Universities in year 2014. Statistical sample of research was chosen randomly and consisted of 176 persons. Data gathering tool was a researcher made questionnaire; its superficial and content validity was approved by academic professors and media experts; also the stability of research tool was reported to be at an acceptable level. SPSS 23 software was used to analyze research data and also AMOS 24 software was used to analyze structure validity. Results: Findings showed there is a significant difference between current situation and desirable situation in all research dimensions. Also, factorial analysis of all research variables showed improvement of coaches' technical performance (0.86, improvement of referees' technical performance (0.85, and promotion of academic sport managers' awareness (0.83 respectively are mostly influenced by mass media. Conclusion : It should be kept in mind that academic sports development is one of the factors of the entire country sports development. Hence, it is crucial to attend to different dimensions of student sport's aspects such as human, financial, planning and etc., especially in championship area to be able to further macro objectives of country's sports development. Considering current conditions, mass media should have a new perspective on academic sports in order to be able to attend to their responsibilities to further the excellence of country's sports.

  15. Lyapunov exponents and phase diagrams reveal multi-factorial control over TRAIL-induced apoptosis

    Science.gov (United States)

    Aldridge, Bree B; Gaudet, Suzanne; Lauffenburger, Douglas A; Sorger, Peter K

    2011-01-01

    Receptor-mediated apoptosis proceeds via two pathways: one requiring only a cascade of initiator and effector caspases (type I behavior) and the second requiring an initiator–effector caspase cascade and mitochondrial outer membrane permeabilization (type II behavior). Here, we investigate factors controlling type I versus II phenotypes by performing Lyapunov exponent analysis of an ODE-based model of cell death. The resulting phase diagrams predict that the ratio of XIAP to pro-caspase-3 concentrations plays a key regulatory role: type I behavior predominates when the ratio is low and type II behavior when the ratio is high. Cell-to-cell variability in phenotype is observed when the ratio is close to the type I versus II boundary. By positioning multiple tumor cell lines on the phase diagram we confirm these predictions. We also extend phase space analysis to mutations affecting the rate of caspase-3 ubiquitylation by XIAP, predicting and showing that such mutations abolish all-or-none control over activation of effector caspases. Thus, phase diagrams derived from Lyapunov exponent analysis represent a means to study multi-factorial control over a complex biochemical pathway. PMID:22108795

  16. Lyapunov exponents and phase diagrams reveal multi-factorial control over TRAIL-induced apoptosis.

    Science.gov (United States)

    Aldridge, Bree B; Gaudet, Suzanne; Lauffenburger, Douglas A; Sorger, Peter K

    2011-11-22

    Receptor-mediated apoptosis proceeds via two pathways: one requiring only a cascade of initiator and effector caspases (type I behavior) and the second requiring an initiator-effector caspase cascade and mitochondrial outer membrane permeabilization (type II behavior). Here, we investigate factors controlling type I versus II phenotypes by performing Lyapunov exponent analysis of an ODE-based model of cell death. The resulting phase diagrams predict that the ratio of XIAP to pro-caspase-3 concentrations plays a key regulatory role: type I behavior predominates when the ratio is low and type II behavior when the ratio is high. Cell-to-cell variability in phenotype is observed when the ratio is close to the type I versus II boundary. By positioning multiple tumor cell lines on the phase diagram we confirm these predictions. We also extend phase space analysis to mutations affecting the rate of caspase-3 ubiquitylation by XIAP, predicting and showing that such mutations abolish all-or-none control over activation of effector caspases. Thus, phase diagrams derived from Lyapunov exponent analysis represent a means to study multi-factorial control over a complex biochemical pathway.

  17. Factory Gate Pricing : An Analysis of the Dutch Retail Distribution

    NARCIS (Netherlands)

    Le Blanc, H.M.; Cruijssen, F.C.A.M.; Fleuren, H.A.; de Koster, M.B.M.

    2004-01-01

    Factory Gate Pricing (FGP) is a relatively new phenomenon in retail distribution.Under FGP, products are no longer delivered at the retailer distribution center, but collected by the retailer at the factory gates of the suppliers.Owing to both the asymmetry in the distribution networks (the supplier

  18. Factory Gate Pricing: An Analysis of the Dutch Retail Distribution

    NARCIS (Netherlands)

    H.M. le Blanc; F. Cruijssen (Frans); H.A. Fleuren; M.B.M. de Koster (René)

    2004-01-01

    textabstractFactory Gate Pricing (FGP) is a relatively new phenomenon in retail distribution. Under FGP, products are no longer delivered at the retailer distribution center, but collected by the retailer at the factory gates of the suppliers. Owing to both the asymmetry in the distribution networks

  19. Factorial kriging analysis - a geostatistical approach to improve reservoir characterization with seismic data

    Energy Technology Data Exchange (ETDEWEB)

    Mundim, Evaldo Cesario; Johann, Paulo R. [PETROBRAS S.A., Rio de Janeiro, RJ (Brazil); Remacre, Armando Zaupa [Universidade Estadual de Campinas, SP (Brazil)

    1999-07-01

    In this work the Factorial Kriging analysis for the filtering of seismic attributes applied to reservoir characterization is considered. Factorial Kriging works in the spatial domain in a similar way to the Spectral Analysis in the frequency domain. The incorporation of filtered attributes as a secondary variable in Kriging system is discussed. Results prove that Factorial Kriging is an efficient technique for the filtering of seismic attributes images, of which geologic features are enhanced. The attribute filtering improves the correlation between the attributes and the well data and the estimates of the reservoir properties. The differences between the estimates obtained by External Drift Kriging and Collocated Cokriging are also reduced. (author)

  20. THE MICROBIAL ANALYSIS IN A BREAD FACTORY IN DAMBOVITA COUNTY

    OpenAIRE

    Daniela Maracinaru; Daniela Avram; Magda Gabriela Bratu

    2010-01-01

    The aim of this paper is to determine the degree of microbial charge of the air in a bread factory. In food industry theair represents one of the biggest riscs of microbiological contamination (with bacteria, yeast, mildew) of food productswith repercusions in the sanitary area (intoxications) as well as in industrial area (modification of organolepticproperties of products, rebutting in fabrication, depositing problems, etc. For food industry it is very important that theair is not filled wi...

  1. Study of Electrochemical Degradation of Bromophenol Blue at Boron-doped Diamond Electrode by Using Factorial Design Analysis

    Directory of Open Access Journals (Sweden)

    Rong Fei

    2015-01-01

    Full Text Available As an ideal anode material, Boron-doped diamond (BDD has been widely applied in electro-chemical oxidation of various organic pollutants, for its unique physical and chemical properties. In this paper, the authors studied the degradation of bromophenol blue through the electrochemical anodic oxidation by using the boron-doped BDD as the anode. The effect of statistically important operating parameters on treatment per-formance, such as treatment time, flow rate, applied current and concentration of supporting electrolyte, was evaluated by employing a factorial design analysis in terms of color removal and COD removal amount. As a result, the BDD technology was approved to be highly effective in treating bromophenol blue. Moreover, the results revealed the applicability and potential of factorial design analysis in operating parameters optimization and practical engineering application of BDD technology.

  2. A Bayesian-based multilevel factorial analysis method for analyzing parameter uncertainty of hydrological model

    Science.gov (United States)

    Liu, Y. R.; Li, Y. P.; Huang, G. H.; Zhang, J. L.; Fan, Y. R.

    2017-10-01

    In this study, a Bayesian-based multilevel factorial analysis (BMFA) method is developed to assess parameter uncertainties and their effects on hydrological model responses. In BMFA, Differential Evolution Adaptive Metropolis (DREAM) algorithm is employed to approximate the posterior distributions of model parameters with Bayesian inference; factorial analysis (FA) technique is used for measuring the specific variations of hydrological responses in terms of posterior distributions to investigate the individual and interactive effects of parameters on model outputs. BMFA is then applied to a case study of the Jinghe River watershed in the Loess Plateau of China to display its validity and applicability. The uncertainties of four sensitive parameters, including soil conservation service runoff curve number to moisture condition II (CN2), soil hydraulic conductivity (SOL_K), plant available water capacity (SOL_AWC), and soil depth (SOL_Z), are investigated. Results reveal that (i) CN2 has positive effect on peak flow, implying that the concentrated rainfall during rainy season can cause infiltration-excess surface flow, which is an considerable contributor to peak flow in this watershed; (ii) SOL_K has positive effect on average flow, implying that the widely distributed cambisols can lead to medium percolation capacity; (iii) the interaction between SOL_AWC and SOL_Z has noticeable effect on the peak flow and their effects are dependent upon each other, which discloses that soil depth can significant influence the processes of plant uptake of soil water in this watershed. Based on the above findings, the significant parameters and the relationship among uncertain parameters can be specified, such that hydrological model's capability for simulating/predicting water resources of the Jinghe River watershed can be improved.

  3. Factorial Structure and Invariance Analysis of the Sense of Belonging Scales

    Science.gov (United States)

    Tovar, Esau; Simon, Merril A.

    2010-01-01

    Using a diverse sample of university students, this article describes outcomes of a confirmatory factor analysis and a group invariance analysis conducted to validate the factorial structure of the Sense of Belonging Scales. Accordingly, a modified factor structure departing significantly from that of the original authors is proposed. (Contains 5…

  4. Factorial Structure and Invariance Analysis of the Sense of Belonging Scales

    Science.gov (United States)

    Tovar, Esau; Simon, Merril A.

    2010-01-01

    Using a diverse sample of university students, this article describes outcomes of a confirmatory factor analysis and a group invariance analysis conducted to validate the factorial structure of the Sense of Belonging Scales. Accordingly, a modified factor structure departing significantly from that of the original authors is proposed. (Contains 5…

  5. Design and analysis of a cogeneration plant using heat recovery of a cement factory

    OpenAIRE

    2015-01-01

    There is a more potential in a cement factory for electric power generation using waste heat recovery compared to the other industries. A case study has been done at a cement factory having two units, 1600 TPD and 5500 TPD, identified three waste heat rejections at 176 °C, 330 °C and 420 °C and designed a suitable power plant configuration. In this work, an attempt has been made to quantify the power generation capacity with plant analysis. It has been resulted that 12.5 MW of power can be pr...

  6. Multiplicity fluctuations of pions and protons at SPS energy – An in-depth analysis with factorial correlator

    Indian Academy of Sciences (India)

    Dipak Ghosh; Argha Deb; Madhumita Banerjee Lahiri; Subrata Biswas; Pasupati Mandal

    2009-10-01

    We compute the factorial correlators to study the dynamical fluctuations of pions and a combination of pions and protons (compound multiplicity) in 32S–AgBr interactions at 200 A GeV. The study reveals that for both pion and compound multiplicity the correlated moments increase with the decrease in bin–bin separation , following a power-law, which suggests the self-similarity of multiplicity fluctuation in each case. The results of the analysis also show a consistency with the prediction of -model for the existence of intermittency in both cases.

  7. Data on energy, exergy analysis and optimisation for a sugar factory

    Directory of Open Access Journals (Sweden)

    Tolga Taner

    2015-12-01

    Full Text Available A huge amount of energy is consumed during sugar production in the food industry. The large amount of steam used and the power of the turbine power plant are key factors. This makes energy and exergy analysis important in sugar factories. The data given in the following paper are related to input and output information of the paper entitled Energy – exergy analysis and optimisation of a model sugar factory in Turkey by Taner and Sivrioglu (2015 [1]. Factory total energy efficiency and exergy efficiency are found to be ηenT=72.2% and ηexT=37.4%, respectively, and according to these results, the total energy quality ∅T=0.64. These results indicate higher efficiency than similar studies (Vuckovic et al., 2014; Pellegrini and Oliviera Junior, 2011; Deshmukh et al., 2013; Palacios-Bereche et al., 2015 [2–5]. This study can be a model for these similar factories by Taner and Sivrioglu (2015 [1].

  8. Data on energy, exergy analysis and optimisation for a sugar factory.

    Science.gov (United States)

    Taner, Tolga; Sivrioglu, Mecit

    2015-12-01

    A huge amount of energy is consumed during sugar production in the food industry. The large amount of steam used and the power of the turbine power plant are key factors. This makes energy and exergy analysis important in sugar factories. The data given in the following paper are related to input and output information of the paper entitled Energy - exergy analysis and optimisation of a model sugar factory in Turkey by Taner and Sivrioglu (2015) [1]. Factory total energy efficiency and exergy efficiency are found to be η enT=72.2% and η exT=37.4%, respectively, and according to these results, the total energy quality ∅ T=0.64. These results indicate higher efficiency than similar studies (Vuckovic et al., 2014; Pellegrini and Oliviera Junior, 2011; Deshmukh et al., 2013; Palacios-Bereche et al., 2015) [2], [3], [4], [5]. This study can be a model for these similar factories by Taner and Sivrioglu (2015) [1].

  9. Clinical And Factorial Analysis Of Pathological States In Acute Intestinal Infections In Children

    Directory of Open Access Journals (Sweden)

    Mukarram Shadjalilova

    2012-10-01

    Full Text Available The author reported clinical characteristic features and risk factors for acute intestinal infections in 225 children (140 boys and 85 girls, mean age 1.5 years old. 90 (40% patients aged up to 12 months, 101 (44.9% were from 1 to 2 years old, and 34 (15.1% were more than 2 years old. Most children were hospitalized in the first week of illness and had moderate severe course of disease. Severe forms of illness reliably more often were noted in children being on artificial feeding. Toxic-dystrophic condition, severe forms and perinatal encephalopathy were prevailed in boys. Factorial analysis revealed 20 most significant factors with factorization fullness 70.8%. The most significant factors were F-1(factor of hyperthermia duration with 8.5% effect, F-2 (factor of pain syndrome – 5.8%, F-3 (factor of normal enzymatic activity of colon bacillus – 4.9%, F-4 (etiological factor – 4.6%, as well as F-5(factor of opportunistic flora of the intestine – 4.4%, respectively.

  10. Analysis of factorial time-course microarrays with application to a clinical study of burn injury.

    Science.gov (United States)

    Zhou, Baiyu; Xu, Weihong; Herndon, David; Tompkins, Ronald; Davis, Ronald; Xiao, Wenzhong; Wong, Wing Hung; Toner, Mehmet; Warren, H Shaw; Schoenfeld, David A; Rahme, Laurence; McDonald-Smith, Grace P; Hayden, Douglas; Mason, Philip; Fagan, Shawn; Yu, Yong-Ming; Cobb, J Perren; Remick, Daniel G; Mannick, John A; Lederer, James A; Gamelli, Richard L; Silver, Geoffrey M; West, Michael A; Shapiro, Michael B; Smith, Richard; Camp, David G; Qian, Weijun; Storey, John; Mindrinos, Michael; Tibshirani, Rob; Lowry, Stephen; Calvano, Steven; Chaudry, Irshad; West, Michael A; Cohen, Mitchell; Moore, Ernest E; Johnson, Jeffrey; Moldawer, Lyle L; Baker, Henry V; Efron, Philip A; Balis, Ulysses G J; Billiar, Timothy R; Ochoa, Juan B; Sperry, Jason L; Miller-Graziano, Carol L; De, Asit K; Bankey, Paul E; Finnerty, Celeste C; Jeschke, Marc G; Minei, Joseph P; Arnoldo, Brett D; Hunt, John L; Horton, Jureta; Cobb, J Perren; Brownstein, Bernard; Freeman, Bradley; Maier, Ronald V; Nathens, Avery B; Cuschieri, Joseph; Gibran, Nicole; Klein, Matthew; O'Keefe, Grant

    2010-06-01

    Time-course microarray experiments are capable of capturing dynamic gene expression profiles. It is important to study how these dynamic profiles depend on the multiple factors that characterize the experimental condition under which the time course is observed. Analytic methods are needed to simultaneously handle the time course and factorial structure in the data. We developed a method to evaluate factor effects by pooling information across the time course while accounting for multiple testing and nonnormality of the microarray data. The method effectively extracts gene-specific response features and models their dependency on the experimental factors. Both longitudinal and cross-sectional time-course data can be handled by our approach. The method was used to analyze the impact of age on the temporal gene response to burn injury in a large-scale clinical study. Our analysis reveals that 21% of the genes responsive to burn are age-specific, among which expressions of mitochondria and immunoglobulin genes are differentially perturbed in pediatric and adult patients by burn injury. These new findings in the body's response to burn injury between children and adults support further investigations of therapeutic options targeting specific age groups. The methodology proposed here has been implemented in R package "TANOVA" and submitted to the Comprehensive R Archive Network at http://www.r-project.org/. It is also available for download at http://gluegrant1.stanford.edu/TANOVA/.

  11. Permutation tests for multi-factorial analysis of variance

    NARCIS (Netherlands)

    Anderson, M.J.; Braak, ter C.J.F.

    2003-01-01

    Several permutation strategies are often possible for tests of individual terms in analysis-of-variance (ANOVA) designs. These include restricted permutations, permutation of whole groups of units, permutation of some form of residuals or some combination of these. It is unclear, especially for

  12. Factorial experimental design for the culture of human embryonic stem cells as aggregates in stirred suspension bioreactors reveals the potential for interaction effects between bioprocess parameters.

    Science.gov (United States)

    Hunt, Megan M; Meng, Guoliang; Rancourt, Derrick E; Gates, Ian D; Kallos, Michael S

    2014-01-01

    Traditional optimization of culture parameters for the large-scale culture of human embryonic stem cells (ESCs) as aggregates is carried out in a stepwise manner whereby the effect of varying each culture parameter is investigated individually. However, as evidenced by the wide range of published protocols and culture performance indicators (growth rates, pluripotency marker expression, etc.), there is a lack of systematic investigation into the true effect of varying culture parameters especially with respect to potential interactions between culture variables. Here we describe the design and execution of a two-parameter, three-level (3(2)) factorial experiment resulting in nine conditions that were run in duplicate 125-mL stirred suspension bioreactors. The two parameters investigated here were inoculation density and agitation rate, which are easily controlled, but currently, poorly characterized. Cell readouts analyzed included fold expansion, maximum density, and exponential growth rate. Our results reveal that the choice of best case culture parameters was dependent on which cell property was chosen as the primary output variable. Subsequent statistical analyses via two-way analysis of variance indicated significant interaction effects between inoculation density and agitation rate specifically in the case of exponential growth rates. Results indicate that stepwise optimization has the potential to miss out on the true optimal case. In addition, choosing an optimum condition for a culture output of interest from the factorial design yielded similar results when repeated with the same cell line indicating reproducibility. We finally validated that human ESCs remain pluripotent in suspension culture as aggregates under our optimal conditions and maintain their differentiation capabilities as well as a stable karyotype and strong expression levels of specific human ESC markers over several passages in suspension bioreactors.

  13. Statistical analysis of efficient unbalanced factorial designs for two-color microarray experiments.

    Science.gov (United States)

    Tempelman, Robert J

    2008-01-01

    Experimental designs that efficiently embed a fixed effects treatment structure within a random effects design structure typically require a mixed-model approach to data analyses. Although mixed model software tailored for the analysis of two-color microarray data is increasingly available, much of this software is generally not capable of correctly analyzing the elaborate incomplete block designs that are being increasingly proposed and used for factorial treatment structures. That is, optimized designs are generally unbalanced as it pertains to various treatment comparisons, with different specifications of experimental variability often required for different treatment factors. This paper uses a publicly available microarray dataset, as based upon an efficient experimental design, to demonstrate a proper mixed model analysis of a typical unbalanced factorial design characterized by incomplete blocks and hierarchical levels of variability.

  14. ANALYSIS OF SOUND PRESSURE LEVEL (SPL AND LAY OUT OF ENGINES IN THE FACTORY

    Directory of Open Access Journals (Sweden)

    Wijianto Wijianto

    2017-01-01

    Full Text Available Modeling layout of engines in the factory is very useful to know how many dB sound pressure level that are occur in the building in order to avoid hearing damage of employees that are caused by noise. The objective of this research is to know how many dB sound pressure level that are occur in the factory with engine composition such as boiler, diesel, turbine, motor and gear box with dimension of building are 40 m length, 35 m width and 10 m height. With MATLAB analysis can be obtain that the highest SPL is 104.7 dB and the lowest is 93.5 dB, so, this range are dangerous for human hearing. To avoid hearing damage in this area, employees must use hearing protector.

  15. Full factorial design analysis of carbon nanotube polymer-cement composites

    Directory of Open Access Journals (Sweden)

    Fábio de Paiva Cota

    2012-08-01

    Full Text Available The work described in this paper is related to the effect of adding carbon nanotubes (CNT on the mechanical properties of polymer-cement composites. A full factorial design has been performed on 160 samples to identify the contribution provided by the following factors: polymeric phase addition, CNT weight addition and water/cement ratio. The response parameters of the full factorial design were the bulk density, apparent porosity, compressive strength and elastic modulus of the polymer-cement-based nanocomposites. All the factors considered in this analysis affected significantly the bulk density and apparent porosity of the composites. The compressive strength and elastic modulus were affected primarily by the cross-interactions between polymeric phase and CNT additions, and the water/cement ratio with polymeric phase factors.

  16. Design and analysis of a cogeneration plant using heat recovery of a cement factory

    Directory of Open Access Journals (Sweden)

    G.V. Pradeep Varma

    2015-03-01

    Full Text Available There is a more potential in a cement factory for electric power generation using waste heat recovery compared to the other industries. A case study has been done at a cement factory having two units, 1600 TPD and 5500 TPD, identified three waste heat rejections at 176 °C, 330 °C and 420 °C and designed a suitable power plant configuration. In this work, an attempt has been made to quantify the power generation capacity with plant analysis. It has been resulted that 12.5 MW of power can be produced with the available heat recovery against a cement factory demand of 15 MW. The available process heat for cement production and power generation has been estimated at a capacity range from 5000 to 9000 TPD. The analysis recommended a low steam pressure for power generation at above said heat recovery gas temperature.

  17. Energy, Exergy and Advanced Exergy Analysis of a Milk Processing Factory

    DEFF Research Database (Denmark)

    Bühler, Fabian; Nguyen, Tuong-Van; Jensen, Jonas Kjær

    2016-01-01

    Energy, exergy and advanced exergy methods are used in this study to analyse a milk processing facility which is one of the largest energy consumers within the food industry in Denmark. While a conventional energy analysis maps the energy flows of the system and suggests opportunities for process...... to technological limitations, and into its endogenous and exogenous parts, which illustrate the interactions between the different sub-systems. This analysis is based on actual factory data from one of Europe’s largest dairy producers: the complete production line is modelled, and includes the production of milk......, and discusses the benefits and challenges of applying advanced thermodynamic methods to industrial processes....

  18. HPLC analysis of oxindole alkaloids in Uncaria tomentosa: sample preparation and analysis optimisation by factorial design.

    Science.gov (United States)

    Bertol, Gustavo; Franco, Luzia; Oliveira, Brás Heleno de

    2012-01-01

    Uncaria tomentosa ("cat's claw") is widely used for the treatment of some infectious and inflammatory diseases. Oxindole alkaloids are regarded as the most important components responsible for the biological activities attributed to the plant. Their analysis require efficient sample preparation and suitable reference standards but few are commercially available. To develop and validate a HPLC analytical method for oxindole alkaloids in Uncaria tomentosa with emphasis on sample preparation. Factorial experimental designs were used for the optimisation of both sample preparation and chromatographic separation. The optimised sample preparation involved extraction with aqueous ethanol, and the granulometry of the powdered plant material significantly influenced extraction yields. Mitraphylline was used as a calibration reference for the determination of total alkaloids. The method was fully validated and showed good selectivity, linearity (r²  ≥ 0.9996), accuracy (≥ 96%) and precision (RSD < 2.4%). Detection and quantification limits for mitraphylline were 0.8 and 2.4 ppm, respectively. The optimised chromatographic method, using organic buffer in the mobile phase, provided baseline separation of tetracyclic and pentacyclic alkaloids in the samples. Calibration using mitraphylline provided more accurate estimates of total alkaloid content when compared to other available reference alkaloids. Copyright © 2011 John Wiley & Sons, Ltd.

  19. On the Factorial Moment Analysis of High Energy Experimental Data with Non-integer Partition Number

    CERN Document Server

    Gang, C; Yanmin, G; Gang, Chen; Lianshou, Liu; Yanmin, Gao

    1999-01-01

    It is pointed out that in doing the factorial moment analysis with non-integer partition $M$ of phase space, the influence of the phase-space variation of two- (or more-) particle correlations has to be considered carefully. In this paper this problem is studied and a systematic method is developed to minimize this influence. The efficiency and self-consistency of this method are shown using the data of 250 GeV/$c$ $\\pi^+$p and K$^+$p collisions from the NA22 experiment as example.

  20. Development of a screening approach for exploring cell factory potential through metabolic flux analysis and physiology

    DEFF Research Database (Denmark)

    Knudsen, Peter Boldsen; Nielsen, Kristian Fog; Thykær, Jette

    2012-01-01

    The recent developments within the field of metabolic engineering have significantly increased the speed by which fungal recombinant strains are being constructed, pushing focus towards physiological characterisation and analysis. This raises demand for a tool for diligent analysis of the recombi...... and work-load connected with screening and selection of potential cell factories with attractive properties, compared with more “traditional” methodologies where metabolic flux analysis is applied at a much later state in the characterisation process.......The recent developments within the field of metabolic engineering have significantly increased the speed by which fungal recombinant strains are being constructed, pushing focus towards physiological characterisation and analysis. This raises demand for a tool for diligent analysis...... on a Hamilton robotic system. This method aimed at characterising physiology at two levels: (1) An approach focusing on the traditional growth related parameters, i.e. growth rate, yield coefficients and extracellular metabolites. (2) 13C-labelling experiments, where metabolic fluxes are quantified...

  1. Automated array assembly. Quarterly report No. 5. [Cost analysis and factory design

    Energy Technology Data Exchange (ETDEWEB)

    D' Aiello, R.V.

    1977-10-01

    During this quarter, an interim 1982 factory was designed for the large-scale production of silicon solar cell array modules. The boundary conditions for this design are the use of Czochralski silicon crystals and $25/kg polycrystalline silicon. The objective is a large-scale production facility to meet an intermediate ERDA cost goal of $2.00/W in 1982. The approach was to first consider a panel design which could be expected to have a 20-year life and would also meet the JPL specification on mechanical, electrical, and environmental stability. Attention was then directed to a cost analysis of the production of the elements comprising this panel. Since it was expected that wafer production would comprise a major fraction of the cost, several cost reduction schemes were considered for the Czochralski pulling and sawing of the wafers. A solar-cell processing sequence was selected on the basis of our previous cost studies and the projected availability of production equipment by 1982. These criteria resulted in the selection of POCl/sub 3/ gaseous diffusion for junction formation, thick-film Ag screen-printed metallization, spray-on antireflection (AR) coating, and solder reflow interconnect technology. The economic study was made by computer analysis of the cost elements of these process sequences at production levels ranging from 3 to 100 MW/yr. With the results of this study, a 30-MW/yr factory was designed, and a preliminary floor plan layout is given. A manufacturing cost of $2.01/W is projected and, including factory overhead and profit, a selling price of $2.27/W is projected.

  2. Railways Factory in Resita

    Directory of Open Access Journals (Sweden)

    Cornel Iacob-Mare

    2013-09-01

    Full Text Available This paper proposes an exemption Analysis railway factory in Resita impressed having experience and also provide some technical characteristics of freight wagons representative technology, used to transport products made in factories in ReşiŃa.

  3. Analysis of the dispersion of air pollutants from a factory Asphalt in Nuevo Vallarta, Nay., Mex

    Science.gov (United States)

    Carrillo-Gonzalez, F. M.; Gaitán-Rodríguez, M.; Cornejo-López, V. M.; Morales-Hernández, J. C.

    2013-12-01

    An asphalt factory has operated intermittently near the urban area of Nuevo Vallarta on Banderas Bay, Nayarit, Mex. This factory has emissions that can affect the health of people living in the colonies nearest are Valle Dorado and San Vicente. The dispersion of emissions depends on the wind (sea breeze-land breeze) and the roof of the inversion, these phenomena determined by the density and temperature of the lower layers of the atmosphere. Asphalts are dark colored binder materials, formed by a complex non-volatile hydrocarbon chains and high molecular weight. Asphalts are produced from petroleum, but by a process of evaporation of the volatiles, leaving the asphalt alone. Therefore, the material emitted by the fireplace are mainly low molecular weight hydrocarbons known as polycyclic aromatic hydrocarbons (PAHs). The Emergency Response Guide 2008 developed by various agencies in Canada, U.S. and Mexico mentions that the hydrocarbon gas can have health effects. Animal studies have shown that PAHs can cause harmful effects to the skin, body fluids and some PAHs are carcinogenic. An analysis of the wind field, monthly and seasonal averages for the years 2010 and 2011, recorded in AWS administered by the CEMCO and other stations located near the study area.

  4. Domain-driven specification techniques simplify the analysis of requirements for the KAON factory central control system

    Energy Technology Data Exchange (ETDEWEB)

    Inwood, C. (Inwood Real-Time Systems Associates, Kinburn, ON (Canada)); Ludgate, G.A.; Dohan, D.A.; Osberg, E.A.; Koscielniak, S. (British Columbia Univ., Vancouver (Canada). TRIUMF Facility)

    1990-08-01

    Domain-driven modelling, outlined in this paper, has been successfully applied to the analysis, specification and design of the KAON Factory central control system (KF-CCS). This advanced object-oriented technique is especially suited to the development of complex systems. Early in the project, four very natural domains were identified which simplified the analysis of requirements. (orig.).

  5. Domain-driven specification techniques simplify the analysis of requirements for the Kaon Factory central control system

    Science.gov (United States)

    Inwood, Clifford; Ludgate, G. A.; Dohan, D. A.; Osberg, E. A.; Koscielniak, S.

    1990-08-01

    Domain-driven modelling, outlined in this paper, has been successfully applied to the analysis, specification and design of the KAON Factory central control system (KF-CCS). This advanced object-oriented technique is especially suited to the development of complex systems. Early in the project, four very natural domains were identified which simplified the analysis of requirements.

  6. Super Factories

    Indian Academy of Sciences (India)

    D G Hitlin

    2006-11-01

    Heavy-flavor physics, in particular and physics results from the factories, currently provides strong constraints on models of physics beyond the Standard Model. A new generation of colliders, Super Factories, with 50 to 100 times the luminosity of existing colliders, can, in a dialog with LHC and ILC, provide unique clarification of new physics phenomena seen at those machines.

  7. Transcription factories

    Science.gov (United States)

    Rieder, Dietmar; Trajanoski, Zlatko; McNally, James G.

    2012-01-01

    There is considerable evidence that transcription does not occur homogeneously or diffusely throughout the nucleus, but rather at a number of specialized, discrete sites termed transcription factories. The factories are composed of ~4–30 RNA polymerase molecules, and are associated with many other molecules involved in transcriptional activation and mRNA processing. Some data suggest that the polymerase molecules within a factory remain stationary relative to the transcribed DNA, which is thought to be reeled through the factory site. There is also some evidence that transcription factories could help organize chromatin and nuclear structure, contributing to both the formation of chromatin loops and the clustering of active and co-regulated genes. PMID:23109938

  8. A FACTORIAL ANALYSIS OF INFORMACION SOURCES THAT INFLUENCE UNIVERSITY CHOICE IN ALBANIA

    Directory of Open Access Journals (Sweden)

    Elfrida Manoku

    2016-09-01

    Full Text Available These days Higher Education Institutions (HEIs in Albania are operating in a highly dynamic environment. The aim of this study is to examine the sources of information that influence the student’s selection between public or private university in Albania by identifying the role of marketing communication in this selection. The data was gathered through self-administered questionnaires in 17 public and private universities throughout Albania. The factorial analysis conducted using the evaluations from 28 different sources of information, concluded that mainly four factors influenced university choice. These were, public relations, advertising, reference groups and internet marketing. Most of the Albanian Universities need a better understanding of the entire process the prospective students undergo during their university selection process. They also should try adopting a new orientation in their marketing communication strategies based on the students’ need for information.

  9. Maximum Autocorrelation Factorial Kriging

    DEFF Research Database (Denmark)

    Nielsen, Allan Aasbjerg; Conradsen, Knut; Pedersen, John L.

    2000-01-01

    This paper describes maximum autocorrelation factor (MAF) analysis, maximum autocorrelation factorial kriging, and its application to irregularly sampled stream sediment geochemical data from South Greenland. Kriged MAF images are compared with kriged images of varimax rotated factors from...

  10. Combining multiple correspondence analysis with factorial kriging analysis for geochemical mapping of the gold-silver deposit at Marrancos (Portugal)

    Energy Technology Data Exchange (ETDEWEB)

    Reis, A.P.; Sousa, A.J.; Ferreira da Silva, E.; Patinha, C.; Fonseca, E.C

    2004-04-01

    This study concerns the application of multiple correspondence analysis and factorial kriging analysis to soil data, and aims to identify spatial patterns and superficial soil anomalies of the Au and Ag deposit at Marrancos, Vila Verde. The mineral deposit can be described as a quartz auriferous shear-zone, consisting of a quartz breccia of tectonic origin hosted by metamorphic rocks (hornfels). Gold is associated with arsenopyrite and pyrite, and Ag with galena and galenobismuthite. A total of 286 soil samples were analysed for Fe, Cu, Zn, Pb, Co, Ni, Mn, Ag and Bi by atomic absorption spectrometry, As, Se, Te and Sb by atomic absorption spectrometry-hydride generation system and Au by inductively coupled plasma-atomic emission spectroscopy after extraction of the metal by an organic solvent (methyl-isobutylketone). The methodology used included (a) multiple correspondence analysis applied to soil data to obtain some factors that summarize geochemical information, (b) a structural analysis (variography) in order to account for spatial variability of these factors, and (c) factorial kriging analysis used to split these factors into their spatial components. This methodology allowed an efficient multi-element characterization of the spatial patterns as well as the identification and interpretation of significant anomalies, not always associated to Au-bearing geological structures.

  11. THE FACTORIAL ANALYSIS OF THE ECONOMIC VALUE ADDED (EVA WITHIN A COMPANY FROM THE ROMANIAN SEASIDE HOTEL INDUSTRY

    Directory of Open Access Journals (Sweden)

    RALUCA-ANDREEA TRANDAFIR

    2015-03-01

    Full Text Available In this paper we aimed to show that the only indicator that can provide solutions at the operational level of a company is the economic value added. That is why we focused on the factorial analysis of this indicator, trying to highlight the influences that the economic value added determinants had on value destruction in the analysed company.

  12. Internet factories

    NARCIS (Netherlands)

    Strijkers, R.J.

    2014-01-01

    This thesis contributes a novel concept for introducing new network technologies in network infrastructures. The concept, called Internet factories, describes the methodical process to create and manage application-specific networks from application programs, referred to as Netapps. An Internet

  13. Internet Factories

    NARCIS (Netherlands)

    Strijkers, R.J.

    2014-01-01

    This thesis contributes a novel concept for introducing new network technologies in network infrastructures. The concept, called Internet factories, describes the methodical process to create and manage application-specific networks from application programs, referred to as Netapps. An Internet

  14. A Factorial Analysis Study on Enzymatic Hydrolysis of Fiber Pressed Oil Palm Frond for Bioethanol Production

    Science.gov (United States)

    Hashim, F. S.; Yussof, H. W.; Zahari, M. A. K. M.; Illias, R. M.; Rahman, R. A.

    2016-03-01

    Different technologies have been developed to for the conversion of lignocellulosic biomass to suitable fermentation substrates for bioethanol production. The enzymatic conversion of cellulose seems to be the most promising technology as it is highly specific and does not produce substantial amounts of unwanted byproducts. The effects of agitation speed, enzyme loading, temperature, pH and reaction time on the conversion of glucose from fiber pressed oil palm frond (FPOPF) for bioethanol production were screened by statistical analysis using response surface methodology (RSM). A half fraction two-level factorial analysis with five factors was selected for the experimental design to determine the best enzymatic conditions that produce maximum amount of glucose. FPOPF was pre-treated with alkaline prior to enzymatic hydrolysis. The enzymatic hydrolysis was performed using a commercial enzyme Cellic CTec2. From this study, the highest yield of glucose concentration was 9.736 g/L at 72 hours reaction time at 35 °C, pH 5.6, and 1.5% (w/v) of enzyme loading. The model obtained was significant with p-value <0.0001. It is suggested that this model had a maximum point which is likely to be the optimum point and possible for the optimization process.

  15. Optimization of cardiovascular stent against restenosis: factorial design-based statistical analysis of polymer coating conditions.

    Directory of Open Access Journals (Sweden)

    Gayathri Acharya

    Full Text Available The objective of this study was to optimize the physicodynamic conditions of polymeric system as a coating substrate for drug eluting stents against restenosis. As Nitric Oxide (NO has multifunctional activities, such as regulating blood flow and pressure, and influencing thrombus formation, a continuous and spatiotemporal delivery of NO loaded in the polymer based nanoparticles could be a viable option to reduce and prevent restenosis. To identify the most suitable carrier for S-Nitrosoglutathione (GSNO, a NO prodrug, stents were coated with various polymers, such as poly (lactic-co-glycolic acid (PLGA, polyethylene glycol (PEG and polycaprolactone (PCL, using solvent evaporation technique. Full factorial design was used to evaluate the effects of the formulation variables in polymer-based stent coatings on the GSNO release rate and weight loss rate. The least square regression model was used for data analysis in the optimization process. The polymer-coated stents were further assessed with Differential scanning calorimetry (DSC, Fourier transform infrared spectroscopy analysis (FTIR, Scanning electron microscopy (SEM images and platelet adhesion studies. Stents coated with PCL matrix displayed more sustained and controlled drug release profiles than those coated with PLGA and PEG. Stents coated with PCL matrix showed the least platelet adhesion rate. Subsequently, stents coated with PCL matrix were subjected to the further optimization processes for improvement of surface morphology and enhancement of the drug release duration. The results of this study demonstrated that PCL matrix containing GSNO is a promising system for stent surface coating against restenosis.

  16. Evapotranspiration Model Analysis of Crop Water Use in Plant Factory System

    National Research Council Canada - National Science Library

    PAMUNGKAS, Agung Putra; HATOU, Kenji; MORIMOTO, Tetsuo

    2014-01-01

    ...) rates that occur inside a plant factory system was made using the Stanghellini model. The Stanghellini model is considered more appropriate for estimating the rate of ET inside the soilless culture of greenhouse tomatoes...

  17. AN ANALYSIS OF THE CHILDREN’S CHARACTERS IN ROALD DAHL’S NOVEL: CHARLIE AND THE CHOCOLATE FACTORY

    Directory of Open Access Journals (Sweden)

    Wan Syakira Meor Hissan

    2012-07-01

    Full Text Available Abstract: Children's literature or children's books particularly by Roald Dahl have been adapted into many films and have received overwhelming response from children all over the world. Unlike novels for the adults, children's books explore the conflicts and challenge the children's characters encounter in their everyday lives. In addition, the issue of morality and moral values are always associated with the children's books. Thus, this research aims to discuss morality by analysing the children's characters in Charlie and the chocolate factory (1964 by Roald Dahl. The main focus of this study is the children’s mature and immature morality that is potentially helpful to assist teachers and parents to be aware of the moral values highlighted in children’s books. Gibbs’ Revisionist Model is used in order to analyse the mature and immature morality of the children’s characters. This study adopts a textual analysis in order to reveal the children’s characters’ morality and the moral values arising from the texts. The findings intend to demonstrate that children's books, particularly this novel, is relevant to be used as a medium to promote moral values. Keywords: moral development, morality, moral knowledge and moral values

  18. Factorial analysis of diesel engine performance using different types of biofuels.

    Science.gov (United States)

    Tashtoush, Ghassan M; Al-Widyan, Mohamad I; Albatayneh, Aiman M

    2007-09-01

    In this study, several bio-source-fuels like fresh and waste vegetable oil and waste animal fat were tested at different injector pressures (120, 140, 190, 210 bar) in a direct-injection, naturally aspirated, single-cylinder diesel engine with a design injection pressure of 190 bar. Using 2k factorial analysis, the effect of injection pressure (Pi) and fuel type on three engine parameters, namely, combustion efficiency (etac), mass fuel consumption (mf), and engine speed (N) was examined. It was found that Pi and fuel type significantly affected both etac and mf while they had a slight effect on engine speed. Moreover, with diesel and biodiesels, the etac increased to a maximum at 190 bar but declined at the higher Pi value. In contrast, higher Pi had a favorable effect on etac over the whole Pi range with all the other more viscous fuels tested. In addition, the mass fuel consumption consistently decreased with an increase in Pi for all the fuels including the baseline diesel fuel, with which the engine consistently attained higher etac and higher rpm compared to all the other fuels tested.

  19. Relation between tonic immobility and production estimated by factorial correspondence analysis in Japanese quail.

    Science.gov (United States)

    Mignon-Grasteau, S; Minvielle, F

    2003-12-01

    Duration of tonic immobility (TI) is a well-established criterion of fearfulness in birds, but its relation to production traits has been little studied. TI and 27 variables related to egg production and quality, feed consumption, and body condition were collected for 355 female Japanese quail. Experimental birds were the F2 generation from a reciprocal cross between a line selected for long TI and a line from a different origin and selected for early egg production. TI and several other variables had very asymetrical distributions so all variables were categorized, and the association between traits was studied by factorial correspondence analysis (FCA). Attributes of good versus poor layers were well separated by the FCA, but no association was obtained between TI and other traits on the primary axes of the FCA. Fearfulness, as measured by TI, was not related to levels of performance of egg laying quail. Secondary negative associations between TI and body temperature and between TI and residual feed consumption were obtained; however, they were marginal and need to be confirmed.

  20. Factorial Kriging Analysis as a tool for explaining the complex spatial distribution of metals in sediments.

    Science.gov (United States)

    Alary, Claire; Demougeot-Renard, Hélène

    2010-01-15

    Rivers flowing through urbanized and industrial areas are usually greatly damaged by anthropogenic activities discharging contaminants. Characterizing the spatial distribution of pollutants in sediments is of high importance for selecting a suitable remediation operation, but is a complex task because this spatial variability is the result of various physical and chemical mechanisms occurring at different scales. Factorial Kriging Analysis (FKA) was applied on data collected in a canalized river (Scarpe, France) for that purpose, because this geostatistical technique allows to decompose a given variable into components of different spatial correlations and map them separately. This decomposition is meaningful provided that it can be related to physical phenomena occurring at the identified spatial scales. FKA applied to Cd and Zn concentrations in sediments of the Scarpe river proved to be effective, allowing their mapping to be decomposed in a first map related to a short-range spatial correlation corresponding to hot spots interpreted as the impact of industrial and urban inputs located along the canal, and a second map related to a long-range spatial variability associated with long pollutant plumes interpreted as the effect of one major upstream pollutant input.

  1. Neutrino Factory

    CERN Document Server

    Bogomilov, M; Tsenov, R; Dracos, M; Bonesini, M; Palladino, V; Tortora, L; Mori, Y; Planche, T; Lagrange, J  B; Kuno, Y; Benedetto, E; Efthymiopoulos, I; Garoby, R; Gilardoini, S; Martini, M; Wildner, E; Prior, G; Blondel, A; Karadzhow, Y; Ellis, M; Kyberd, P; Bayes, R; Laing, A; Soler, F  J  P; Alekou, A; Apollonio, M; Aslaninejad, M; Bontoiu, C; Jenner, L  J; Kurup, A; Long, K; Pasternak, J; Zarrebini, A; Poslimski, J; Blackmore, V; Cobb, J; Tunnell, C; Andreopoulos, C; Bennett, J  R  J; Brooks, S; Caretta, O; Davenne, T; Densham, C; Edgecock, T  R; Fitton, M; Kelliher, D; Loveridge, P; McFarland, A; Machida, S; Prior, C; Rees, G; Rogers, C; Rooney, M; Thomason, J; Wilcox, D; Booth, C; Skoro, G; Back, J  J; Harrison, P; Berg, J  S; Fernow, R; Gallardo, J  C; Gupta, R; Kirk, H; Simos, N; Stratakis, D; Souchlas, N; Witte, H; Bross, A; Geer, S; Johnstone, C; Mokhov, N; Neuffer, D; Popovic, M; Strait, J; Striganov, S; Morfín, J  G; Wands, R; Snopok, P; Bogacz, S  A; Morozov, V; Roblin, Y; Cline, D; Ding, X; Bromberg, C; Hart, T; Abrams, R  J; Ankenbrandt, C  M; Beard, K  B; Cummings, M  A  C; Flanagan, G; Johnson, R  P; Roberts, T  J; Yoshikawa, C  Y; Graves, V  B; McDonald, K  T; Coney, L; Hanson, G

    2014-01-01

    The properties of the neutrino provide a unique window on physics beyond that described by the standard model. The study of subleading effects in neutrino oscillations, and the race to discover CP-invariance violation in the lepton sector, has begun with the recent discovery that $\\theta_{13} > 0$. The measured value of $\\theta_{13}$ is large, emphasizing the need for a facility at which the systematic uncertainties can be reduced to the percent level. The neutrino factory, in which intense neutrino beams are produced from the decay of muons, has been shown to outperform all realistic alternatives and to be capable of making measurements of the requisite precision. Its unique discovery potential arises from the fact that only at the neutrino factory is it practical to produce high-energy electron (anti)neutrino beams of the required intensity. This paper presents the conceptual design of the neutrino factory accelerator facility developed by the European Commission Framework Programme 7 EURO$\

  2. Smart Factory

    DEFF Research Database (Denmark)

    Bilberg, Arne; Radziwon, Agnieszka; Grube Hansen, David

    2017-01-01

    , and to target their challenges and ensure sustainable growth and business in these enterprises. Therefore the focus of the Smart Factory project was to support the growth and sustainable development of the small and medium sized manufacturing industry in Denmark. The project focused on SMEs and how to improve...... their innovation and competitive advantage by focusing at their competences, strengths and opportunities. The project suggests innovative solutions and business models through collaboration and use of new technologies. In the Smart Factory, SMEs should be able to collaborate on new products, markets and production...... or supply chains in a creative organization. The Smart factory is supposed to be organic, meaning it is able to reconfigure and adjust to new projects and customers and has to be seen and taken as a model for inspiration to manufacturing businesses in general. The project takes into consideration Danish...

  3. Application of factorial kriging analysis to the FOREGS European topsoil geochemistry database.

    Science.gov (United States)

    Imrie, Claire E; Korre, Anna; Munoz-Melendez, Gabriela; Thornton, Iain; Durucan, Sevket

    2008-04-01

    Concern about increasing levels of trace elements in the environment has led to the development and implementation of a global programme to determine the current baseline levels of these chemicals in the Earth's surface. The FORum of European Geological Surveys (FOREGS) has recently published a geochemical database for Europe, while progress on similar databases is continuing in other major regions of the world. The FOREGS database comprises multimedia samples collected at a resolution of approximately 72x72 km from 26 European countries. This enables the investigation of the factors governing geochemical variation on a continental scale, potentially allowing contributions of natural processes to be appreciated prior to setting environmental quality standards. This paper investigates the variation in European topsoil geochemistry using factorial kriging analysis, which performs principal components analysis at different spatial scales. The results are interpreted with the aid of a GIS database. Four spatial scales were identified: a nugget component representing variation over a range less than the sampling density; a 'short' scale component with a range of 296 km; an 'intermediate' scale component (875 km); and a 'long' scale component (1750 km). The first three principal components (PCs) of the nugget covariance matrix explained 22.2% of the overall variance, representing local variation in geology, land use, weathering and organic matter content. The first two PCs of the short range structure explained 12.6% of the variance, representing variation according to the major structural divisions of Europe, and to carbonate content. The first PC of the intermediate structure explained 7.2% of the variance and was found to relate to glacial history and Quaternary deposition. Finally, the first three PCs of the long range structure explained 29.6% of the variance and represented variation due to mineralisation, soil texture, climate and possibly anthropogenic

  4. Selection of higher order regression models in the analysis of multi-factorial transcription data.

    Directory of Open Access Journals (Sweden)

    Olivia Prazeres da Costa

    Full Text Available INTRODUCTION: Many studies examine gene expression data that has been obtained under the influence of multiple factors, such as genetic background, environmental conditions, or exposure to diseases. The interplay of multiple factors may lead to effect modification and confounding. Higher order linear regression models can account for these effects. We present a new methodology for linear model selection and apply it to microarray data of bone marrow-derived macrophages. This experiment investigates the influence of three variable factors: the genetic background of the mice from which the macrophages were obtained, Yersinia enterocolitica infection (two strains, and a mock control, and treatment/non-treatment with interferon-γ. RESULTS: We set up four different linear regression models in a hierarchical order. We introduce the eruption plot as a new practical tool for model selection complementary to global testing. It visually compares the size and significance of effect estimates between two nested models. Using this methodology we were able to select the most appropriate model by keeping only relevant factors showing additional explanatory power. Application to experimental data allowed us to qualify the interaction of factors as either neutral (no interaction, alleviating (co-occurring effects are weaker than expected from the single effects, or aggravating (stronger than expected. We find a biologically meaningful gene cluster of putative C2TA target genes that appear to be co-regulated with MHC class II genes. CONCLUSIONS: We introduced the eruption plot as a tool for visual model comparison to identify relevant higher order interactions in the analysis of expression data obtained under the influence of multiple factors. We conclude that model selection in higher order linear regression models should generally be performed for the analysis of multi-factorial microarray data.

  5. Neutrino factory

    Directory of Open Access Journals (Sweden)

    M. Bogomilov

    2014-12-01

    Full Text Available The properties of the neutrino provide a unique window on physics beyond that described by the standard model. The study of subleading effects in neutrino oscillations, and the race to discover CP-invariance violation in the lepton sector, has begun with the recent discovery that θ_{13}>0. The measured value of θ_{13} is large, emphasizing the need for a facility at which the systematic uncertainties can be reduced to the percent level. The neutrino factory, in which intense neutrino beams are produced from the decay of muons, has been shown to outperform all realistic alternatives and to be capable of making measurements of the requisite precision. Its unique discovery potential arises from the fact that only at the neutrino factory is it practical to produce high-energy electron (antineutrino beams of the required intensity. This paper presents the conceptual design of the neutrino factory accelerator facility developed by the European Commission Framework Programme 7 EUROν Design Study consortium. EUROν coordinated the European contributions to the International Design Study for the Neutrino Factory (the IDS-NF collaboration. The EUROν baseline accelerator facility will provide 10^{21} muon decays per year from 12.6 GeV stored muon beams serving a single neutrino detector situated at a source-detector distance of between 1 500 km and 2 500 km. A suite of near detectors will allow definitive neutrino-scattering experiments to be performed.

  6. Used frying oil biodiesel production: experimental factorial design and multivariate analysis

    Directory of Open Access Journals (Sweden)

    Rosana de Cassia de Souza Schneider

    2009-01-01

    Full Text Available Biodiesel é derivado de fontes renováveis ereduz significativamente as emissões atmosféricas. Pode serobtido de diversos processos, como a alcoolise. Nestetrabalho, o biodiesel foi produzido através da alcoolise doóleo de fritura usado de indústrias de alimentação. Umplanejamento experimental foi utilizado e os produtos dereação foram analisados por cromatografia gasosa (CGespectroscopia na região do infravermelho com acessório dereflexão total atenuada horizontal (IV-HATR e análiseexploratória por análise de componentes principais (PCA eanálise hierárquica de grupos (HCA. De acordo com ascondições analisadas obteve-se alta conversão em ésteresmetílicos. Por IV-HATR, a conversão máxima foi observadaem condições experimentais de temperatura ( 50 e 60°C,concentração de catalisador (0,6 e 1,2% e a 1:8 de relaçãomolar entre óleo e metanol. Também foi possíveldiscriminar por análise quimiométrica, 4 grupos noplanejamento experimental e determinar as melhorescondições para a produção de biodiesel de óleo de friturausado.Abstract Biodiesel is derived from renewable sources and it significantly reduces atmospheric emissions. It can be obtained byseveral processes, such as alcoholysis. In this work, biodiesel was produced through alcoholysis of used frying oil from a cateringbusiness. An experimental factorial design was used and the reaction products were analyzed through gas chromatography (GC,horizontal attenuated total reflection Fourier transform infrared (HATR/FT-IR spectroscopy and exploratory analysis withprincipal component analysis (PCA and hierarchical cluster analysis (HCA. Under the conditions analyzed, a high degree ofconversion to methyl ester was found. As shown by HATR/FT-IR, the maximum conversion was obtained when the experimentalconditions had the temperature ( 50 e 60°C, largest catalyst concentration (0,6 e 1,2% and a 1:8 molar proportion of oil tomethanol. It was possible to discriminate

  7. fullfact: an R package for the analysis of genetic and maternal variance components from full factorial mating designs.

    Science.gov (United States)

    Houde, Aimee Lee S; Pitcher, Trevor E

    2016-03-01

    Full factorial breeding designs are useful for quantifying the amount of additive genetic, nonadditive genetic, and maternal variance that explain phenotypic traits. Such variance estimates are important for examining evolutionary potential. Traditionally, full factorial mating designs have been analyzed using a two-way analysis of variance, which may produce negative variance values and is not suited for unbalanced designs. Mixed-effects models do not produce negative variance values and are suited for unbalanced designs. However, extracting the variance components, calculating significance values, and estimating confidence intervals and/or power values for the components are not straightforward using traditional analytic methods. We introduce fullfact - an R package that addresses these issues and facilitates the analysis of full factorial mating designs with mixed-effects models. Here, we summarize the functions of the fullfact package. The observed data functions extract the variance explained by random and fixed effects and provide their significance. We then calculate the additive genetic, nonadditive genetic, and maternal variance components explaining the phenotype. In particular, we integrate nonnormal error structures for estimating these components for nonnormal data types. The resampled data functions are used to produce bootstrap-t confidence intervals, which can then be plotted using a simple function. We explore the fullfact package through a worked example. This package will facilitate the analyses of full factorial mating designs in R, especially for the analysis of binary, proportion, and/or count data types and for the ability to incorporate additional random and fixed effects and power analyses.

  8. On the Use of Metabolic Control Analysis in the Optimization of Cyanobacterial Biosolar Cell Factories.

    NARCIS (Netherlands)

    Angermayr, S.; Hellingwerf, K.J.

    2013-01-01

    Oxygenic photosynthesis will have a key role in a sustainable future. It is therefore significant that this process can be engineered in organisms such as cyanobacteria to construct cell factories that catalyze the (sun)light-driven conversion of CO2 and water into products like ethanol, butanol, or

  9. nparLD: An R Software Package for the Nonparametric Analysis of Longitudinal Data in Factorial Experiments

    Directory of Open Access Journals (Sweden)

    Kimihiro Noguchi

    2012-09-01

    Full Text Available Longitudinal data from factorial experiments frequently arise in various fields of study, ranging from medicine and biology to public policy and sociology. In most practical situations, the distribution of observed data is unknown and there may exist a number of atypical measurements and outliers. Hence, use of parametric and semi-parametric procedures that impose restrictive distributional assumptions on observed longitudinal samples becomes questionable. This, in turn, has led to a substantial demand for statistical procedures that enable us to accurately and reliably analyze longitudinal measurements in factorial experiments with minimal conditions on available data, and robust nonparametric methodology offering such a possibility becomes of particular practical importance. In this article, we introduce a new R package nparLD which provides statisticians and researchers from other disciplines an easy and user-friendly access to the most up-to-date robust rank-based methods for the analysis of longitudinal data in factorial settings. We illustrate the implemented procedures by case studies from dentistry, biology, and medicine.

  10. Spatial Prediction of Hydraulic Zones from Soil Properties and Secondary Data Using Factorial Kriging Analysis

    Science.gov (United States)

    Bevington, James; Morari, Francesco; Scudiero, Elia; Teatini, Pietro; Vellidis, George

    2015-04-01

    The development of pedotransfer functions (PTF) is an important topic in soil science research because there is a critical need for incorporation of vadose zone phenomena into large scale climate models. Soil measurements are inherently spatially dependent and therefore application of geospatial statistics provides an avenue for estimating soil properties. The aim of this study is to define management zones based on soil hydraulic properties. Samples were collected from 50 locations at 4 depths in a 20.8ha field located in the Po River delta in Italy. Water retention curves (WRC) and unsaturated hydraulic conductivity curves (UHC) and were determined via inversion of measurements taken using the Wind (Dane and Topp, 1994) method. This region is in known to have paleo-channel structures and highly heterogeneous soils. Factorial kriging analysis (FKA) was applied to hydraulic parameters in one data set and soil physical properties in another data set at 4 depths. The mapped principal components (PCs) were used in a fuzzy-c means algorithm to define zones of like properties. To examine the physical significance of these zones, curve parameters and hydraulic curves were investigated. Zones were able to distinguish between θ_s(saturated water content), n (shape parameter) and α (inverse of air entry) while θr (residual water content) and Ks (saturated conductivity) were not statistically different between the groups. For curve comparisons, WRC were found to be significantly different between zones at all tensions while effective saturation curves (Se) differ for the majority of tensions (except at 28cm), but UHC did not differ. The spatial relevance of the zones was examined by overlaying hydraulic zones with zones defined using the FKA and fuzzy-c means approach from soil physical properties such as texture and bulk density. The hydraulic zones overlaid with areal accuracy ranging from 46.66% to 92.41%. As there is much similarity between these sets of zones, there

  11. Mid infrared and fluorescence spectroscopies coupled with factorial discriminant analysis technique to identify sheep milk from different feeding systems

    OpenAIRE

    Karoui, Romdhane; Hammami, Moncef; Rouissi, Hamadi; Blecker, Christophe

    2011-01-01

    Mid infrared spectroscopy (MIR) combined with multivariate data analysis was used to discriminate between ewes milk samples according to their feeding systems (controls, ewes fed scotch bean and ewes fed soybean). The MIR spectra were scanned throughout the first 11 weeks of the lactation stage. When factorial discriminant analysis (FDA) with leave one-out cross-validation was applied, separately, to the three spectral regions in the MIR (i.e. 3000-2800, 1700-1500 and 1500-900 cm(-1)), the cl...

  12. Maximum Autocorrelation Factorial Kriging

    OpenAIRE

    Nielsen, Allan Aasbjerg; Conradsen, Knut; Pedersen, John L.; Steenfelt, Agnete

    2000-01-01

    This paper describes maximum autocorrelation factor (MAF) analysis, maximum autocorrelation factorial kriging, and its application to irregularly sampled stream sediment geochemical data from South Greenland. Kriged MAF images are compared with kriged images of varimax rotated factors from an ordinary non-spatial factor analysis, and they are interpreted in a geological context. It is demonstrated that MAF analysis contrary to ordinary non-spatial factor analysis gives an objective discrimina...

  13. Factorial design analysis for COD removal from landfill leachate by photoassisted Fered-Fenton process.

    Science.gov (United States)

    Wu, Xiaogang; Zhang, Hui; Li, Yanli; Zhang, Daobin; Li, Xianwang

    2014-01-01

    The Fered-Fenton process has been shown to be an effective method for leachate treatment, but it still faces problems of inadequate regeneration of ferrous ion. However, the use of the photoassisted Fered-Fenton process could overcome this difficulty and improve the efficiency of chemical oxygen demand (COD) removal since photoassisted Fered-Fenton process induces the production of hydroxyl radicals from the regeneration of ferrous ions and the reaction of hydrogen peroxide with UV light. As there are so many operating parameters in photoassisted Fered-Fenton process, it is necessary to develop a mathematical model in order to produce the most economical process. In the present study, a factorial design was carried out to evaluate leachate treatment by photoassisted Fered-Fenton process. The influence of the following variables: H₂O₂ concentration, Fe(2+) concentration, current density, and initial pH in the photoassisted Fered-Fenton process was investigated by measuring COD removal efficiencies after 60-min reaction. The relationship between COD removal and the most significant independent variables was established by means of an experimental design. The H₂O₂ concentration, Fe(2+) concentration, initial pH, and the interaction effect between current density and initial pH were all significant factors. The factorial design models were derived based on the COD removal efficiency results and the models fit the data well.

  14. [Risk factors analysis of low back pain among workers in a foundry factory of the automobile company].

    Science.gov (United States)

    Sun, Jing-zhi; Ling, Rui-jie; Wang, Zheng-lun; Song, Ting-bo; Chen, Biao; Wu, Lei; Wu, Jia-bing; Yang, Qiu-ling; He, Li-hua; Wang, Sheng; Yang, Lei

    2011-02-01

    To study the main risk factors of low back pain of workers ina foundry factory of the automobile company using cross sectional epidemiological investigation, and to provide scientific base for preventing the disorder. The low back pain and work loads of 1340 workers in a foundry factory of the automobile company were investigated using questionnaire, and logistic regression analysis was used to analyze the risk factors. The one-year morbidity of low back pain in workers was 58.9% the morbidities of low back pain in workers engaged in foundry, transportation and modeling were 64.6%, 64.6% and 62.5%, respectively. The lifting with squat postures, bending trunk heavily, bending trunk with twisting and moving the heavy objects were found to be the most dominant risk factors for low-back pain, the OR values were 2.085, 1.961, 1.967 and 1.956, respectively. The distributions of risk factors were different among the different jobs. The logistic regression analysis showed that moving the heavy objects, lifting with squat postures, bending trunk heavily, bending trunk with twisting existed simultaneously, also the work years and gender were the risk factors. The manual moving heavy objects, awkward working posture or both were the most important risk factors for low-back pain. The intervene ergonomic study should be performed in future to reduce the morbidity of low-back pain.

  15. Alexithymia components in excessive internet users: a multi-factorial analysis.

    Science.gov (United States)

    Kandri, Theodora A; Bonotis, Konstantinos S; Floros, Georgios D; Zafiropoulou, Maria M

    2014-12-15

    The increasing use of computers and the internet - especially among young people - apart from its positive effects, sometimes leads to excessive and pathological use. The present study examined the relationship among the excessive use of the internet by university students, the alexithymia components and sociodemographic factors associated with internet users and their online activities. 515 university students from the University of Thessaly participated in the study. Participants anonymously completed: a) the Internet Addiction Test (IAT), b) the Toronto Alexithymia Test (TAS 20) and c) a questionnaire covering various aspects of internet use and demographic characteristics of internet users. Excessive use of the internet among Greek university students was studied within a multi-factorial context and was associated with the alexithymia and demographic factors in nonlinear correlations, forming thus a personalized emotional and demographic profile of the excessive internet users.

  16. Confirmatory factorial analysis of the Brazilian version of the Competitive State Anxiety Inventory-2 (CSAI-2).

    Science.gov (United States)

    Coelho, Eduarda Maria; Vasconcelos-Raposo, José; Mahl, Alvaro Cielo

    2010-05-01

    The aim of this study was to assess the factorial structure of the Brazilian version of CSAI-2, using several structures suggested in previous studies. Two samples consisted of Brazilian soccer players, 266 from regional level (age 22.87 +/- 4.08 years; athletic experience 11.32 +/- 4.15 years) and 263 from national level (age 23.16 +/- 4.37 years; athletic experience 11.11 +/- 4.78 years) were used. The CSAI-2 is a 27-item inventory that measures negativism, physiological activation and self-confidence in a competitive setting. The results of CFA according to the original structure showed some inadequacy of the model. The model proposed by Cox, Martens, Russell (2003), composed of three factors (17-item), demonstrated better adjustment to the regional level sample (chi2/df = 1.871, CFI = .934, GFI = .916, RMSEA = .057), while the model suggested by Coelho, Vasconcelos-Raposo, Fernandes (2007), composed of two factors (18-item), adapted better to the national level sample (chi2/df = 1.701, CFI = .924, GFI = .914, RMSEA = .052). When we analyzed the two samples together, Coelho et al. (2007) was the better model, because it displayed greater invariance. The use of this model was suggested in the assessment of intensity of negative thoughts and the subsequent confirmation of its psychometric properties is recommended.

  17. Aerobiological analysis in a salami factory: a possible case of extrinsic allergic alveolitis by Penicillium camembertii.

    Science.gov (United States)

    Marchisio, V F; Sulotto, F; Botta, G C; Chiesa, A; Airaudi, D; Anastasi, A

    1999-08-01

    A 39-year-old man was hospitalized with a history of fatigue, dyspnoea and low grade fever which seemed to be related to his working environment. The patient was employed in a salami factory, working near the area where the salami are seasoned with fungal inocula. Chest X-ray showed diffuse initial changes of reticulonodular pattern that disappeared after a brief course of steroids therapy. Precipitating antibodies to Penicillium notatum and Aspergillus fumigatus were found both in plasma and bronchoalveolar lavage fluid. This, together with the finding of a lymphocytic alveolitis with CD4+ depletion and CD8+ increase, suggested the possibility of extrinsic allergic alveolitis of fungal aetiology. Qualitative and quantitative monitoring with an impinger of both the working and outside environment for aerial fungal concentration demonstrated a very high level of contamination (up to 1.14x10(9) fungal propagules m-3 of air) and an inside/outside ratio from 21 to about 2000. Penicillium camembertii was the most common species found in all the indoor sites (60-100% of the fungal load). The patient's BALF and serum both displayed precipitating antibodies to P. camembertii from the powder used for the inoculum and the air samples. These results together with the patient's working history gave some evidence of relationship between the indoor P. camembertii concentration and the patient's symptoms.

  18. Analysis of HDAC6 and BAG3-Aggresome Pathways in African Swine Fever Viral Factory Formation

    Directory of Open Access Journals (Sweden)

    Raquel Muñoz-Moreno

    2015-04-01

    Full Text Available African swine fever virus (ASFV is a double-stranded DNA virus causing a hemorrhagic fever disease with high mortality rates and severe economic losses in pigs worldwide. ASFV replicates in perinuclear sites called viral factories (VFs that are morphologically similar to cellular aggresomes. This fact raises the possibility that both VFs and aggresomes may be the same structure. However, little is known about the process involved in the formation of these viral replication platforms. In order to expand our knowledge on the assembly of ASFV replication sites, we have analyzed the involvement of both canonical aggresome pathways in the formation of ASFV VFs: HDAC6 and BAG3. HDAC6 interacts with a component of the dynein motor complex (dynactin/p150Glued and ubiquitinated proteins, transporting them to the microtubule-organizing center (MTOC and leading to aggresome formation, while BAG3 is mediating the recruitment of non-ubiquitinated proteins through a similar mechanism. Tubacin-mediated HDAC6 inhibition and silencing of BAG3 pathways, individually or simultaneously, did not prevent ASFV VF formation. These findings show that HDAC6 and Bag3 are not required for VFs formation suggesting that aggresomes and VFs are not the same structures. However, alternative unexplored pathways may be involved in the formation of aggresomes.

  19. Full Factorial Experimental Design Analysis of Reactive Dye Removal by Carbon Adsorption

    Directory of Open Access Journals (Sweden)

    N. Özbay

    2013-01-01

    Full Text Available The objective of this study was to investigate the removal of Remazol Yellow dye from aqueous solutions by adsorption on activated carbon prepared by chemical activation of sunflower seed cake. It was found that the carbon content of biomass increases up to 65.12% after activation and carbonization processes. The maximum percentage dye removal was obtained as 82.12% with 0.4 g/50 mL adsorbent dosage at 313 K. The Langmuir model showed the best fit with equilibrium isotherm data. The interactions were evaluated with respect to both pseudo-first-order and pseudo-second-order reaction kinetics. The adsorption process was found to follow the pseudo-second-order model. To optimize the operating conditions, the effects of pH, adsorbent dosage, and initial dye concentration were investigated by full factorial experimental design method; adsorbent dosage was found as the most significant factor with lower than 95% confidence level. The obtained results are very promising since (i the utilization of sunflower seed cake activated carbon (SSCAC played a critical role in the adsorption of dye; (ii sunflower seed cake was an intriguing, low-cost, and easily available material. It can be an alternative adsorbent precursor for more expensive adsorbents used for Remazol Yellow (RY removal.

  20. Assessment of parameter uncertainty in hydrological model using a Markov-Chain-Monte-Carlo-based multilevel-factorial-analysis method

    Science.gov (United States)

    Zhang, Junlong; Li, Yongping; Huang, Guohe; Chen, Xi; Bao, Anming

    2016-07-01

    Without a realistic assessment of parameter uncertainty, decision makers may encounter difficulties in accurately describing hydrologic processes and assessing relationships between model parameters and watershed characteristics. In this study, a Markov-Chain-Monte-Carlo-based multilevel-factorial-analysis (MCMC-MFA) method is developed, which can not only generate samples of parameters from a well constructed Markov chain and assess parameter uncertainties with straightforward Bayesian inference, but also investigate the individual and interactive effects of multiple parameters on model output through measuring the specific variations of hydrological responses. A case study is conducted for addressing parameter uncertainties in the Kaidu watershed of northwest China. Effects of multiple parameters and their interactions are quantitatively investigated using the MCMC-MFA with a three-level factorial experiment (totally 81 runs). A variance-based sensitivity analysis method is used to validate the results of parameters' effects. Results disclose that (i) soil conservation service runoff curve number for moisture condition II (CN2) and fraction of snow volume corresponding to 50% snow cover (SNO50COV) are the most significant factors to hydrological responses, implying that infiltration-excess overland flow and snow water equivalent represent important water input to the hydrological system of the Kaidu watershed; (ii) saturate hydraulic conductivity (SOL_K) and soil evaporation compensation factor (ESCO) have obvious effects on hydrological responses; this implies that the processes of percolation and evaporation would impact hydrological process in this watershed; (iii) the interactions of ESCO and SNO50COV as well as CN2 and SNO50COV have an obvious effect, implying that snow cover can impact the generation of runoff on land surface and the extraction of soil evaporative demand in lower soil layers. These findings can help enhance the hydrological model

  1. Performance and Cost Analysis of the Supernova Factory on the Amazon AWS Cloud

    Directory of Open Access Journals (Sweden)

    Keith R. Jackson

    2011-01-01

    Full Text Available Today, our picture of the Universe radically differs from that of just over a decade ago. We now know that the Universe is not only expanding as Hubble discovered in 1929, but that the rate of expansion is accelerating, propelled by mysterious new physics dubbed “Dark Energy”. This revolutionary discovery was made by comparing the brightness of nearby Type Ia supernovae (which exploded in the past billion years to that of much more distant ones (from up to seven billion years ago. The reliability of this comparison hinges upon a very detailed understanding of the physics of the nearby events. To further this understanding, the Nearby Supernova Factory (SNfactory relies upon a complex pipeline of serial processes that execute various image processing algorithms in parallel on ~10 TBs of data. This pipeline traditionally runs on a local cluster. Cloud computing [Above the clouds: a Berkeley view of cloud computing, Technical Report UCB/EECS-2009-28, University of California, 2009] offers many features that make it an attractive alternative. The ability to completely control the software environment in a cloud is appealing when dealing with a community developed science pipeline with many unique library and platform requirements. In this context we study the feasibility of porting the SNfactory pipeline to the Amazon Web Services environment. Specifically we: describe the tool set we developed to manage a virtual cluster on Amazon EC2, explore the various design options available for application data placement, and offer detailed performance results and lessons learned from each of the above design options.

  2. A multiple-locus variable-number tandem repeat analysis (MLVA) of Listeria monocytogenes isolated from Norwegian salmon-processing factories and from listeriosis patients.

    Science.gov (United States)

    Lunestad, B T; Truong, T T T; Lindstedt, B-A

    2013-10-01

    The objective of this study was to characterize Listeria monocytogenes isolated from farmed Atlantic salmon (Salmo salar) and the processing environment in three different Norwegian factories, and compare these to clinical isolates by multiple-locus variable-number tandem repeat analysis (MLVA). The 65 L. monocytogenes isolates obtained gave 15 distinct MLVA profiles. There was great heterogeneity in the distribution of MLVA profiles in factories and within each factory. Nine of the 15 MLVA profiles found in the fish-associated isolates were found to match human profiles. The MLVA profile 07-07-09-10-06 was the most common strain in Norwegian listeriosis patients. L. monocytogenes with this profile has previously been associated with at least two known listeriosis outbreaks in Norway, neither determined to be due to fish consumption. However, since this profile was also found in fish and in the processing environment, fish should be considered as a possible food vehicle during sporadic cases and outbreaks of listeriosis.

  3. Heavy Metal Factory

    Science.gov (United States)

    Löbling, Lisa

    2017-07-01

    The metal enrichment in the cosmic circuit of matter is dominated by the yields of asymptotic giant branch (AGB) nucleosynthesis, that are blown back into the interstellar medium just before these stars die as white dwarfs. To establish constraints on AGB processes, spectral analyses of hot post-AGB stars are mandatory. These show that such stars are heavy metal factories due to the AGB s-process. The Virtual Observatory service TheoSSA offers access to synthetic stellar spectra calculated with our Tübingen non-local thermodynamic equilibrium model-atmosphere package that are suitable for the analysis of hot post-AGB stars.

  4. Gastroretentive Ranitidine Hydrochloride Tablets with Combined Floating and Bioadhesive Properties: Factorial Design Analysis, In Vitro Evaluation and In Vivo Abdominal X-Ray Imaging.

    Science.gov (United States)

    Abduljabbar, Hana N; Badr-Eldin, Shaimaa M; Aldawsari, Hibah M

    2015-01-01

    Ranitidine HCl is an H2-antagonist that suffers from low oral bioavailability of 50%. The site-specific absorption from the upper part of the small intestine and the colonic metabolism of the drug could partially contribute to its reduced bioavailability. To surmount these drawbacks, this work aimed at the formulation of Ranitidine HCl gastroretentive floating-biaodhesive tablets. A 3(2) factorial design was applied to assess the effects of matrix former (HPMC K100M): drug ratio, and the release retardant (Carbopol 971) amount on the characteristics of the tablets prepared using direct compression technique. The prepared tablets were thoroughly evaluated for physical properties, floating, swelling, bioadhesive and in vitro release behaviors. Statistical analysis of the results revealed significant effects for both formulation variables on the swelling index, maximum detachment force and cumulative percent drug released after 6 hours. In addition, the matrix- former: drug ratio showed a statistically significant effect on the floating lag time. Kinetic analysis of the release data indicated Higuchi diffusion kinetics and anomalous transport mechanism for all formulations. Scanning electron micrographs of the selected tablet formulation; F8, revealed intact surface without any perforations or channels in the dry state, while polymer expansion (relaxation) with some perforated areas were observed on the surface of the tablets after 12 hours dissolution in 0.1 N HCl. Furthermore, in vivo abdominal x-ray imaging showed good floating behavior of the selected formulation; F8, for up to 6 hours with appropriate bioadhesive property. In conclusion, the selected ranitidine HCl floating-bioadhesive tablets could be regarded as a promising gastroretentive drug delivery system that could deliver the drug at a controlled rate.

  5. Nanosizing of a poorly soluble drug: technique optimization, factorial analysis, and pharmacokinetic study in healthy human volunteers

    Directory of Open Access Journals (Sweden)

    Elsayed I

    2014-06-01

    powder. Techniques utilized in the nanocrystals’ preparation had no effect on DCN crystalline state. The selected formula (F12 showed a higher bioavailability compared to the reference market product with relative bioavailability of 131.4%.Conclusion: The saturation solubility, in vitro dissolution rate and relative bioavailability of DCN were significantly increased after nanocrystallization. Less time and power consumption were applied by the combination of bottom-up and top-down techniques.Keywords: nanocrystals, high pressure homogenization, diacerein, factorial analysis, pharmacokinetic study

  6. Full factorial experimental design analysis of Rhodamine B removal from water using organozeolite from coal bottom ash

    Directory of Open Access Journals (Sweden)

    Raquel R. Alcântara, Rafael O. R. Muniz, Denise A. Fungaro

    2016-01-01

    Full Text Available Zeolitic material synthesized using coal bottom ash asraw materialwas modified by cationic surfactant. Raw bottom ash and zeolitic materials were characterized using various techniques to obtain its physical and chemical properties. Surfactant modified zeolite (SMZBA was used as alternative low-cost adsorbent for removal of Rhodamine B (RB dye from aqueous solution. Dye adsorption equilibrium was attained after 40 min of the contact time and adsorption kinetics were described by the pseudo second order kinetic model. Equilibrium adsorption data were adjusted using non-linear equations of the Langmuir, Freundlich, Temkin and Dubinin-Radushkevich (D-R models. Error analysis showed that D-R was the most appropriate for fitting the experimental data.The reuse of the remaining solution generated from the synthesis of zeolite was effective. To optimize the operating conditions, the temperature, pH, adsorbent dosage and initial concentration of the dye were investigated by full factorial experimental design method; adsorbent dosage, initial concentration and interaction of the two were found as the most significant factors with P = 0.02 lower than 95% confidence level. The results showed that SMZBA is a good adsorbent for the removal of RB from aqueous effluent.

  7. Heat Recovery in a Pasta Factory. Pinch Analysis Leads to Optimal Heat Pump Usage.

    OpenAIRE

    Staine, Frédéric; Favrat, Daniel; Krummenacher, Pierre

    1994-01-01

    In the previous issue of the IEA Heat Pump Centre Newsletter (Vol, 12, No.3, pp. 29-31), an article by these authors described the use of pinch analysis (also known as pinch technology) in a buildings application. This article describes a similar procedure for integrating a heat pump into a pasta production process. Many industrial processes, and particularly those dealing with drying, are characterized by an overabundance of low- grade heat which often cannot be effi...

  8. Heat Recovery in a Pasta Factory. Pinch Analysis Leads to Optimal Heat Pump Usage.

    OpenAIRE

    Staine, Frédéric; Favrat, Daniel; Krummenacher, Pierre

    1994-01-01

    In the previous issue of the IEA Heat Pump Centre Newsletter (Vol, 12, No.3, pp. 29-31), an article by these authors described the use of pinch analysis (also known as pinch technology) in a buildings application. This article describes a similar procedure for integrating a heat pump into a pasta production process. Many industrial processes, and particularly those dealing with drying, are characterized by an overabundance of low- grade heat which often cannot be effi...

  9. The In-Out dispositional affective style questionnaire (IN-OUT DASQ: an exploratory factorial analysis

    Directory of Open Access Journals (Sweden)

    Viridiana eMazzola

    2014-09-01

    Full Text Available The issue of individual differences has always been an important area of research in psychology and, more recently, neuroimaging. A major source of interindividual variability stems from differences in basic affective dispositions. In order to make a contribution to this field of research, we have developed a new type of assessment - the In-Out Dispositional Affective Style Questionnaire (IN-OUT DASQ - to measure the proneness between two different ways of feeling situated: a predominantly body-bound one in the case of the inward tendency and an externally anchored one in the case of the outward tendency (Arciero and Bondolfi, 2009. The IN-OUT DASQ contains 2 scales of 7 items each, Self-centric engagement (SCE and Other-centric engagement (OCE, as a disposition index for inwardness and outwardness respectively. The exploratory factor analysis in sample 1 (n= 292 confirmed a two-factor solution. Confirmatory factor analysis in sample 2 (n= 300 showed the good fit of this two-factor model. Next, we examined construct validity also investigating the correlations between the IN-OUT DASQ, the Big Five Questionnaire and the Positive and Negative Affect Schedule in sample 3 (n=153. The SCE and OCE scales had robust internal consistency and reliability, and therefore the capacity to discriminate higher inward and outward participants was stronger in SCE. Although further validation research is required, the present study suggests the IN-OUT DASQ has the potential to be a measurement tool for detecting individual differences in social behavior and social affective neuroscience.

  10. Fractional factorial plans

    CERN Document Server

    Dey, Aloke

    2009-01-01

    A one-stop reference to fractional factorials and related orthogonal arrays.Presenting one of the most dynamic areas of statistical research, this book offers a systematic, rigorous, and up-to-date treatment of fractional factorial designs and related combinatorial mathematics. Leading statisticians Aloke Dey and Rahul Mukerjee consolidate vast amounts of material from the professional literature--expertly weaving fractional replication, orthogonal arrays, and optimality aspects. They develop the basic theory of fractional factorials using the calculus of factorial arrangements, thereby providing a unified approach to the study of fractional factorial plans. An indispensable guide for statisticians in research and industry as well as for graduate students, Fractional Factorial Plans features: * Construction procedures of symmetric and asymmetric orthogonal arrays. * Many up-to-date research results on nonexistence. * A chapter on optimal fractional factorials not based on orthogonal arrays. * Trend-free plans...

  11. A factorial analysis of silanization conditions for the immobilization of oligonucleotides on glass surfaces.

    Science.gov (United States)

    Halliwell, C M; Cass, A E

    2001-06-01

    The modification of glass surfaces with (3-mercaptopropyl)trimethoxysilane and the application of this to DNA chip technology are described. A range of factors influencing the silanization method, and hence the number of surface-bound, chemically active thiol groups, were investigated using a design of experiment approach based on analysis of variance. The number of thiol groups introduced on glass substrates were measured directly using a specific radiolabel, [14C]cysteamine hydrochloride. For liquid-phase silanization, the number of surface-bound thiol groups was found to be dependent on both postsilanization thermal curing and silanization time and relatively independent of silane concentration, reaction temperature, and sample pretreatment. Depending on the conditions used in liquid-phase silanization, (1.3-9.0) x 10(12) thiol groups/cm2 on the glass samples were bound. The reliability and repeatability of liquid- and vacuum-phase silanization were also investigated. Eighteen-base oligonucleotide probes were covalently attached to the modified surfaces via a 3'-amino modification on the DNA and subsequent reaction with the cross-linking reagent N-(gamma-maleimidobutyryloxy) succinimide ester (GMBS). The resulting probe levels were determined and found to be stoichiometric with that of the introduced thiol groups. These results demonstrate that silanization of glass surfaces under specific conditions, prior to probe attachment, is of great importance in the development of DNA chips that use the simple concept of the covalent attachment of presynthesized oligonucleotides to silicon oxide surfaces.

  12. Up-regulation of Cartilage Oligomeric Matrix Protein Gene Expression by Insulin-like Growth Factor-I Revealed by Real Time Reverse Transcription-Polymerase Chain Reaction

    Institute of Scientific and Technical Information of China (English)

    Hua TIAN; Ioannis STOGIANNIDIS

    2006-01-01

    Cartilage oligomeric matrix protein (COMP) strengthens cartilage by binding to type Ⅱ and typeⅨ collagen-forming bridges between collagen fibrils. It was hypothesized that perhaps one or more anabolic growth factors such as insulin-like growth factor-I (IGF-I), fibroblast growth factor-1 (FGF-1) or platelet derived growth factor-BB (PDGF-BB) increase COMP gene expression. Their effects on primary human chondrocytes and the chondrogenic cell line ATDC5 were studied using real time reverse transcript-polymerase chain reaction (RT-PCR) for quantification. IGF-I, but not the FGF-1 or PDGF-BB, up-regulated COMP gene expression by approximate 5-fold in human adult chondrocytes in a dose- and time-dependent manner. IGF-I exerted similar effects on ATDC5 cells. Results from these real time RT-PCR experiments were confirmed by transfecting into ATDC5 cells a full-length mouse COMP promoter cloned upstream of a luciferase reporter gene. On stimulation with IGF-I, the luciferase reporter activity increased by about eight times. In conclusion, IGF-I seems to be an important positive regulator of COMP, which may play an important role in an attempted repair of either traumatized or degenerated cartilage.

  13. Analysis of Factorial Experiments.

    Science.gov (United States)

    1985-09-01

    where ;(f)= If+xon x(fj- x(n y:. rf is the diagonal matrix with the appropriate diagonal elements (the (i ,i) element is 1/y12 if the i th element of...0’----.0.5 ............. ...... * 0 4.0. fnone 1 12 13 123 14 124 134 1234 . active 2 3 23 4 24 34 234 effect ’,p I- .9 I * cprI V -7 4 7-. 4-, .r

  14. Educability, skills and parental involvement: a factorial analysis of teacher perception scale for families in psychosocial risk

    OpenAIRE

    Rodríguez Garcés, Carlos; Centro de Investigación CIDCIE de la Universidad del Bío-Bío, Chillán

    2016-01-01

    Through the scale “Perception Teaching for Families Experiencing Psychosocial Risk” applied to 175 teachers in training, conducted an exploratory factor analysis (EFA). The AFE, with an explained variance of 43.9%, reveals the existence of four factors or dimensions: Implications Parental Education, features personological Attributive, Parental Participation and Attribution Genealogical. The subsequent descriptive analysis reports that there is a tarnished image by teachers of vulnerable chil...

  15. MudPIT analysis of alkaline tolerance by Listeria monocytogenes strains recovered as persistent food factory contaminants.

    Science.gov (United States)

    Nilsson, Rolf E; Latham, Roger; Mellefont, Lyndal; Ross, Tom; Bowman, John P

    2012-05-01

    Alkaline solutions are used to clean food production environments but the role of alkaline resistance in persistent food factory contamination by Listeria monocytogenes is unknown. We used shotgun proteomics to characterise alkaline adapted L. monocytogenes recovered as persistent and transient food factory contaminants. Three unrelated strains were studied including two persistent and a transient food factory contaminant determined using multilocus sequence typing (MLST). The strains were adapted to growth at pH 8.5 and harvested in exponential phase. Protein extracts were analysed using multidimensional protein identification technology (MudPIT) and protein abundance compared by spectra counting. The strains elicited core responses to alkaline growth including modulation of intracellular pH, stabilisation of cellular processes and reduced cell-division, independent to lineage, MLST or whether the strains were transient or persistent contaminants. Alkaline adaptation by all strains corresponded to that expected in stringent-response induced cells, with protein expression supporting metabolic shifts concordant with elevated alarmone production and indicating that the alkaline-stringent response results from energy rather than nutrient limitation. We believe this is the first report describing induction of a stringent response in different L. monocytogenes strains by alkaline pH under non-limiting growth conditions. The work emphasises the need for early intervention to avoid persistent food factory contamination by L. monocytogenes.

  16. A CONTRASTIVE ANALYSIS OF THE FACTORIAL STRUCTURE OF THE PCL-R: WHICH MODEL FITS BEST THE DATA?

    Directory of Open Access Journals (Sweden)

    Beatriz Pérez

    2015-01-01

    Full Text Available The aim of this study was to determine which of the factorial solutions proposed for the Hare Psychopathy Checklist-Revised (PCL-R of two, three, four factors, and unidimensional fitted best the data. Two trained and experienced independent raters scored 197 prisoners from the Villabona Penitentiary (Asturias, Spain, age range 21 to 73 years (M = 36.0, SD = 9.7, of whom 60.12% were reoffenders and 73% had committed violent crimes. The results revealed that the two-factor correlational, three-factor hierarchical without testlets, four-factor correlational and hierarchical, and unidimensional models were a poor fit for the data (CFI ≤ .86, and the three-factor model with testlets was a reasonable fit for the data (CFI = .93. The scale resulting from the three-factor hierarchical model with testlets (13 items classified psychopathy significantly higher than the original 20-item scale. The results are discussed in terms of their implications for theoretical models of psychopathy, decision-making, prison classification and intervention, and prevention. Se diseñó un estudio con el objetivo de conocer cuál de las soluciones factoriales propuestas para la Hare Psychopathy Checklist-Revised (PCL-R de dos, tres y cuatro factores y unidimensional era la que presentaba mejor ajuste a los datos. Para ello, dos evaluadores entrenados y con experiencia evaluaron de forma independiente a 197 internos en la prisión Villabona (Asturias, España, con edades comprendidas entre los 21 y los 73 años (M = 36.0, DT = 9.7, de los cuales el 60.12% eran reincidentes y el 73% había cometido delitos violentos. Los resultados mostraron que los modelos unidimensional, correlacional de 2 factores, jerárquico de 3 factores sin testlest y correlacional y jerárquico de 4 factores, presentaban un pobre ajuste con los datos (CFI ≤ .86 y un ajuste razonable del modelo jerárquico de tres factores con testlets (CFI = .93. La escala resultante del modelo de tres factores

  17. Analysis of the effects of five factors relevant to in vitro chondrogenesis of human mesenchymal stem cells using factorial design and high throughput mRNA-profiling.

    Directory of Open Access Journals (Sweden)

    Rune B Jakobsen

    Full Text Available The in vitro process of chondrogenic differentiation of mesenchymal stem cells for tissue engineering has been shown to require three-dimensional culture along with the addition of differentiation factors to the culture medium. In general, this leads to a phenotype lacking some of the cardinal features of native articular chondrocytes and their extracellular matrix. The factors used vary, but regularly include members of the transforming growth factor β superfamily and dexamethasone, sometimes in conjunction with fibroblast growth factor 2 and insulin-like growth factor 1, however the use of soluble factors to induce chondrogenesis has largely been studied on a single factor basis. In the present study we combined a factorial quality-by-design experiment with high-throughput mRNA profiling of a customized chondrogenesis related gene set as a tool to study in vitro chondrogenesis of human bone marrow derived mesenchymal stem cells in alginate. 48 different conditions of transforming growth factor β 1, 2 and 3, bone morphogenetic protein 2, 4 and 6, dexamethasone, insulin-like growth factor 1, fibroblast growth factor 2 and cell seeding density were included in the experiment. The analysis revealed that the best of the tested differentiation cocktails included transforming growth factor β 1 and dexamethasone. Dexamethasone acted in synergy with transforming growth factor β 1 by increasing many chondrogenic markers while directly downregulating expression of the pro-osteogenic gene osteocalcin. However, all factors beneficial to the expression of desirable hyaline cartilage markers also induced undesirable molecules, indicating that perfect chondrogenic differentiation is not achievable with the current differentiation protocols.

  18. Reliability and Factorial Validity of Non-Specific and Tennis-Specific Pre-Planned Agility Tests; Preliminary Analysis

    Science.gov (United States)

    Sekulic, Damir; Uljevic, Ognjen; Peric, Mia; Spasic, Miodrag; Kondric, Miran

    2017-01-01

    Abstract Agility is an important quality in tennis, yet there is an evident lack of studies focussing on the applicability of tennis-specific agility performances and comparing them to equivalent non-specific agility performances. The aim of this study was to evaluate the reliability and factorial validity of three tests of pre-planned agility, performed in specific (with a tennis racquet) and non-specific (without a tennis racquet) conditions. The sample consisted of 33 tennis players (13 males and 20 females; age: 18.3 ± 1.1 years and 18.6 ± 1.3 years; body height: 185.4 ± 51 cm and 169.3 ± 4.2 cm, 74.0 ± 4.4 kg and 61.2 ± 3.1 kg, respectively). The variables comprised three agility tests: a 20-yard test, a T-test and the Illinois test, all performed in both specific and non-specific conditions. Between-subject and within-subject reliability were found to be high (Cronbach Alpha: 0.93 to 0.98; Coefficient of Variation: 3 to 8%), with better within-subject reliability and stability of the measurement for specific tests. Pearson’s product moment correlations between the non-specific and specific agility performances were high (r ≥0.84), while factor analysis extracted only one significant latent dimension on the basis of the Guttman-Kaiser criterion. The results of the 20-yard test were better when the test was conducted in the specific conditions (t-test = 2.66; p test, superior results were recorded in the non-specific conditions (t-test = 2.96; p test duration (about 20 s) and non-specific locomotion forms such as rotational movements. Considering the findings of the present study, when testing tennis-specific pre-planned agility, we suggest using tests of short duration (less than 10 s) and sport-specific types of locomotion. PMID:28210343

  19. Analysis of transport and ground deposition of the TCDD emitted on 10 July 1976 from the ICMESA factory (Seveso, Italy)

    Science.gov (United States)

    Cavallaro, A.; Tebaldi, G.; Gualdi, R.

    The areas affected by the contamination of TCDD emitted by the ICMESA factory (Meda-Seveso, Italy) have been identified through soil samples. To determine the course of the paniculate toxic cloud, we have analysed the wind field considering the data obtained by the six meteorological stations placed in the vicinity of the factory. After determining the theoretical path of the release, we have studied the values of the ground concentration of TCDD and we have looked for a deposition equation. We thus demonstrated out that the axial deposition YCA( μgm-2) decreases exponentially accordingly to two different regression lines: YCA = 2900 exp(-2.3 x) forx TCDD deposition should tend to the value of 0.3 μg m -2: at a distance of 10 km from ICMESA and there later sampling showed a maximum value of 0.2μg m -2.

  20. PCs in the factory

    CERN Document Server

    2013-01-01

    Please note this is a short discount publication.PCs have become as essential to the factory environment as they are to the office environment. This in-depth report examines how specially adapted PCs and peripherals are being established in Factory Process Control and Reporting. The report covers: * Hardware and Software* Typical Applications* Implementation Issues* Case Studies and Real Applications

  1. PERSPECTIVES OF FACTORIAL ANALYSIS IN STUDYING ASSOCIATIONS BETWEEN IMMUNE SYSTEM PARAMETERS AND CLINICAL CHARACTERISTICS IN GASTRIC CANCER

    Directory of Open Access Journals (Sweden)

    I. G. Solovyeva

    2010-01-01

    Full Text Available  When studying functional features of immune system, a lot of quantitative and functional parameters are determined. A multifactorial analysis allows of detecting interdependent immunological parameters and defining them as significant factors. In present study, four factors are revealed, which are associated with certain clinical characteristics of gastric cancer (tumor invasion depth, lymph node status and distant metastases, tumor stage, histological type. The data obtained are of interest, with regard of systemic approach to functional studies of immune functions.

  2. Charged Particle Optics in Circular Higgs Factory

    Energy Technology Data Exchange (ETDEWEB)

    Cai, Yunhai [SLAC National Accelerator Lab., Menlo Park, CA (United States)

    2015-02-26

    Similar to a super B-factory, a circular Higgs factory will require strong focusing systems near the interaction points and a low-emittance lattice in arcs to achieve a factory luminosity. At electron beam energy of 120 GeV, beamstrahlung effects during the collision pose an additional challenge to the collider design. In particular, a large momentum acceptance at 2 percent level is necessary to retain an adequate beam lifetime. This turns out to be the most challenging aspect in the design of circular Higgs factory. In this paper, an example will be provided to illustrate the beam dynamics in circular Higgs factory, emphasizing on the chromatic optics. Basic optical modules and advanced analysis will be presented. Most important, we will show that 2% momentum aperture is achievable

  3. Nuclear Effect in Higher-Dimensional Factorial Moment Analysis of the $^{16}O$-, $^{32}S$- and $^{197}Au$-$Em$ Interaction Data at 200, 60 and 11 AGeV/c

    CERN Document Server

    Adamovich, M I; Alexander, Yu; Amirikas, R; Andreeva, N P; Avetyan, F A; Badyal, S K; Bakich, A M; Basova, E S; Bhalla, K B; Bhasin, A; Bhatia, V S; Bogdanov, V G; Bradnova, V; Bubnov, V I; Cai, X; Chasnikov, I Yu; Chen, L; Chernova, L P; Chernyavsky, M M; Dhamija, S; El-Chenawi, K F; Felea, D; Feng, S Q; Gaitinov, A S; Ganssauge, E R; Garpman, S I A; Gerassimov, S G; Gheata, A; Gheata, M; Grote, J; Gulamov, K G; Sen-Gupta, S K; Gupta, V K; Haiduc, M; Hasegan, D; Hu, Z R; Jakobsson, B; Just, L; Kanygina, E K; Karabova, M; Kharlamov, S P; Kim, Y C; Kovalenko, A D; Krasnov, S A; Kumar, V; Larionova, V G; Lee, G C; Lepekhin, F G; Levitskya, O V; Li, Y X; Liang, L; Liu, L S; Liu, Z G; Lokanathan, S; Lord, J J; Lukicheva, N S; Lu, Y; Luo, S B; Mangotra, L K; Marutyan, N A; Mitra, I S; Nasyrov, S Z; Navotny, V S; Nilsson, P O; Nystrand, J; Orlova, G I; Otterlund, I; Pavukova, A; Peak, L S; Peresadko, N G; Petrov, N V; Plyushchev, V A; Qian, W Y; Qin, Y M; Raniwala, R; Rao, N K; Rhee, J T; Röper, M D; Rusakova, V V; Saidkhanov, N S; Salmanova, N A; Sarkisova, L G; Sarkisian, V R; Seitimbetov, A M; Sethi, R; Shakhova, T I; Seliverstov, D M; Singh, B; Simonov, B B; Skelding, D; Söderström, K; Skorobogatova, V I; Stenlund, E; Svechnikova, L N; Svensson, T; Tawfik, A M; Tothova, M; Tretyakova, M I; Trofimova, T P; Tuleeva, U I; Vashisht, V; Vokal, S; Vrláková, J; Wang, H Q; Wang, S H; Wang, X R; Weng, Z Q; Wilkes, R J; Yang, C B; Yin, Z B; Yu, L Z; Zhang, D H; Zheng, P Y; Zhokhova, S I; Zhou, D C

    1997-01-01

    The anomalous behavior of 2-dimensional factorial moment in nucleus-nucleus collisions is studied in some detail using both mini-bias and central collision data of ^{16}O-, ^{32}S- and ^{197}Au-Em interactions from EMU01 experiment. The correct value for the effective Hurst exponent in the analysis of higher-dimensional factorial moment is found to be greater than unity, showing clearly the existence of superposition effect in nucleus-nucleus collisions.

  4. Towards energy transparent factories

    CERN Document Server

    Posselt, Gerrit

    2016-01-01

    This monograph provides a methodological approach for establishing demand-oriented levels of energy transparency of factories. The author presents a systematic indication of energy drivers and cost factors, taking into account the interdependencies between facility and production domains. Particular attention is given to energy flow metering and monitoring. Readers will also be provided with an in-depth description of a planning tool which allows for systematically deriving suitable metering points in complex factory environments. The target audience primarily comprises researchers and experts in the field of factory planning, but the book may also be beneficial for graduate students.

  5. Photon collider Higgs factories

    CERN Document Server

    Telnov, V I

    2014-01-01

    The discovery of the Higgs boson (and still nothing else) have triggered appearance of many proposals of Higgs factories for precision measurement of the Higgs properties. Among them there are several projects of photon colliders (PC) without e+e- in addition to PLC based on e+e- linear colliders ILC and CLIC. In this paper, following a brief discussion of Higgs factories physics program I give an overview of photon colliders based on linear colliders ILC and CLIC, and of the recently proposed photon-collider Higgs factories with no e+e- collision option based on recirculation linacs in ring tunnels.

  6. Factorial PD-Clustering

    CERN Document Server

    Tortora, Cristina; Summa, Mireille Gettler

    2011-01-01

    Factorial clustering methods have been developed in recent years thanks to the improving of computational power. These methods perform a linear transformation of data and a clustering on transformed data optimizing a common criterion. Factorial PD-clustering is based on Probabilistic Distance clustering (PD-clustering). PD-clustering is an iterative, distribution free, probabilistic, clustering method. Factorial PD-clustering make a linear transformation of original variables into a reduced number of orthogonal ones using a common criterion with PD-Clustering. It is demonstrated that Tucker 3 decomposition allows to obtain this transformation. Factorial PD-clustering makes alternatively a Tucker 3 decomposition and a PD-clustering on transformed data until convergence. This method could significantly improve the algorithm performance and allows to work with large dataset, to improve the stability and the robustness of the method.

  7. Virtual Factory Testbed

    Data.gov (United States)

    Federal Laboratory Consortium — The Virtual Factory Testbed (VFT) is comprised of three physical facilities linked by a standalone network (VFNet). The three facilities are the Smart and Wireless...

  8. Visual evoked potentials in rubber factory workers.

    Science.gov (United States)

    Tandon, O P; Kumar, V

    1997-01-01

    Pattern reversal visual evoked potentials (pVEP) were studied in 39 male rubber factory workers in the age range of 18-55 years and 20 control subjects (aged 18-46 years) not exposed to the rubber factory environment. Results revealed that 20 (51%) rubber factory workers had abnormal latencies of wave P1 (dominant component of pVEP) as per accepted criteria of 99% tolerance limit set for the control group (i.e. any value above mean +3 SD of control was considered abnormal). The section-wise per cent distribution of abnormalities was vulcanization (83%), tubing (75%), calendering (60%), loading (38%) and mixing (14%). This study provides electrophysiological evidence that rubber factory environments affect the conduction processes in optical pathways from their origin in the retina to striate cortex. However, this study has its limitations in not identifying the specific chemical(s) causing these changes in VEP.

  9. Investigating the provenance of iron artifacts of the Royal Iron Factory of Sao Joao de Ipanema by hierarchical cluster analysis of EDS microanalyses of slag inclusions

    Energy Technology Data Exchange (ETDEWEB)

    Mamani-Calcina, Elmer Antonio; Landgraf, Fernando Jose Gomes; Azevedo, Cesar Roberto de Farias, E-mail: c.azevedo@usp.br [Universidade de Sao Paulo (USP), Sao Paulo, SP (Brazil). Escola Politecnica. Departmento de Engenharia Metalurgica e de Materiais

    2017-01-15

    Microstructural characterization techniques, including EDX (Energy Dispersive X-ray Analysis) microanalyses, were used to investigate the slag inclusions in the microstructure of ferrous artifacts of the Royal Iron Factory of Sao Joao de Ipanema (first steel plant of Brazil, XIX century), the D. Pedro II Bridge (located in Bahia, assembled in XIX century and produced in Scotland) and the archaeological sites of Sao Miguel de Missoes (Rio Grande do Sul, Brazil, production site of iron artifacts, the XVIII century) and Afonso Sardinha (Sao Paulo, Brazil production site of iron artifacts, XVI century). The microanalyses results of the main micro constituents of the microstructure of the slag inclusions were investigated by hierarchical cluster analysis and the dendrogram with the microanalyses results of the wüstite phase (using as critical variables the contents of MnO, MgO, Al{sub 2}O{sub 3}, V{sub 2}O{sub 5} and TiO{sub 2}) allowed the identification of four clusters, which successfully represented the samples of the four investigated sites (Ipanema, Sardinha, Missoes and Bahia). Finally, the comparatively low volumetric fraction of slag inclusions in the samples of Ipanema (∼1%) suggested the existence of technological expertise at the iron making processing in the Royal Iron Factory of Sao Joao de Ipanema. (author)

  10. The Nearby Supernova Factory

    CERN Document Server

    Wood-Vasey, W M; Lee Byung Cheol; Loken, S; Nugent, P; Perlmutter, S; Siegrist, J L; Wang, L; Antilogus, P; Astier, Pierre; Hardin, D; Pain, R; Copin, Y; Smadja, G; Gangler, E; Castera, A; Adam, G; Bacon, R; Lemonnier, J P; Pecontal, A; Pécontal, E; Kessler, R

    2004-01-01

    The Nearby Supernova Factory (SNfactory) is an ambitious project to find and study in detail approximately 300 nearby Type Ia supernovae (SNe~Ia) at redshifts 0.03analysis have allowed us to increase our effective SN discovery rate to ~12 SNe/month in 2003.

  11. Exploring metal detoxification and accumulation potential during vermicomposting of Tea factory coal ash: sequential extraction and fluorescence probe analysis

    Science.gov (United States)

    Goswami, Linee; Pratihar, Sanjay; Dasgupta, Suman; Bhattacharyya, Pradip; Mudoi, Pronab; Bora, Jayanta; Bhattacharya, Satya Sundar; Kim, Ki Hyun

    2016-07-01

    Metal contamination from coal ashes (CAs) is widely recognized as a significant environmental concern. To learn more about metal detoxification and accumulation potential of earthworm species, metal-rich tea factory coal ashes (TFCA) were fed to Eisenia fetida and Lampito mauritii by employing a fluorescent tag detection method. Fascinatingly, on feeding fluorescence probed Zn and Cd along with cow dung to Eisenia fetida, the detection of the gut-proteins with a molecular mass higher than 100 kDa was a distinct evidence of metal binding. Significant increases were observed in the content of humified organic C [humic acid (HAC) and fulvic acid C (FAC)] and degree of humification during vermicomposting. Concurrently, considerably large amount of toxic metals (Cr, Cd, Pb, and Zn) was transformed from exchangeable to recalcitrant (organic matter and mineral bound) fractions. Moreover, total metal concentrations were reduced with high removal efficiency upon vermicomposting.

  12. Exploring metal detoxification and accumulation potential during vermicomposting of Tea factory coal ash: sequential extraction and fluorescence probe analysis

    Science.gov (United States)

    Goswami, Linee; Pratihar, Sanjay; Dasgupta, Suman; Bhattacharyya, Pradip; Mudoi, Pronab; Bora, Jayanta; Bhattacharya, Satya Sundar; Kim, Ki Hyun

    2016-01-01

    Metal contamination from coal ashes (CAs) is widely recognized as a significant environmental concern. To learn more about metal detoxification and accumulation potential of earthworm species, metal-rich tea factory coal ashes (TFCA) were fed to Eisenia fetida and Lampito mauritii by employing a fluorescent tag detection method. Fascinatingly, on feeding fluorescence probed Zn and Cd along with cow dung to Eisenia fetida, the detection of the gut-proteins with a molecular mass higher than 100 kDa was a distinct evidence of metal binding. Significant increases were observed in the content of humified organic C [humic acid (HAC) and fulvic acid C (FAC)] and degree of humification during vermicomposting. Concurrently, considerably large amount of toxic metals (Cr, Cd, Pb, and Zn) was transformed from exchangeable to recalcitrant (organic matter and mineral bound) fractions. Moreover, total metal concentrations were reduced with high removal efficiency upon vermicomposting. PMID:27456167

  13. Chemometric analysis of groundwater quality data around municipal landfill and paper factory and their potential influence on population’s health

    Directory of Open Access Journals (Sweden)

    Ljiljana Čačić

    2012-02-01

    Full Text Available Aim To assess the level of 15 groundwater quality parameters in groundwater samples collected around municipal landfill and paper factory in order to evaluate usefulness of the groundwater and its possible implication on the human health. Methods Obtained data have been analyzed by principal component analysis (PCA technique, in order to differentiate the groundwater samples on the basis of their compositional differences and origin. Results Wastes and effluents from municipal landfill did not contribute significantly to the pollution of the aquatic medium. Groundwater degradation caused by high contents of nitrate, mineral oils, organic and inorganic matters was particularly expressed in the narrow area of the city centre, near the paper factory and most likely it has occurred over a long period of time. The results have shown that the concentrations of the most measured parameters(NO3-N, NH4-N, oils, organic matter, Fe, Pb, Ni and Cr were above llowed limits for drinking and domestic purposes. onclusion This study has provided important information on cological status of the groundwater systems and for identification f groundwater quality parameters with concentrations above llowable limits for human consumption. The results generally evealed that groundwater assessed in this study mainly does not atisfy safe limits for drinking water and domestic use. As a consequence, ontaminated groundwater becomes a large hygienic nd toxicological problem, since it considerably impedes groundwater tilization. Even though, all of these contaminants havenot yet reached toxic levels, they still represent long term risk for ealth of the population.

  14. Integrated analysis of numerical weather prediction and computational fluid dynamics for estimating cross-ventilation effects on inhaled air quality inside a factory

    Science.gov (United States)

    Murga, Alicia; Sano, Yusuke; Kawamoto, Yoichi; Ito, Kazuhide

    2017-10-01

    Mechanical and passive ventilation strategies directly impact indoor air quality. Passive ventilation has recently become widespread owing to its ability to reduce energy demand in buildings, such as the case of natural or cross ventilation. To understand the effect of natural ventilation on indoor environmental quality, outdoor-indoor flow paths need to be analyzed as functions of urban atmospheric conditions, topology of the built environment, and indoor conditions. Wind-driven natural ventilation (e.g., cross ventilation) can be calculated through the wind pressure coefficient distributions of outdoor wall surfaces and openings of a building, allowing the study of indoor air parameters and airborne contaminant concentrations. Variations in outside parameters will directly impact indoor air quality and residents' health. Numerical modeling can contribute to comprehend these various parameters because it allows full control of boundary conditions and sampling points. In this study, numerical weather prediction modeling was used to calculate wind profiles/distributions at the atmospheric scale, and computational fluid dynamics was used to model detailed urban and indoor flows, which were then integrated into a dynamic downscaling analysis to predict specific urban wind parameters from the atmospheric to built-environment scale. Wind velocity and contaminant concentration distributions inside a factory building were analyzed to assess the quality of the human working environment by using a computer simulated person. The impact of cross ventilation flows and its variations on local average contaminant concentration around a factory worker, and inhaled contaminant dose, were then discussed.

  15. The Smart Factory

    DEFF Research Database (Denmark)

    Radziwon, Agnieszka; Bilberg, Arne; Bogers, Marcel

    2014-01-01

    Nowadays we live in a world, which a decade ago would only be described in the science fiction literature. More and more things become smart and both scientists and engineers strive for developing not only new and innovative devices, but also homes, factories, or even cities. Despite of continuous...... development, many of those concepts are still being just a vision of the future, which still needs a lot of effort to become true. This paper reviews the usage of adjective smart in respect to technology and with a special emphasis on the smart factory concept placement among contemporary studies. Due...... to a lack of a consensus of common understanding of this term, a unified definition is proposed. The conceptualization will not only refer to various smart factory visions reported in the literature, but also link the crucial characteristics of this emerging manufacturing concept to usual manufacturing...

  16. Cell Factory Engineering.

    Science.gov (United States)

    Davy, Anne Mathilde; Kildegaard, Helene Faustrup; Andersen, Mikael Rørdam

    2017-03-22

    Rational approaches to modifying cells to make molecules of interest are of substantial economic and scientific interest. Most of these efforts aim at the production of native metabolites, expression of heterologous biosynthetic pathways, or protein expression. Reviews of these topics have largely focused on individual strategies or cell types, but collectively they fall under the broad umbrella of a growing field known as cell factory engineering. Here we condense >130 reviews and key studies in the art into a meta-review of cell factory engineering. We identified 33 generic strategies in the field, all applicable to multiple types of cells and products, and proven successful in multiple major cell types. These apply to three major categories: production of native metabolites and/or bioactives, heterologous expression of biosynthetic pathways, and protein expression. This meta-review provides general strategy guides for the broad range of applications of rational engineering of cell factories.

  17. Colorful Microbial Cell Factories

    DEFF Research Database (Denmark)

    Petersen, Pia Damm

    Yeast cell factories are powerful tools used for the production of high-value natural compounds otherwise not easily available. Many bioactive and industrially important plant secondary metabolites can be produced in yeast by engineering their biosynthetic pathways into yeast cells, as these both...... anthocyanins. Yeast cell factories present a platform to circumvent the problem of low yields of interesting molecular structures in plant tissues, as hand-picking of desired enzyme activities allows for specific biosynthesis of the precise pigment of interest, as well as choosing more stable structures...... for heterologous biosynthesis is possible. In cell factories, great improvements in yields can be achieved through molecular engineering of flux from endogenous yeast precursors, e.g. by elimination of by-product formation, and by genetic optimization of pathway components, such as fine-tuning of expression levels...

  18. Multivariate factorial analysis to design a robust batch leaching test to assess the volcanic ash geochemical hazard.

    Science.gov (United States)

    Ruggieri, Flavia; Gil, Raúl A; Fernandez-Turiel, Jose-Luis; Saavedra, Julio; Gimeno, Domingo; Lobo, Agustin; Martinez, Luis D; Rodriguez-Gonzalez, Alejandro

    2012-04-30

    A method to obtain robust information on short term leaching behaviour of volcanic ashes has been developed independently on the sample age. A mixed factorial design (MFD) was employed as a multivariate strategy for the evaluation of the effects of selected control factors and their interactions (amount of sample (A), contact time (B), and liquid to solid ratio or L/S (C)) on the leaching process of selected metals (Na, K, Mg, Ca, Si, Al, V, Mn, Fe, and Co) and anions (Cl(-) and SO(4)(2-)). Box plots of the data acquired were used to evaluate the reproducibility achieved at different experimental conditions. Both the amount of sample (A) and leaching time (B) had a significant effect on the element stripping whereas the L/S ratio influenced only few elements. The lowest dispersion values have been observed when 1.0 g was leached with an L/S ratio equal to 10, shaking during 4 h. The entire method is completed within few hours, and it is simple, feasible and reliable in laboratory conditions. Copyright © 2012 Elsevier B.V. All rights reserved.

  19. Transcriptome Analysis of Plant Hormone-Related Tomato (Solanum lycopersicum) Genes in a Sunlight-Type Plant Factory.

    Science.gov (United States)

    Tanigaki, Yusuke; Higashi, Takanobu; Takayama, Kotaro; Nagano, Atsushi J; Honjo, Mie N; Fukuda, Hirokazu

    2015-01-01

    In plant factories, measurements of plant conditions are necessary at an early stage of growth to predict harvest times of high value-added crops. Moreover, harvest qualities depend largely on environmental stresses that elicit plant hormone responses. However, the complexities of plant hormone networks have not been characterized under nonstress conditions. In the present study, we determined temporal expression profiles of all genes and then focused on plant hormone pathways using RNA-Seq analyses of gene expression in tomato leaves every 2 h for 48 h. In these experiments, temporally expressed genes were found in the hormone synthesis pathways for salicylic acid, abscisic acid, ethylene, and jasmonic acid. The timing of CAB expression 1 (TOC1) and abscisic acid insensitive 1 (ABA1) and open stomata 1 (OST1) control gating stomata. In this study, compare with tomato and Arabidopsis thaliana, expression patterns of TOC1 have similarity. In contrast, expression patterns of tomato ABI1 and OST1 had expression peak at different time. These findings suggest that the regulation of gating stomata does not depend predominantly on TOC1 and significantly reflects the extracellular environment. The present data provide new insights into relationships between temporally expressed plant hormone-related genes and clock genes under normal sunlight conditions.

  20. Transcriptome Analysis of Plant Hormone-Related Tomato (Solanum lycopersicum Genes in a Sunlight-Type Plant Factory.

    Directory of Open Access Journals (Sweden)

    Yusuke Tanigaki

    Full Text Available In plant factories, measurements of plant conditions are necessary at an early stage of growth to predict harvest times of high value-added crops. Moreover, harvest qualities depend largely on environmental stresses that elicit plant hormone responses. However, the complexities of plant hormone networks have not been characterized under nonstress conditions. In the present study, we determined temporal expression profiles of all genes and then focused on plant hormone pathways using RNA-Seq analyses of gene expression in tomato leaves every 2 h for 48 h. In these experiments, temporally expressed genes were found in the hormone synthesis pathways for salicylic acid, abscisic acid, ethylene, and jasmonic acid. The timing of CAB expression 1 (TOC1 and abscisic acid insensitive 1 (ABA1 and open stomata 1 (OST1 control gating stomata. In this study, compare with tomato and Arabidopsis thaliana, expression patterns of TOC1 have similarity. In contrast, expression patterns of tomato ABI1 and OST1 had expression peak at different time. These findings suggest that the regulation of gating stomata does not depend predominantly on TOC1 and significantly reflects the extracellular environment. The present data provide new insights into relationships between temporally expressed plant hormone-related genes and clock genes under normal sunlight conditions.

  1. Analysis of pathophysiology in cerebral disorders with three dimensional co-registration of multi-factorial PET images and MRI obtained in different occasions

    Energy Technology Data Exchange (ETDEWEB)

    Nariai, Tadashi [Tokyo Medical and Dental Univ. (Japan). School of Medicine

    1998-05-01

    The three dimensional co-registration of multi time-points and multi variate PET images was applied to analyze the pathophysiology of various cerebral disorders. Such computer based technique was usefully applied; in following-up patients with cerebrovascular disorders to analyze their natural course and the effects of surgical treatment with multi-factorial PET images, in analyzing the pathophysiology of cerebral glial tumor with multiple factors and in using co-registered PET and MR images for their surgical treatments, in determining the epileptic focus with co-registered PET neuro-receptor images and MRI for the analysis of pathophysiology in epileptic conditions and for presurgical mapping of area to be resected. (author)

  2. Higgs Factory Concepts

    CERN Document Server

    Zimmermann, Frank

    2016-01-01

    Designs for future high-energy circular electron-positron colliders are based on both established and novel concepts. An appropriate design will enable these facilities to serve not only as “Higgs factories”, but also as Z, W and top factories, and, in addition, to become a possible first step to a higher-energy hadron collider.

  3. B-factory detectors

    CERN Document Server

    Marlow, D R

    2002-01-01

    The designs of the recently commissioned BaBar and Belle B-Factory detectors are described. The discussion is organized around the methods and instruments used to detect the so-called gold-plated-mode B sup 0->J/PSI K sub S decays and related modes.

  4. The Clone Factory

    Science.gov (United States)

    Stoddard, Beryl

    2005-01-01

    Have humans been cloned? Is it possible? Immediate interest is sparked when students are asked these questions. In response to their curiosity, the clone factory activity was developed to help them understand the process of cloning. In this activity, students reenact the cloning process, in a very simplified simulation. After completing the…

  5. Nonparametric factorial analysis of daily weigh-in-motion traffic: implications for the ozone "weekend effect" in Southern California

    Science.gov (United States)

    Gao, Oliver H.; Holmén, Britt A.; Niemeier, Debbie A.

    The Ozone Weekend Effect (OWE) has become increasingly more frequent and widespread in southern California since the mid-1970s. Although a number of hypotheses have been suggested to explain the effect, there remains uncertainty associated with the root factors contributing to elevated weekend ozone concentrations. Targeting the time window of the 1997 Southern California Ozone Study (SCOS97), this paper examines traffic activity data for 14 vehicle classes at 27 weigh-in-motion (WIM) stations in southern California. Nonparametric factorial analyses of light-duty vehicle (LDV) and heavy-duty truck (HDT) traffic volumes indicate significant differences in daily volumes by day of week and between the weekly patterns of daily LDV and HDT volumes. Across WIM stations, the daily LDV volume was highest on Friday and decreased by 10% on weekends compared to that on midweek days. In contrast, daily HDT volumes showed dramatic weekend drops of 53% on Saturday and 64% on Sunday. As a result, LDV to HDT ratios increased by 145% on weekends. Nonparametric tests also suggest that weekly traffic patterns varied significantly between WIM stations located close to (central) and far from (peripheral) the Los Angeles Metro area. Weekend increases in LDV/HDT ratios were more pronounced at central WIM sites due to greater weekend declines of HDT relative to LDV traffic. The implications of these weekly traffic patterns for the OWE in southern California were investigated by estimating daily WIM traffic on-road running exhaust emissions of total organic gas (TOG) and oxides of nitrogen (NO x) using EMFAC2002 emission factors. The results support the California Air Resource Board's (CARB's) NO x reduction hypothesis that greater weekend NO x reductions relative to volatile organic compound (VOC) emissions, in combinations with the VOC-limited ozone system, contribute to the OWE observed in the region. The results from this study can be used to develop weekend on-road mobile emission

  6. Identification of Analytical Factors Affecting Complex Proteomics Profiles Acquired in a Factorial Design Study with Analysis of Variance: Simultaneous Component Analysis.

    Science.gov (United States)

    Mitra, Vikram; Govorukhina, Natalia; Zwanenburg, Gooitzen; Hoefsloot, Huub; Westra, Inge; Smilde, Age; Reijmers, Theo; van der Zee, Ate G J; Suits, Frank; Bischoff, Rainer; Horvatovich, Péter

    2016-04-19

    Complex shotgun proteomics peptide profiles obtained in quantitative differential protein expression studies, such as in biomarker discovery, may be affected by multiple experimental factors. These preanalytical factors may affect the measured protein abundances which in turn influence the outcome of the associated statistical analysis and validation. It is therefore important to determine which factors influence the abundance of peptides in a complex proteomics experiment and to identify those peptides that are most influenced by these factors. In the current study we analyzed depleted human serum samples to evaluate experimental factors that may influence the resulting peptide profile such as the residence time in the autosampler at 4 °C, stopping or not stopping the trypsin digestion with acid, the type of blood collection tube, different hemolysis levels, differences in clotting times, the number of freeze-thaw cycles, and different trypsin/protein ratios. To this end we used a two-level fractional factorial design of resolution IV (2(IV)(7-3)). The design required analysis of 16 samples in which the main effects were not confounded by two-factor interactions. Data preprocessing using the Threshold Avoiding Proteomics Pipeline (Suits, F.; Hoekman, B.; Rosenling, T.; Bischoff, R.; Horvatovich, P. Anal. Chem. 2011, 83, 7786-7794, ref 1) produced a data-matrix containing quantitative information on 2,559 peaks. The intensity of the peaks was log-transformed, and peaks having intensities of a low t-test significance (p-value > 0.05) and a low absolute fold ratio (factor were removed. The remaining peaks were subjected to analysis of variance (ANOVA)-simultaneous component analysis (ASCA). Permutation tests were used to identify which of the preanalytical factors influenced the abundance of the measured peptides most significantly. The most important preanalytical factors affecting peptide intensity were (1) the hemolysis level, (2) stopping trypsin digestion with

  7. Linear stability analysis reveals exclusion zone for sliding bed transport

    Directory of Open Access Journals (Sweden)

    Talmon Arnold M.

    2015-06-01

    Full Text Available A bend or any another pipe component disturbs solids transport in pipes. Longitudinal pressure profiles downstream of such a component may show a stationary transient harmonic wave, as revealed by a recent settling slurry laboratory experiment. Therefore the fundamental transient response of the two-layer model for fully stratified flow is investigated as a first approach. A linear stability analysis of the sliding bed configuration is conducted. No stationary transient harmonic waves are found in this analysis, but adaptation lengths for exponential recovery are quantified. An example calculation is given for a 0.1 m diameter pipeline.

  8. Invoking Thomas Kuhn: What Citation Analysis Reveals about Science Education

    Science.gov (United States)

    Loving, Cathleen C.; Cobern, William W.

    This paper analyzes how Thomas Kuhn's writings are used by others, especially science education researchers. Previous research in citation analysis is used to frame questions related to who cites Kuhn, in what manner and why. Research questions first focus on the variety of disciplines invoking Kuhn and to what extent Structure of Scientific Revolutions (SSR) is cited. The Web of Science database provides material from 1982 for this analysis. The science education literature is analyzed using back issues from 1985 of the Journal of Research in Science Teaching and Science Education. An article analysis reveals trends in terms of what Kuhnian ideas are most frequently invoked. Results indicate a wide array of disciplines from beekeeping to law cite Kuhn - especially generic citations to SSR. The science education journal analysis reveals pervasive use of the term paradigm, although use is quite varied. The two areas of research in science education most impacted by Kuhn appear to be conceptual change theory and constructivist epistemologies. Additional uses of Kuhn are discussed. The degree to which Kuhn is invoked in ways supporting the theoretical framework of citation analysis, whether his work is misappropriated, and the impact of Kuhn are discussed.

  9. Engineering the smart factory

    Science.gov (United States)

    Harrison, Robert; Vera, Daniel; Ahmad, Bilal

    2016-10-01

    The fourth industrial revolution promises to create what has been called the smart factory. The vision is that within such modular structured smart factories, cyber-physical systems monitor physical processes, create a virtual copy of the physical world and make decentralised decisions. This paper provides a view of this initiative from an automation systems perspective. In this context it considers how future automation systems might be effectively configured and supported through their lifecycles and how integration, application modelling, visualisation and reuse of such systems might be best achieved. The paper briefly describes limitations in current engineering methods, and new emerging approaches including the cyber physical systems (CPS) engineering tools being developed by the automation systems group (ASG) at Warwick Manufacturing Group, University of Warwick, UK.

  10. The Super Flavor Factory

    Energy Technology Data Exchange (ETDEWEB)

    Bevan, A.J.; /Queen Mary, U. of London

    2007-01-26

    The main physics goals of a high luminosity e{sup +}e{sup -} flavor factory are discussed, including the possibilities to perform detailed studies of the CKM mechanism of quark mixing, and constrain virtual Higgs and Non-Standard Model particle contributions to the dynamics of rare B{sub u,d,s} decays. The large samples of D mesons and {tau} leptons produced at a flavor factory will result in improved sensitivities on D mixing and lepton flavor violation searches, respectively. One can also test fundamental concepts such as lepton universality to much greater precision than existing constraints and improve the precision on tests of CPT from B meson decays. Recent developments in accelerator physics have demonstrated the feasibility to build an accelerator that can achieve luminosities of {Omicron}(10{sup 36} cm{sup -2} s{sup -1}).

  11. Cell Factory Engineering

    DEFF Research Database (Denmark)

    Davy, Anne Mathilde; Kildegaard, Helene Faustrup; Andersen, Mikael Rørdam

    2017-01-01

    Rational approaches to modifying cells to make molecules of interest are of substantial economic and scientific interest. Most of these efforts aim at the production of native metabolites, expression of heterologous biosynthetic pathways, or protein expression. Reviews of these topics have largely...... focused on individual strategies or cell types, but collectively they fall under the broad umbrella of a growing field known as cell factory engineering. Here we condense >130 reviews and key studies in the art into a meta-review of cell factory engineering. We identified 33 generic strategies...... in the field, all applicable to multiple types of cells and products, and proven successful in multiple major cell types. These apply to three major categories: production of native metabolites and/or bioactives, heterologous expression of biosynthetic pathways, and protein expression. This meta...

  12. Phi factory detector requirements

    Energy Technology Data Exchange (ETDEWEB)

    Arisaka, K.; Atac, M.; Berg, R.; Buchanan, C.; Calvette, M.; Khazin, B.; Kinoshita, K.; Muller, T.; Ohshima, T.; Olsen, S.; Park, J.; Santoni, C.; Shirai, J.; Solodov, E.; Thompson, J.; Triggiani, G.; Ueno, K.; Yamamoto, H.; Detector and Simulation Working Group

    1991-08-01

    We identify the experimental problems and the conditions required for successful phi-factory operation, and show the range of detector parameters which, in conjunction with different machine designs, may meet these conditions. We started by considering, comparing and criticizing the Italian and Novosibirsk designs. With this discussion as a background, we defined the apparent experimental problems and detector constraints. In this article we summarize our understanding. (orig./HSI).

  13. Systematic toxicological analysis revealing a rare case of captan ingestion.

    Science.gov (United States)

    Gottzein, Anne K; Musshoff, Frank; Madea, Burkhard

    2013-07-01

    This article presents a case of suicide by intoxication with various pharmaceuticals, particularly anticonvulsants, combined with the fungicide captan. A cause of death could not be ascertained at autopsy. However, systematic toxicological analysis (STA) including a screening via solid-phase microextraction (SPME) and gas chromatography-mass spectrometry (GC-MS) for (semi) volatile organic compounds revealed results suggesting a possible cause of death. The effects of captan on the human organism, its metabolism, and distribution will be discussed. Macroscopically, the cause of death was unascertained. STA revealed clonazepam, citalopram, and its metabolites, lamotrigine, levetiracetam, lacosamide, clonazepam, captan, and its metabolite tetrahydrophthalimide (THPI). For the first time, it was detected in human viscera. A quantification of THPI was performed to obtain distribution in the organs. The significance of a complete STA must be emphasized. The presence of THPI would have been missed without previous detection of captan. Consequently, this fatality would not have been investigated satisfactorily.

  14. Determining the Number of Factors to Retain in an Exploratory Factor Analysis Using Comparison Data of Known Factorial Structure

    Science.gov (United States)

    Ruscio, John; Roche, Brendan

    2012-01-01

    Exploratory factor analysis (EFA) is used routinely in the development and validation of assessment instruments. One of the most significant challenges when one is performing EFA is determining how many factors to retain. Parallel analysis (PA) is an effective stopping rule that compares the eigenvalues of randomly generated data with those for…

  15. Adsorption of Disperse Orange 30 dye onto activated carbon derived from Holm Oak (Quercus Ilex) acorns: A 3(k) factorial design and analysis.

    Science.gov (United States)

    Tezcan Un, Umran; Ates, Funda; Erginel, Nihal; Ozcan, Oznur; Oduncu, Emre

    2015-05-15

    In this study, samples of activated carbon were prepared from Holm Oak acorns by chemical activation with H3PO4, ZnCl2 and KOH as activating agents. The samples were characterized by SEM, BET, FTIR and elemental analysis, and were then evaluated for the removal of Disperse Orange 30 (DO30) dyes from aqueous solutions. A 3(k) factorial design was used to determine the interaction effects of carbonization temperature, pH, dosage of adsorbent and type of activating agent on the amount of dye removal. Also, level of effectiveness factors were determined by conducting regression models for maximum adsorption efficiency. Of all the samples, the sample generated using ZnCl2 as an activating agent showed a maximum dye removal efficiency of 93.5% at a carbonization temperature of 750 °C, a pH of 2 and an adsorbent dosage of 0.15 g/25 ml. The analysis shows that the adsorption process depends significantly on the type of activating agent used in the preparation of activated carbon.

  16. The features of Drosophila core promoters revealed by statistical analysis

    Directory of Open Access Journals (Sweden)

    Trifonov Edward N

    2006-06-01

    Full Text Available Abstract Background Experimental investigation of transcription is still a very labor- and time-consuming process. Only a few transcription initiation scenarios have been studied in detail. The mechanism of interaction between basal machinery and promoter, in particular core promoter elements, is not known for the majority of identified promoters. In this study, we reveal various transcription initiation mechanisms by statistical analysis of 3393 nonredundant Drosophila promoters. Results Using Drosophila-specific position-weight matrices, we identified promoters containing TATA box, Initiator, Downstream Promoter Element (DPE, and Motif Ten Element (MTE, as well as core elements discovered in Human (TFIIB Recognition Element (BRE and Downstream Core Element (DCE. Promoters utilizing known synergetic combinations of two core elements (TATA_Inr, Inr_MTE, Inr_DPE, and DPE_MTE were identified. We also establish the existence of promoters with potentially novel synergetic combinations: TATA_DPE and TATA_MTE. Our analysis revealed several motifs with the features of promoter elements, including possible novel core promoter element(s. Comparison of Human and Drosophila showed consistent percentages of promoters with TATA, Inr, DPE, and synergetic combinations thereof, as well as most of the same functional and mutual positions of the core elements. No statistical evidence of MTE utilization in Human was found. Distinct nucleosome positioning in particular promoter classes was revealed. Conclusion We present lists of promoters that potentially utilize the aforementioned elements/combinations. The number of these promoters is two orders of magnitude larger than the number of promoters in which transcription initiation was experimentally studied. The sequences are ready to be experimentally tested or used for further statistical analysis. The developed approach may be utilized for other species.

  17. Factorial Based Response Surface Modeling with Confidence Intervals for Optimizing Thermal Optical Transmission Analysis of Atmospheric Black Carbon

    Science.gov (United States)

    We demonstrate how thermal-optical transmission analysis (TOT) for refractory light-absorbing carbon in atmospheric particulate matter was optimized with empirical response surface modeling. TOT employs pyrolysis to distinguish the mass of black carbon (BC) from organic carbon (...

  18. A conceptual design of circular Higgs factory

    Energy Technology Data Exchange (ETDEWEB)

    Cai, Yunhai

    2016-11-30

    Similar to a super B-factory, a circular Higgs factory (CHF) will require strong focusing systems near the interaction points and a low-emittance lattice in the arcs to achieve a factory luminosity. At electron beam energy of 125 GeV, beamstrahlung effects during the collision pose an additional challenge to the collider design. In particular, a large momentum acceptance at the 2% level is necessary to retain an adequate beam lifetime. This turns out to be the most challenging aspect in the design of a CHF. In this paper, an example will be provided to illustrate the beam dynamics in a CHF, emphasizing the chromatic optics. Basic optical modules and advanced analysis will be presented. Most importantly, we will show that 2% momentum aperture is achievable.

  19. Geometric morphometric analysis reveals sexual dimorphism in the distal femur.

    Science.gov (United States)

    Cavaignac, Etienne; Savall, Frederic; Faruch, Marie; Reina, Nicolas; Chiron, Philippe; Telmon, Norbert

    2016-02-01

    An individual's sex can be determined by the shape of their distal femur. The goal of this study was to show that differences in distal femur shape related to sexual dimorphism could be identified, visualized, and quantified using 3D geometric morphometric analysis. Geometric morphometric analysis was carried out on CT scans of the distal femur of 256 subjects living in the south of France. Ten landmarks were defined on 3D reconstructions of the distal femur. Both traditional metric and geometric morphometric analyses were carried out on these bone reconstructions; these analyses identified trends in bone shape in sex-based subgroups. Sex-related differences in shape were statistically significant. The subject's sex was correctly assigned in 77.3% of cases using geometric morphometric analysis. This study has shown that geometric morphometric analysis of the distal femur is feasible and has revealed sexual dimorphism differences in this bone segment. This reliable, accurate method could be used for virtual autopsy and be used to perform diachronic and interethnic comparisons. Moreover, this study provides updated morphometric data for a modern population in the south of France. Copyright © 2015 Elsevier Ireland Ltd. All rights reserved.

  20. Factorial Kriging analysis and sources of heavy metals in soils of different land-use types in the Yangtze River Delta of Eastern China.

    Science.gov (United States)

    Zhou, Jie; Feng, Ke; Li, Yinju; Zhou, Yang

    2016-08-01

    The objectives of this study are to analyse the pollution status and spatial correlation of soil heavy metals and identify natural and anthropogenic sources of these heavy metals at different spatial scales. Two hundred and twenty-four soil samples (0-20 cm) were collected and analysed for eight heavy metals (Cd, Hg, As, Cu, Pb, Cr, Zn and Ni) in soils of different land-use types in the Yangtze River Delta of Eastern China. The multivariate methods and factorial Kriging analysis were used to achieve the research objectives. The results indicated that the human and natural effects of different land-use types on the contents of soil heavy metals were different. The Cd, Hg, Cu, Pb and Zn in soils of industrial area were affected by human activities, and the pollution level of these heavy metals in this area was moderate. The Pb in soils of traffic area was affected by human activities, and eight heavy metals in soils of residential area and farmland area were affected by natural factor. The ecological risk status of eight heavy metals in soils of the whole study area was light. The heavy metals in soils showed three spatial scales (nugget effect, short range and long range). At the nugget effect and short range scales, the Cd, Hg, Cu, Pb and Zn in soils were affected by human and natural factors. At three spatial scales, the As, Cr and Ni in soils were affected by soil parent materials.

  1. RELOCATION OF HOME APPLIANCES FACTORY BY USING SYSTEMATICAL LAYOUT PLANNING (SLP COMBINED WITH FLOW ANALYSIS AND ASSEMBLY PROCESS DESIGN

    Directory of Open Access Journals (Sweden)

    Yosef Adji Baskoro

    2011-12-01

    Full Text Available Every manufacturing company must have experiencing building a layout. Fred.E Meyers has stated that only death and taxes are certain, there exist a third certainty-a plant layout will change, thus many methods to generate layout are established and each has its own purposes and benefits. This research focused on the design of manufacturing facilities supported by in-depth analysis of Assembly process design with a high stresses on the Systematical Layout Planning ( SLP and Flow Analysis method to facilitate an outcome of layout accordingly to the system needs. This is a real case study conducts with an objective of generating a recommendation layout for Home Appliances Company specifically for television plant

  2. RELOCATION OF HOME APPLIANCES FACTORY BY USING SYSTEMATICAL LAYOUT PLANNING (SLP COMBINED WITH FLOW ANALYSIS AND ASSEMBLY PROCESS DESIGN

    Directory of Open Access Journals (Sweden)

    Yosef Adji Baskoro

    2011-12-01

    Full Text Available Every manufacturing company must have experiencing building a layout. Fred.E Meyers has stated that only death and taxes are certain, there exist a third certainty-a plant layout will change, thus many methods to generate layout are established and each has its own purposes and benefits. This research focused on the design of manufacturing facilities supported by in-depth analysis of Assembly process design with a high stresses on the Systematical Layout Planning ( SLP and Flow Analysis method to facilitate an outcome of layout accordingly to the system needs. This is a real case study conducts with an objective of generating a recommendation layout for Home Appliances Company specifically for television plant.

  3. Deciding WQO for factorial languages

    KAUST Repository

    Atminas, Aistis

    2013-04-05

    A language is factorial if it is closed under taking factors (i.e. contiguous subwords). Every factorial language can be described by an antidictionary, i.e. a minimal set of forbidden factors. We show that the problem of deciding whether a factorial language given by a finite antidictionary is well-quasi-ordered under the factor containment relation can be solved in polynomial time. © 2013 Springer-Verlag Berlin Heidelberg.

  4. Engineering the Polyketide Cell Factory

    DEFF Research Database (Denmark)

    Mølgaard, Louise

    sufficient titers. To improve the production of polyketides biological engineering principles have been applied for the development and engineering of microbial polyketide cell factories. The two biological hosts used for heterologous polyketide production were Aspergillus nidulans and Saccharomyces....... This indicates that even more copies of the genes for 6-MSA production could yield even higher titers. Thus the acyl-CoA substrates do not appear to be limiting the production of 6-MSA. Construction of a cell factory and engineering it to increase production is one approach to obtaining an efficient cell factory...... been taken towards engineering an effective polyketide cell factory....

  5. Factorial analysis on forest canopy density restoration in the burned area of northern Great Xing'an Mountains, China

    Institute of Scientific and Technical Information of China (English)

    XIEFu-ju; XIAODu-ning; LIXiu-zhen; WANGXu-gao; SHIBao-dong

    2005-01-01

    The restoration of forest landscape has drawn much attention since the catastrophic fire took place on the northern slope of Great Xing'an Mountains in 1987. Forest canopy density, which has close relation to forest productivity, was selected as a key factor to find how much the forest quality was changed 13 years after fire, and how fire severity, regeneration way and terrain factors influenced the restoration of forest canopy density, based on forest inventory data in China, and using Kendall Bivariate Correlation Analysis, and Distances Correlation Analysis. The results showed that fire severity which was inversely correlated with forest canopy density grade was an initial factor among all that selected. Regeneration way which did not remarkably affect forest canopy density restoration in short period, may shorten the cycle of forest succession and promote the forest productivity of conophorium in the future, Among the three terrain factors, the effect of slope was the strongest, the position on slope was the second and the aspect was the last.

  6. Genomic analysis of primordial dwarfism reveals novel disease genes.

    Science.gov (United States)

    Shaheen, Ranad; Faqeih, Eissa; Ansari, Shinu; Abdel-Salam, Ghada; Al-Hassnan, Zuhair N; Al-Shidi, Tarfa; Alomar, Rana; Sogaty, Sameera; Alkuraya, Fowzan S

    2014-02-01

    Primordial dwarfism (PD) is a disease in which severely impaired fetal growth persists throughout postnatal development and results in stunted adult size. The condition is highly heterogeneous clinically, but the use of certain phenotypic aspects such as head circumference and facial appearance has proven helpful in defining clinical subgroups. In this study, we present the results of clinical and genomic characterization of 16 new patients in whom a broad definition of PD was used (e.g., 3M syndrome was included). We report a novel PD syndrome with distinct facies in two unrelated patients, each with a different homozygous truncating mutation in CRIPT. Our analysis also reveals, in addition to mutations in known PD disease genes, the first instance of biallelic truncating BRCA2 mutation causing PD with normal bone marrow analysis. In addition, we have identified a novel locus for Seckel syndrome based on a consanguineous multiplex family and identified a homozygous truncating mutation in DNA2 as the likely cause. An additional novel PD disease candidate gene XRCC4 was identified by autozygome/exome analysis, and the knockout mouse phenotype is highly compatible with PD. Thus, we add a number of novel genes to the growing list of PD-linked genes, including one which we show to be linked to a novel PD syndrome with a distinct facial appearance. PD is extremely heterogeneous genetically and clinically, and genomic tools are often required to reach a molecular diagnosis.

  7. An Analysis of the Factorial Structure of the Teacher Communication Behavior Questionnaire with Brazilian High School Science Students

    Directory of Open Access Journals (Sweden)

    Daniel Abud Seabra Matos

    Full Text Available The Teacher Communication Behavior Questionnaire (TCBQ has been used at different levels of education in many countries to measure students' perceptions of their science teachers' communication behavior. The TCBQ was translated into Portuguese in accordance with ITC test adaptation standards. Validity evidence for the Brazilian version of the TCBQ was obtained with a sample of 414 secondary students. The internal consistency of the TCBQ was satisfactory and an adequate fit of the original factor model was found through confirmatory factor analysis. The Brazilian data exhibited inter-factor correlations similar in value and direction to those of previous international studies. Statistically significant differences were found between school type and subject matter, which is consistent with previous studies.

  8. Análise fatorial de correspondência das representações sociais sobre o trabalho noturno da enfermeira Análisis factorial de correspondencias de las representaciones sociales del trabajo nocturno de enfermeras Factorial analysis of correspondence of the social representations about nurse nocturnal work

    Directory of Open Access Journals (Sweden)

    Kátia Conceição Guimarães Veiga

    2013-02-01

    ón socialmente construidas y aceptadas como categoría propia, haciendo hincapié en el desarrollo histórico de la profesión. Estos resultados apuntan la necesidad de estrategias que contribuyan al desarrollo de políticas de gestión de personas, considerando la especificidad, subjetividad y complejidad del trabajo nocturno.The study aimed to apprehend the Social Representations of nurses on nocturnal work. It was based on the Theory of Social Representations with qualitative and quantitative approaches. The free evocations of 25 nurses in a public hospital in Salvador-Bahia were collected, that underwent the Factorial Analysis of Correspondence (FAC. The FAC revealed on the opposition game demonstrated, in Factor 1, opposition between shifts service and, in Factor 2, age x length of service. Seized on the semantic universe of nurses the nocturnal work is a Responsibility Work, Hard Work, Initiative Work and Financial Need. The nurses refer to the nocturnal work through representations that give normative character, prescribing attitudes and behaviors socially constructed and accepted as from the category itself, emphasizing the historical development of the profession. Those results indicate the need for strategies that contribute to the development of policies for managing people, considering the specificity, subjectivity and complexity of nocturnal work.

  9. In Vitro Propagation of Pink Lapacho: Response Surface Methodology and Factorial Analysis for Optimisation of Medium Components

    Directory of Open Access Journals (Sweden)

    Ezequiel Enrique Larraburu

    2012-01-01

    Full Text Available Handroanthus impetiginosus, pink lapacho, is a timber, ornamental, and medicinal tree. Experiments on the in vitro propagation of H. impetiginosus were conducted using nodal segments cultivated in both Murashige and Skoog salts with Gamborg vitamins (MSG and Woody Plant Medium (WPM with different concentrations of 6-benzylaminopurine (BA and indole butyric acid (IBA. Morphogenic responses were differentially affected by salt compositions and their interactions with plant growth regulators in each micropropagation stage. According to response surface analysis, the optimum multiplication rate with 1 μM IBA ranged from 16.7 to 21.3 μM BA in WPM, and the inhibitors of endogenous auxins could increase multiplication rates. A pulse with 50 μM IBA in 1/2 MSG produced 83% rooting with 3.2 roots per shoots and higher fresh and dry weights of shoots and roots. In the acclimatisation stage, 50% of plants survived after 1 year. This methodology optimised the culture media for the in vitro propagation of the H. impetiginosus clonal pool and could be applied to related species, several of which are categorised as vulnerable on the International Union for the Conservation of Nature Red List.

  10. Sexual Dimorphism and Aging in the Human Hyppocampus: Identification, Validation, and Impact of Differentially Expressed Genes by Factorial Microarray and Network Analysis

    Science.gov (United States)

    Guebel, Daniel V.; Torres, Néstor V.

    2016-01-01

    Motivation: In the brain of elderly-healthy individuals, the effects of sexual dimorphism and those due to normal aging appear overlapped. Discrimination of these two dimensions would powerfully contribute to a better understanding of the etiology of some neurodegenerative diseases, such as “sporadic” Alzheimer. Methods: Following a system biology approach, top-down and bottom-up strategies were combined. First, public transcriptome data corresponding to the transition from adulthood to the aging stage in normal, human hippocampus were analyzed through an optimized microarray post-processing (Q-GDEMAR method) together with a proper experimental design (full factorial analysis). Second, the identified genes were placed in context by building compatible networks. The subsequent ontology analyses carried out on these networks clarify the main functionalities involved. Results: Noticeably we could identify large sets of genes according to three groups: those that exclusively depend on the sex, those that exclusively depend on the age, and those that depend on the particular combinations of sex and age (interaction). The genes identified were validated against three independent sources (a proteomic study of aging, a senescence database, and a mitochondrial genetic database). We arrived to several new inferences about the biological functions compromised during aging in two ways: by taking into account the sex-independent effects of aging, and considering the interaction between age and sex where pertinent. In particular, we discuss the impact of our findings on the functions of mitochondria, autophagy, mitophagia, and microRNAs. Conclusions: The evidence obtained herein supports the occurrence of significant neurobiological differences in the hippocampus, not only between adult and elderly individuals, but between old-healthy women and old-healthy men. Hence, to obtain realistic results in further analysis of the transition from the normal aging to incipient

  11. Micro Factory Systems and Tooling

    DEFF Research Database (Denmark)

    Hansen, Hans Nørgaard

    2003-01-01

    The presentation deals with the micro factory concept in general and with the issues related to manufacturing, handling/assembly and quality control in particular.......The presentation deals with the micro factory concept in general and with the issues related to manufacturing, handling/assembly and quality control in particular....

  12. Micro Factory Systems and Tooling

    DEFF Research Database (Denmark)

    Hansen, Hans Nørgaard

    2003-01-01

    The presentation deals with the micro factory concept in general and with the issues related to manufacturing, handling/assembly and quality control in particular.......The presentation deals with the micro factory concept in general and with the issues related to manufacturing, handling/assembly and quality control in particular....

  13. Some Factories in Southern Nigeria

    African Journals Online (AJOL)

    study is an outgrowth, 267 Personnel Managers were elevated to management ... effect, the factory manager now occupies a more important position in the man- ... overview at an empirical and theoretical level of factory managers in Nigeria ... gerial work is diverse and this, according to Hales (1986), can be captured by ...

  14. Structural analysis of polymer thin films using GISAXS in the tender X-ray region: Concept and design of GISAXS experiments using the tender X-ray energy at BL-15A2 at the Photon Factory

    Energy Technology Data Exchange (ETDEWEB)

    Takagi, H., E-mail: takagih@post.kek.jp; Igarashi, N.; Mori, T.; Saijo, S.; Nagatani, Y.; Shimizu, N. [Photon Factory, Institute of Materials Structure Science, High Energy Accelerator Research Organization, 1-1 Oho, Tsukuba, Ibaraki 305-0801 (Japan); Ohta, H. [Mitsubishi Electric System & Service Co., Ltd, Accelerator Engineering Center, 2-8- 8 Umezono, Tsukuba, Ibaraki 305-0045 (Japan); Yamamoto, K. [Graduate School of Engineering, Department of Materials Science & Technology, Nagoya Institute of Technology, Gokiso-cho, Showa-ku, Nagoya 466-8555 (Japan)

    2016-10-14

    If small angle X-ray scattering (SAXS) utilizing the soft X-ray region is available, advanced and unique experiments, which differ from traditional SAXS methods, can be realized. For example, grazing-incidence small angle X-ray scattering (GISAXS) using hard X-ray is a powerful tool for understanding the nanostructure in both vertical and lateral directions of thin films, while GISAXS utilizing the tender X-ray region (SX-GISAXS) enables depth-resolved analysis as well as a standard GISAXS analysis in thin films. Thus, at BL-15A2 at the Photon Factory, a dedicated diffractometer for SX-GISAXS (above 2.1 keV) was constructed. This diffractometer is composed of four vacuum chambers and can be converted into the vacuum state from the sample chamber in front of the detector surface. Diffractions are clearly observed until 12th peak when measuring collagen by SAXS with an X-ray energy of 2.40 keV and a camera length of 825 mm. Additionally, we conducted the model experiment using SX-GISAXS with an X-ray energy of 2.40 keV to confirm that a poly(methyl methacrylate)-poly(n-butyl acrylate) block copolymer thin film has a microphase-separated structure in the thin film, which is composed of lamellae aligned both parallel and perpendicular to the substrate surface. Similarly, in a polystyrene-poly(methyl methacrylate) block copolymer thin film, SX-GISAXS with 3.60 keV and 5.73 keV revealed that hexagonally packed cylinders are aligned parallel to the substrate surface. The incident angle dependence of the first order peak position of the q{sub z} direction obtained from experiments at various incident X-ray energies agrees very well with the theoretical one calculated from the distorted wave Born approximation.

  15. Structural analysis of polymer thin films using GISAXS in the tender X-ray region: Concept and design of GISAXS experiments using the tender X-ray energy at BL-15A2 at the Photon Factory

    Science.gov (United States)

    Takagi, H.; Igarashi, N.; Mori, T.; Saijo, S.; Nagatani, Y.; Ohta, H.; Yamamoto, K.; Shimizu, N.

    2016-10-01

    If small angle X-ray scattering (SAXS) utilizing the soft X-ray region is available, advanced and unique experiments, which differ from traditional SAXS methods, can be realized. For example, grazing-incidence small angle X-ray scattering (GISAXS) using hard X-ray is a powerful tool for understanding the nanostructure in both vertical and lateral directions of thin films, while GISAXS utilizing the tender X-ray region (SX-GISAXS) enables depth-resolved analysis as well as a standard GISAXS analysis in thin films. Thus, at BL-15A2 at the Photon Factory, a dedicated diffractometer for SX-GISAXS (above 2.1 keV) was constructed. This diffractometer is composed of four vacuum chambers and can be converted into the vacuum state from the sample chamber in front of the detector surface. Diffractions are clearly observed until 12th peak when measuring collagen by SAXS with an X-ray energy of 2.40 keV and a camera length of 825 mm. Additionally, we conducted the model experiment using SX-GISAXS with an X-ray energy of 2.40 keV to confirm that a poly(methyl methacrylate)-poly(n-butyl acrylate) block copolymer thin film has a microphase-separated structure in the thin film, which is composed of lamellae aligned both parallel and perpendicular to the substrate surface. Similarly, in a polystyrene-poly(methyl methacrylate) block copolymer thin film, SX-GISAXS with 3.60 keV and 5.73 keV revealed that hexagonally packed cylinders are aligned parallel to the substrate surface. The incident angle dependence of the first order peak position of the qz direction obtained from experiments at various incident X-ray energies agrees very well with the theoretical one calculated from the distorted wave Born approximation.

  16. Pituitary response to auditory stress: effect of treatment with alpha-methyl-p-tyrosine. Usefulness of a factorial mixed design for statistical analysis.

    Science.gov (United States)

    Collu, R; Jéquier, J

    1976-08-01

    Eight adult male rats were chronically cannulated in the jugular vein and placed individually in a sound-attenuated cubicle. Four of the animals were also implanted with a permanent cannula in the right lateral ventricle of the brain. Each animal was submitted twice to auditory stress at a 24-h interval. Before each stress, the rats were pretreated with either saline or alpha-methyl-p-tyrosine (alpha-MT), the order of administration of the drug and its vehicle being alternated in the eight rats. The injections were made either intravenously or intraventricularly. Auditory stress significantly depressed plasma growth hormone (GH) levels irrespective of the type of pretreatment. Mean plasma GH levels were significantly lower after alpha-MT pretreatment. alpha-MT pretreated animals had higher mean plasma corticosterone (B) levels which remained unchanged during stress. Plasma follicle stimulating hormone (FSH) levels were not modified by stress nor by alpha-MT pretreatment. The intraventricular administration of alpha-MT at a dose (20 mg/kg) which is ineffective by a systemic route produced the same effects on GH and B levels as the intravenous injection (250 mg/kg). These data seem to indicate that auditory stress exerts its inhibitory effect on GH secretion through a noncatecholaminergic pathway. They show, on the other hand, the existence of a central catecholaminergic tonus, stimulatory for GH and inhibitory for B. Statistical analysis was based on a factorial mixed design for repeated measurements after logarithmic transformation of the data. The purpose, advantages and limits of this procedure are presented and discussed.

  17. Assessing the factorial structure and measurement invariance of PTSD by gender and ethnic groups in Sri Lanka: An analysis of the modified Harvard Trauma Questionnaire (HTQ).

    Science.gov (United States)

    Tay, Alvin Kuowei; Jayasuriya, Rohan; Jayasuriya, Dinuk; Silove, Derrick

    2017-04-01

    The Harvard Trauma Questionnaire (HTQ) remains the most widely used screening measure for post-traumatic stress disorder (PTSD) in the refugee and post-conflict field. The present study is the first to test the factorial structure and measurement invariance of the HTQ according to DSM-5 criteria across gender and ethnic groups in the ethnically diverse society of post-conflict Sri Lanka. The survey sample included 5136 participants (86% response rate) followed up 12 months after a baseline nationally representative survey undertaken in Sri Lanka in 2014. Exposure to conflict-related traumatic experiences (TEs) generating a trauma count (TC), and symptoms of PTSD were assessed using a modified version of the HTQ adapted to the local context. The final analytic sample included 4260 participants after excluding records with missing data on key variables. We conducted Multigroup Confirmatory Factor Analysis (MG-CFA) to test the four-factor (DSM-5 consistent) and three-factor (DSM-IV-TR) models of PTSD, then assessing measurement invariance of the four factor model by gender and ethnic groups. The three-factor and four-factor DSM-5 model each produced a good fit across the sample as a whole. In addition, there was configural, metric, and scalar invariance for the four-factor model both by gender and ethnicity. The trauma count was directly associated with each of the symptom domains of the four factor model. Our findings provide support for the capacity of the modified HTQ to measure the DSM5 construct of PTSD across gender and key ethnic groupings in Sri Lanka. Confirmation of our findings in other cultures will be important. Copyright © 2017 Elsevier Ltd. All rights reserved.

  18. Sequence analysis reveals mosaic genome of Aichi virus

    Directory of Open Access Journals (Sweden)

    Han Xiaohong

    2011-08-01

    Full Text Available Abstract Aichi virus is a positive-sense and single-stranded RNA virus, which demonstrated to be related to diarrhea of Children. In the present study, phylogenetic and recombination analysis based on the Aichi virus complete genomes available in GenBank reveal a mosaic genome sequence [GenBank: FJ890523], of which the nt 261-852 region (the nt position was based on the aligned sequence file shows close relationship with AB010145/Japan with 97.9% sequence identity, while the other genomic regions show close relationship with AY747174/German with 90.1% sequence identity. Our results will provide valuable hints for future research on Aichi virus diversity. Aichi virus is a member of the Kobuvirus genus of the Picornaviridae family 12 and belongs to a positive-sense and single-stranded RNA virus. Its presence in fecal specimens of children suffering from diarrhea has been demonstrated in several Asian countries 3456, in Brazil and German 7, in France 8 and in Tunisia 9. Some reports showed the high level of seroprevalence in adults 710, suggesting the widespread exposure to Aichi virus during childhood. The genome of Aichi virus contains 8,280 nucleotides and a poly(A tail. The single large open reading frame (nt 713-8014 according to the strain AB010145 encodes a polyprotein of 2,432 amino acids that is cleaved into the typical picornavirus structural proteins VP0, VP3, VP1, and nonstructural proteins 2A, 2B, 2C, 3A, 3B, 3C and 3D 211. Based on the phylogenetic analysis of 519-bp sequences at the 3C-3D (3CD junction, Aichi viruses can be divided into two genotypes A and B with approximately 90% sequence homology 12. Although only six complete genomes of Aichi virus were deposited in GenBank at present, mosaic genomes can be found in strains from different countries.

  19. Molecular analysis of sourdough reveals Lactobacillus mindensis sp. nov.

    Science.gov (United States)

    Ehrmann, Matthias A; Müller, Martin R A; Vogel, Rudi F

    2003-01-01

    Genotypic fingerprinting to analyse the bacterial flora of an industrial sourdough revealed a coherent group of strains which could not be associated with a valid species. Comparative 16S rDNA sequence analysis showed that these strains formed a homogeneous cluster distinct from their closest relatives, Lactobacillus farciminis, Lactobacillus alimentarius and Lactobacillus kimchii. To characterize them further, physiological (sugar fermentation, formation of DL-lactate, hydrolysis of arginine, growth temperature, CO2 production) and chemotaxonomic properties have been determined. The DNA G +C content was 37.5 0.2 mol%. The peptidoglycan was of the lysine-D-iso-asparagine (L-Lys-D-Asp) type. The strains were homofermentative, Gram-positive, catalase-negative, non-spore-forming, non-motile rods. They were found as a major stable component of a rye flour sourdough fermentation. Physiological, biochemical as well as genotypic data suggested them to be a new species of the genus Lactobacillus. This was confirmed by DNA-DNA hybridization of genomic DNA, and the name Lactobacillus mindensis is proposed. The type strain of this species is DSM 14500T (=LMG 21508T).

  20. 厂房内排雨水系统分析与设计%Analysis and Design of the Inner Rainwater System of Factory Buildings

    Institute of Scientific and Technical Information of China (English)

    田新莲; 崔云川

    2001-01-01

    The inner rainwater system of large factory buildings is analyzed and discussed in this paper.And the personal opinion is put forward.%对大型厂房内排雨水系统水流情况进行分析,对系统设计 进行了探讨,提出了个人的见解。

  1. AutoPyFactory: A Scalable Flexible Pilot Factory Implementation

    Science.gov (United States)

    Caballero, J.; Hover, J.; Love, P.; Stewart, G. A.

    2012-12-01

    The ATLAS experiment at the CERN LHC is one of the largest users of grid computing infrastructure, which is a central part of the experiment's computing operations. Considerable efforts have been made to use grid technology in the most efficient and effective way, including the use of a pilot job based workload management framework. In this model the experiment submits ‘pilot’ jobs to sites without payload. When these jobs begin to run they contact a central service to pick-up a real payload to execute. The first generation of pilot factories were usually specific to a single Virtual Organization (VO), and were bound to the particular architecture of that VO's distributed processing. A second generation provides factories which are more flexible, not tied to any particular VO, and provide new and improved features such as monitoring, logging, profiling, etc. In this paper we describe this key part of the ATLAS pilot architecture, a second generation pilot factory, AutoPyFactory. AutoPyFactory has a modular design and is highly configurable. It is able to send different types of pilots to sites and exploit different submission mechanisms and queue characteristics. It is tightly integrated with the PanDA job submission framework, coupling pilot flow to the amount of work the site has to run. It gathers information from many sources in order to correctly configure itself for a site and its decision logic can easily be updated. Integrated into AutoPyFactory is a flexible system for delivering both generic and specific job wrappers which can perform many useful actions before starting to run end-user scientific applications, e.g., validation of the middleware, node profiling and diagnostics, and monitoring. AutoPyFactory also has a robust monitoring system that has been invaluable in establishing a reliable pilot factory service for ATLAS.

  2. Factor Analysis: An Instrument for Selection of Social Performance Factors || Análisis factorial: un instrumento de selección de factores sociales de rendimiento

    Directory of Open Access Journals (Sweden)

    Hornungová, Jana

    2014-06-01

    Full Text Available This article is focused on the identification of social performance factors. For this purpose, a multidimensional statistical method -factor analysis- was used. The basic set for the selection of indicators was the concept (and the social tool of Corporate Social Responsibility, subsequently, the questionnaire was constructed. Empirical research was attended by 32 companies, from the Area of Information and Communication Activities (CZ-NACE, section J, with the number of employees over 250. The aim of the factor analysis was selection of significant indicators and performance factors for selected area from the input database. On the basis of the paper, there were evaluated: three social factors from the area of working environment and two social factors from the area of local community. The understanding of their application into the internal management shall be necessary prior to company's decision regarding the measures of key performance indicators. || Este artículo se centra en la identificación de factores de rendimiento social. Para este propósito, se utilizó el método estadístico multidimensional del análisis factorial. El conjunto básico para la selección de indicadores fue el concepto (y el instrumento social de la Responsabilidad Social Corporativa; posteriormente, se construyó un cuestionario. En la investigación empírica participaron 32 empresas, desde el Área de Actividades de la Información y la Comunicación (sección J, CZ-NACE, con un número de empleados superior a 250. El objetivo del análisis de los factores fue la selección de indicadores relevantes y factores de rendimiento para el área seleccionada de la base de datos de partida. Basándose en el trabajo, se evaluaron tres factores sociales del área del ambiente de trabajo y dos factores sociales del ámbito de la comunidad local. El entendimiento de su aplicación en la gestión interna se considera necesaria antes de la decisión de la empresa en cuanto

  3. Connectedness Among Chilean Adolescents: Factor Analysis of the Hemingway Measure of Adolescent Connectedness La Conectividad Entre Adolescentes Chilenos: Un Análisis Factorial de la Hemingway Measure of Adolescent Connectedness

    Directory of Open Access Journals (Sweden)

    Benedict T McWhirter

    2011-05-01

    Full Text Available The construct of connectedness was investigated among 390 Chilean adolescents using the Hemingway Measure of Adolescent Connectedness (Hemingway; Karcher, 2003. Participants were 7th-12th graders at an urban Santiago Catholic school. Results of a principal-axis exploratory factor analysis revealed an 11 factor structure that accounts for 61.92% of total explained variance of adolescent connectedness measured by the Hemingway, similar to results found in the adolescent samples in the United States. Two additional Hemingway subscales (connectedness to siblings and to boyfriend/girlfriend are also described. Correlations between domains of connectedness and additional data obtained from these adolescents, their parents, and their teachers support the construct validity of the measure in this Chilean sample. Connectedness is an important protective factor among adolescents across many national contexts and the Hemingway is a promising measure for use with Chilean adolescents.Se examinó el constructo conectividad en 390 adolescentes chilenos en un colegio urbano y católico de Santiago. Mediante un análisis factorial exploratorio de la escala Hemingway Measure of Adolescent Connectedness (Hemingway, Karcher, 2003 se observó una estructura de 11 factores que da cuenta de un 61,92% de la varianza explicada de la conectividad de los adolescentes medida por la escala Hemingway, lo cual es muy similar a los resultados obtenidos en muestras de adolescentes estadounidenses. También se describen dos subescalas adicionales (la conectividad con los/las hermanos/as y con los/las pololos/as. Las relaciones entre los factores de conectividad y los datos reportados por los adolescentes, sus padres y profesores contribuyen también a la validez de constructo de la escala en esta muestra chilena. Para los adolescentes de distintos contextos culturales la conectividad es un factor importante de protección y la escala Hemingway es un instrumento de uso prometedor

  4. Isotope analysis reveals foraging area dichotomy for atlantic leatherback turtles.

    Directory of Open Access Journals (Sweden)

    Stéphane Caut

    Full Text Available BACKGROUND: The leatherback turtle (Dermochelys coriacea has undergone a dramatic decline over the last 25 years, and this is believed to be primarily the result of mortality associated with fisheries bycatch followed by egg and nesting female harvest. Atlantic leatherback turtles undertake long migrations across ocean basins from subtropical and tropical nesting beaches to productive frontal areas. Migration between two nesting seasons can last 2 or 3 years, a time period termed the remigration interval (RI. Recent satellite transmitter data revealed that Atlantic leatherbacks follow two major dispersion patterns after nesting season, through the North Gulf Stream area or more eastward across the North Equatorial Current. However, information on the whole RI is lacking, precluding the accurate identification of feeding areas where conservation measures may need to be applied. METHODOLOGY/PRINCIPAL FINDINGS: Using stable isotopes as dietary tracers we determined the characteristics of feeding grounds of leatherback females nesting in French Guiana. During migration, 3-year RI females differed from 2-year RI females in their isotope values, implying differences in their choice of feeding habitats (offshore vs. more coastal and foraging latitude (North Atlantic vs. West African coasts, respectively. Egg-yolk and blood isotope values are correlated in nesting females, indicating that egg analysis is a useful tool for assessing isotope values in these turtles, including adults when not available. CONCLUSIONS/SIGNIFICANCE: Our results complement previous data on turtle movements during the first year following the nesting season, integrating the diet consumed during the year before nesting. We suggest that the French Guiana leatherback population segregates into two distinct isotopic groupings, and highlight the urgent need to determine the feeding habitats of the turtle in the Atlantic in order to protect this species from incidental take by

  5. Quantitative flux analysis reveals folate-dependent NADPH production

    Science.gov (United States)

    Fan, Jing; Ye, Jiangbin; Kamphorst, Jurre J.; Shlomi, Tomer; Thompson, Craig B.; Rabinowitz, Joshua D.

    2014-06-01

    ATP is the dominant energy source in animals for mechanical and electrical work (for example, muscle contraction or neuronal firing). For chemical work, there is an equally important role for NADPH, which powers redox defence and reductive biosynthesis. The most direct route to produce NADPH from glucose is the oxidative pentose phosphate pathway, with malic enzyme sometimes also important. Although the relative contribution of glycolysis and oxidative phosphorylation to ATP production has been extensively analysed, similar analysis of NADPH metabolism has been lacking. Here we demonstrate the ability to directly track, by liquid chromatography-mass spectrometry, the passage of deuterium from labelled substrates into NADPH, and combine this approach with carbon labelling and mathematical modelling to measure NADPH fluxes. In proliferating cells, the largest contributor to cytosolic NADPH is the oxidative pentose phosphate pathway. Surprisingly, a nearly comparable contribution comes from serine-driven one-carbon metabolism, in which oxidation of methylene tetrahydrofolate to 10-formyl-tetrahydrofolate is coupled to reduction of NADP+ to NADPH. Moreover, tracing of mitochondrial one-carbon metabolism revealed complete oxidation of 10-formyl-tetrahydrofolate to make NADPH. As folate metabolism has not previously been considered an NADPH producer, confirmation of its functional significance was undertaken through knockdown of methylenetetrahydrofolate dehydrogenase (MTHFD) genes. Depletion of either the cytosolic or mitochondrial MTHFD isozyme resulted in decreased cellular NADPH/NADP+ and reduced/oxidized glutathione ratios (GSH/GSSG) and increased cell sensitivity to oxidative stress. Thus, although the importance of folate metabolism for proliferating cells has been long recognized and attributed to its function of producing one-carbon units for nucleic acid synthesis, another crucial function of this pathway is generating reducing power.

  6. Muon colliders and neutrino factories

    Energy Technology Data Exchange (ETDEWEB)

    Geer, S.; /Fermilab

    2010-09-01

    Over the last decade there has been significant progress in developing the concepts and technologies needed to produce, capture and accelerate {Omicron}(10{sup 21}) muons/year. This development prepares the way for a new type of neutrino source (Neutrino Factory) and a new type of very high energy lepton-antilepton collider (Muon Collider). This article reviews the motivation, design and R&D for Neutrino Factories and Muon Colliders.

  7. Muon colliders and neutrino factories

    CERN Document Server

    Geer, S

    2012-01-01

    Over the last decade there has been significant progress in developing the concepts and technologies needed to produce, capture and accelerate O(1021) muons/year. This development prepares the way for a new type of neutrino source (Neutrino Factory) and a new type of very high energy lepton-antilepton collider (Muon Collider). This article reviews the motivation, design and R&D for Neutrino Factories and Muon Colliders.

  8. Development of a biodegradable nanoparticle platform for sildenafil: formulation optimization by factorial design analysis combined with application of charge-modified branched polyesters.

    Science.gov (United States)

    Beck-Broichsitter, Moritz; Schmehl, Thomas; Gessler, Tobias; Seeger, Werner; Kissel, Thomas

    2012-02-10

    Biodegradable nanoparticles have gained tremendous attraction as carriers for controlled drug delivery to the lung. Despite numerous advances in the field, e.g. development of suitable methods for pulmonary administration of polymeric nanoparticles, a sufficient association of the therapeutic agent with the carrier system as well as drug release in a controlled fashion remain considerable challenges. Hence, this study examines the optimization of biodegradable sildenafil-loaded nanoparticle formulations intended for aerosol treatment of pulmonary hypertension. A factorial design analysis was employed to identify the important experimental factors involved in the preparation of nanoparticles by the solvent evaporation technique. The effect of tailored charge-modified branched polyesters on drug loading and in vitro drug release from nanoparticles was also evaluated. Moreover, colloidal stability of obtained nanoparticles was assessed, and stabilization of nanoparticles by lyophilization was accomplished without additional excipients. Essential experimental factors were identified and optimized to allow the preparation of nanoparticles composed of linear polyesters with a sildenafil content of ~5 wt.%. The in vitro drug release profile from these nanoparticles demonstrated a sustained release of sildenafil over ~90 min. Application of charge-modified branched polyesters enhanced the drug content in nanoparticles and drug release profile, according to the charge-density present in the employed polymer. Accordingly an increase in drug loading by a factor of ~1.4, a prolonged drug release profile from nanoparticles over ~240 min was achieved. Sildenafil release from nanoparticles made of linear and charge-modified branched polyesters was governed by a diffusion process. The obtained drug diffusion coefficients were decreased as the charge-density present in the applied polymer was increased, which promotes the strategy to improve drug loading and release rates by

  9. AutoPyFactory: A Scalable Flexible Pilot Factory Implementation

    CERN Document Server

    Caballero, J; The ATLAS collaboration; Love, P; Stewart, G

    2012-01-01

    The ATLAS experiment at the CERN LHC is one of the largest users of grid computing infrastructure, which is a central part of the experiment’s computing operations. Considerable efforts have been made to use grid technology in the most efficient and effective way, including the use of a pilot job based workload management framework. In this model the experiment submits ’pilot’ jobs to sites without payload. When these jobs begin to run they contact a central service to retrieve a real payload to execute. The first generation of pilot factories were usually specific to a single VO, and were bound to the particular architecture of that VO’s distributed processing. A second generation provides factories which are more flexible, not tied to any particular VO, and provide new or improved features such as monitoring, logging, profiling, etc. In this paper we describe this key part of the ATLAS pilot architecture, a second generation pilot factory, AutoPyFactory. AutoPyFactory has a modular design and is hig...

  10. How Important is Geographical Agglomeration to Factory Efficiency in Japan’s Manufacturing Sector?

    DEFF Research Database (Denmark)

    Fukao, Kyoji; Kravtsova, Victoria; Nakajima, Kentaro

    2014-01-01

    In this paper, the productivity spillovers from efficient factories have been investigated using factory-level data of Japan’s Census of Manufactures. The following three steps have been performed by estimating: first, efficiency of each factory using a nonparametric data envelopment analysis model...... in total firms is particularly high in the Chubu and Tohoku regions. For many industries closeness to the most efficient factories plays a statistically significant positive role in the efficiency of manufacturing factories in Japan. However, this is not the case in high-tech industries....

  11. Invariabilidad de la estructura factorial del "California Personality Inventory" (CPI

    Directory of Open Access Journals (Sweden)

    Horacio J. A. Rimoldi

    1976-01-01

    Full Text Available Tbe factor analysis of the California Personality Inventory (CPI and Rokeaeh Dogmatism Scale was performed using the results obtained from 161 college students, of both sexes, between 18 and 22 years of age, Four factors were extracted using the principal axes solution and graphic rotations. The results were compared with other factorial studíes, They showed a highly satistory agreement with some other solution strenghtening the factorial invariance of the CPI.

  12. Analysis of DDT and its metabolites in soil and water samples obtained in the vicinity of a closed-down factory in Bangladesh using various extraction methods.

    Science.gov (United States)

    Al Mahmud, M N U; Khalil, Farzana; Rahman, Md Musfiqur; Mamun, M I R; Shoeb, Mohammad; Abd El-Aty, A M; Park, Jong-Hyouk; Shin, Ho-Chul; Nahar, Nilufar; Shim, Jae-Han

    2015-12-01

    This study was conducted to monitor the spread of dichlorodiphenyltrichloroethane (DDT) and its metabolites (dichlorodiphenyldichloroethylene (DDE), dichlorodiphenyldichloroethane (DDD)) in soil and water to regions surrounding a closed DDT factory in Bangladesh. This fulfillment was accomplished using inter-method and inter-laboratory validation studies. DDTs (DDT and its metabolites) from soil samples were extracted using microwave-assisted extraction (MAE), supercritical fluid extraction (SFE), and solvent extraction (SE). Inter-laboratory calibration was assessed by SE, and all methods were validated by intra- and inter-day accuracy (expressed as recovery %) and precision (expressed as relative standard deviation (RSD)) in the same laboratory, at three fortified concentrations (n = 4). DDTs extracted from water samples by liquid-liquid partitioning and all samples were analyzed by gas chromatography (GC)-electron capture detector (ECD) and confirmed by GC/mass spectrometry (GC/MS). Linearities expressed as determination coefficients (R (2)) were ≥0.995 for matrix-matched calibrations. The recovery rate was in the range of 72-120 and 83-110%, with <15% RSD in soil and water, respectively. The limit of quantification (LOQ) was 0.0165 mg kg(-1) in soil and 0.132 μg L(-1) in water. Greater quantities of DDTs were extracted from soil using the MAE and SE techniques than with the SFE method. Higher amounts of DDTs were discovered in the southern (2.2-936 × 10(2) mg kg(-1)) or southwestern (86.3-2067 × 10(2) mg kg(-1)) direction from the factory than in the eastern direction (1.0-48.6 × 10(2) mg kg(-1)). An exception was the soil sample collected 50 ft (15.24 m) east (2904 × 10(2) mg kg(-1)) of the factory. The spread of DDTs in the water bodies (0.59-3.01 μg L(-1)) was approximately equal in all directions. We concluded that DDTs might have been dumped randomly around the warehouse after the closing of the factory.

  13. Myxobacteria: natural pharmaceutical factories

    Science.gov (United States)

    2012-01-01

    Myxobacteria are amongst the top producers of natural products. The diversity and unique structural properties of their secondary metabolites is what make these social microbes highly attractive for drug discovery. Screening of products derived from these bacteria has revealed a puzzling amount of hits against infectious and non-infectious human diseases. Preying mainly on other bacteria and fungi, why would these ancient hunters manufacture compounds beneficial for us? The answer may be the targeting of shared processes and structural features conserved throughout evolution. PMID:22545867

  14. Forecast Analysis on Quantity of Demand for Raw Materials of Wood Processing Factory%木材加工厂原料需求量预测分析

    Institute of Scientific and Technical Information of China (English)

    邓蓉; 邱荣祖

    2014-01-01

    Forecast the demand for wood raw material quantity is a key link of wood processing enterprises inventory control,even may directly affect overall planning for future operations planning of the plant.In this paper a man-made board factory of Fujian,which's wood raw material demand was for basic date,and the combination forecasting model using grey prediction and three exponential smoothing prediction was established,also the error sum of squares minimization method was adopted to define the optimal weights of single prediction model,finally the demand for wood raw material of man-made board factory was forecasted and analysed.%木质原料需求量预测是木材加工企业库存控制的关键环节,甚至会直接影响到加工厂未来运营计划的整体规划。文中以福建某造板厂木材原料需求量为基础数据,建立组合灰色预测和三次指数平滑预测的预测模型,采用误差平方和极小化的方法确定单项预测模型最优权重,并对造板厂木材原料需求量加以预测和分析。

  15. Factorial invariance and stability of the Effort-Reward Imbalance Scales: a longitudinal analysis of two samples with different time lags.

    Science.gov (United States)

    de Jonge, Jan; van der Linden, Sjaak; Schaufeli, Wilmar; Peter, Richard; Siegrist, Johannes

    2008-01-01

    Key measures of Siegrist's (1996) Effort-Reward Imbalance (ERI) Model (i.e., efforts, rewards, and overcommitment) were psychometrically tested. To study change in organizational interventions, knowledge about the type of change underlying the instruments used is needed. Next to assessing baseline factorial validity and reliability, the factorial stability over time - known as alpha-beta-gamma change - of the ERI scales was examined. Psychometrics were tested among 383 and 267 healthcare workers from two Dutch panel surveys with different time lags. Baseline results favored a five-factor model (i.e., efforts, esteem rewards, financial/career-related aspects, job security, and overcommitment) over and above a three-factor solution (i.e., efforts, composite rewards, and overcommitment). Considering changes as a whole, particularly the factor loadings of the three ERI scales were not equal over time. Findings suggest in general that moderate changes in the ERI factor structure did not affect the interpretation of mean changes over time. Occupational health researchers utilizing the ERI scales can feel confident that self-reported changes are more likely to be due to factors other than structural change of the ERI scales over time, which has important implications for evaluating job stress and health interventions.

  16. Network analysis reveals multiscale controls on streamwater chemistry

    Science.gov (United States)

    Kevin J. McGuire; Christian E. Torgersen; Gene E. Likens; Donald C. Buso; Winsor H. Lowe; Scott W. Bailey

    2014-01-01

    By coupling synoptic data from a basin-wide assessment of streamwater chemistry with network-based geostatistical analysis, we show that spatial processes differentially affect biogeochemical condition and pattern across a headwater stream network. We analyzed a high-resolution dataset consisting of 664 water samples collected every 100 m throughout 32 tributaries in...

  17. BAHAMAS: new SNIa analysis reveals inconsistencies with standard cosmology

    CERN Document Server

    Shariff, H; Trotta, R; van Dyk, D A

    2015-01-01

    We present results obtained by applying our BAyesian HierArchical Modeling for the Analysis of Supernova cosmology (BAHAMAS) software package to the 740 spectroscopically confirmed supernovae type Ia (SNIa) from the "Joint Light-curve Analysis" (JLA) dataset. We simultaneously determine cosmological parameters and standardization parameters, including host galaxy mass corrections, residual scatter and object-by-object intrinsic magnitudes. Combining JLA and Planck Cosmic Microwave Background data, we find significant discrepancies in cosmological parameter constraints with respect to the standard analysis: we find Omega_M = 0.399+/-0.027, 2.8\\sigma\\ higher than previously reported and w = -0.910+/-0.045, 1.6\\sigma\\ higher than the standard analysis. We determine the residual scatter to be sigma_res = 0.104+/-0.005. We confirm (at the 95% probability level) the existence of two sub-populations segregated by host galaxy mass, separated at log_{10}(M/M_solar) = 10, differing in mean intrinsic magnitude by 0.055+...

  18. Revealing the underlying drivers of disaster risk: a global analysis

    Science.gov (United States)

    Peduzzi, Pascal

    2017-04-01

    Disasters events are perfect examples of compound events. Disaster risk lies at the intersection of several independent components such as hazard, exposure and vulnerability. Understanding the weight of each component requires extensive standardisation. Here, I show how footprints of past disastrous events were generated using GIS modelling techniques and used for extracting population and economic exposures based on distribution models. Using past event losses, it was possible to identify and quantify a wide range of socio-politico-economic drivers associated with human vulnerability. The analysis was applied to about nine thousand individual past disastrous events covering earthquakes, floods and tropical cyclones. Using a multiple regression analysis on these individual events it was possible to quantify each risk component and assess how vulnerability is influenced by various hazard intensities. The results show that hazard intensity, exposure, poverty, governance as well as other underlying factors (e.g. remoteness) can explain the magnitude of past disasters. Analysis was also performed to highlight the role of future trends in population and climate change and how this may impacts exposure to tropical cyclones in the future. GIS models combined with statistical multiple regression analysis provided a powerful methodology to identify, quantify and model disaster risk taking into account its various components. The same methodology can be applied to various types of risk at local to global scale. This method was applied and developed for the Global Risk Analysis of the Global Assessment Report on Disaster Risk Reduction (GAR). It was first applied on mortality risk in GAR 2009 and GAR 2011. New models ranging from global assets exposure and global flood hazard models were also recently developed to improve the resolution of the risk analysis and applied through CAPRA software to provide probabilistic economic risk assessments such as Average Annual Losses (AAL

  19. Diversity of Dilepididae (Cestoda: Cyclophyllidea) revealed by cytogenetic analysis.

    Science.gov (United States)

    Petkeviciūte, R; Binkiene, R; Komisarovas, J

    2006-03-01

    Karyotypes of three dilepidid species: Molluscotaenia crassiscolex, Anomotaenia bacilligera and Dilepis undula, which have not been recorded previously, were studied using conventional Giemsa staining and comparative karyometric analysis. Twelve small biarmed chromosomes were observed in mitotic cells of M. crassiscolex, 16 biarmed chromosomes of gradually decreasing size were found in cells of A. bacilligera, while 18 elements were characteristic for D. undula. These data, together with information available in literature, prove the heterogeneity and possible polyphyletic nature of the family Dilepididae.

  20. Penicillium simile sp. nov. revealed by morphological and phylogenetic analysis.

    Science.gov (United States)

    Davolos, Domenico; Pietrangeli, Biancamaria; Persiani, Anna Maria; Maggi, Oriana

    2012-02-01

    The morphology of three phenetically identical Penicillium isolates, collected from the bioaerosol in a restoration laboratory in Italy, displayed macro- and microscopic characteristics that were similar though not completely ascribable to Penicillium raistrickii. For this reason, a phylogenetic approach based on DNA sequencing analysis was performed to establish both the taxonomic status and the evolutionary relationships of these three peculiar isolates in relation to previously described species of the genus Penicillium. We used four nuclear loci (both rRNA and protein coding genes) that have previously proved useful for the molecular investigation of taxa belonging to the genus Penicillium at various evolutionary levels. The internal transcribed spacer region (ITS1-5.8S-ITS2), domains D1 and D2 of the 28S rDNA, a region of the tubulin beta chain gene (benA) and part of the calmodulin gene (cmd) were amplified by PCR and sequenced. Analysis of the rRNA genes and of the benA and cmd sequence data indicates the presence of three isogenic isolates belonging to a genetically distinct species of the genus Penicillium, here described and named Penicillium simile sp. nov. (ATCC MYA-4591(T)  = CBS 129191(T)). This novel species is phylogenetically different from P. raistrickii and other related species of the genus Penicillium (e.g. Penicillium scabrosum), from which it can be distinguished on the basis of morphological trait analysis.

  1. Fractional Factorial Experiment Design Involving Non-normal Responses and Simulation Analysis%非正态响应的部分因子试验设计与仿真分析

    Institute of Scientific and Technical Information of China (English)

    汪建均; 马义中

    2011-01-01

    讨论了非正态响应试验设计中广泛应用的广义线性模型,针对小样本的部分因子试验设计,运用MCMC方法模拟出广义线性模型各参数后验分布的马尔科夫链,提出了根据各参数大于零或小于零的后验概率识别显著性因于的新方法.通过部分因子试验的仿真数据利用SAS软件对GLM进行贝叶斯分析,结果表明基于MCMC模拟的GLM贝叶斯分析方法能有效地识别出部分因子试验设计中的显著性因子.%Generalized linear models (GLM) were discussed, which are used widely in the field of experimental design involving non-normal response variables. As for small sample problem of Fractional Factorial Experiment Design, the MCMC method was putforward to simulate dynamically the Markov Chain of every parameter's posterior distribution in generalized linear models, and a new method was put forward to identify significant factors according to Bayesian posterior probability of all parameters which are more than or less than zero. Simulated fractional factorial experimental data was used to simulate and analyze the Bayesian GLM by the SAS sofiware. The results show that the Bayesian analysis method based on MCMC simulation can identify effectively significant factors in fractional factorial experiment design.

  2. An Evolutionary Analysis of Management Transplant and Innovation ---Research Based on Anshan Steel Factory Management Constitution%管理移植与创新的演化分析——基于鞍钢宪法的研究

    Institute of Scientific and Technical Information of China (English)

    高良谋; 胡国栋

    2011-01-01

    鞍钢宪法是新中国成立后本土诞生并对后福特制产生重要影响,从而具有世界性意义的管理思想。本文借鉴遗传、变异、选择机制的演化分析方法,建构了管理移植的动态演化模型,考察了鞍钢宪法对20世纪管理思想移植路径的影响和作用,进一步明确了鞍钢宪法作为本土化的管理思想的价值,以及在管理学范式转换与重建中承载的世界意义。%Anshan Steel Factory Management Constitution which has much influence to Post-Fordism is one of the important management thoughts of native China with much worldwide significance. In this paper, we construct a four-dimensional dynamic evolution model of management transplantation based the evolution analysis method which including three mechanisms of inheritance, variation and selection. When investigate the management transplant history in the 20th century under this model, we find that Anshan Steel Factory Management Constitution changed the basic form and its propagation paths of the whole transplant process of management thoughts and made a prominent contribution to the growth of management knowledge. This research makes it clear that Anshan Steel Factory Management Constitution is an indigenous resource of Chinese management and with general significance in the shift and reconstruction of management paradigm.

  3. A Review of "Infinity Factory."

    Science.gov (United States)

    National Council of Teachers of Mathematics, Inc., Reston, VA.

    Following a discussion of the historical background of the TV series "Infinity Factory," the goals of the television project are listed. A general description of the television series, an evaluation of the entertainment value, and an evaluation of children's attitude change are briefly presented. The program's presentation of mathematics…

  4. Multiple Segment Factorial Vignette Designs

    Science.gov (United States)

    Ganong, Lawrence H.; Coleman, Marilyn

    2006-01-01

    The multiple segment factorial vignette design (MSFV) combines elements of experimental designs and probability sampling with the inductive, exploratory approach of qualitative research. MSFVs allow researchers to investigate topics that may be hard to study because of ethical or logistical concerns. Participants are presented with short stories…

  5. Multiple Segment Factorial Vignette Designs

    Science.gov (United States)

    Ganong, Lawrence H.; Coleman, Marilyn

    2006-01-01

    The multiple segment factorial vignette design (MSFV) combines elements of experimental designs and probability sampling with the inductive, exploratory approach of qualitative research. MSFVs allow researchers to investigate topics that may be hard to study because of ethical or logistical concerns. Participants are presented with short stories…

  6. Subfield profitability analysis reveals an economic case for cropland diversification

    Science.gov (United States)

    Brandes, E.; McNunn, G. S.; Schulte, L. A.; Bonner, I. J.; Muth, D. J.; Babcock, B. A.; Sharma, B.; Heaton, E. A.

    2016-01-01

    Public agencies and private enterprises increasingly desire to achieve ecosystem service outcomes in agricultural systems, but are limited by perceived conflicts between economic and ecosystem service goals and a lack of tools enabling effective operational management. Here we use Iowa—an agriculturally homogeneous state representative of the Maize Belt—to demonstrate an economic rationale for cropland diversification at the subfield scale. We used a novel computational framework that integrates disparate but publicly available data to map ˜3.3 million unique potential management polygons (9.3 Mha) and reveal subfield opportunities to increase overall field profitability. We analyzed subfield profitability for maize/soybean fields during 2010-2013—four of the most profitable years in recent history—and projected results for 2015. While cropland operating at a loss of US 250 ha-1 or more was negligible between 2010 and 2013 at 18 000-190 000 ha (profitable areas, incorporating conservation management that breaks even (e.g., planting low-input perennials), into low-yielding portions of fields could increase overall cropland profitability by 80%. This approach is applicable to the broader region and differs substantially from the status quo of ‘top-down’ land management for conservation by harnessing private interest to align profitability with the production of ecosystem services.

  7. Comparative Genomic Analysis Reveals Ecological Differentiation in the Genus Carnobacterium

    Science.gov (United States)

    Iskandar, Christelle F.; Borges, Frédéric; Taminiau, Bernard; Daube, Georges; Zagorec, Monique; Remenant, Benoît; Leisner, Jørgen J.; Hansen, Martin A.; Sørensen, Søren J.; Mangavel, Cécile; Cailliez-Grimal, Catherine; Revol-Junelles, Anne-Marie

    2017-01-01

    Lactic acid bacteria (LAB) differ in their ability to colonize food and animal-associated habitats: while some species are specialized and colonize a limited number of habitats, other are generalist and are able to colonize multiple animal-linked habitats. In the current study, Carnobacterium was used as a model genus to elucidate the genetic basis of these colonization differences. Analyses of 16S rRNA gene meta-barcoding data showed that C. maltaromaticum followed by C. divergens are the most prevalent species in foods derived from animals (meat, fish, dairy products), and in the gut. According to phylogenetic analyses, these two animal-adapted species belong to one of two deeply branched lineages. The second lineage contains species isolated from habitats where contact with animal is rare. Genome analyses revealed that members of the animal-adapted lineage harbor a larger secretome than members of the other lineage. The predicted cell-surface proteome is highly diversified in C. maltaromaticum and C. divergens with genes involved in adaptation to the animal milieu such as those encoding biopolymer hydrolytic enzymes, a heme uptake system, and biopolymer-binding adhesins. These species also exhibit genes for gut adaptation and respiration. In contrast, Carnobacterium species belonging to the second lineage encode a poorly diversified cell-surface proteome, lack genes for gut adaptation and are unable to respire. These results shed light on the important genomics traits required for adaptation to animal-linked habitats in generalist Carnobacterium. PMID:28337181

  8. Proteomic Analysis of Hylocereus polyrhizus Reveals Metabolic Pathway Changes

    Science.gov (United States)

    Hua, Qingzhu; Zhou, Qianjun; Gan, Susheng; Wu, Jingyu; Chen, Canbin; Li, Jiaqiang; Ye, Yaoxiong; Zhao, Jietang; Hu, Guibing; Qin, Yonghua

    2016-01-01

    Red dragon fruit or red pitaya (Hylocereus polyrhizus) is the only edible fruit that contains betalains. The color of betalains ranges from red and violet to yellow in plants. Betalains may also serve as an important component of health-promoting and disease-preventing functional food. Currently, the biosynthetic and regulatory pathways for betalain production remain to be fully deciphered. In this study, isobaric tags for relative and absolute quantitation (iTRAQ)-based proteomic analyses were used to reveal the molecular mechanism of betalain biosynthesis in H. polyrhizus fruits at white and red pulp stages, respectively. A total of 1946 proteins were identified as the differentially expressed between the two samples, and 936 of them were significantly highly expressed at the red pulp stage of H. polyrhizus. RNA-seq and iTRAQ analyses showed that some transcripts and proteins were positively correlated; they belonged to “phenylpropanoid biosynthesis”, “tyrosine metabolism”, “flavonoid biosynthesis”, “ascorbate and aldarate metabolism”, “betalains biosynthesis” and “anthocyanin biosynthesis”. In betalains biosynthesis pathway, several proteins/enzymes such as polyphenol oxidase, CYP76AD3 and 4,5-dihydroxy-phenylalanine (DOPA) dioxygenase extradiol-like protein were identified. The present study provides a new insight into the molecular mechanism of the betalain biosynthesis at the posttranscriptional level. PMID:27690004

  9. Proteomic Analysis of Hylocereus polyrhizus Reveals Metabolic Pathway Changes

    Directory of Open Access Journals (Sweden)

    Qingzhu Hua

    2016-09-01

    Full Text Available Red dragon fruit or red pitaya (Hylocereus polyrhizus is the only edible fruit that contains betalains. The color of betalains ranges from red and violet to yellow in plants. Betalains may also serve as an important component of health-promoting and disease-preventing functional food. Currently, the biosynthetic and regulatory pathways for betalain production remain to be fully deciphered. In this study, isobaric tags for relative and absolute quantitation (iTRAQ-based proteomic analyses were used to reveal the molecular mechanism of betalain biosynthesis in H. polyrhizus fruits at white and red pulp stages, respectively. A total of 1946 proteins were identified as the differentially expressed between the two samples, and 936 of them were significantly highly expressed at the red pulp stage of H. polyrhizus. RNA-seq and iTRAQ analyses showed that some transcripts and proteins were positively correlated; they belonged to “phenylpropanoid biosynthesis”, “tyrosine metabolism”, “flavonoid biosynthesis”, “ascorbate and aldarate metabolism”, “betalains biosynthesis” and “anthocyanin biosynthesis”. In betalains biosynthesis pathway, several proteins/enzymes such as polyphenol oxidase, CYP76AD3 and 4,5-dihydroxy-phenylalanine (DOPA dioxygenase extradiol-like protein were identified. The present study provides a new insight into the molecular mechanism of the betalain biosynthesis at the posttranscriptional level.

  10. Proteomic Analysis of Hylocereus polyrhizus Reveals Metabolic Pathway Changes.

    Science.gov (United States)

    Hua, Qingzhu; Zhou, Qianjun; Gan, Susheng; Wu, Jingyu; Chen, Canbin; Li, Jiaqiang; Ye, Yaoxiong; Zhao, Jietang; Hu, Guibing; Qin, Yonghua

    2016-09-28

    Red dragon fruit or red pitaya (Hylocereus polyrhizus) is the only edible fruit that contains betalains. The color of betalains ranges from red and violet to yellow in plants. Betalains may also serve as an important component of health-promoting and disease-preventing functional food. Currently, the biosynthetic and regulatory pathways for betalain production remain to be fully deciphered. In this study, isobaric tags for relative and absolute quantitation (iTRAQ)-based proteomic analyses were used to reveal the molecular mechanism of betalain biosynthesis in H. polyrhizus fruits at white and red pulp stages, respectively. A total of 1946 proteins were identified as the differentially expressed between the two samples, and 936 of them were significantly highly expressed at the red pulp stage of H. polyrhizus. RNA-seq and iTRAQ analyses showed that some transcripts and proteins were positively correlated; they belonged to "phenylpropanoid biosynthesis", "tyrosine metabolism", "flavonoid biosynthesis", "ascorbate and aldarate metabolism", "betalains biosynthesis" and "anthocyanin biosynthesis". In betalains biosynthesis pathway, several proteins/enzymes such as polyphenol oxidase, CYP76AD3 and 4,5-dihydroxy-phenylalanine (DOPA) dioxygenase extradiol-like protein were identified. The present study provides a new insight into the molecular mechanism of the betalain biosynthesis at the posttranscriptional level.

  11. Toward the Drug Factory Microbiome: Microbial Community Variations in Antibiotic-Producing Clean Rooms.

    Science.gov (United States)

    Hamdy, Amal M; El-Massry, Moamen; Kashef, Mona T; Amin, Magdy A; Aziz, Ramy K

    2017-09-05

    Microbiome projects are currently booming around the globe, enabled by advances in culture-independent microbial community analysis and high-throughput sequencing. One emerging application of microbiome science involves exploring microbial diversity in built environments, and one unexplored built environment is the pharmaceutical factory, notably factories producing antibiotics, as they could be enriched in antibiotic-resistant microbes. To examine the drug factory microbiome, we launched this interdisciplinary hypothesis-generating study to benchmark culture-independent microbiome analysis in drug manufacturing units producing antibiotics and nonantibiotic drugs, against traditional microbial identification and quantification techniques. Over a course of 4 months, we prospectively collected 234 samples from antibiotic (kanamycin and amoxicillin) and nonantibiotic (acetaminophen) production clean rooms within a pharmaceutical factory in Egypt. All samples were analyzed by traditional culture-based methods, and microbial communities of representative samples were profiled by16S rRNA gene sequencing. In addition, antibiotic resistance profiles of some samples were determined, and representative resistance genes were screened. The 16S rRNA analysis revealed a typical predominance of Proteobacteria (36%), Firmicutes (31%), and Bacteroidetes (16%). The microbial composition of the samples was highly affected by the use of water, environmental conditions during the production process, the presence of personnel, and the type of the product. The effect of these factors was confirmed by total aerobic microbial counts and identification of biomarker microbes. In conclusion, these observations can aid in the future for optimal design and management of pharmaceutical manufacturing units, and speak to a greater need for implementing microbiome research in the quality assurance of built environments.

  12. Analysis of septins across kingdoms reveals orthology and new motifs

    Directory of Open Access Journals (Sweden)

    Malmberg Russell L

    2007-07-01

    Full Text Available Abstract Background Septins are cytoskeletal GTPase proteins first discovered in the fungus Saccharomyces cerevisiae where they organize the septum and link nuclear division with cell division. More recently septins have been found in animals where they are important in processes ranging from actin and microtubule organization to embryonic patterning and where defects in septins have been implicated in human disease. Previous studies suggested that many animal septins fell into independent evolutionary groups, confounding cross-kingdom comparison. Results In the current work, we identified 162 septins from fungi, microsporidia and animals and analyzed their phylogenetic relationships. There was support for five groups of septins with orthology between kingdoms. Group 1 (which includes S. cerevisiae Cdc10p and human Sept9 and Group 2 (which includes S. cerevisiae Cdc3p and human Sept7 contain sequences from fungi and animals. Group 3 (which includes S. cerevisiae Cdc11p and Group 4 (which includes S. cerevisiae Cdc12p contain sequences from fungi and microsporidia. Group 5 (which includes Aspergillus nidulans AspE contains sequences from filamentous fungi. We suggest a modified nomenclature based on these phylogenetic relationships. Comparative sequence alignments revealed septin derivatives of already known G1, G3 and G4 GTPase motifs, four new motifs from two to twelve amino acids long and six conserved single amino acid positions. One of these new motifs is septin-specific and several are group specific. Conclusion Our studies provide an evolutionary history for this important family of proteins and a framework and consistent nomenclature for comparison of septin orthologs across kingdoms.

  13. Modes of embayed beach dynamics: analysis reveals emergent timescales

    Science.gov (United States)

    Murray, K. T.; Murray, A.; Limber, P. W.; Ells, K. D.

    2013-12-01

    Embayed beaches, or beaches positioned between rocky headlands, exhibit morphologic changes over many length and time scales. Beach sediment is transported as a result of the day-to-day wave forcing, causing patterns of erosion and accretion. We use the Rocky Coastline Evolution Model (RCEM) to investigate how patterns of shoreline change depend on wave climate (the distribution of wave-approach angles) and beach characteristics. Measuring changes in beach width through time allows us to track the evolution of the shape of the beach and the movement of sand within it. By using Principle Component Analysis (PCA), these changes can be categorized into modes, where the first few modes explain the majority of the variation in the time series. We analyze these modes and how they vary as a function of wave climate and headland/bay aspect ratio. In the purposefully simple RCEM, sediment transport is wave-driven and affected by wave shadowing behind the headlands. The rock elements in our model experiments (including the headlands) are fixed and unerodable so that this analysis can focus purely on sand dynamics between the headlands, without a sand contribution from the headlands or cliffs behind the beach. The wave climate is characterized by dictating the percentage of offshore waves arriving from the left and the percentage of waves arriving from high angles (very oblique to the coastline orientation). A high-angle dominated wave climate tends to amplify coastline perturbations, whereas a lower-angle wave climate is diffusive. By changing the headland/bay aspect ratio and wave climate, we can perform PCA analysis of generalized embayed beaches with differing anatomy and wave climate forcings. Previous work using PCA analysis of embayed beaches focused on specific locations and shorter timescales (beach dynamics over longer timescales. The first two PCA modes, which explain a majority of the beach width time series variation (typically >70%), are a 'breathing' mode and a

  14. Changes in cod muscle proteins during frozen storage revealed by proteome analysis and multivariate data analysis

    DEFF Research Database (Denmark)

    Kjærsgård, Inger Vibeke Holst; Nørrelykke, M.R.; Jessen, Flemming

    2006-01-01

    Multivariate data analysis has been combined with proteomics to enhance the recovery of information from 2-DE of cod muscle proteins during different storage conditions. Proteins were extracted according to 11 different storage conditions and samples were resolved by 2-DE. Data generated by 2-DE...... was subjected to principal component analysis (PCA) and discriminant partial least squares regression (DPLSR). Applying PCA to 2-DE data revealed the samples to form groups according to frozen storage time, whereas differences due to different storage temperatures or chilled storage in modified atmosphere...... light chain 1, 2 and 3, triose-phosphate isomerase, glyceraldehyde-3-phosphate dehydrogenase, aldolase A and two ?-actin fragments, and a nuclease diphosphate kinase B fragment to change in concentration, during frozen storage. Application of proteomics, multivariate data analysis and MS/MS to analyse...

  15. Genome analysis of the platypus reveals unique signatures of evolution.

    Science.gov (United States)

    Warren, Wesley C; Hillier, LaDeana W; Marshall Graves, Jennifer A; Birney, Ewan; Ponting, Chris P; Grützner, Frank; Belov, Katherine; Miller, Webb; Clarke, Laura; Chinwalla, Asif T; Yang, Shiaw-Pyng; Heger, Andreas; Locke, Devin P; Miethke, Pat; Waters, Paul D; Veyrunes, Frédéric; Fulton, Lucinda; Fulton, Bob; Graves, Tina; Wallis, John; Puente, Xose S; López-Otín, Carlos; Ordóñez, Gonzalo R; Eichler, Evan E; Chen, Lin; Cheng, Ze; Deakin, Janine E; Alsop, Amber; Thompson, Katherine; Kirby, Patrick; Papenfuss, Anthony T; Wakefield, Matthew J; Olender, Tsviya; Lancet, Doron; Huttley, Gavin A; Smit, Arian F A; Pask, Andrew; Temple-Smith, Peter; Batzer, Mark A; Walker, Jerilyn A; Konkel, Miriam K; Harris, Robert S; Whittington, Camilla M; Wong, Emily S W; Gemmell, Neil J; Buschiazzo, Emmanuel; Vargas Jentzsch, Iris M; Merkel, Angelika; Schmitz, Juergen; Zemann, Anja; Churakov, Gennady; Kriegs, Jan Ole; Brosius, Juergen; Murchison, Elizabeth P; Sachidanandam, Ravi; Smith, Carly; Hannon, Gregory J; Tsend-Ayush, Enkhjargal; McMillan, Daniel; Attenborough, Rosalind; Rens, Willem; Ferguson-Smith, Malcolm; Lefèvre, Christophe M; Sharp, Julie A; Nicholas, Kevin R; Ray, David A; Kube, Michael; Reinhardt, Richard; Pringle, Thomas H; Taylor, James; Jones, Russell C; Nixon, Brett; Dacheux, Jean-Louis; Niwa, Hitoshi; Sekita, Yoko; Huang, Xiaoqiu; Stark, Alexander; Kheradpour, Pouya; Kellis, Manolis; Flicek, Paul; Chen, Yuan; Webber, Caleb; Hardison, Ross; Nelson, Joanne; Hallsworth-Pepin, Kym; Delehaunty, Kim; Markovic, Chris; Minx, Pat; Feng, Yucheng; Kremitzki, Colin; Mitreva, Makedonka; Glasscock, Jarret; Wylie, Todd; Wohldmann, Patricia; Thiru, Prathapan; Nhan, Michael N; Pohl, Craig S; Smith, Scott M; Hou, Shunfeng; Nefedov, Mikhail; de Jong, Pieter J; Renfree, Marilyn B; Mardis, Elaine R; Wilson, Richard K

    2008-05-08

    We present a draft genome sequence of the platypus, Ornithorhynchus anatinus. This monotreme exhibits a fascinating combination of reptilian and mammalian characters. For example, platypuses have a coat of fur adapted to an aquatic lifestyle; platypus females lactate, yet lay eggs; and males are equipped with venom similar to that of reptiles. Analysis of the first monotreme genome aligned these features with genetic innovations. We find that reptile and platypus venom proteins have been co-opted independently from the same gene families; milk protein genes are conserved despite platypuses laying eggs; and immune gene family expansions are directly related to platypus biology. Expansions of protein, non-protein-coding RNA and microRNA families, as well as repeat elements, are identified. Sequencing of this genome now provides a valuable resource for deep mammalian comparative analyses, as well as for monotreme biology and conservation.

  16. Genome analysis of the platypus reveals unique signatures of evolution

    Science.gov (United States)

    Warren, Wesley C.; Hillier, LaDeana W.; Marshall Graves, Jennifer A.; Birney, Ewan; Ponting, Chris P.; Grützner, Frank; Belov, Katherine; Miller, Webb; Clarke, Laura; Chinwalla, Asif T.; Yang, Shiaw-Pyng; Heger, Andreas; Locke, Devin P.; Miethke, Pat; Waters, Paul D.; Veyrunes, Frédéric; Fulton, Lucinda; Fulton, Bob; Graves, Tina; Wallis, John; Puente, Xose S.; López-Otín, Carlos; Ordóñez, Gonzalo R.; Eichler, Evan E.; Chen, Lin; Cheng, Ze; Deakin, Janine E.; Alsop, Amber; Thompson, Katherine; Kirby, Patrick; Papenfuss, Anthony T.; Wakefield, Matthew J.; Olender, Tsviya; Lancet, Doron; Huttley, Gavin A.; Smit, Arian F. A.; Pask, Andrew; Temple-Smith, Peter; Batzer, Mark A.; Walker, Jerilyn A.; Konkel, Miriam K.; Harris, Robert S.; Whittington, Camilla M.; Wong, Emily S. W.; Gemmell, Neil J.; Buschiazzo, Emmanuel; Vargas Jentzsch, Iris M.; Merkel, Angelika; Schmitz, Juergen; Zemann, Anja; Churakov, Gennady; Kriegs, Jan Ole; Brosius, Juergen; Murchison, Elizabeth P.; Sachidanandam, Ravi; Smith, Carly; Hannon, Gregory J.; Tsend-Ayush, Enkhjargal; McMillan, Daniel; Attenborough, Rosalind; Rens, Willem; Ferguson-Smith, Malcolm; Lefèvre, Christophe M.; Sharp, Julie A.; Nicholas, Kevin R.; Ray, David A.; Kube, Michael; Reinhardt, Richard; Pringle, Thomas H.; Taylor, James; Jones, Russell C.; Nixon, Brett; Dacheux, Jean-Louis; Niwa, Hitoshi; Sekita, Yoko; Huang, Xiaoqiu; Stark, Alexander; Kheradpour, Pouya; Kellis, Manolis; Flicek, Paul; Chen, Yuan; Webber, Caleb; Hardison, Ross; Nelson, Joanne; Hallsworth-Pepin, Kym; Delehaunty, Kim; Markovic, Chris; Minx, Pat; Feng, Yucheng; Kremitzki, Colin; Mitreva, Makedonka; Glasscock, Jarret; Wylie, Todd; Wohldmann, Patricia; Thiru, Prathapan; Nhan, Michael N.; Pohl, Craig S.; Smith, Scott M.; Hou, Shunfeng; Renfree, Marilyn B.; Mardis, Elaine R.; Wilson, Richard K.

    2009-01-01

    We present a draft genome sequence of the platypus, Ornithorhynchus anatinus. This monotreme exhibits a fascinating combination of reptilian and mammalian characters. For example, platypuses have a coat of fur adapted to an aquatic lifestyle; platypus females lactate, yet lay eggs; and males are equipped with venom similar to that of reptiles. Analysis of the first monotreme genome aligned these features with genetic innovations. We find that reptile and platypus venom proteins have been co-opted independently from the same gene families; milk protein genes are conserved despite platypuses laying eggs; and immune gene family expansions are directly related to platypus biology. Expansions of protein, non-protein-coding RNA and microRNA families, as well as repeat elements, are identified. Sequencing of this genome now provides a valuable resource for deep mammalian comparative analyses, as well as for monotreme biology and conservation. PMID:18464734

  17. A factorial analysis of the combined effects of hydrogel fabrication parameters on the in vitro swelling and degradation of oligo(poly(ethylene glycol) fumarate) hydrogels.

    Science.gov (United States)

    Lam, Johnny; Kim, Kyobum; Lu, Steven; Tabata, Yasuhiko; Scott, David W; Mikos, Antonios G; Kasper, F Kurtis

    2014-10-01

    In this study, a full factorial approach was used to investigate the effects of poly(ethylene glycol) (PEG) molecular weight (MW; 10,000 vs. 35,000 nominal MW), crosslinker-to-macromer carbon-carbon double bond ratio (DBR; 40 vs. 60), crosslinker type (PEG-diacrylate (PEGDA) vs. N,N'-methylene bisacrylamide (MB)), crosslinking extent of incorporated gelatin microparticles (low vs. high), and incubation medium composition (with or without collagenase) on the swelling and degradation characteristics of oligo[(poly(ethylene glycol) fumarate)] (OPF) hydrogel composites as indicated by the swelling ratio and the percentage of mass remaining, respectively. Each factor consisted of two levels, which were selected based on previous in vitro and in vivo studies utilizing these hydrogels for various tissue engineering applications. Fractional factorial analyses of the main effects indicated that the mean swelling ratio and the mean percentage of mass remaining of OPF composite hydrogels were significantly affected by every factor. In particular, increasing the PEG chain MW of OPF macromers significantly increased the mean swelling ratio and decreased the mean percentage of mass remaining by 5.7 ± 0.3 and 17.2 ± 0.6%, respectively. However, changing the crosslinker from MB to PEGDA reduced the mean swelling ratio and increased the mean percentage of mass remaining of OPF composite hydrogels by 4.9 ± 0.2 and 9.4 ± 0.9%, respectively. Additionally, it was found that the swelling characteristics of hydrogels fabricated with higher PEG chain MW or with MB were more sensitive to increases in DBR. Collectively, the main and cross effects observed between factors enables informed tuning of the swelling and degradation properties of OPF-based hydrogels for various tissue engineering applications. © 2013 Wiley Periodicals, Inc. J Biomed Mater Res Part A: 102A: 3477-3487, 2014. © 2013 Wiley Periodicals, Inc.

  18. Differential network analysis reveals dysfunctional regulatory networks in gastric carcinogenesis.

    Science.gov (United States)

    Cao, Mu-Shui; Liu, Bing-Ya; Dai, Wen-Tao; Zhou, Wei-Xin; Li, Yi-Xue; Li, Yuan-Yuan

    2015-01-01

    Gastric Carcinoma is one of the most common cancers in the world. A large number of differentially expressed genes have been identified as being associated with gastric cancer progression, however, little is known about the underlying regulatory mechanisms. To address this problem, we developed a differential networking approach that is characterized by including a nascent methodology, differential coexpression analysis (DCEA), and two novel quantitative methods for differential regulation analysis. We first applied DCEA to a gene expression dataset of gastric normal mucosa, adenoma and carcinoma samples to identify gene interconnection changes during cancer progression, based on which we inferred normal, adenoma, and carcinoma-specific gene regulation networks by using linear regression model. It was observed that cancer genes and drug targets were enriched in each network. To investigate the dynamic changes of gene regulation during carcinogenesis, we then designed two quantitative methods to prioritize differentially regulated genes (DRGs) and gene pairs or links (DRLs) between adjacent stages. It was found that known cancer genes and drug targets are significantly higher ranked. The top 4% normal vs. adenoma DRGs (36 genes) and top 6% adenoma vs. carcinoma DRGs (56 genes) proved to be worthy of further investigation to explore their association with gastric cancer. Out of the 16 DRGs involved in two top-10 DRG lists of normal vs. adenoma and adenoma vs. carcinoma comparisons, 15 have been reported to be gastric cancer or cancer related. Based on our inferred differential networking information and known signaling pathways, we generated testable hypotheses on the roles of GATA6, ESRRG and their signaling pathways in gastric carcinogenesis. Compared with established approaches which build genome-scale GRNs, or sub-networks around differentially expressed genes, the present one proved to be better at enriching cancer genes and drug targets, and prioritizing

  19. Targeting population heterogeneity for optimal cell factories

    DEFF Research Database (Denmark)

    Heins, Anna-Lena; Carlqvist, Magnus; Helmark, S.

    , substrates, and pH are typically observed in many industrial scale fermentation processes. Consequently, the microbial cells experience rapid changes in environmental conditions as they circulate throughout the reactor, which might pose stress on the cells and affect their metabolism and consequently affect...... analysis, and thereby created the possibility to map population heterogeneity. A factorial design with pH, glucose concentration and oxygen level was performed in batch cultivations using the growth reporter strains to evaluate the effect of those environmental factors on heterogeneity level and amount...

  20. Factorial analysis of variables influencing mechanical characteristics of a single tooth implant placed in the maxilla using finite element analysis and the statistics-based Taguchi method.

    Science.gov (United States)

    Lin, Chun-Li; Chang, Shih-Hao; Chang, Wen-Jen; Kuo, Yu-Chan

    2007-10-01

    The aim of this study was to determine the relative contribution of changes (design factors) in implant system, position, bone classification, and loading condition on the biomechanical response of a single-unit implant-supported restoration. Non-linear finite-element analysis was used to simulate the mechanical responses in an implant placed in the maxillary posterior region. The Taguchi method was employed to identify the significance of each design factor in controlling the strain/stress. Increased strain values were noted in the cortical bone with lateral force and an implant with a retaining-screw connection. Cancellous bone strain was affected primarily by bone type and increased with decreasing bone density. Implant stress was influenced mainly by implant type and position. The combined use of finite-element analysis and the Taguchi method facilitated effective evaluation of the mechanical characteristics of a single-unit implant-supported restoration. Implants placed along the axis of loading exhibit improved stress/strain distribution. The reduction of lateral stress through implant placement and selective occlusal adjustment is recommended. An implant with a tapered interference fit connection performed better as a force-transmission mechanism than other configurations.

  1. Hereditary hemochromatosis: HFE mutation analysis in Greeks reveals genetic heterogeneity.

    Science.gov (United States)

    Papanikolaou, G; Politou, M; Terpos, E; Fourlemadis, S; Sakellaropoulos, N; Loukopoulos, D

    2000-04-01

    Hereditary hemochromatosis (HH) is common among Caucasians; reported disease frequencies vary from 0.3 to 0.8%. Identification of a candidate HFE gene in 1996 was soon followed by the description of two ancestral mutations, i.e., c.845G-->A (C282Y) and c.187C-->G (H63D). To these was recently added the mutation S65C, which may represent a simple polymorphism. The incidence of HH in Greece is unknown but clinical cases are rare. Also unknown is the carrier frequency of the two mutant alleles. A first estimate of the latter is given in the present report. It is based on data from the genetic analysis of 10 unrelated patients of Greek origin who were referred to our center for genotyping and 158 unselected male blood donors. The allele frequencies for the C282Y and H63D mutations were 0.003 and 0.145, respectively. The C282Y allele was detected in 50% of HH patients. This is considerably lower than the frequencies reported for HH patients in the U.S.A. (82%) and France (91 %) and closer to that reported in Italy (64%). Five patients did not carry any known HFE mutation; three may represent cases of juvenile hemochromatosis, given their early onset with iron overload, hypogonadism, and heart disease. We suggest that genetic heterogeneity is more prominent in Southern Europe. It is also possible that the penetrance of the responsible genes is different across the Mediterranean.

  2. Network analysis reveals distinct clinical syndromes underlying acute mountain sickness.

    Directory of Open Access Journals (Sweden)

    David P Hall

    Full Text Available Acute mountain sickness (AMS is a common problem among visitors at high altitude, and may progress to life-threatening pulmonary and cerebral oedema in a minority of cases. International consensus defines AMS as a constellation of subjective, non-specific symptoms. Specifically, headache, sleep disturbance, fatigue and dizziness are given equal diagnostic weighting. Different pathophysiological mechanisms are now thought to underlie headache and sleep disturbance during acute exposure to high altitude. Hence, these symptoms may not belong together as a single syndrome. Using a novel visual analogue scale (VAS, we sought to undertake a systematic exploration of the symptomatology of AMS using an unbiased, data-driven approach originally designed for analysis of gene expression. Symptom scores were collected from 292 subjects during 1110 subject-days at altitudes between 3650 m and 5200 m on Apex expeditions to Bolivia and Kilimanjaro. Three distinct patterns of symptoms were consistently identified. Although fatigue is a ubiquitous finding, sleep disturbance and headache are each commonly reported without the other. The commonest pattern of symptoms was sleep disturbance and fatigue, with little or no headache. In subjects reporting severe headache, 40% did not report sleep disturbance. Sleep disturbance correlates poorly with other symptoms of AMS (Mean Spearman correlation 0.25. These results challenge the accepted paradigm that AMS is a single disease process and describe at least two distinct syndromes following acute ascent to high altitude. This approach to analysing symptom patterns has potential utility in other clinical syndromes.

  3. Demographic analysis reveals gradual senescence in the flatworm Macrostomum lignano

    Directory of Open Access Journals (Sweden)

    Braeckman Bart P

    2009-07-01

    Full Text Available Abstract Free-living flatworms ("Turbellaria" are appropriate model organisms to gain better insight into the role of stem cells in ageing and rejuvenation. Ageing research in flatworms is, however, still scarce. This is partly due to culture difficulties and the lack of a complete set of demographic data, including parameters such as median lifespan and age-specific mortality rate. In this paper, we report on the first flatworm survival analysis. We used the species Macrostomum lignano, which is an emerging model for studying the reciprocal influence between stem cells, ageing and rejuvenation. This species has a median lifespan of 205 ± 13 days (average ± standard deviation [SD] and a 90th percentile lifespan of 373 ± 32 days. The maximum lifespan, however, is more than 745 days, and the average survival curve is characterised by a long tail because a small number of individuals lives twice as long as 90% of the population. Similar to earlier observations in a wide range of animals, in M. lignano the age-specific mortality rate increases exponentially, but levels off at the oldest ages. To compare the senescence of M. lignano with that of other ageing models, we determined the mortality rate doubling time, which is 0.20 ± 0.02 years. As a result, we can conclude that M. lignano shows gradual senescence at a rate similar to the vertebrate ageing models Rattus norvegicus and Mus musculus. We argue that M. lignano is a suitable model for ageing and rejuvenation research, and especially for the role of stem cells in these processes, due to its accessible stem cell system and regeneration capacity, and the possibility of combining stem cell studies with demographic analyses.

  4. Functional Tissue Analysis Reveals Successful Cryopreservation of Human Osteoarthritic Synovium

    Science.gov (United States)

    de Vries, Marieke; Bennink, Miranda B.; van Lent, Peter L. E. M.; van der Kraan, Peter M.; Koenders, Marije I.; Thurlings, Rogier M.; van de Loo, Fons A. J.

    2016-01-01

    Osteoarthritis (OA) is a degenerative joint disease affecting cartilage and is the most common form of arthritis worldwide. One third of OA patients have severe synovitis and less than 10% have no evidence of synovitis. Moreover, synovitis is predictive for more severe disease progression. This offers a target for therapy but more research on the pathophysiological processes in the synovial tissue of these patients is needed. Functional studies performed with synovial tissue will be more approachable when this material, that becomes available by joint replacement surgery, can be stored for later use. We set out to determine the consequences of slow-freezing of human OA synovial tissue. Therefore, we validated a method that can be applied in every routine laboratory and performed a comparative study of five cryoprotective agent (CPA) solutions. To determine possible deleterious cryopreservation-thaw effects on viability, the synovial tissue architecture, metabolic activity, RNA quality, expression of cryopreservation associated stress genes, and expression of OA characteristic disease genes was studied. Furthermore, the biological activity of the cryopreserved tissue was determined by measuring cytokine secretion induced by the TLR ligands lipopolysaccharides and Pam3Cys. Compared to non frozen synovium, no difference in cell and tissue morphology could be identified in the conditions using the CS10, standard and CryoSFM CPA solution for cryopreservation. However, we observed significantly lower preservation of tissue morphology with the Biofreeze and CS2 media. The other viability assays showed trends in the same direction but were not sensitive enough to detect significant differences between conditions. In all assays tested a clearly lower viability was detected in the condition in which synovium was frozen without CPA solution. This detailed analysis showed that OA synovial tissue explants can be cryopreserved while maintaining the morphology, viability and

  5. Network analysis reveals multiscale controls on streamwater chemistry

    Science.gov (United States)

    McGuire, Kevin J.; Torgersen, Christian E.; Likens, Gene E.; Buso, Donald C.; Lowe, Winsor H.; Bailey, Scott W.

    2014-01-01

    By coupling synoptic data from a basin-wide assessment of streamwater chemistry with network-based geostatistical analysis, we show that spatial processes differentially affect biogeochemical condition and pattern across a headwater stream network. We analyzed a high-resolution dataset consisting of 664 water samples collected every 100 m throughout 32 tributaries in an entire fifth-order stream network. These samples were analyzed for an exhaustive suite of chemical constituents. The fine grain and broad extent of this study design allowed us to quantify spatial patterns over a range of scales by using empirical semivariograms that explicitly incorporated network topology. Here, we show that spatial structure, as determined by the characteristic shape of the semivariograms, differed both among chemical constituents and by spatial relationship (flow-connected, flow-unconnected, or Euclidean). Spatial structure was apparent at either a single scale or at multiple nested scales, suggesting separate processes operating simultaneously within the stream network and surrounding terrestrial landscape. Expected patterns of spatial dependence for flow-connected relationships (e.g., increasing homogeneity with downstream distance) occurred for some chemical constituents (e.g., dissolved organic carbon, sulfate, and aluminum) but not for others (e.g., nitrate, sodium). By comparing semivariograms for the different chemical constituents and spatial relationships, we were able to separate effects on streamwater chemistry of (i) fine-scale versus broad-scale processes and (ii) in-stream processes versus landscape controls. These findings provide insight on the hierarchical scaling of local, longitudinal, and landscape processes that drive biogeochemical patterns in stream networks.

  6. Photon Factory Activity Report, 1994

    Energy Technology Data Exchange (ETDEWEB)

    NONE

    1995-12-31

    Photon Factory Activity Report no.12 deals with our activities in the period from October 1993 through September 1994. We operate two light sources at the Photon Factory; the 2.5-GeV Photon Factory storage ring, which is a dedicated light source, and the 6.5-GeV TRISTAN Accumulation Ring, which is parasitically used as a light source. We keep more than seventy experimental stations at two facilities, and accept experiments primarily according to approval by the Program Advisory Committee. The number of proposals to the Photon Factory has been still growing. Three-hundred eighty two proposals were approved by the PAC in FY1994, which is an increase by thirteen percent compared to the previous year. Remarkable was growth in biology proposals, particularly proposals in protein crystallography. In FY 1994, we accepted approximately 20,000 man-days as general users, and almost ten percent of them were from abroad. We always open the facility to users, not only domestic but also international. Recently we have been concentrating our effort to upgrading of the light sources and reconstruction of the experimental stations to keep the Photon Factory an attractive research facility in the forthcoming years. We have already started a program of reducing the emittance of the 2.5-GeV storage ring, which now operates with an emittance of 110 nm-rad, to 27 nm-rad by modifying the lattice, with the goal of operation at the reduced emittance in the fall of 1997. We also have conceived of a conversion of the TRISTAN Accumulation Ring to a dedicated light source of high energies. The on-going TRISTAN project will terminate by the end of 1995, and the TRISTAN Main Ring will be converted to a new B-Factory. At this moment, the TRISTAN Accumulation Ring will be disused as the injector to the Main Ring, and conversion of the AR to a dedicated light source becomes possible. (J.P.N.)

  7. Metatranscriptomic Analysis of Groundwater Reveals an Active Anammox Bacterial Population

    Science.gov (United States)

    Jewell, T. N. M.; Karaoz, U.; Thomas, B. C.; Banfield, J. F.; Brodie, E.; Williams, K. H.; Beller, H. R.

    2014-12-01

    Groundwater is a major natural resource, yet little is known about the contribution of microbial anaerobic ammonium oxidation (anammox) activity to subsurface nitrogen cycling. During anammox, energy is generated as ammonium is oxidized under anaerobic conditions to dinitrogen gas, using nitrite as the final electron acceptor. This process is a global sink for fixed nitrogen. Only a narrow range of monophyletic bacteria within the Planctomycetes carries out anammox, and the full extent of their metabolism, and subsequent impact on nitrogen cycling and microbial community structure, is still unknown. Here, we employ a metatranscriptomic analysis on enriched mRNA to identify the abundance and activity of a population of anammox bacteria within an aquifer at Rifle, CO. Planktonic biomass was collected over a two-month period after injection of up to 1.5 mM nitrate. Illumina-generated sequences were mapped to a phylogenetically binned Rifle metagenome database. We identified transcripts for genes with high protein sequence identities (81-98%) to those of anammox strain KSU-1 and to two of the five anammox bacteria genera, Brocadia and Kuenenia, suggesting an active, if not diverse, anammox population. Many of the most abundant anammox transcripts mapped to a single scaffold, indicative of a single dominant anammox species. Transcripts of the genes necessary for the anammox pathway were present, including an ammonium transporter (amtB), nitrite/formate transporter, nitrite reductase (nirK), and hydrazine oxidoreductase (hzoB). The form of nitrite reductase encoded by anammox is species-dependent, and we only identified nirK, with no evidence of anammox nirS. In addition to the anammox pathway we saw evidence of the anammox bacterial dissimilatory nitrate reduction to ammonium pathway (narH, putative nrfA, and nrfB), which provides an alternate means of generating substrates for anammox from nitrate, rather than relying on an external pool. Transcripts for hydroxylamine

  8. 27 CFR 40.69 - Factory premises.

    Science.gov (United States)

    2010-04-01

    ... 27 Alcohol, Tobacco Products and Firearms 2 2010-04-01 2010-04-01 false Factory premises. 40.69... PROCESSED TOBACCO Qualification Requirements for Manufacturers of Tobacco Products § 40.69 Factory premises. The premises to be used by a manufacturer of tobacco products as his factory may consist of more...

  9. Occupational cobalt and chromium dermatitis in an offset printing factory.

    Science.gov (United States)

    Spruit, D; Malten, K E

    1975-01-01

    A case history of three offset printers and the atomic absorption analysis of their contact materials is described. Though the factory direction and personnel felt strongly about cooperating in order to combat the disease, it became apparent that the prescribed measures had not been effectively carried out. The chemical analysis of the materials proved to be a necessary supplement to the patch testing procedure.

  10. RIKEN RI Beam Factory project

    Energy Technology Data Exchange (ETDEWEB)

    Yano, Yasushige; Goto, Akira; Katayama, Takeshi [Institute of Physical and Chemical Research, Wako, Saitama (Japan)

    1997-03-01

    The RARF proposes `RIKEN RI Beam Factory` as a next facility-expanding project. The factory makes it the primary aim to provide RI (Radioactive Isotope) beams covering over the whole atomic-mass range with the world-highest intensity in a wide energy range up to several hundreds MeV/nucleon. These RI beams are generated by the fragmentation of high-intensity heavy-ion beams. For the efficient production heavy-ion energies will be boosted up to over 100 MeV/nucleon even for very heavy ions by a K2500-MeV superconducting ring cyclotron serving as a post accelerator of the existing K540-MeV ring cyclotron. A new type of experimental installation called `MUSES` (Multi-USe Experimental Storage rings) will be constructed as well. With MUSES, various types of unique colliding experiments will become possible. (author)

  11. Exotic Hadrons from B Factories

    Science.gov (United States)

    Fulsom, Bryan

    2017-01-01

    The first generation of B-Factories, BaBar and Belle, operated over the previous decade and produced many world-leading measurements related to flavor physics. One of the most important discoveries was that of an apparent four-quark particle, named X(3872). It was the first of a growing X, Y, Z alphabet of exotic hadrons, now numbering more than a dozen, found by the e + e - collider experiments. These multi-quark states represent an unusual departure from the standard description that hadronic matter consists of only two or three quarks. These discoveries have led to the emergence of a new category of physics within heavy meson spectroscopy. This talk will review some of these key experimental results, and highlight the potential of the next generation B-Factory, Belle II, as it begins operation in the coming year.

  12. Handbook factory planning and design

    CERN Document Server

    Wiendahl, Hans-Peter; Nyhuis, Peter

    2015-01-01

    This handbook introduces a methodical approach and pragmatic concept for the planning and design of changeable factories that act in strategic alliances to supply the ever-changing needs of the global market. In the first part, the change drivers of manufacturing enterprises and the resulting new challenges are considered in detail with focus on an appropriate change potential. The second part concerns the design of the production facilities and systems on the factory levels work place, section, building and site under functional, organisational, architectural and strategic aspects keeping in mind the environmental, health and safety aspects including corporate social responsibility. The third part is dedicated to the planning and design method that is based on a synergetic interaction of process and space. The accompanying project management of the planning and construction phase and the facility management for the effective utilization of the built premises close the book. -        Concise overview o...

  13. Results from the B Factories

    Energy Technology Data Exchange (ETDEWEB)

    Bevan, A.; /Queen Mary, U. of London

    2009-01-08

    These proceedings are based on lectures given at the Helmholtz International Summer School Heavy Quark Physics at the Bogoliubov Laboratory of Theoretical Physics, Dubna, Russia, during August 2008. I review the current status of CP violation in B meson decays from the B factories. These results can be used, along with measurements of the sides of the Unitarity Triangle, to test the CKM mechanism. In addition I discuss experimental studies of B decays to final states with 'spin-one' particles.

  14. Results from the B Factories

    Energy Technology Data Exchange (ETDEWEB)

    Bevan, A.; /Queen Mary, U. of London

    2009-01-08

    These proceedings are based on lectures given at the Helmholtz International Summer School Heavy Quark Physics at the Bogoliubov Laboratory of Theoretical Physics, Dubna, Russia, during August 2008. I review the current status of CP violation in B meson decays from the B factories. These results can be used, along with measurements of the sides of the Unitarity Triangle, to test the CKM mechanism. In addition I discuss experimental studies of B decays to final states with 'spin-one' particles.

  15. ANÁLISIS FACTORIAL EXPLORATORIO DE LA ESCALA DE SATISFACCIÓN LABORAL EN EMPLEADOS DE UN HOSPITAL PSIQUIÁTRICO DE BUCARAMANGA, COLOMBIA Exploratory factorial analysis of the working enviroment scale (WES among employees of a public psychiatric hospital in Bucaramanga, Colombia

    Directory of Open Access Journals (Sweden)

    Lucía Quintero Isaza

    2007-03-01

    Full Text Available Antecedentes. La satisfacción laboral es un factor importante para garantizar la productividad de las empresas. Existen varias escalas para cuantificarla. De éstas, la Escala de Satisfacción Laboral (WES-10 recientemente validada es la más breve. No obstante, hasta la fecha no se ha explorado la estructura factorial de la WES-10 en ningún grupo de empleados colombianos. Objetivo. Determinar la estructura factorial de la WES-10 en empleados de un hospital psiquiátrico público de Bucaramanga, Colombia. Material y métodos. Se diseñó un estudio de validación de una prueba de tamizaje sin un patrón de oro. Participaron 217 trabajadores que tenían una edad promedio de 37.7 años (DE±9.8, 75.4 por ciento mujeres, 49.5 por ciento con pareja estable, 37.0 por ciento con formación técnica o vocacional, 58.7 por ciento residentes en estrato socioeconómico medio, 51.7 por ciento con funciones asistencial y 13.0 años en promedio de trabajar en la institución (DE±8.8. La WES-10 es un instrumento de diez puntos con cinco opciones de respuesta ordinal. Se realizó un análisis factorial exploratorio mediante el método de componentes principales. Se retuvieron los factores que mostraron valores propios mayores de 1.0. Resultados: La WES mostró una consistencia interna de 0.78 y una estructura de dos factores explicaba el 48.8 por ciento de la varianza. El factor I (adaptación laboral alcanzó un valor propio de 3.49 y el factor II (autorrealización, 1.39. Conclusión. La WES-10 muestra una consistencia interna suficientemente alta para ser usada con fines de investigación y una estructura bidimensional que explora satisfactoriamente todo el contenido del constructo.Background. Job satisfaction is an important factor to guarantee work productivity. There are various scales to measure job satisfaction. Out of these scales, the recently validated Working Environment Scale-10 (WES-10 is the most brief. However, up to date the factor

  16. Photon Factory activity report, 1995

    Energy Technology Data Exchange (ETDEWEB)

    NONE

    1996-12-31

    The Photon Factory at the National Laboratory for High Energy Physics is a national facility for scientific research utilizing synchrotron radiation. Although the Photon Factory operator the linear injector, two light sources including the 2.5 GeV storage ring and the 6.5 GeV TRISTAN accumulation Ring as well as a major fraction of their beamlines and experimental station. This report is covered the period from October 1994 to September 1995. The total number of proposals by this PAC was 399 in 1995. Facility development projects currently in progress include the following, TRISTAN Super Light Facility (TSLF) project, VUV-FEL project, KEKB project and Slow-positron Source. This report contents outline of the Photon Factory, introduction, scientific disciplines, electronic properties of condensed matters, atomic and molecular science, X-ray imaging, radiobiology using synchrotron radiation, structural properties of condensed matters, structural properties of solid surfaces and adsorbates, structure and function of proteins, theoretical researches, experimental facilities, beamlines, new instrumentation, AR Upgrade, collaborations, projects, user`s short reports, list of published papers 1994/95. (S.Y.)

  17. Microbially induced and microbially catalysed precipitation: two different carbonate factories

    Science.gov (United States)

    Meister, Patrick

    2016-04-01

    The landmark paper by Schlager (2003) has revealed three types of benthic carbonate production referred to as "carbonate factories", operative at different locations at different times in Earth history. The tropical or T-factory comprises the classical platforms and fringing reefs and is dominated by carbonate precipitation by autotrophic calcifying metazoans ("biotically controlled" precipitation). The cool or C-factory is also biotically controlled but via heterotrophic, calcifying metazoans in cold and deep waters at the continental margins. A further type is the mud-mound or M-factory, where carbonate precipitation is supported by microorganisms but not controlled by a specific enzymatic pathway ("biotically induced" precipitation). How exactly the microbes influence precipitation is still poorly understood. Based on recent experimental and field studies, the microbial influence on modern mud mound and microbialite growth includes two fundamentally different processes: (1) Metabolic activity of microbes may increase the saturation state with respect to a particular mineral phase, thereby indirectly driving the precipitation of the mineral phase: microbially induced precipitation. (2) In a situation, where a solution is already supersaturated but precipitation of the mineral is inhibited by a kinetic barrier, microbes may act as a catalyser, i.e. they lower the kinetic barrier: microbially catalysed precipitation. Such a catalytic effect can occur e.g. via secreted polymeric substances or specific chemical groups on the cell surface, at which the minerals nucleate or which facilitate mechanistically the bonding of new ions to the mineral surface. Based on these latest developments in microbialite formation, I propose to extend the scheme of benthic carbonate factories of Schlager et al. (2003) by introducing an additional branch distinguishing microbially induced from microbially catalysed precipitation. Although both mechanisms could be operative in a M-factory

  18. Comparison of Factorial Kriging Analysis Method and Upward Continuation Filter to Recognize Subsurface Structures — A Case Study: Gravity Data from a Hydrocarbon Field in the Southeast Sedimentary Basins of the East Vietnam Sea

    Science.gov (United States)

    Azad, Mohammad-Reza; Koneshloo, Mohammad; Kamakar Rouhani, Abolghasem; Aghajani, Hamid

    2016-04-01

    To interpret geophysical anomaly maps, it is necessary to filter out regional and sometimes noise components. Each measured value in a gravity survey consists of different components. Upward continuation (UC) is one of the most widely used filters. The shortcoming of this filter is not to consider the spatial structure of the data, and also the fact that the trial and error approach and expert's judgment are needed to adjust it. This study aims to compare the factorial kriging analysis (FKA) and UC filters for separation of local and regional anomalies in the gravity data of a hydrocarbon field in the southeast sedimentary basins of the East Vietnam Sea. As shown in this paper, FKA method permits to filter out all of the identified structures, while the UC filter does not possess this capability. Therefore, beside general and classic filtering methods, the FKA method can be used as a strong method in filtering spatial structures and anomaly component.

  19. Detection and identification of xerophilic fungi in Belgian chocolate confectionery factories.

    Science.gov (United States)

    De Clercq, Nikki; Van Coillie, Els; Van Pamel, Els; De Meulenaer, Bruno; Devlieghere, Frank; Vlaemynck, Geertrui

    2015-04-01

    Chocolate confectionery fillings are generally regarded as microbiologically stable. The stability of these fillings is largely due to the general practice of adding either alcohol or preservatives. Consumer demands are now stimulating producers to move away from adding alcohol or other preservatives to their confectionery fillings and instead to search for innovative formulations. Such changes in composition can influence the shelf life of the product and may lead to spoilage by xerophilic fungi. The aim of this study was to test whether the production environment of Belgian chocolate confectionery factories and common ingredients of chocolate confectioneries could be potential sources of contamination with xerophilic fungal species. In the factory environment, the general and strictly xerophilic fungal spore load was determined using an RCS Air Sampler device in combination with DG18 and MY50G medium, respectively. Four basic ingredients of chocolate confectionery fillings were also examined for fungal spore levels using a direct plating technique. Detected fungi were identified to species level by a combination of morphological characterization and sequence analysis. Results indicated a general fungal spore load in the range of 50-250 colony forming units per cubic meter of air (CFU/m(3) air) and a more strict xerophilic spore load below 50 CFU/m(3) air. These results indicate rather low levels of fungal spores present in the factory environment. The most prevalent fungi in the factory environment were identified as Penicillium spp., particularly Penicillium brevicompactum. Examination of the basic ingredients of confectionery fillings revealed nuts to be the most likely potential source of direct contamination. In nuts, the most prevalent fungal species identified were Eurotium, particularly Eurotium repens. Copyright © 2014 Elsevier Ltd. All rights reserved.

  20. Optimization of headspace solid-phase microextraction for the analysis of specific flavors in enzyme modified and natural Cheddar cheese using factorial design and response surface methodology.

    Science.gov (United States)

    Januszkiewicz, Julien; Sabik, Hassan; Azarnia, Sorayya; Lee, Byong

    2008-06-27

    A headspace solid-phase microextraction (HS-SPME) combined with gas chromatography-mass spectrometry (GC/MS) method was developed using experimental designs to quantify the flavor of commercial Cheddar cheese and enzyme-modified Cheddar cheese (EMCC). Seven target compounds (dimethyl disulfide, hexanal, hexanol, 2-heptanone, ethyl hexanoate, heptanoic acid, delta-decalactone) representative of different chemical families frequently present in Cheddar cheese were selected for this study. Three types of SPME fibres were tested: Carboxen/polydimethylsiloxane (CAR/PDMS), polyacrylate (PA) and Carbowax/divinylbenzene (CW/DVB). NaCl concentration and temperature, as well as extraction time were tested for their effect on the HS-SPME process. Two series of two-level full factorial designs were carried out for each fibre to determine the factors which best support the extraction of target flavors. Therefore, central composite designs (CCDs) were performed and response surface models were derived. Optimal extraction conditions for all selected compounds, including internal standards, were: 50 min at 55 degrees C in 3M NaCl for CAR/PDMS, 64 min at 62 degrees C in 6M NaCl for PA, and 37 min at 67 degrees C in 6M NaCl for CW/DVB. Given its superior sensitivity, CAR/PDMS fibre was selected to evaluate the target analytes in commercial Cheddar cheese and EMCC. With this fibre, calibration curves were linear for all targeted compounds (from 0.5 to 6 microg g(-1)), except for heptanoic acid which only showed a linear response with PA fibres. Detection limits ranged from 0.3 to 1.6 microg g(-1) and quantification limits from 0.8 to 3.6 microg g(-1). The mean repeatability value for all flavor compounds was 8.8%. The method accuracy is satisfactory with recoveries ranging from 97 to 109%. Six of the targeted flavors were detected in commercial Cheddar cheese and EMCC.

  1. Operating a production pilot factory serving several scientific domains

    Science.gov (United States)

    Sfiligoi, I.; Würthwein, F.; Andrews, W.; Dost, J. M.; MacNeill, I.; McCrea, A.; Sheripon, E.; Murphy, C. W.

    2011-12-01

    Pilot infrastructures are becoming prominent players in the Grid environment. One of the major advantages is represented by the reduced effort required by the user communities (also known as Virtual Organizations or VOs) due to the outsourcing of the Grid interfacing services, i.e. the pilot factory, to Grid experts. One such pilot factory, based on the glideinWMS pilot infrastructure, is being operated by the Open Science Grid at University of California San Diego (UCSD). This pilot factory is serving multiple VOs from several scientific domains. Currently the three major clients are the analysis operations of the HEP experiment CMS, the community VO HCC, which serves mostly math, biology and computer science users, and the structural biology VO NEBioGrid. The UCSD glidein factory allows the served VOs to use Grid resources distributed over 150 sites in North and South America, in Europe, and in Asia. This paper presents the steps taken to create a production quality pilot factory, together with the challenges encountered along the road.

  2. Kinetic models in industrial biotechnology - Improving cell factory performance.

    Science.gov (United States)

    Almquist, Joachim; Cvijovic, Marija; Hatzimanikatis, Vassily; Nielsen, Jens; Jirstrand, Mats

    2014-07-01

    An increasing number of industrial bioprocesses capitalize on living cells by using them as cell factories that convert sugars into chemicals. These processes range from the production of bulk chemicals in yeasts and bacteria to the synthesis of therapeutic proteins in mammalian cell lines. One of the tools in the continuous search for improved performance of such production systems is the development and application of mathematical models. To be of value for industrial biotechnology, mathematical models should be able to assist in the rational design of cell factory properties or in the production processes in which they are utilized. Kinetic models are particularly suitable towards this end because they are capable of representing the complex biochemistry of cells in a more complete way compared to most other types of models. They can, at least in principle, be used to in detail understand, predict, and evaluate the effects of adding, removing, or modifying molecular components of a cell factory and for supporting the design of the bioreactor or fermentation process. However, several challenges still remain before kinetic modeling will reach the degree of maturity required for routine application in industry. Here we review the current status of kinetic cell factory modeling. Emphasis is on modeling methodology concepts, including model network structure, kinetic rate expressions, parameter estimation, optimization methods, identifiability analysis, model reduction, and model validation, but several applications of kinetic models for the improvement of cell factories are also discussed.

  3. Proteomics analysis reveals diabetic kidney as a ketogenic organ in type 2 diabetes

    National Research Council Canada - National Science Library

    Dongjuan Zhang; Hang Yang; Xiaomu Kong; Kang Wang; Xuan Mao; Xianzhong Yan; Yuan Wang; Siqi Liu; Xiaoyan Zhang; Jing Li; Lihong Chen; Jing Wu; Mingfen Wei; Jichun Yang; Youfei Guan

    2011-01-01

    .... Proteomic analysis revealed that 3-hydroxy-3-methylglutaryl-CoA (HMG-CoA) synthase 2 (HMGCS2), the key enzyme in ketogenesis, was increased fourfold in the kidneys of type 2 diabetic db/db mice...

  4. Muon Colliders and Neutrino Factories

    Energy Technology Data Exchange (ETDEWEB)

    Kaplan, Daniel M. [IIT, Chicago

    2015-05-29

    Muon colliders and neutrino factories are attractive options for future facilities aimed at achieving the highest lepton-antilepton collision energies and precision measurements of Higgs boson and neutrino mixing matrix parameters. The facility performance and cost depend on how well a beam of muons can be cooled. Recent progress in muon cooling design studies and prototype tests nourishes the hope that such facilities could be built starting in the coming decade. The status of the key technologies and their various demonstration experiments is summarized. Prospects "post-P5" are also discussed.

  5. Muon Colliders and Neutrino Factories

    CERN Document Server

    Kaplan, Daniel M

    2014-01-01

    Muon colliders and neutrino factories are attractive options for future facilities aimed at achieving the highest lepton-antilepton collision energies and precision measurements of Higgs boson and neutrino mixing matrix parameters. The facility performance and cost depend on how well a beam of muons can be cooled. Recent progress in muon cooling design studies and prototype tests nourishes the hope that such facilities could be built starting in the coming decade. The status of the key technologies and their various demonstration experiments is summarized. Prospects "post-P5" are also discussed.

  6. Factorial Validity and Invariance of a Self-Report Measure of Physical Activity among Adolescent Girls

    Science.gov (United States)

    Motl, Robert W.; Dishman, Rod K.; Dowda, Marsha; Pate, Russell R.

    2004-01-01

    The authors examined the factorial validity and factorial invariance of the 3-day physical activity recall (3DPAR) using confirmatory factor analysis. Adolescent girls from two cohorts (N=955, N=1,797) completed the 3DPAR in the eighth grade; participants in Cohort 2 (N=1,658) completed the 3DPAR again 1 year later in the ninth grade. The 3DPAR…

  7. Factorial invariance of child self-report across age subgroups: a confirmatory factor analysis of ages 5 to 16 years utilizing the PedsQL 4.0 Generic Core Scales.

    Science.gov (United States)

    Limbers, Christine A; Newman, Daniel A; Varni, James W

    2008-01-01

    The utilization of health-related quality of life (HRQOL) measurement in an effort to improve pediatric health and well-being and determine the value of health care services has grown dramatically over the past decade. The paradigm shift toward patient-reported outcomes (PROs) in clinical trials has provided the opportunity to emphasize the value and essential need for pediatric patient self-report. In order for HRQOL/PRO comparisons to be meaningful for subgroup analyses, it is essential to demonstrate factorial invariance. This study examined age subgroup factorial invariance of child self-report for ages 5 to 16 years on more than 8,500 children utilizing the PedsQL 4.0 Generic Core Scales. Multigroup Confirmatory Factor Analysis (MGCFA) was performed specifying a five-factor model. Two multigroup structural equation models, one with constrained parameters and the other with unconstrained parameters, were proposed to compare the factor loadings across the age subgroups. Metric invariance (i.e., equal factor loadings) across the age subgroups was demonstrated based on stability of the Comparative Fit Index between the two models, and several additional indices of practical fit including the Root Mean Squared Error of Approximation, the Non-Normed Fit Index, and the Parsimony Normed Fit Index. The findings support an equivalent five-factor structure across the age subgroups. Based on these data, it can be concluded that children across the age subgroups in this study interpreted items on the PedsQL 4.0 Generic Core Scales in a similar manner regardless of their age.

  8. WQO is Decidable for Factorial Languages

    KAUST Repository

    Atminas, Aistis

    2017-08-08

    A language is factorial if it is closed under taking factors, i.e. contiguous subwords. Every factorial language can be described by an antidictionary, i.e. a minimal set of forbidden factors. We show that the problem of deciding whether a factorial language given by a finite antidictionary is well-quasi-ordered under the factor containment relation can be solved in polynomial time. We also discuss possible ways to extend our solution to permutations and graphs.

  9. Cassiopeia A: dust factory revealed via submillimetre polarimetry

    CERN Document Server

    Dunne, L; Ivison, R J; Rudnick, L; DeLaney, T A; Matthews, B C; Gomez, H L; Eales, S A

    2008-01-01

    If Type-II supernovae - the evolutionary end points of short-lived, massive stars - produce a significant quantity of dust (>0.1 M_sun) then they can explain the rest-frame far-infrared emission seen in galaxies and quasars in the first Gyr of the Universe. Submillimetre observations of the Galactic supernova remnant, Cas A, provided the first observational evidence for the formation of significant quantities of dust in Type-II supernovae. In this paper we present new data which show that the submm emission from Cas A is polarised at a level significantly higher than that of its synchrotron emission. The orientation is consistent with that of the magnetic field in Cas A, implying that the polarised submm emission is associated with the remnant. No known mechanism would vary the synchrotron polarisation in this way and so we attribute the excess polarised submm flux to cold dust within the remnant, providing fresh evidence that cosmic dust can form rapidly. The inferred dust polarisation fraction is unpreceden...

  10. Old supernova dust factory revealed at the Galactic center

    CERN Document Server

    Lau, Ryan M; Morris, Mark R; Li, Zhiyuan; Adams, Joseph D

    2015-01-01

    Dust formation in supernova ejecta is currently the leading candidate to explain the large quantities of dust observed in the distant, early Universe. However, it is unclear whether the ejecta-formed dust can survive the hot interior of the supernova remnant (SNR). We present infrared observations of ~0.02 $M_\\odot$ of warm (~100 K) dust seen near the center of the ~10,000 yr-old Sgr A East SNR at the Galactic center. Our findings signify the detection of dust within an older SNR that is expanding into a relatively dense surrounding medium ($n_e$ ~ 100 $\\mathrm{cm}^{-3}$) and has survived the passage of the reverse shock. The results suggest that supernovae may indeed be the dominant dust production mechanism in the dense environment of early Universe galaxies.

  11. Índice de Competitividad Municipal 2013: Metodología para su construcción basada en Análisis Factorial y su aplicación en municipios urbanos en México || Municipal Competitiveness Index 2013: Methodology of definition based on Factorial Analysis and application to Mexican urban municipalities

    Directory of Open Access Journals (Sweden)

    Guillermo Peón, Sylvia Beatriz

    2015-12-01

    Full Text Available El documento presenta una descripción detallada de la metodología para construir el Índice de Competitividad Municipal 2013 para México. El índice es calculado utilizando una metodología basada en Análisis Factorial y compara el desempeño de 96 municipios pertenecientes a 24 zonas metropolitanas en diferentes estados de la República Mexicana. El índice incluye 61 variables agrupadas en cuatro dimensiones o subíndices: Económica, Institucional, Socio-demográfica y Urbano Ambiental. El Índice de Competitividad Municipal es el promedio de los cuatro índices. Los resultados muestran evidencia de que los municipios pertenecientes a la zona metropolitana de Monterrey son los que en general tienen más alta posición en el ranking de competitividad y resaltan la necesidad de una mayor cooperación y coordinación intermunicipal para mejorar la competitividad de aquellos municipios que pertenecen a una misma zona metropolitana. El estudio se enfoca particularmente en el análisis de los factores de cada dimensión de la competitividad para los municipios del Estado de Puebla incluidos en la muestra. || This paper presents a detailed explanation of the methodology to construct the Municipal Competitiveness Index 2013 for Mexico. The index is calculated using a methodology based on Factor Analysis and compares the performance of 96 municipalities belonging to 24 metropolitan areas in different States of the Mexican Republic. The index includes 61 variables grouped into four dimensions or sub-indexes: Economic, Institutional, Socio-demographic and Urban-environmental. The Municipal Competitiveness Index is the average of the four indexes. The results show evidence that municipalities of Monterrey metropolitan area are, in general, the ones with higher position in the competitiveness ranking, and highlight the need of inter-municipal cooperation and coordination in order to improve competitiveness of those municipalities belonging to a common

  12. Manufacturing data analytics using a virtual factory representation.

    Science.gov (United States)

    Jain, Sanjay; Shao, Guodong; Shin, Seung-Jun

    2017-01-01

    Large manufacturers have been using simulation to support decision-making for design and production. However, with the advancement of technologies and the emergence of big data, simulation can be utilised to perform and support data analytics for associated performance gains. This requires not only significant model development expertise, but also huge data collection and analysis efforts. This paper presents an approach within the frameworks of Design Science Research Methodology and prototyping to address the challenge of increasing the use of modelling, simulation and data analytics in manufacturing via reduction of the development effort. The use of manufacturing simulation models is presented as data analytics applications themselves and for supporting other data analytics applications by serving as data generators and as a tool for validation. The virtual factory concept is presented as the vehicle for manufacturing modelling and simulation. Virtual factory goes beyond traditional simulation models of factories to include multi-resolution modelling capabilities and thus allowing analysis at varying levels of detail. A path is proposed for implementation of the virtual factory concept that builds on developments in technologies and standards. A virtual machine prototype is provided as a demonstration of the use of a virtual representation for manufacturing data analytics.

  13. Estudio de la dimensionalidad empleando análisis factorial clásico y análisis factorial de información total: análisis de pruebas de matemáticas de primaria (5º y 6º cursos y secundaria obligatoria. [Study of dimensionality using classic factor analysis and full information factor analysis: analysis of primary (5th and 6th degrees and compulsory secondary mathematics tests

    Directory of Open Access Journals (Sweden)

    Joaristi, Luis

    2008-10-01

    Full Text Available The aim of this paper is to analyze the dimensional structure of a set of mathematical achievement tests used to assess the academic achievement in the Community of Madrid during 2005-06 and 2006-07 years and in three cohorts corresponding to the following academic degrees: 5th-6th of primary education, 1st-2nd and 3-4th of compulsory secondary education (ESO. The results coming from classical factor analysis and full information factor analysis are compared. Therefore a longitudinal study is performed in order to test whether such structure remains constant along time. The results confirm that most of the tests are mostly unidimensional structures. Meanwhile, it was proven that as the complexity of the contents increase, the complexity of the dimensional structure tests increase as well. El objetivo de este trabajo es analizar la estructura dimensional de las pruebas empleadas para evaluar el rendimiento académico en la asignatura de matemáticas en el contexto de la evaluación realizada en la Comunidad de Madrid en los cursos académicos 2005-06 y 2006-07 en tres cohortes: 5º y 6º de Educación Primaria, 1º-2º y 3º-4º de ESO. Para ello, se triangulan los resultados obtenidos de la aplicación de las técnicas factoriales clásicas con los del Análisis Factorial de Información total. Asimismo, se realiza un estudio longitudinal con objeto de ver si dicha estructura se mantiene constante a lo largo del tiempo. Los resultados confirman estructuras esencialmente unidimensionales. A su vez, se comprueba que el aumento de la complejidad de los contenidos implica un aumento en la complejidad de la estructura dimensional de las pruebas.

  14. The evaluation of microfungal contamination of dust created during woodworking in furniture factories

    Directory of Open Access Journals (Sweden)

    Tomasz Rogoziński

    2014-12-01

    Full Text Available Background: Microscopic fungi are the biological agent of occupational risk in the woodworking environment. Microbiological and chemical methods were used for determination of their concentration and species composition in dust. Material and Methods: Dust was sampled in 3 factories producing furniture using different materials. The 1st factory (A processes solid wood, the 2nd (B – chipboards and the 3rd factory (C uses both wood and wood composites. The samples were collected in 12 different workstations and locations in each factory. The quantitative content of fungal biomass was determined basing on analysis of ergosterol (ERG. The species composition of fungi was analyzed using the microbiological method basing on culture morphology. Results: The concentration of ergosterol was relatively low and ranged from 0.012 mg/kg to 3.36 mg/kg. The average value of ERG amounted to 1.25 mg/kg in factories A and C and 1.15 mg/kg in factory B. The most frequently isolated fungi in factory A and B were Penicillum and Aspergillus. However, in the factory C, only Trichoderma was isolated. The maximum concentration of fungi in dust collected in factory B was 2377 cfu/g and it is 3 times more than in the dust from factories A and C. Conclusions: Workers of furniture factories may be exposed to airborne fungi associated with the wood dust posing health hazard. The content of these fungi is relatively small (ERG – max: 3.36 mg/kg but the species, especially genera Penicillum and Aspergillus, found in the dust which were reported as having allergic and toxic properties. Med Pr 2014;65(6:705–713

  15. Factorial design studies of antiretroviral drug-loaded stealth liposomal injectable: PEGylation, lyophilization and pharmacokinetic studies

    Science.gov (United States)

    Sudhakar, Beeravelli; Krishna, Mylangam Chaitanya; Murthy, Kolapalli Venkata Ramana

    2016-01-01

    The aim of the present study was to formulate and evaluate the ritonavir-loaded stealth liposomes by using 32 factorial design and intended to delivered by parenteral delivery. Liposomes were prepared by ethanol injection method using 32 factorial designs and characterized for various physicochemical parameters such as drug content, size, zeta potential, entrapment efficiency and in vitro drug release. The optimization process was carried out using desirability and overlay plots. The selected formulation was subjected to PEGylation using 10 % PEG-10000 solution. Stealth liposomes were characterized for the above-mentioned parameters along with surface morphology, Fourier transform infrared spectrophotometer, differential scanning calorimeter, stability and in vivo pharmacokinetic studies in rats. Stealth liposomes showed better result compared to conventional liposomes due to effect of PEG-10000. The in vivo studies revealed that stealth liposomes showed better residence time compared to conventional liposomes and pure drug solution. The conventional liposomes and pure drug showed dose-dependent pharmacokinetics, whereas stealth liposomes showed long circulation half-life compared to conventional liposomes and pure ritonavir solution. The results of statistical analysis showed significance difference as the p value is (<0.05) by one-way ANOVA. The result of the present study revealed that stealth liposomes are promising tool in antiretroviral therapy.

  16. A Tau-Charm Factory at CEBAF

    Energy Technology Data Exchange (ETDEWEB)

    Seth, K.K. [Northwestern Univ., Evanston, IL (United States)

    1994-04-01

    It is proposed that a Tau Charm Factory represents a natural extension of CEBAF into higher energy domains. The exciting nature of the physics of charm quarks and tau leptons is briefly reviewed and it is suggested that the concept of a linac-ring collider as a Tau Charm Factory at CEBAF should be seriously studied.

  17. 27 CFR 40.114 - Extension or curtailment of factory.

    Science.gov (United States)

    2010-04-01

    ... of factory. 40.114 Section 40.114 Alcohol, Tobacco Products and Firearms ALCOHOL AND TOBACCO TAX AND... Products Changes in Location of Factory § 40.114 Extension or curtailment of factory. Where a tobacco products factory is to be changed to an extent which will make inaccurate the description of the factory...

  18. Sexual liberalism / conservatism: proposal of a multi-factorial measurement / Liberalismo / conservadorismo sexual: proposta de uma medida multi-fatorial

    Directory of Open Access Journals (Sweden)

    Valeschka M. Guerra

    2007-01-01

    Full Text Available This study aims at presenting a multi-factorial measurement of sexual liberalism/conservatism. New items were added to the Sexual Attitudes Questionnaire and two studies were developed. During the first study, the participants answered the Sexual Attitudes Questionnaire, divided in two sub-scales (Self and Other, and demographic questions. The results of the exploratory factor analysis showed a general factor of sexual liberalism/conservatism. In the second study, the participants answered the Sexual Liberalism/Conservatism Questionnaire (SLCQ, the Moral Conservatism Scale, the Moral Traditionalism Scale and demographic questions. By means of a confirmatory factorial analysis, the multi-factorial structure of the SLCQ was confirmed, revealing acceptable indexes of goodness-of-fit. The Cronbach's Alpha found to the second order factors were .88 (Self and .90 (Other. All factors of liberalism correlated themselves with each other and with the conservatism and traditionalism scales, corroborating the convergent validity of the psychometric instrument, wich proved its adequacy for use in the Brazilian context.

  19. Transcriptome analysis reveals key differentially expressed genes involved in wheat grain development

    Institute of Scientific and Technical Information of China (English)

    Yonglong Yu; Dong Zhu; Chaoying Ma; Hui Cao; Yaping Wang; Yanhao Xu; Wenying Zhang; Yueming Yan

    2016-01-01

    Wheat seed development is an important physiological process of seed maturation and directly affects wheat yield and quality. In this study, we performed dynamic transcriptome microarray analysis of an elite Chinese bread wheat cultivar (Jimai 20) during grain development using the GeneChip Wheat Genome Array. Grain morphology and scanning electron microscope observations showed that the period of 11–15 days post-anthesis (DPA) was a key stage for the synthesis and accumulation of seed starch. Genome-wide transcriptional profiling and significance analysis of microarrays revealed that the period from 11 to 15 DPA was more important than the 15–20 DPA stage for the synthesis and accumulation of nutritive reserves. Series test of cluster analysis of differential genes revealed five statistically significant gene expression profiles. Gene ontology annotation and enrichment analysis gave further informa-tion about differentially expressed genes, and MapMan analysis revealed expression changes within functional groups during seed development. Metabolic pathway network analysis showed that major and minor metabolic pathways regulate one another to ensure regular seed development and nutritive reserve accumulation. We performed gene co-expression network analysis to identify genes that play vital roles in seed development and identified several key genes involved in important metabolic pathways. The transcriptional expression of eight key genes involved in starch and protein synthesis and stress defense was further validated by qRT-PCR. Our results provide new insight into the molecular mechanisms of wheat seed development and the determinants of yield and quality.

  20. Transcriptome analysis reveals key differentially expressed genes involved in wheat grain development

    Directory of Open Access Journals (Sweden)

    Yonglong Yu

    2016-04-01

    Full Text Available Wheat seed development is an important physiological process of seed maturation and directly affects wheat yield and quality. In this study, we performed dynamic transcriptome microarray analysis of an elite Chinese bread wheat cultivar (Jimai 20 during grain development using the GeneChip Wheat Genome Array. Grain morphology and scanning electron microscope observations showed that the period of 11–15 days post-anthesis (DPA was a key stage for the synthesis and accumulation of seed starch. Genome-wide transcriptional profiling and significance analysis of microarrays revealed that the period from 11 to 15 DPA was more important than the 15–20 DPA stage for the synthesis and accumulation of nutritive reserves. Series test of cluster analysis of differential genes revealed five statistically significant gene expression profiles. Gene ontology annotation and enrichment analysis gave further information about differentially expressed genes, and MapMan analysis revealed expression changes within functional groups during seed development. Metabolic pathway network analysis showed that major and minor metabolic pathways regulate one another to ensure regular seed development and nutritive reserve accumulation. We performed gene co-expression network analysis to identify genes that play vital roles in seed development and identified several key genes involved in important metabolic pathways. The transcriptional expression of eight key genes involved in starch and protein synthesis and stress defense was further validated by qRT-PCR. Our results provide new insight into the molecular mechanisms of wheat seed development and the determinants of yield and quality.

  1. Mobile monitoring and embedded control system for factory environment.

    Science.gov (United States)

    Lian, Kuang-Yow; Hsiao, Sung-Jung; Sung, Wen-Tsai

    2013-12-17

    This paper proposes a real-time method to carry out the monitoring of factory zone temperatures, humidity and air quality using smart phones. At the same time, the system detects possible flames, and analyzes and monitors electrical load. The monitoring also includes detecting the vibrations of operating machinery in the factory area. The research proposes using ZigBee and Wi-Fi protocol intelligent monitoring system integration within the entire plant framework. The sensors on the factory site deliver messages and real-time sensing data to an integrated embedded systems via the ZigBee protocol. The integrated embedded system is built by the open-source 32-bit ARM (Advanced RISC Machine) core Arduino Due module, where the network control codes are built in for the ARM chipset integrated controller. The intelligent integrated controller is able to instantly provide numerical analysis results according to the received data from the ZigBee sensors. The Android APP and web-based platform are used to show measurement results. The built-up system will transfer these results to a specified cloud device using the TCP/IP protocol. Finally, the Fast Fourier Transform (FFT) approach is used to analyze the power loads in the factory zones. Moreover, Near Field Communication (NFC) technology is used to carry out the actual electricity load experiments using smart phones.

  2. Mobile Monitoring and Embedded Control System for Factory Environment

    Directory of Open Access Journals (Sweden)

    Kuang-Yow Lian

    2013-12-01

    Full Text Available This paper proposes a real-time method to carry out the monitoring of factory zone temperatures, humidity and air quality using smart phones. At the same time, the system detects possible flames, and analyzes and monitors electrical load. The monitoring also includes detecting the vibrations of operating machinery in the factory area. The research proposes using ZigBee and Wi-Fi protocol intelligent monitoring system integration within the entire plant framework. The sensors on the factory site deliver messages and real-time sensing data to an integrated embedded systems via the ZigBee protocol. The integrated embedded system is built by the open-source 32-bit ARM (Advanced RISC Machine core Arduino Due module, where the network control codes are built in for the ARM chipset integrated controller. The intelligent integrated controller is able to instantly provide numerical analysis results according to the received data from the ZigBee sensors. The Android APP and web-based platform are used to show measurement results. The built-up system will transfer these results to a specified cloud device using the TCP/IP protocol. Finally, the Fast Fourier Transform (FFT approach is used to analyze the power loads in the factory zones. Moreover, Near Field Communication (NFC technology is used to carry out the actual electricity load experiments using smart phones.

  3. [Detection of occupational hazards in a large shipbuilding factory].

    Science.gov (United States)

    Du, Weijia; Wang, Zhi; Zhang, Hai; Zhou, Liping; Huang, Minzhi; Liu, Yimin

    2014-03-01

    To provide evidence for the prevention and treatment of occupational diseases by the analysis of existing major occupational hazards and health conditions of workers in a large shipbuilding factory. Field investigation of occupational conditions was conducted to examine the existence of occupational hazards from 2009 to 2012 in a large shipbuilding factory, and then the results of physical examination among its workers were analyzed. Other than the metal dust (total dust), the levels of other dusts and manganese dioxide were beyond the national standard to various degrees, and through a sampling point detection, it was found that the levels of manganese dioxide exceeded the standard by 42.8%. The maximum time-weighted average concentration in individuals was 27.927 mg/m(3), much higher than the national standard limit. For harmful gas detection in individuals, xylene was 38.4%above the standard level (the highest concentration reached 1447.7 mg/m(3)); moreover, both toluene and ethylbenzene exceeded the national standard at different levels. Among the noise-exposed workers, 71%worked in the environment where the daily noise was above the limit of the national standard (85 dB). Physical examinations in 2010 and 2012 showed that the abnormal rate of audiometry in workers was higher than 15%. Dust (total dust), manganese dioxide, benzene, and noise are the main occupational hazards among the workers in the large shipbuilding factory, and strict protection and control for these hazards should be implemented for the workers in the factory.

  4. Using team cognitive work analysis to reveal healthcare team interactions in a birthing unit.

    Science.gov (United States)

    Ashoori, Maryam; Burns, Catherine M; d'Entremont, Barbara; Momtahan, Kathryn

    2014-01-01

    Cognitive work analysis (CWA) as an analytical approach for examining complex sociotechnical systems has shown success in modelling the work of single operators. The CWA approach incorporates social and team interactions, but a more explicit analysis of team aspects can reveal more information for systems design. In this paper, Team CWA is explored to understand teamwork within a birthing unit at a hospital. Team CWA models are derived from theories and models of teamwork and leverage the existing CWA approaches to analyse team interactions. Team CWA is explained and contrasted with prior approaches to CWA. Team CWA does not replace CWA, but supplements traditional CWA to more easily reveal team information. As a result, Team CWA may be a useful approach to enhance CWA in complex environments where effective teamwork is required. This paper looks at ways of analysing cognitive work in healthcare teams. Team Cognitive Work Analysis, when used to supplement traditional Cognitive Work Analysis, revealed more team information than traditional Cognitive Work Analysis. Team Cognitive Work Analysis should be considered when studying teams.

  5. The Analysis of the Reliability and Factorial Validity in the Basic Characteristics of Isometric F-t curve of the Leg Extensors in Well Trained Serbian Males and Females

    Science.gov (United States)

    Dopsaj, Milivoj; Ivanović, Jelena

    2011-01-01

    The aim of this research was to establish the reliability and factorial validity of different isometric basic characteristics of F-t curve related to leg extensors in well trained and healthy Serbian males and females. Sample consisted of 159 examinees. In order to assess characteristics of the F-t isometric leg extensor force, tensiometric probe and standardized "seating leg extension" test were used. The measurement range was defined by 4 variables regarding the contractile characteristics of the leg extensor isometric muscle force - 1) the level of the achieved maximal force - FmaxLegExtISO, 2) the indicator of basic (general) level of rate of force development - RFDBASICLegExtISO, 3) the time necessary to reach maximal force - tFmaxLegExtISO, 4) basic synergy index. The results showed a high statistical significance of p<0.001 in representability, generalizability and reliability for all the characteristics observed in both genders (Spearman-Brown r - 0.715 to 0.967 for males and 0.713 to 0.941 for females). As for the methodology aspect of testing, the factor analysis demonstrated the necessity of conducting at least three trials, choosing the best result from the two last trials.

  6. 某低碳科技园厂区会所空调冷热源方案分析%Scheme Analysis about Air-conditioning Cold/heat Source System of aLow Carbon Science Park Factory Club

    Institute of Scientific and Technical Information of China (English)

    李帅; 祝健

    2012-01-01

    According to a low Carbon Science Park Factory Club of Hefei project characteristics and environmental conditions,puts forward three suitable cold and heat sources(including heating) scheme for this purpose,and makes a thorough analysis on each scheme.By comparison of the economic results,choose a best suitable cold and heat sources scheme for this project requirement-ground source heat pump+solar coupling system.Finally introduces the working principle of such system scheme.%根据合肥某低碳科技园厂区会所项目特点和环境条件,提出了三种适合该项目的空调冷热源(包括加热热源)方案,并针对每种方案进行了深入的经济性分析。由对比分析结果,筛选出了最适合本工程要求的空调冷热源方案—地源热泵+太阳能耦合系统,最后重点阐述了该系统方案的工作原理。

  7. Factorial invariance of child self-report across healthy and chronic health condition groups: a confirmatory factor analysis utilizing the PedsQLTM 4.0 Generic Core Scales.

    Science.gov (United States)

    Limbers, Christine A; Newman, Daniel A; Varni, James W

    2008-07-01

    The objective of the present study was to examine the factorial invariance of the PedsQL 4.0 Generic Core Scales for child self-report across 11,433 children ages 5-18 with chronic health conditions and healthy children. Multigroup Confirmatory Factor Analysis was performed specifying a five-factor model. Two multigroup structural equation models, one with constrained parameters and the other with unconstrained parameters, were proposed in order to compare the factor loadings across children with chronic health conditions and healthy children. Metric invariance (i.e., equal factor loadings) was demonstrated based on stability of the Comparative Fit Index (CFI) between the two models, and several additional indices of practical fit including the root mean squared error of approximation, the Non-normed Fit Index, and the Parsimony Normed Fit Index. The findings support an equivalent five-factor structure on the PedsQL 4.0 Generic Core Scales across healthy and chronic health condition groups. These findings suggest that when differences are found across chronic health condition and healthy groups when utilizing the PedsQL, these differences are more likely real differences in self-perceived health-related quality of life, rather than differences in interpretation of the PedsQL items as a function of health status.

  8. The Wechsler Adult Intelligence Scale (WAIS), but not the Defence Mechanism Test (DMTm), separates schizophrenics and normal controls in a factorial cluster analysis.

    Science.gov (United States)

    Jönsson, S A

    1998-06-01

    Ten schizophrenic patients and ten healthy control subjects matched with respect to sex, age and education were tested by a psychological test battery including WAIS, WCST, FAS and a modified version of the tachistoscopic Defence Mechanism Test (DMTm). In a Q-factor analysis two factors were derived in the analysis of DMTm test scores. The distribution of cases among these factors was wholly at random. On the other hand, when analysing WAIS scores, five factors were derived and schizophrenic cases as well as control subjects were almost unequivocally clustered by different factors. It is argued that also if an unequivocal categorisation of cases had been achieved in the analysis of DMTm data, such a finding might well have been interpreted as an effect of anomalies in cerebral structures assumed to be of critical importance in the filtering of signals in the stream of visual perception. The existence of such anomalies in schizophrenics is now well established by neuroimaging as well as postmortem studies, and findings are also well in accordance with phenomenological and physiological data. The failure of DMTm to separate schizophrenic and control subjects does thus make the second and important step in a discussion on validity entirely superfluous, namely whether signs recorded really measure what they are assumed to measure, in this case defence mechanisms in a psychoanalytic sense.

  9. Neutrino factories: realization and physics potential

    Energy Technology Data Exchange (ETDEWEB)

    Geer, S.; /Fermilab; Zisman, M.S.; /LBL, Berkeley

    2006-12-01

    Neutrino Factories offer an exciting option for the long-term neutrino physics program. This new type of neutrino facility will provide beams with unique properties. Low systematic uncertainties at a Neutrino Factory, together with a unique and precisely known neutrino flavor content, will enable neutrino oscillation measurements to be made with unprecedented sensitivity and precision. Over recent years, the resulting neutrino factory physics potential has been discussed extensively in the literature. In addition, over the last six years the R&D necessary to realize a Neutrino Factory has been progressing, and has developed into a significant international activity. It is expected that, within about five more years, the initial phase of this R&D program will be complete and, if the community chooses to build this new type of neutrino source within the following decade, neutrino factory technology will be ready for the final R&D phase prior to construction. In this paper (1) an overview is given of the technical ingredients needed for a Neutrino Factory, (2) beam properties are described, (3) the resulting neutrino oscillation physics potential is summarized, (4) a more detailed description is given for one representative Neutrino Factory design, and (5) the ongoing R&D program is summarized, and future plans briefly described.

  10. Ultrastructural Characterization of Zika Virus Replication Factories

    Directory of Open Access Journals (Sweden)

    Mirko Cortese

    2017-02-01

    Full Text Available A global concern has emerged with the pandemic spread of Zika virus (ZIKV infections that can cause severe neurological symptoms in adults and newborns. ZIKV is a positive-strand RNA virus replicating in virus-induced membranous replication factories (RFs. Here we used various imaging techniques to investigate the ultrastructural details of ZIKV RFs and their relationship with host cell organelles. Analyses of human hepatic cells and neural progenitor cells infected with ZIKV revealed endoplasmic reticulum (ER membrane invaginations containing pore-like openings toward the cytosol, reminiscent to RFs in Dengue virus-infected cells. Both the MR766 African strain and the H/PF/2013 Asian strain, the latter linked to neurological diseases, induce RFs of similar architecture. Importantly, ZIKV infection causes a drastic reorganization of microtubules and intermediate filaments forming cage-like structures surrounding the viral RF. Consistently, ZIKV replication is suppressed by cytoskeleton-targeting drugs. Thus, ZIKV RFs are tightly linked to rearrangements of the host cell cytoskeleton.

  11. Changing Charlie and the Chocolate Factory

    OpenAIRE

    2014-01-01

    In this essay the various underlying themes in the two film adaptations of Roald Dahl’s book Charlie and the Chocolate Factory (1964) are examined. These film adaptations, Charlie and the Chocolate Factory (2005) directed by Tim Burton and Willy Wonka and the Chocolate Factory (1971) directed by Mel Stuart are discussed, in order to refute critical views such as found in a review by Bernard Beck. Beck states that Tim Burton’s film is darker and closer to Dahl’s original tale, whilst Mel Stuar...

  12. Analysis of self-overlap reveals trade-offs in plankton swimming trajectories

    DEFF Research Database (Denmark)

    Mariani, Patrizio; Visser, Andre W.; Mazzocchi, Maria Grazia

    2014-01-01

    these contrasting processes. This trade-off can be hypothesized as being evident in the behaviour of plankton, which inhabit a dilute three-dimensional environment with few refuges or orienting landmarks. We present an analysis of the swimming path geometries based on a volumetric Monte Carlo sampling approach......, which is particularly adept at revealing such trade-offs by measuring the self-overlap of the trajectories. Application of this method to experimentally measured trajectories reveals that swimming patterns in copepods are shaped to efficiently explore volumes at small scales, while achieving a large...

  13. Proteomic and genomic analysis reveals novel Campylobacter jejuni outer membrane proteins and potential heterogeneity.

    Science.gov (United States)

    Watson, Eleanor; Sherry, Aileen; Inglis, Neil F; Lainson, Alex; Jyothi, Dushyanth; Yaga, Raja; Manson, Erin; Imrie, Lisa; Everest, Paul; Smith, David G E

    2014-09-01

    Gram-negative bacterial outer membrane proteins play important roles in the interaction of bacteria with their environment including nutrient acquisition, adhesion and invasion, and antibiotic resistance. In this study we identified 47 proteins within the Sarkosyl-insoluble fraction of Campylobacter jejuni 81-176, using LC-ESI-MS/MS. Comparative analysis of outer membrane protein sequences was visualised to reveal protein distribution within a panel of Campylobacter spp., identifying several C. jejuni-specific proteins. Smith-Waterman analyses of C. jejuni homologues revealed high sequence conservation amongst a number of hypothetical proteins, sequence heterogeneity of other proteins and several proteins which are absent in a proportion of strains.

  14. Exploratory and confirmatory factory analysis of the Willingness to Eat Whole Grains Questionnaire: A measure of young adults' attitudes toward consuming whole grain foods.

    Science.gov (United States)

    Tuuri, Georgianna; Cater, Melissa; Craft, Brittany; Bailey, Ariana; Miketinas, Derek

    2016-10-01

    Whole grains are recommended by dietary guidelines because of their health-promoting properties, yet attitudes toward consuming these foods have not been examined. This study developed and validated a questionnaire to estimate willingness to consume whole grain foods. Focus group interviews with high school students and input from nutrition educators produced a list of 10 whole grain items that were included in the "Willingness to Eat Whole Grains Questionnaire". Young adult university students 18-29 years of age indicated their willingness to consume each of the whole grain foods using a 4-point, Likert-type scale with responses ranging from "always unwilling" to "always willing" and a fifth option of "never eaten". Participants' age, race/ethnicity, and gender were collected. Data were examined using exploratory factor analysis (EFA), confirmatory factor analysis (CFA), and test-retest reliability. The EFA test (n = 266; 65% female; 69% white) using principal axis factoring returned a single factor that included all survey items and explained 58.3% of the variance. The CFA (n = 252; 62% female, 74% white) supported a single-factor solution: χ(2) = 80.57 (35); RMSEA = 0.07; Comparative Fit Index = 0.92; Tucker-Lewis Index = 0.90; and SRMR = 0.05. The questionnaire, administered on two occasions separated by two weeks to 36 university students, demonstrated good testretest reliability (r = 0.87, p Whole Grains Questionnaire" had good face validity when used with a young adult population and will be a useful tool to help nutrition educators examine attitudes toward consuming nutrient-rich whole grain foods.

  15. Functional Movement Screen Factorial Validity and Measurement Invariance Across Sex Among Collegiate Student-Athletes.

    Science.gov (United States)

    Gnacinski, Stacy L; Cornell, David J; Meyer, Barbara B; Arvinen-Barrow, Monna; Earl-Boehm, Jennifer E

    2016-12-01

    Gnacinski, SL, Cornell, DJ, Meyer, BB, Arvinen-Barrow, M, and Earl-Boehm, JE. Functional Movement Screen factorial validity and measurement invariance across sex among collegiate student-athletes. J Strength Cond Res 30(12): 3388-3395, 2016-The Functional Movement Screen (FMS) is a screening tool used to evaluate functional movement quality and subsequent musculoskeletal injury risk. Despite recent research on the factorial validity of the FMS, no confirmatory factor analysis (CFA) has been conducted to examine measurement invariance across sex among student-athletes. The primary purpose of the current study was to confirm the factor structure of the FMS measurement model in a collegiate student-athlete population. It was hypothesized that the 1-factor model would demonstrate better model fit than the recently proposed 2-factor model. The secondary purpose of the study was to examine FMS measurement invariance across sex using the previously identified measurement model. It was hypothesized that FMS measurement invariance would hold across sex. Male (n = 88) and female (n = 88) collegiate student-athletes completed FMS screening during the off-season. Factorial validity was examined using CFA procedures, and model parameters were estimated using maximum likelihood estimation. Measurement invariance was examined by comparison of fit indices between hierarchically constrained models. Results revealed support for both the 1- and the 2-factor models; however, the 2-factor model failed to fit the data significantly better than the 1-factor model. Results also indicated that measurement invariance did not hold across sex, indicating that the FMS sum score construct is not measured equivalently in male and female populations. Collectively, results provide evidence for the use of the unidimensional FMS sum score among collegiate student-athletes, yet prompt caution because it relates to the evaluation of sex differences in sum or movement pattern scores.

  16. Escala de atitudes frente ao HIV/AIDS: análise de fatores HIV/AIDS attitudes scale: factorial analysis

    Directory of Open Access Journals (Sweden)

    Nelson Silva Filho

    2007-01-01

    Full Text Available OBJETIVO: Este trabalho apresenta resultados acerca das propriedades psicométricas da "Escala de atitudes frente ao HIV/AIDS". Os dados, provenientes de uma amostra de 549 alunos entre universitários, ensinos médio e ensino fundamental. MÉTODOS: Os dados foram tratados pelo método dos componentes principais da análise fatorial. A análise final, postulado um eigenvalue mínimo de 2, resultou cinco fatores. Foram eliminados itens que apresentaram carga fatorial menor que 0,30. Neste estudo, o menor alfa observado foi de 0,79. Portanto, é provável que todos os 47 itens do instrumento final elaborado meçam o mesmo construto: atitude frente ao HIV/AIDS. RESULTADOS: Escores inferiores a 96 foram considerados "fraco grau de conhecimento sobre HIV/AIDS"; entre 96 e 192 "moderado grau de conhecimento" e acima de 192 "alto grau de conhecimento sobre HIV/AIDS". Foram estabelecidos os fatores: 1, 2 e 3, sendo "fator geral de percepção da informação técnico-científica"; "fator de percepção da informação técnico-científica versus sexualidade e preconceito"; "fator de percepção da informação técnico-científica no uso de drogas", respectivamente. CONCLUSÕES: O alfa de Cronbach encontrado para a escala como um todo foi de 0,859, sugerindo fortemente a existência da fidedignidade do instrumento que se mostrou útil para avaliar o grau de conhecimento acerca do HIV/AIDS e o risco decorrente do desconhecimento, entre estudantes.OBJETIVE: This paper presents results related to the psychometric properties of the Escala de atitudes frente a HIV/AIDS (Attitudes Towards HIV/AIDS Scale. METHODS: The data was derived from a sample with 549 high and elementary school level students. The data was treated by Principal Components Analysis (PCA and Factor Analysis (FA. The final analysis resulted in 5 factors, given a minimal eigenvalue 2. Factor load items lower than 0.30 were excluded. In this study, the lowest alpha observed was 0.79. Therefore

  17. Numerical Analysis of the Measurement of Near-Beam Electron Cloud Density in Field-Free Region at KEK B-Factory Low-Energy Ring

    Science.gov (United States)

    Jain, Puneet; Fukuma, Hitoshi; Kanazawa, Ken-ichi; Suetsugu, Yusuke

    2010-11-01

    A large number of electrons in the so-called electron cloud are accumulated in beam chambers in positron storage rings. These electrons interact with the beam and can make the beam unstable. The density information of the electron cloud near the beam is therefore fundamental for studying beam instability and mitigation techniques related to the electron cloud. Recently, a method to measure the density of the electron cloud near the beam has been proposed by Kanazawa et al. The method enables the measurement of high-energy electrons selectively using a retarding field analyzer located on a chamber wall, noting that the electrons near the beam receive a strong kick by the beam. They calculated the density of the electron cloud simply assuming that the electrons that receive a kick are stationary. We examined the measurement technique in detail using a new computer code developed by us. The analysis showed that the volume near the beam occupied by the detected electrons, i.e., the observed volume, was strongly deformed owing to the horizontal velocity of the electrons; nevertheless this volume calculated assuming that the stationary electrons can still be used for calculating the density of the electron cloud in their measurement conditions.

  18. Inventário de Depressão de Beck - BDI: validação fatorial para mulheres com câncer Beck Depression Inventory - BDI: factorial analysis for women with cancer

    Directory of Open Access Journals (Sweden)

    Rita de Cássia Gandini

    2007-06-01

    Full Text Available Este estudo teve por objetivo validar fatorialmente o Inventário de Depressão de Beck - BDI para uma amostra de 208 mulheres com câncer. A validação fatorial do BDI foi realizada por meio da análise fatorial, método de extração dos componentes principais e rotação oblimin, tendo sido identificadas duas soluções fatoriais, uma bifatorial - sendo F1 composto por 8 itens (a = 0,82 denominado "visão negativa de si mesmo", explicando 32,4% da variância e F2 com 5 itens (a = 0,77 denominado "função física", explicando 8% da variância - e outra unifatorial com 13 itens, com fidedignidade altamente satisfatória (a = 0,86 denominada "depressão", explicando 38% da variância total.This study refers to the factor analysis of the Beck Depression Inventory - BDI in a population composed by 208 women with cancer. The extraction method was principal components and the rotation procedure was oblimin. The BDI factorial analysis was done through the oblimin rotation, finding two solutions possibilities. One with two factors solution - the first one with 8 items (a = 0,82, called "negative view of self", explaining 32,4% of the variance and the second factor with 5 items (a = 0,77, called "physical function", explaining 8% of the variance - and other with one factor solution with 13 items, with really satisfactory reliability of 0,86, called "depression" and explaining 38% of the total variance.

  19. Análise fatorial do Questionário de Estilos Parentais (PAQ em uma amostra de adultos jovens universitários The factorial analysis of Parental Authoritative Questionnaire in a sample of college young adults

    Directory of Open Access Journals (Sweden)

    Mariana Gonçalves Boeckel

    2005-06-01

    Full Text Available O objetivo deste estudo é investigar a estrutura fatorial do Questionário de Estilos Parentais (PAQ desenvolvido por John Buri. A amostra estratificada foi composta por 323 estudantes de ambos os sexos que cursam uma universidade particular. Foi utilizada a análise de componentes principais, com rotação oblimin, empregando a regra de Kaiser (retenção dos autovalores maiores que 1. A análise demonstrou a presença de três fatores com autovalores superiores a 1. O total dos fatores explica 43,96% da variância total do construto estilos parentais. O primeiro fator explica 25,70%; o segundo, 11,77%; e o terceiro, 6,49%. Os três fatores alcançaram um nível de consistência interna satisfatório. Os resultados sugerem possibilidades positivas de aplicação do instrumento em nossa realidade, mas faz-se necessário o desenvolvimento de futuros estudos sobre o instrumento em amostras diversificadas.The aim of this study was to investigate the factorial structure of the Parental Authoritative Questionnaire (PAQ elaborated by John Buri. The stratified sample was composed of 323 male and female private university students. It was used principal components analysis, with oblimin rotation, using the Kaiser rule (retention of eigenvalues higher than 1. The analysis showed tree factors with eigenvalues superior than 1. The total of the factors explains 43,96% of the total variance about the parental style construct. The first factor explains 25,70%, the second one, 11,77% and the third one, 6,49%. The tree factors had satisfactory internal consistence. The results suggests positive measure's applications on our reality, but it is necessary the development of future studies concerning this questionnaire in diversified samples.

  20. Verbal and Nonverbal Communication of Factory Workers

    Science.gov (United States)

    Tway, Patricia

    1976-01-01

    Examines the verbal and nonverbal behavior patterns associated with two speech styles, one formal and the other informal, among factory workers. Available from: Mouton Publishers, Box 482, the Hague, Netherlands. (AM)

  1. for a cottage cashew juice factory.

    African Journals Online (AJOL)

    facilities under the small-scale enterprise scheme to adopt this technology. Introduction ... export earnings in Nigeria which increased to N743 ... areas and further increase in world .... Cost, Returns and Probability of the juice Extraction Factory.

  2. Verbal and Nonverbal Communication of Factory Workers

    Science.gov (United States)

    Tway, Patricia

    1976-01-01

    Examines the verbal and nonverbal behavior patterns associated with two speech styles, one formal and the other informal, among factory workers. Available from: Mouton Publishers, Box 482, the Hague, Netherlands. (AM)

  3. HiPER Tritium factory elements

    Science.gov (United States)

    Guillaume, Didier

    2011-06-01

    HiPER will include a Tritium target factory. This presentation is an overview. We start from process ideas to go to first sketch passing through safety principles. We will follow the Tritium management process. We need first a gas factory producing the right gas mixture from hydrogen, Deuterium and Tritium storage. Then we could pass through the target factory. It is based on our LMJ single shot experiment and some new development like the injector. Then comes pellet burst and vapour recovery. The Tritium factory has to include the waste recovery, recycling process with gas purification before storage. At least, a nuclear plant is not a classical building. Tritium is also very special... All the design ideas have to be adapted. Many facilities are necessary, some with redundancy. We all have to well known these constraints. Tritium budget will be a major contributor for a material point of view as for a financial one.

  4. A reference architecture for the component factory

    Science.gov (United States)

    Basili, Victor R.; Caldiera, Gianluigi; Cantone, Giovanni

    1992-01-01

    Software reuse can be achieved through an organization that focuses on utilization of life cycle products from previous developments. The component factory is both an example of the more general concepts of experience and domain factory and an organizational unit worth being considered independently. The critical features of such an organization are flexibility and continuous improvement. In order to achieve these features we can represent the architecture of the factory at different levels of abstraction and define a reference architecture from which specific architectures can be derived by instantiation. A reference architecture is an implementation and organization independent representation of the component factory and its environment. The paper outlines this reference architecture, discusses the instantiation process, and presents some examples of specific architectures by comparing them in the framework of the reference model.

  5. Life Cycle Inventories Analysis of Zhejiang Synthetic Leather Factory%浙江某合成革企业生命周期清单研究

    Institute of Scientific and Technical Information of China (English)

    丁绍兰; 单晨

    2011-01-01

    The in- out life cycle inventories analysis in Zhejiang synthetic leather company was carried out. When 1m2 synthetic leather processed, 114kg water, 1. 596kg chemicals, and 4.3kwh power is consumed, producing 0.737kg qualified product, 0.053kg unqualified product, 0.4kg solid waste, 1. 123kg waste gas and 102kg waste water. The DMF and PVA content in the above waste water is 22.94kg and 0. 493g respectively. The DMF content in the above waste gas is 0. 029kg.%运用生命周期分析方法,研究了浙江某合成革企业生产工艺的输入输出.每生产1m2的合成革,综合用水量为114kg;化料用量为1.596kg;用电量为4.3kWh;生产出0.737kg的合格合成革,0.053kg的不合格合成革;产生102kg废水,0.4kg固体废物,1.123kg废气;CODcr排放量为22.94kg;废水中DMF的排放量为0.015 2kg;废水中PVA的排放量为0.493g;空气中的DMF的排放量为0.029kg.进而提出合成革清洁生产的建议.

  6. A method to identify energy efficiency measures for factory systems based on qualitative modeling

    CERN Document Server

    Krones, Manuela

    2017-01-01

    Manuela Krones develops a method that supports factory planners in generating energy-efficient planning solutions. The method provides qualitative description concepts for factory planning tasks and energy efficiency knowledge as well as an algorithm-based linkage between these measures and the respective planning tasks. Its application is guided by a procedure model which allows a general applicability in the manufacturing sector. The results contain energy efficiency measures that are suitable for a specific planning task and reveal the roles of various actors for the measures’ implementation. Contents Driving Concerns for and Barriers against Energy Efficiency Approaches to Increase Energy Efficiency in Factories Socio-Technical Description of Factory Planning Tasks Description of Energy Efficiency Measures Case Studies on Welding Processes and Logistics Systems Target Groups Lecturers and Students of Industrial Engineering, Production Engineering, Environmental Engineering, Mechanical Engineering Practi...

  7. The physics of the B factories

    CERN Document Server

    Bevan, A J; Mannel, Th; Prell, S; Yabsley, B D; Abe, K; Aihara, H; Anulli, F; Arnaud, N; Aushev, T; Beneke, M; Beringer, J; Bianchi, F; Bigi, I I; Bona, M; Brambilla, N; Brodzicka, J; Chang, P; Charles, M J; Cheng, C H; Cheng, H -Y; Chistov, R; Colangelo, P; Coleman, J P; Drutskoy, A; Druzhinin, V P; Eidelman, S; Eigen, G; Eisner, A M; Faccini, R; Flood, K T; Gambino, P; Gaz, A; Gradl, W; Hayashii, H; Higuchi, T; Hulsbergen, W D; Hurth, T; Iijima, T; Itoh, R; Jackson, P D; Kass, R; Kolomensky, Yu G; Kou, E; Križan, P; Kronfeld, A; Kumano, S; Kwon, Y J; Latham, T E; Leith, D W G S; Lüth, V; Martinez-Vidal, F; Meadows, B T; Mussa, R; Nakao, M; Nishida, S; Ocariz, J; Olsen, S L; Pakhlov, P; Pakhlova, G; Palano, A; Pich, A; Playfer, S; Poluektov, A; Porter, F C; Robertson, S H; Roney, J M; Roodman, A; Sakai, Y; Schwanda, C; Schwartz, A J; Seidl, R; Sekula, S J; Steinhauser, M; Sumisawa, K; Swanson, E S; Tackmann, F; Trabelsi, K; Uehara, S; Uno, S; van der Water, R; Vasseur, G; Verkerke, W; Waldi, R; Wang, M Z; Wilson, F F; Zupan, J; Zupanc, A; Adachi, I; Albert, J; Banerjee, Sw; Ben-Haim, E; Biassoni, P; Cahn, R N; Cartaro, C; Chauveau, J; Chen, C; Chiang, C C; Cowan, R; Dalseno, J; Davier, M; Davies, C; Dingfelder, J C; Echenard, B; Epifanov, D; Fulsom, B G; Gabareen, A M; Gary, J W; Godang, R; Graham, M T; Hafner, A; Hamilton, B; Hartmann, T; Hayasaka, K; Hearty, C; Iwasaki, Y; Khodjamirian, A; Kusaka, A; Kuzmin, A; Lafferty, G D; Lazzaro, A; Li, J; Lindemann, D; Long, O; Lusiani, A; Marchiori, G; Martinelli, M; Miyabayashi, K; Mizuk, R; Mohanty, G B; Muller, D R; Nakazawa, H; Ongmongkolkul, P; Pacetti, S; Palombo, F; Pedlar, T K; Piilonen, L E; Pilloni, A; Poireau, V; Prothmann, K; Pulliam, T; Rama, M; Ratcliff, B N; Roudeau, P; Schrenk, S; Schroeder, T; Schubert, K R; Shen, C P; Shwartz, B; Soffer, A; Solodov, E P; Somov, A; Starič, M; Stracka, S; Telnov, A V; Todyshev, K Yu; Tsuboyama, T; Uglov, T; Vinokurova, A; Walsh, J J; Watanabe, Y; Won, E; Wormser, G; Wright, D H; Ye, S; Zhang, C C; Abachi, S; Abashian, A; Abe, N; Abe, R; Abe, T; Abrams, G S; Adam, I; Adamczyk, K; Adametz, A; Adye, T; Agarwal, A; Ahmed, H; Ahmed, M; Ahmed, S; Ahn, B S; Ahn, H S; Aitchison, I J R; Akai, K; Akar, S; Akatsu, M; Akemoto, M; Akhmetshin, R; Akre, R; Alam, M S; Albert, J N; Aleksan, R; Alexander, J P; Alimonti, G; Allen, M T; Allison, J; Allmendinger, T; Alsmiller, J R G; Altenburg, D; Alwyn, K E; An, Q; Anderson, J; Andreassen, R; Andreotti, D; Andreotti, M; Andress, J C; Angelini, C; Anipko, D; Anjomshoaa, A; Anthony, P L; Antillon, E A; Antonioli, E; Aoki, K; Arguin, J F; A, K; Arisaka, K; Asai, K; Asai, M; Asano, Y; Asgeirsson, D J; Asner, D M; Aso, T; Aspinwall, M L; Aston, D; Atmacan, H; Aubert, B; Aulchenko, V; Ayad, R; Azemoon, T; Aziz, T; Azzolini, V; Azzopardi, D E; Baak, M A; Back, J J; Bagnasco, S; Bahinipati, S; Bailey, D S; Bailey, S; Bailly, P; van Bakel, N; Bakich, A M; Bala, A; Balagura, V; Baldini-Ferroli, R; Ban, Y; Banas, E; Band, H R; Banerjee, S; Baracchini, E; Barate, R; Barberio, E; Barbero, M; Bard, D J; Barillari, T; Barlow, N R; Barlow, R J; Barrett, M; Bartel, W; Bartelt, J; Bartoldus, R; Batignani, G; Battaglia, M; Bauer, J M; Bay, A; Beaulieu, M; Bechtle, P; Beck, T W; Becker, J; Becla, J; Bedny, I; Behari, S; Behera, P K; Behn, E; Behr, L; Beigbeder, C; Beiline, D; Bell, R; Bellini, F; Bellis, M; Bellodi, G; Belous, K; Benayoun, M; Benelli, G; Benitez, J F; Benkebil, M; Berger, N; Bernabeu, J; Bernard, D; Bernet, R; Bernlochner, F U; Berryhill, J W; Bertsche, K; Besson, P; Best, D S; Bettarini, S; Bettoni, D; Bhardwaj, V; Bhimji, W; Bhuyan, B; Biagini, M E; Biasini, M; van Bibber, K; Biesiada, J; Bingham, I; Bionta, R M; Bischofberger, M; Bitenc, U; Bizjak, I; Blanc, F; Blaylock, G; Blinov, V E; Bloom, E; Bloom, P C; Blount, N L; Blouw, J; Bly, M; Blyth, S; Boeheim, C T; Bomben, M; Bondar, A; Bondioli, M; Bonneaud, G R; Bonvicini, G; Booke, M; Booth, J; Borean, C; Borgland, A W; Borsato, E; Bosi, F; Bosisio, L; Botov, A A; Bougher, J; Bouldin, K; Bourgeois, P; Boutigny, D; Bowerman, D A; Boyarski, A M; Boyce, R F; Boyd, J T; Bozek, A; Bozzi, C; Bračko, M; Brandenburg, G; Brandt, T; Brau, B; Brau, J; Breon, A B; Breton, D; Brew, C; Briand, H; Bright-Thomas, P G; Brigljević, V; Britton, D I; Brochard, F; Broomer, B; Brose, J; Browder, T E; Brown, C L; Brown, C M; Brown, D N; Browne, M; Bruinsma, M; Brunet, S; Bucci, F; Buchanan, C; Buchmueller, O L; Bünger, C; Bugg, W; Bukin, A D; Bula, R; Bulten, H; Burchat, P R; Burgess, W; Burke, J P; Button-Shafer, J; Buzykaev, A R; Buzzo, A; Cai, Y; Calabrese, R; Calcaterra, A; Calderini, G; Camanzi, B; Campagna, E; Campagnari, C; Capra, R; Carassiti, V; Carpinelli, M; Carroll, M; Casarosa, G; Casey, B C K; Cason, N M; Castelli, G; Cavallo, N; Cavoto, G; Cecchi, A; Cenci, R; Cerizza, G; Cervelli, A; Ceseracciu, A; Chai, X; Chaisanguanthum, K S

    2014-01-01

    This work is on the Physics of the B Factories. Part A of this book contains a brief description of the SLAC and KEK B Factories as well as their detectors, BaBar and Belle, and data taking related issues. Part B discusses tools and methods used by the experiments in order to obtain results. The results themselves can be found in Part C.

  8. Identification of Colour Reconnection using Factorial Correlator

    Institute of Scientific and Technical Information of China (English)

    FU Jing-Hua; LIU Lian-Shou

    2000-01-01

    A new signal is proposed for the colour reconnection in the hadronic decay of W+ W- in e+e- collisions. Using Pythia Monte Carlo it is shown that factorial correlators for W+ and W- without colour reconnection are almost identical to unity, while those for the cases with colour reconnection fall down approximately linearly in the log log plot. This signal, being based on the factorial correlator, is more sensitive than the ones using only averaged quantities.

  9. 解析清道光御窑厂图青花山水人物桌面%ANALYSIS OF THE DAOGUANG PERIOD BLUE AND WHITE PORCELAIN FACTORY OF ROYAL LANDSCAPE FIGURES DESKTOP IN THE QING DYNASTY

    Institute of Scientific and Technical Information of China (English)

    谢克锋; 王铁丰

    2013-01-01

    Qing Dynasty Daoguang period of imperial kiln factory has quite the recession, but the factory of blue and white porcelain, landscapes figures desktop works is unique. Qing Dynasty Daoguang period Blue and white landscape character porcelain factory of desktop with distinctive artistic characteristics, with literati landscape painting and Chinese and Western style, but also has a profound ideological connotation and historical value.%清道光时期御窑厂已颇为衰退,但其所制御窑厂图青花山水人物桌面作品却堪称绝品.清道光御窑厂图青花山水人物桌面具有鲜明的艺术特色,有着文人山水人物画和中西合璧之风,同时亦具有深刻的思想内涵和史料价值.

  10. Changes in microbiota population during fermentation of narezushi as revealed by pyrosequencing analysis.

    Science.gov (United States)

    Kiyohara, Masashi; Koyanagi, Takashi; Matsui, Hiroshi; Yamamoto, Keiko; Take, Harumi; Katsuyama, Yoko; Tsuji, Atsushi; Miyamae, Hiroto; Kondo, Tetsufumi; Nakamura, Shizuo; Katayama, Takane; Kumagai, Hidehiko

    2012-01-01

    Modern Japanese sushi is derived from an archetype, narezushi, which is made by the fermentation of salted fish with rice. Several studies have demonstrated that lactic acid bacteria are dominantly present in narezushi, but no studies have addressed how microbial composition changes during fermentation. In this study, we examined changes in the microbial population in aji (horse mackerel)-narezushi during fermentation by pyrosequencing the 16S ribosomal RNA gene (rDNA). Ribosomal Database Project Classifier analysis revealed that among the 53 genera present, the Lactobacillus population drastically increased during fermentation, while the populations of other bacteria remained unchanged. Basic Local Alignment Search Tool analysis revealed that L. plantarum and L. brevis were the major species. Comparison with other fermented food microbiota indicated high product-dependency of the bacterial composition, which might have been due to the starter-free fermentation process.

  11. Dynamic transcriptional signature and cell fate analysis reveals plasticity of individual neural plate border cells.

    Science.gov (United States)

    Roellig, Daniela; Tan-Cabugao, Johanna; Esaian, Sevan; Bronner, Marianne E

    2017-03-29

    The 'neural plate border' of vertebrate embryos contains precursors of neural crest and placode cells, both defining vertebrate characteristics. How these lineages segregate from neural and epidermal fates has been a matter of debate. We address this by performing a fine-scale quantitative temporal analysis of transcription factor expression in the neural plate border of chick embryos. The results reveal significant overlap of transcription factors characteristic of multiple lineages in individual border cells from gastrula through neurula stages. Cell fate analysis using a Sox2 (neural) enhancer reveals that cells that are initially Sox2+ cells can contribute not only to neural tube but also to neural crest and epidermis. Moreover, modulating levels of Sox2 or Pax7 alters the apportionment of neural tube versus neural crest fates. Our results resolve a long-standing question and suggest that many individual border cells maintain ability to contribute to multiple ectodermal lineages until or beyond neural tube closure.

  12. 酒精依赖患者复饮的影响因素分析%Influencing factorial analysis of the relapse of alcohol dependence

    Institute of Scientific and Technical Information of China (English)

    闫社因; 牛艳; 陈家民; 秦阳

    2012-01-01

    Objective To investigate environmental factors of the relapse of alcohol dependence.Methods One hundred and seventeen in-patients with alcohol dependence were assessed with a home-designed questionnaire,Family Environment Scale Chinese Version (FES-CV),Clinic Institute Alcohol Withdrawal Syndrome Scale Chinese Version(CIWA-Ar) and the Scale of Personality Change Post-Traumatic Brain Injury(SPCPTBI).One hundred and five patients reassessed with alcohol dependence syndrome diagnostic criteria 1 year after hospitalization.t -test,chi-square and logistic regression were used for analysis.Results 57 of 105 were relapse and 48 of them were not relapse.The results showed that relapse group had a higher divorce or separated or remarried rate (21/36) than the no-relapse one (7/41 ) ( chi-square =6.60,P =0.010) ; a less number of years of education (5.2 ± 1.8 vs 7.2 ± 1.7,t =5.64,P =0.000) ; a bigger daily drinking ( (512 ± 186) ml vs (396 ± 109) ml,t =3.93,P =0.000) ; a higher drinking frequency in relapse group ( (2.6 ± 0.9 ) vs ( 1.8 ± 0.6) times,t =5.38,P=0.000) ;a higher rates in personality change(47/57 vs 15/48 ),brain damages (27/57 vs 13/48 ) and mood disorders (35/57 vs 17/48 ),They also showed that relapse group had more problems on intimate degree (5.66 ±1.40 vs 6.20 ± 1.20),emotional expression (4.59 ± 1.54 vs 5.41 ± 1.26,independence (3.61 ± 1.29 vs 4.64± 1.49),organization (4.26 ± 1.56 vs 5.22 ± 1.18 ),and self-controlling (4.21 ± 1.43 vs 5.12 ± 1.12 ),the differences were significant (P<0.05) ;a higher contradiction score(4.35 ± 1.73 vs 3.64 ± 1.22,t =2.42,P =0.017).Logistic regression analysis showed that the number of daily drinking,intelligent damaged,emotional problems,arid dependence were the risk factors for the alcoholic relapse ( OR =7.44,3.99,3.92,2.96) ;Self-controlling was the protective factors for the alcoholic relapse ( OR =0.19).Conclusion Problem marital status,less education,and heavy drinking,and the number of drinking

  13. Comparative analysis of fungal genomes reveals different plant cell wall degrading capacity in fungi

    Science.gov (United States)

    2013-01-01

    Background Fungi produce a variety of carbohydrate activity enzymes (CAZymes) for the degradation of plant polysaccharide materials to facilitate infection and/or gain nutrition. Identifying and comparing CAZymes from fungi with different nutritional modes or infection mechanisms may provide information for better understanding of their life styles and infection models. To date, over hundreds of fungal genomes are publicly available. However, a systematic comparative analysis of fungal CAZymes across the entire fungal kingdom has not been reported. Results In this study, we systemically identified glycoside hydrolases (GHs), polysaccharide lyases (PLs), carbohydrate esterases (CEs), and glycosyltransferases (GTs) as well as carbohydrate-binding modules (CBMs) in the predicted proteomes of 103 representative fungi from Ascomycota, Basidiomycota, Chytridiomycota, and Zygomycota. Comparative analysis of these CAZymes that play major roles in plant polysaccharide degradation revealed that fungi exhibit tremendous diversity in the number and variety of CAZymes. Among them, some families of GHs and CEs are the most prevalent CAZymes that are distributed in all of the fungi analyzed. Importantly, cellulases of some GH families are present in fungi that are not known to have cellulose-degrading ability. In addition, our results also showed that in general, plant pathogenic fungi have the highest number of CAZymes. Biotrophic fungi tend to have fewer CAZymes than necrotrophic and hemibiotrophic fungi. Pathogens of dicots often contain more pectinases than fungi infecting monocots. Interestingly, besides yeasts, many saprophytic fungi that are highly active in degrading plant biomass contain fewer CAZymes than plant pathogenic fungi. Furthermore, analysis of the gene expression profile of the wheat scab fungus Fusarium graminearum revealed that most of the CAZyme genes related to cell wall degradation were up-regulated during plant infection. Phylogenetic analysis also

  14. Proteomics Analysis of Ovarian Cancer Cell Lines and Tissues Reveals Drug Resistance-associated Proteins

    Science.gov (United States)

    CRUZ*, ISA N.; COLEY*, HELEN M.; KRAMER, HOLGER B.; MADHURI, THUMULURU KAVITAH; SAFUWAN, NUR A.M.; ANGELINO, ANA RITA; YANG, MIN

    2016-01-01

    Background: Carboplatin and paclitaxel form the cornerstone of chemotherapy for epithelial ovarian cancer, however, drug resistance to these agents continues to present challenges. Despite extensive research, the mechanisms underlying this resistance remain unclear. Materials and Methods: A 2D-gel proteomics method was used to analyze protein expression levels of three human ovarian cancer cell lines and five biopsy samples. Representative proteins identified were validated via western immunoblotting. Ingenuity pathway analysis revealed metabolomic pathway changes. Results: A total of 189 proteins were identified with restricted criteria. Combined treatment targeting the proteasome-ubiquitin pathway resulted in re-sensitisation of drug-resistant cells. In addition, examination of five surgical biopsies of ovarian tissues revealed α-enolase (ENOA), elongation factor Tu, mitochondrial (EFTU), glyceraldehyde-3-phosphate dehydrogenase (G3P), stress-70 protein, mitochondrial (GRP75), apolipoprotein A-1 (APOA1), peroxiredoxin (PRDX2) and annexin A (ANXA) as candidate biomarkers of drug-resistant disease. Conclusion: Proteomics combined with pathway analysis provided information for an effective combined treatment approach overcoming drug resistance. Analysis of cell lines and tissues revealed potential prognostic biomarkers for ovarian cancer. *These Authors contributed equally to this study. PMID:28031236

  15. 某汽车公司铸造厂工人腰背痛的危险因素分析%Risk factors analysis of low back pain among workers in a foundry factory of the automobile company

    Institute of Scientific and Technical Information of China (English)

    孙敬智; 王生; 杨磊; 凌瑞杰; 王正伦; 宋挺博; 陈飚; 吴磊; 吴家兵; 杨秋玲; 何丽华

    2011-01-01

    目的 通过横断面流行病学记查,寻找汽车铸造厂作业工人腰背痛的主要危险因素,为此类疾患的预防提供科学依据.方法 在某汽车公司铸造厂对1340名工人进行腰背痛和劳动负荷问卷调查,利用logistic回归进行危险因素分析.结果 铸造厂工人的腰背痛年患病率为58.9%,其中铸造、物流和造型工种工人腰背痛年患病率较高,分别为64.6%、64.6%和62.5%.以不适体位搬举、大幅度弯腰、弯腰与转身并存及搬运重物这些负荷因素导致患腰背痛危险性最高,其OR值分别为2.085、1.961、1.967和1.956.各个危险因素在不同工种中的分布不同.多元logistic同归分析表明,搬运重物、不适体位搬举、大幅度弯腰、弯腰与转身并存及工龄和性别均被选人模型.结论 手工搬运重物、不良劳动姿势或二者同时存在是导致腰背痛的首要危险因素,应从这方面入手,加强工效学干预研究,减少此类疾患.%Objective To study the main risk factors of low back pain of workers in a foundry factory of the automobile company using cross sectional epidemiological investigation, and to provide scientific base for preventing the disorder. Methods The low back pain and work loads of 1340 workers in a foundry factory of the automobile company were investigated using questionnaire, and logistic regression analysis was used to analyze the risk factors. Results The one-year morbidity of low back pain in workers was 58.9%the morbidities of low back pain in workers engaged in foundry, transportation and modeling were 64.6 %, 64.6 % and 62.5 %, respectively. The lifting with squat postures, bending trunk heavily, bending trunk with twisting and moving the heave objects were found to be the most dominant risk factors for low-back pain, the OR values were 2.085, 1.961, 1.967 and 1.956, respectively. The distributions of risk factors were different among the different jobs. The logistic regression analysis

  16. 27 CFR 40.254 - Receipt into factory.

    Science.gov (United States)

    2010-04-01

    ... 27 Alcohol, Tobacco Products and Firearms 2 2010-04-01 2010-04-01 false Receipt into factory. 40... Operations § 40.254 Receipt into factory. A manufacturer of tobacco products may receive in bond into his factory tobacco products and may also receive into his factory tobacco products on which the tax has...

  17. Water quality index using multivariate factorial analysis

    National Research Council Canada - National Science Library

    Christiane Coletti; Roberto Testezlaf; Túlio A. P. Ribeiro; Renata T. G. de Souza; Daniela de A. Pereira

    2010-01-01

    The evaluation of environmental effects generated by agricultural production on water quality became essential in Brazil after the creation of policies for the use and conservation of water resources...

  18. In Silico Constraint-Based Strain Optimization Methods: the Quest for Optimal Cell Factories.

    Science.gov (United States)

    Maia, Paulo; Rocha, Miguel; Rocha, Isabel

    2016-03-01

    Shifting from chemical to biotechnological processes is one of the cornerstones of 21st century industry. The production of a great range of chemicals via biotechnological means is a key challenge on the way toward a bio-based economy. However, this shift is occurring at a pace slower than initially expected. The development of efficient cell factories that allow for competitive production yields is of paramount importance for this leap to happen. Constraint-based models of metabolism, together with in silico strain design algorithms, promise to reveal insights into the best genetic design strategies, a step further toward achieving that goal. In this work, a thorough analysis of the main in silico constraint-based strain design strategies and algorithms is presented, their application in real-world case studies is analyzed, and a path for the future is discussed.

  19. New molecular phenotypes in the dst mutants of Arabidopsis revealed by DNA microarray analysis.

    Science.gov (United States)

    Pérez-Amador, M A; Lidder, P; Johnson, M A; Landgraf, J; Wisman, E; Green, P J

    2001-12-01

    In this study, DNA microarray analysis was used to expand our understanding of the dst1 mutant of Arabidopsis. The dst (downstream) mutants were isolated originally as specifically increasing the steady state level and the half-life of DST-containing transcripts. As such, txhey offer a unique opportunity to study rapid sequence-specific mRNA decay pathways in eukaryotes. These mutants show a threefold to fourfold increase in mRNA abundance for two transgenes and an endogenous gene, all containing DST elements, when examined by RNA gel blot analysis; however, they show no visible aberrant phenotype. Here, we use DNA microarrays to identify genes with altered expression levels in dst1 compared with the parental plants. In addition to verifying the increase in the transgene mRNA levels, which were used to isolate these mutants, we were able to identify new genes with altered mRNA abundance in dst1. RNA gel blot analysis confirmed the microarray data for all genes tested and also was used to catalog the first molecular differences in gene expression between the dst1 and dst2 mutants. These differences revealed previously unknown molecular phenotypes for the dst mutants that will be helpful in future analyses. Cluster analysis of genes altered in dst1 revealed new coexpression patterns that prompt new hypotheses regarding the nature of the dst1 mutation and a possible role of the DST-mediated mRNA decay pathway in plants.

  20. The Problems of Dating Prehistoric Axe Factories and Neolithisation in Turkish Thrace:

    OpenAIRE

    Erdogu, Burçin

    2000-01-01

    Prehistoric axe factories or manufacturing areas have been found in the Sarköy region of turkish Thrace. So far, they are unique in the prehistoric record of the Balkans and Anatolia. A typological and petrological analysis of the stone axe factories and investigations of their distributions are in progress. Earlyresults show that all the axes are manufactured from the same rock - metabsit. The source of metabasite is the Western outcrops of Ganos Mountain. At the early neolithic settlement o...

  1. Sex differences on Purpose-In-Life Test total and factorial scores among spanish undergraduates

    OpenAIRE

    2011-01-01

    The aim of this paper is to analyze the differences on Purpose-In-Life Test [PIL] (Crumbaugh & Maholic, 1969) total and factorial scores associated to sex, among 309 spanish undergratudates (207 women, 102 men), range 18 to 45 years. PIL Spanish version is used (Noblejas de la Flor, 1994). PIL evalues life meaning achievement vs. existential vacuum. Women achieve higher means on PIL total and factorial scores, and estatistical analysis show that sex is significantly associated to total PIL sc...

  2. Assessment of the confiability and factorial structure of three scales measuring chronic procrastination

    OpenAIRE

    2012-01-01

    This study explores the confiability and factorial structure of three scales measuring chronic procrastination: Scale of General Procrastination (EPG. Lay. 1986). Adult Procrastinatio Inventory (lPA. McCown & Johnson as cited in Ferrari. Johnson & McCown. 1995) and the Scale of Procrastination in Decision-Making (PTF. Mann. 1982). The sample included 514 adults between 20 and 65 years of age from Lima. The three scales showed high levels of intemal consistency and factorial analysis showed th...

  3. Factorials of real negative and imaginary numbers - A new perspective.

    Science.gov (United States)

    Thukral, Ashwani K

    2014-01-01

    Presently, factorials of real negative numbers and imaginary numbers, except for zero and negative integers are interpolated using the Euler's gamma function. In the present paper, the concept of factorials has been generalised as applicable to real and imaginary numbers, and multifactorials. New functions based on Euler's factorial function have been proposed for the factorials of real negative and imaginary numbers. As per the present concept, the factorials of real negative numbers, are complex numbers. The factorials of real negative integers have their imaginary part equal to zero, thus are real numbers. Similarly, the factorials of imaginary numbers are complex numbers. The moduli of the complex factorials of real negative numbers, and imaginary numbers are equal to their respective real positive number factorials. Fractional factorials and multifactorials have been defined in a new perspective. The proposed concept has also been extended to Euler's gamma function for real negative numbers and imaginary numbers, and beta function.

  4. Transcriptomic analysis of human retinal detachment reveals both inflammatory response and photoreceptor death.

    Directory of Open Access Journals (Sweden)

    Marie-Noëlle Delyfer

    Full Text Available BACKGROUND: Retinal detachment often leads to a severe and permanent loss of vision and its therapeutic management remains to this day exclusively surgical. We have used surgical specimens to perform a differential analysis of the transcriptome of human retinal tissues following detachment in order to identify new potential pharmacological targets that could be used in combination with surgery to further improve final outcome. METHODOLOGY/PRINCIPAL FINDINGS: Statistical analysis reveals major involvement of the immune response in the disease. Interestingly, using a novel approach relying on coordinated expression, the interindividual variation was monitored to unravel a second crucial aspect of the pathological process: the death of photoreceptor cells. Within the genes identified, the expression of the major histocompatibility complex I gene HLA-C enables diagnosis of the disease, while PKD2L1 and SLCO4A1 -which are both down-regulated- act synergistically to provide an estimate of the duration of the retinal detachment process. Our analysis thus reveals the two complementary cellular and molecular aspects linked to retinal detachment: an immune response and the degeneration of photoreceptor cells. We also reveal that the human specimens have a higher clinical value as compared to artificial models that point to IL6 and oxidative stress, not implicated in the surgical specimens studied here. CONCLUSIONS/SIGNIFICANCE: This systematic analysis confirmed the occurrence of both neurodegeneration and inflammation during retinal detachment, and further identifies precisely the modification of expression of the different genes implicated in these two phenomena. Our data henceforth give a new insight into the disease process and provide a rationale for therapeutic strategies aimed at limiting inflammation and photoreceptor damage associated with retinal detachment and, in turn, improving visual prognosis after retinal surgery.

  5. Analysis of the transcriptional differences between indigenous and invasive whiteflies reveals possible mechanisms of whitefly invasion.

    Science.gov (United States)

    Wang, Yong-Liang; Wang, Yu-Jun; Luan, Jun-Bo; Yan, Gen-Hong; Liu, Shu-Sheng; Wang, Xiao-Wei

    2013-01-01

    The whitefly Bemisa tabaci is a species complex of more than 31 cryptic species which include some of the most destructive invasive pests of crops worldwide. Among them, Middle East-Asia Minor 1 (MEAM1) and Mediterranean have invaded many countries and displaced the native whitefly species. The successful invasion of the two species is largely due to their wide range of host plants, high resistance to insecticides and remarkable tolerance to environmental stresses. However, the molecular differences between invasive and indigenous whiteflies remain largely unknown. Here the global transcriptional difference between the two invasive whitefly species (MEAM1, MED) and one indigenous whitefly species (Asia II 3) were analyzed using the Illumina sequencing. Our analysis indicated that 2,422 genes between MEAM1 and MED; 3,073 genes between MEAM1 and Asia II 3; and 3,644 genes between MED and Asia II 3 were differentially expressed. Gene Ontology enrichment analysis revealed that the differently expressed genes between the invasive and indigenous whiteflies were significantly enriched in the term of 'oxidoreductase activity'. Pathway enrichment analysis showed that carbohydrate, amino acid and glycerolipid metabolisms were more active in MEAM1 and MED than in Asia II 3, which may contribute to their differences in biological characteristics. Our analysis also illustrated that the majority of genes involved in 'drug metabolic pathway' were expressed at a higher level in MEAM1 and MED than in Asia II 3. Taken together, these results revealed that the genes related to basic metabolism and detoxification were expressed at an elevated level in the invasive whiteflies, which might be responsible for their higher resistance to insecticides and environmental stresses. The extensive comparison of MEAM1, MED and Asia II 3 gene expression may serve as an invaluable resource for revealing the molecular mechanisms underlying their biological differences and the whitefly invasion.

  6. Make your company a talent factory.

    Science.gov (United States)

    Ready, Douglas A; Conger, Jay A

    2007-06-01

    Despite the great sums of money companies dedicate to talent management systems, many still struggle to fill key positions - limiting their potential for growth in the process. Virtually all the human resource executives in the authors' 2005 survey of 40 companies around the world said that their pipeline of high-potential employees was insufficient to fill strategic management roles. The survey revealed two primary reasons for this. First, the formal procedures for identifying and developing next-generation leaders have fallen out of sync with what companies need to grow or expand into new markets. To save money, for example, some firms have eliminated positions that would expose high-potential employees to a broad range of problems, thus sacrificing future development opportunities that would far outweigh any initial savings from the job cuts. Second, HR executives often have trouble keeping top leaders' attention on talent issues, despite those leaders' vigorous assertions that obtaining and keeping the best people is a major priority. If passion for that objective doesn't start at the top and infuse the culture, say the authors, talent management can easily deteriorate into the management of bureaucratic routines. Yet there are companies that can face the future with confidence. These firms don't just manage talent, they build talent factories. The authors describe the experiences of two such corporations - consumer products icon Procter & Gamble and financial services giant HSBC Group -that figured out how to develop and retain key employees and fill positions quickly to meet evolving business needs. Though each company approached talent management from a different direction, they both maintained a twin focus on functionality (rigorous talent processes that support strategic and cultural objectives) and vitality (management's emotional commitment, which is reflected in daily actions).

  7. Rapid prototyping 3D virtual world interfaces within a virtual factory environment

    Science.gov (United States)

    Kosta, Charles Paul; Krolak, Patrick D.

    1993-01-01

    On-going work into user requirements analysis using CLIPS (NASA/JSC) expert systems as an intelligent event simulator has led to research into three-dimensional (3D) interfaces. Previous work involved CLIPS and two-dimensional (2D) models. Integral to this work was the development of the University of Massachusetts Lowell parallel version of CLIPS, called PCLIPS. This allowed us to create both a Software Bus and a group problem-solving environment for expert systems development. By shifting the PCLIPS paradigm to use the VEOS messaging protocol we have merged VEOS (HlTL/Seattle) and CLIPS into a distributed virtual worlds prototyping environment (VCLIPS). VCLIPS uses the VEOS protocol layer to allow multiple experts to cooperate on a single problem. We have begun to look at the control of a virtual factory. In the virtual factory there are actors and objects as found in our Lincoln Logs Factory of the Future project. In this artificial reality architecture there are three VCLIPS entities in action. One entity is responsible for display and user events in the 3D virtual world. Another is responsible for either simulating the virtual factory or communicating with the real factory. The third is a user interface expert. The interface expert maps user input levels, within the current prototype, to control information for the factory. The interface to the virtual factory is based on a camera paradigm. The graphics subsystem generates camera views of the factory on standard X-Window displays. The camera allows for view control and object control. Control or the factory is accomplished by the user reaching into the camera views to perform object interactions. All communication between the separate CLIPS expert systems is done through VEOS.

  8. Local coexistence of VO2 phases revealed by deep data analysis

    Science.gov (United States)

    Strelcov, Evgheni; Ievlev, Anton; Belianinov, Alex; Tselev, Alexander; Kolmakov, Andrei; Kalinin, Sergei V.

    2016-07-01

    We report a synergistic approach of micro-Raman spectroscopic mapping and deep data analysis to study the distribution of crystallographic phases and ferroelastic domains in a defected Al-doped VO2 microcrystal. Bayesian linear unmixing revealed an uneven distribution of the T phase, which is stabilized by the surface defects and uneven local doping that went undetectable by other classical analysis techniques such as PCA and SIMPLISMA. This work demonstrates the impact of information recovery via statistical analysis and full mapping in spectroscopic studies of vanadium dioxide systems, which is commonly substituted by averaging or single point-probing approaches, both of which suffer from information misinterpretation due to low resolving power.

  9. Network analysis of oyster transcriptome revealed a cascade of cellular responses during recovery after heat shock.

    Directory of Open Access Journals (Sweden)

    Lingling Zhang

    Full Text Available Oysters, as a major group of marine bivalves, can tolerate a wide range of natural and anthropogenic stressors including heat stress. Recent studies have shown that oysters pretreated with heat shock can result in induced heat tolerance. A systematic study of cellular recovery from heat shock may provide insights into the mechanism of acquired thermal tolerance. In this study, we performed the first network analysis of oyster transcriptome by reanalyzing microarray data from a previous study. Network analysis revealed a cascade of cellular responses during oyster recovery after heat shock and identified responsive gene modules and key genes. Our study demonstrates the power of network analysis in a non-model organism with poor gene annotations, which can lead to new discoveries that go beyond the focus on individual genes.

  10. Factorials of real negative and imaginary numbers - A new perspective

    OpenAIRE

    Thukral, Ashwani K

    2014-01-01

    Presently, factorials of real negative numbers and imaginary numbers, except for zero and negative integers are interpolated using the Euler’s gamma function. In the present paper, the concept of factorials has been generalised as applicable to real and imaginary numbers, and multifactorials. New functions based on Euler’s factorial function have been proposed for the factorials of real negative and imaginary numbers. As per the present concept, the factorials of real negative numbers, are co...

  11. Proteomic and genomic analysis reveals novel Campylobacter jejuni outer membrane proteins and potential heterogeneity

    Directory of Open Access Journals (Sweden)

    Eleanor Watson

    2014-09-01

    Full Text Available Gram-negative bacterial outer membrane proteins play important roles in the interaction of bacteria with their environment including nutrient acquisition, adhesion and invasion, and antibiotic resistance. In this study we identified 47 proteins within the Sarkosyl-insoluble fraction of Campylobacter jejuni 81-176, using LC–ESI-MS/MS. Comparative analysis of outer membrane protein sequences was visualised to reveal protein distribution within a panel of Campylobacter spp., identifying several C. jejuni-specific proteins. Smith–Waterman analyses of C. jejuni homologues revealed high sequence conservation amongst a number of hypothetical proteins, sequence heterogeneity of other proteins and several proteins which are absent in a proportion of strains.

  12. Proteome-wide analysis of arginine monomethylation reveals widespread occurrence in human cells

    DEFF Research Database (Denmark)

    Larsen, Sara C; Sylvestersen, Kathrine B; Mund, Andreas

    2016-01-01

    as coactivator-associated arginine methyltransferase 1 (CARM1)] or PRMT1 increased the RNA binding function of HNRNPUL1. High-content single-cell imaging additionally revealed that knocking down CARM1 promoted the nuclear accumulation of SRSF2, independent of cell cycle phase. Collectively, the presented human...... kidney 293 cells, indicating that the occurrence of this modification is comparable to phosphorylation and ubiquitylation. A site-level conservation analysis revealed that arginine methylation sites are less evolutionarily conserved compared to arginines that were not identified as modified...... to the frequency of somatic mutations at arginine methylation sites throughout the proteome, we observed that somatic mutations were common at arginine methylation sites in proteins involved in mRNA splicing. Furthermore, in HeLa and U2OS cells, we found that distinct arginine methyltransferases differentially...

  13. Transcriptome-based network analysis reveals a spectrum model of human macrophage activation.

    Science.gov (United States)

    Xue, Jia; Schmidt, Susanne V; Sander, Jil; Draffehn, Astrid; Krebs, Wolfgang; Quester, Inga; De Nardo, Dominic; Gohel, Trupti D; Emde, Martina; Schmidleithner, Lisa; Ganesan, Hariharasudan; Nino-Castro, Andrea; Mallmann, Michael R; Labzin, Larisa; Theis, Heidi; Kraut, Michael; Beyer, Marc; Latz, Eicke; Freeman, Tom C; Ulas, Thomas; Schultze, Joachim L

    2014-02-20

    Macrophage activation is associated with profound transcriptional reprogramming. Although much progress has been made in the understanding of macrophage activation, polarization, and function, the transcriptional programs regulating these processes remain poorly characterized. We stimulated human macrophages with diverse activation signals, acquiring a data set of 299 macrophage transcriptomes. Analysis of this data set revealed a spectrum of macrophage activation states extending the current M1 versus M2-polarization model. Network analyses identified central transcriptional regulators associated with all macrophage activation complemented by regulators related to stimulus-specific programs. Applying these transcriptional programs to human alveolar macrophages from smokers and patients with chronic obstructive pulmonary disease (COPD) revealed an unexpected loss of inflammatory signatures in COPD patients. Finally, by integrating murine data from the ImmGen project we propose a refined, activation-independent core signature for human and murine macrophages. This resource serves as a framework for future research into regulation of macrophage activation in health and disease.

  14. Multilocus sequence analysis of nectar pseudomonads reveals high genetic diversity and contrasting recombination patterns.

    Directory of Open Access Journals (Sweden)

    Sergio Alvarez-Pérez

    Full Text Available The genetic and evolutionary relationships among floral nectar-dwelling Pseudomonas 'sensu stricto' isolates associated to South African and Mediterranean plants were investigated by multilocus sequence analysis (MLSA of four core housekeeping genes (rrs, gyrB, rpoB and rpoD. A total of 35 different sequence types were found for the 38 nectar bacterial isolates characterised. Phylogenetic analyses resulted in the identification of three main clades [nectar groups (NGs 1, 2 and 3] of nectar pseudomonads, which were closely related to five intrageneric groups: Pseudomonas oryzihabitans (NG 1; P. fluorescens, P. lutea and P. syringae (NG 2; and P. rhizosphaerae (NG 3. Linkage disequilibrium analysis pointed to a mostly clonal population structure, even when the analysis was restricted to isolates from the same floristic region or belonging to the same NG. Nevertheless, signatures of recombination were observed for NG 3, which exclusively included isolates retrieved from the floral nectar of insect-pollinated Mediterranean plants. In contrast, the other two NGs comprised both South African and Mediterranean isolates. Analyses relating diversification to floristic region and pollinator type revealed that there has been more unique evolution of the nectar pseudomonads within the Mediterranean region than would be expected by chance. This is the first work analysing the sequence of multiple loci to reveal geno- and ecotypes of nectar bacteria.

  15. Phylogenomic Analysis Reveals Extensive Phylogenetic Mosaicism in the Human GPCR Superfamily

    Directory of Open Access Journals (Sweden)

    Mathew Woodwark

    2007-01-01

    Full Text Available A novel high throughput phylogenomic analysis (HTP was applied to the rhodopsin G-protein coupled receptor (GPCR family. Instances of phylogenetic mosaicism between receptors were found to be frequent, often as instances of correlated mosaicism and repeated mosaicism. A null data set was constructed with the same phylogenetic topology as the rhodopsin GPCRs. Comparison of the two data sets revealed that mosaicism was found in GPCRs in a higher frequency than would be expected by homoplasy or the effects of topology alone. Various evolutionary models of differential conservation, recombination and homoplasy are explored which could result in the patterns observed in this analysis. We find that the results are most consistent with frequent recombination events. A complex evolutionary history is illustrated in which it is likely frequent recombination has endowed GPCRs with new functions. The pattern of mosaicism is shown to be informative for functional prediction for orphan receptors. HTP analysis is complementary to conventional phylogenomic analyses revealing mosaicism that would not otherwise have been detectable through conventional phylogenetics.

  16. Electrically active defects in silica-filled epoxy as revealed by light emission analysis

    Energy Technology Data Exchange (ETDEWEB)

    Aubert, E; Teyssedre, G; Laurent, C [Universite de Toulouse, UPS, INPT, LAPLACE (Laboratoire Plasma et Conversion d' Energie), 118 route de Narbonne, F-31062 Toulouse Cedex 9 (France); Rowe, S; Robiani, S, E-mail: christian.laurent@laplace.univ-tlse.f [Schneider Electric, Direction des Recherches Materiaux, rue Henri Tarze, F-38050 Grenoble (France)

    2009-08-21

    Epoxy resins have long been used as the insulation of electrical systems. They are generally formulated with a dispersion of micro-fillers to improve thermal and mechanical properties. However, there are concerns about the possible influence of these fillers on the electric behaviour, especially on the long term ageing under functional stresses. At the loose interface between matrix and fillers, macro- and micro-voids in the resin can provide weak points that are difficult to detect using conventional spectroscopy. Light emission analysis from the material under electrical stress is an efficient way to reveal such electrically active defects since internal ionizing events would give rise to photon emission. A detailed analysis of the light emitted by silica-filled and unfilled epoxy samples is presented. The photon counting technique, spectral analysis and imaging give a firm basis to discuss the contributing emission processes to the detected signal. They reveal the existence of ionizing events into internal defects. The sensitivity of the optical method is order of magnitudes higher than the sensitivity of conventional partial discharge detection.

  17. A Low energy neutrino factory for large theta(13)

    Energy Technology Data Exchange (ETDEWEB)

    Geer, Steve; Mena, Olga; /Fermilab /Rome U. /INFN, Rome; Pascoli, Silvia; /Durham U., IPPP

    2007-01-01

    If the value of {theta}{sub 13} is within the reach of the upcoming generation of long-baseline experiments, T2K and NOvA, they show that a low-energy neutrino factory, with peak energy in the few GeV range, would provide a sensitive tool to explore CP-violation and the neutrino mass hierarchy. They consider baselines with typical length 1000-1500 km. The unique performance of the low energy neutrino factory is due to the rich neutrino oscillation pattern at energies between 1 and 4 GeV at baselines {Omicron}(1000) km. They perform both a semi-analytical study of the sensitivities and a numerical analysis to explore how well this setup can measure {theta}{sub 13}, CP-violation, and determine the type of mass hierarchy and the {theta}{sub 23} quadrant. A low energy neutrino factory provides a powerful tool to resolve ambiguities and make precise parameter determinations, for both large and fairly small values of the mixing parameter {theta}{sub 13}.

  18. Integrated data analysis reveals potential drivers and pathways disrupted by DNA methylation in papillary thyroid carcinomas

    DEFF Research Database (Denmark)

    Beltrami, Caroline Moraes; Dos Reis, Mariana Bisarro; Barros-Filho, Mateus Camargo

    2017-01-01

    BACKGROUND: Papillary thyroid carcinoma (PTC) is a common endocrine neoplasm with a recent increase in incidence in many countries. Although PTC has been explored by gene expression and DNA methylation studies, the regulatory mechanisms of the methylation on the gene expression was poorly clarified......-validated by the The Cancer Genome Atlas data. The majority of these probes was found in non-promoters regions, distant from CGI and enriched by enhancers. The integrative analysis between gene expression and DNA methylation revealed 185 and 38 genes (mainly in the promoter and body regions, respectively) with negative...

  19. SuperB: a Linear High-Luminosity B Factory

    Energy Technology Data Exchange (ETDEWEB)

    Albert, J.; Bettarini, S.; Biagini, M.; Bonneaud, G.; Cai, Y.; Calderini, G.; Ciuchini, M.; Dubois-Felsmann, G.P.; Ecklund, S.; Forti, F.; Gershon, T.J.; Giorgi, M.A.; Hitlin, D.G.; Leith, D.W.G.S.; Lusiani, A.; MacFarlane, D.B.; Martinez-Vidal, F.; Neri, N.; Novokhatski, A.; Pierini, M.; Piredda, G.; /Caltech /Pisa U. /Pisa, Scuola Normale

    2006-02-08

    This paper is based on the outcome of the activity that has taken place during the recent workshop on ''SuperB in Italy'' held in Frascati on November 11-12, 2005. The workshop was opened by a theoretical introduction of Marco Ciuchini and was structured in two working groups. One focused on the machine and the other on the detector and experimental issues.. The present status on CP is mainly based on the results achieved by BABAR and Belle. Establishment of the indirect CP violation in B sector in 2001 and of the direct CP violation in 2004 thanks to the success of PEP-II and KEKB e{sup +}e{sup -} asymmetric B Factories operating at the center of mass energy corresponding to the mass of the {Upsilon}(4S ). With the two B Factories taking data, the Unitarity Triangle is now beginning to be over constrained by improving the measurements of the sides and now also of the angles {alpha}, and {gamma}. We are also in presence of the very intriguing results about the measurements of sin2{beta} in the time dependent analysis of decay channels via penguin loops, where b {yields} s{bar s}s and b {yields} s{bar d}d. {tau} physics, in particular LFV search, as well as charm and ISR physics are important parts of the scientific program of a SuperB Factory. The physics case together with possible scenarios for the high luminosity SuperB Factory based on the concepts of the Linear Collider and the related experimental issues are discussed.

  20. VNTR analysis reveals unexpected genetic diversity within Mycoplasma agalactiae, the main causative agent of contagious agalactia

    Directory of Open Access Journals (Sweden)

    Ayling Roger D

    2008-11-01

    Full Text Available Abstract Background Mycoplasma agalactiae is the main cause of contagious agalactia, a serious disease of sheep and goats, which has major clinical and economic impacts. Previous studies of M. agalactiae have shown it to be unusually homogeneous and there are currently no available epidemiological techniques which enable a high degree of strain differentiation. Results We have developed variable number tandem repeat (VNTR analysis using the sequenced genome of the M. agalactiae type strain PG2. The PG2 genome was found to be replete with tandem repeat sequences and 4 were chosen for further analysis. VNTR 5 was located within the hypothetical protein MAG6170 a predicted lipoprotein. VNTR 14 was intergenic between the hypothetical protein MAG3350 and the hypothetical protein MAG3340. VNTR 17 was intergenic between the hypothetical protein MAG4060 and the hypothetical protein MAG4070 and VNTR 19 spanned the 5' end of the pseudogene for a lipoprotein MAG4310 and the 3' end of the hypothetical lipoprotein MAG4320. We have investigated the genetic diversity of 88 M. agalactiae isolates of wide geographic origin using VNTR analysis and compared it with pulsed field gel electrophoresis (PFGE and random amplified polymorphic DNA (RAPD analysis. Simpson's index of diversity was calculated to be 0.324 for PFGE and 0.574 for VNTR analysis. VNTR analysis revealed unexpected diversity within M. agalactiae with 9 different VNTR types discovered. Some correlation was found between geographical origin and the VNTR type of the isolates. Conclusion VNTR analysis represents a useful, rapid first-line test for use in molecular epidemiological analysis of M. agalactiae for outbreak tracing and control.

  1. Low-energy neutrino factory design

    Directory of Open Access Journals (Sweden)

    C. Ankenbrandt

    2009-07-01

    Full Text Available The design of a low-energy (4 GeV neutrino factory (NF is described, along with its expected performance. The neutrino factory uses a high-energy proton beam to produce charged pions. The π^{±} decay to produce muons (μ^{±}, which are collected, accelerated, and stored in a ring with long straight sections. Muons decaying in the straight sections produce neutrino beams. The scheme is based on previous designs for higher energy neutrino factories, but has an improved bunching and phase rotation system, and new acceleration, storage ring, and detector schemes tailored to the needs of the lower energy facility. Our simulations suggest that the NF scheme we describe can produce neutrino beams generated by ∼1.4×10^{21} μ^{+} per year decaying in a long straight section of the storage ring, and a similar number of μ^{-} decays.

  2. Rapid Application Development Using Software Factories

    CERN Document Server

    Stojanovski, Toni

    2012-01-01

    Software development is still based on manufactory production, and most of the programming code is still hand-crafted. Software development is very far away from the ultimate goal of industrialization in software production, something which has been achieved long time ago in the other industries. The lack of software industrialization creates an inability to cope with fast and frequent changes in user requirements, and causes cost and time inefficiencies during their implementation. Analogous to what other industries had done long time ago, industrialization of software development has been proposed using the concept of software factories. We have accepted this vision about software factories, and developed our own software factory which produces three-layered ASP.NET web applications. In this paper we report about our experience with using this approach in the process of software development, and present comparative results on performances and deliverables in both traditional development and development usin...

  3. Chromosome-specific segmentation revealed by structural analysis of individually isolated chromosomes.

    Science.gov (United States)

    Kitada, Kunio; Taima, Akira; Ogasawara, Kiyomoto; Metsugi, Shouichi; Aikawa, Satoko

    2011-04-01

    Analysis of structural rearrangements at the individual chromosomal level is still technologically challenging. Here we optimized a chromosome isolation method using fluorescent marker-assisted laser-capture and laser-beam microdissection and applied it to structural analysis of two aberrant chromosomes found in a lung cancer cell line. A high-density array-comparative genomic hybridization (array-CGH) analysis of DNA samples prepared from each of the chromosomes revealed that these two chromosomes contained 296 and 263 segments, respectively, ranging from 1.5 kb to 784.3 kb in size, derived from different portions of chromosome 8. Among these segments, 242 were common in both aberrant chromosomes, but 75 were found to be chromosome-specific. Sequences of 263 junction sites connecting the ends of segments were determined using a PCR/Sanger-sequencing procedure. Overlapping microhomologies were found at 169 junction sites. Junction partners came from various portions of chromosome 8 and no biased pattern in the positional distribution of junction partners was detected. These structural characteristics suggested the occurrence of random fragmentation of the entire chromosome 8 followed by random rejoining of these fragments. Based on that, we proposed a model to explain how these aberrant chromosomes are formed. Through these structural analyses, it was demonstrated that the optimized chromosome isolation method described here can provide high-quality chromosomal DNA for high resolution array-CGH analysis and probably for massively parallel sequencing analysis.

  4. Phylogenomic Analysis of Oenococcus oeni Reveals Specific Domestication of Strains to Cider and Wines

    Science.gov (United States)

    Campbell-Sills, Hugo; El Khoury, Mariette; Favier, Marion; Romano, Andrea; Biasioli, Franco; Spano, Giuseppe; Sherman, David J.; Bouchez, Olivier; Coton, Emmanuel; Coton, Monika; Okada, Sanae; Tanaka, Naoto; Dols-Lafargue, Marguerite; Lucas, Patrick M.

    2015-01-01

    Oenococcus oeni is a lactic acid bacteria species encountered particularly in wine, where it achieves the malolactic fermentation. Molecular typing methods have previously revealed that the species is made of several genetic groups of strains, some being specific to certain types of wines, ciders or regions. Here, we describe 36 recently released O. oeni genomes and the phylogenomic analysis of these 36 plus 14 previously reported genomes. We also report three genome sequences of the sister species Oenococcus kitaharae that were used for phylogenomic reconstructions. Phylogenomic and population structure analyses performed revealed that the 50 O. oeni genomes delineate two major groups of 12 and 37 strains, respectively, named A and B, plus a putative group C, consisting of a single strain. A study on the orthologs and single nucleotide polymorphism contents of the genetic groups revealed that the domestication of some strains to products such as cider, wine, or champagne, is reflected at the genetic level. While group A strains proved to be predominant in wine and to form subgroups adapted to specific types of wine such as champagne, group B strains were found in wine and cider. The strain from putative group C was isolated from cider and genetically closer to group B strains. The results suggest that ancestral O. oeni strains were adapted to low-ethanol containing environments such as overripe fruits, and that they were domesticated to cider and wine, with group A strains being naturally selected in a process of further domestication to specific wines such as champagne. PMID:25977455

  5. Proteomic analysis reveals novel proteins associated with progression and differentiation of colorectal carcinoma

    Directory of Open Access Journals (Sweden)

    Yi Gan

    2014-01-01

    Full Text Available Aim: The objective of this study is to characterize differential proteomic expression among well-differentiation and poor-differentiation colorectal carcinoma tissues and normal mucous epithelium. Materials and Methods: The study is based on quantitative 2-dimensional gel electrophoresis and analyzed by PDquest. Results: Excluding redundancies due to proteolysis and posttranslational modified isoforms of over 600 protein spots, 11 proteins were revealed as regulated with statistical variance being within the 95 th confidence level and were identified by peptide mass fingerprinting in matrix assisted laser desorption/ionization time-of-flight mass spectrometry. Progression-associated proteins belong to the functional complexes of tumorigenesis, proliferation, differentiation, metabolism, and the regulation of major histocompatibility complex processing and other functions. Partial but significant overlap was revealed with previous proteomics and transcriptomics studies in CRC. Among various differentiation stage of CRC tissues, we identified calreticulin precursor, MHC class I antigen (human leukocyte antigen A , glutathione S-transferase pi1, keratin 8, heat shock protein 27, tubulin beta chain, triosephosphate, fatty acid-binding protein, hemoglobin (deoxy mutant with val b 1 replaced by met (HBB, and zinc finger protein 312 (FEZF2. Conclusions: Their functional networks were analyzed by Ingenuity systems Ingenuity Pathways Analysis and revealed the potential roles as novel biomarkers for progression in various differentiation stages of CRC.

  6. Global analysis of gene expression in pulmonary fibrosis reveals distinct programs regulating lung inflammation and fibrosis

    Science.gov (United States)

    Kaminski, Naftali; Allard, John D.; Pittet, Jean F.; Zuo, Fengrong; Griffiths, Mark J. D.; Morris, David; Huang, Xiaozhu; Sheppard, Dean; Heller, Renu A.

    2000-02-01

    The molecular mechanisms of pulmonary fibrosis are poorly understood. We have used oligonucleotide arrays to analyze the gene expression programs that underlie pulmonary fibrosis in response to bleomycin, a drug that causes lung inflammation and fibrosis, in two strains of susceptible mice (129 and C57BL/6). We then compared the gene expression patterns in these mice with 129 mice carrying a null mutation in the epithelial-restricted integrin 6 subunit (6/-), which develop inflammation but are protected from pulmonary fibrosis. Cluster analysis identified two distinct groups of genes involved in the inflammatory and fibrotic responses. Analysis of gene expression at multiple time points after bleomycin administration revealed sequential induction of subsets of genes that characterize each response. The availability of this comprehensive data set should accelerate the development of more effective strategies for intervention at the various stages in the development of fibrotic diseases of the lungs and other organs.

  7. An integrative genomic and transcriptomic analysis reveals potential targets associated with cell proliferation in uterine leiomyomas

    DEFF Research Database (Denmark)

    Cirilo, Priscila Daniele Ramos; Marchi, Fábio Albuquerque; Barros Filho, Mateus de Camargo

    2013-01-01

    BACKGROUND: Uterine Leiomyomas (ULs) are the most common benign tumours affecting women of reproductive age. ULs represent a major problem in public health, as they are the main indication for hysterectomy. Approximately 40-50% of ULs have non-random cytogenetic abnormalities, and half of ULs may......: The integrated analysis identified the top 30 significant genes (Pindicated a strong association between FANCA and BRCA1. Functional in silico analysis revealed target molecules for drugs involved in cell...... and transcriptomic approach indicated that FGFR1 and IGFBP5 amplification, as well as the consequent up-regulation of the protein products, plays an important role in the aetiology of ULs and thus provides data for potential drug therapies development to target genes associated with cellular proliferation in ULs....

  8. Analysis of miRNA market trends reveals hotspots of research activity.

    Science.gov (United States)

    Oosta, Gary; Razvi, Enal

    2012-04-01

    We have conducted an analysis of the miRNA research marketplace by evaluating the publication trends in the field. In this article, we present the results of our analysis which reveals that hotspots exist in terms of research activities in the miRNA space--these hotspots illustrate the areas in the miRNA research space where specific miRNAs have been extensively studied, and other areas that represent new territory. We frame these data into the context of areas of opportunity for miRNA content harvest versus segments of opportunity for the development of research tools. Also presented in this article are the primary market data from online surveys we have performed with researchers involved in miRNA research around the world. Taken together, these data frame the current state of the miRNA marketplace and provide niches of opportunity for new entrants into this space.

  9. Stringent comparative sequence analysis reveals SOX10 as a putative inhibitor of glial cell differentiation.

    Science.gov (United States)

    Gopinath, Chetna; Law, William D; Rodríguez-Molina, José F; Prasad, Arjun B; Song, Lingyun; Crawford, Gregory E; Mullikin, James C; Svaren, John; Antonellis, Anthony

    2016-11-07

    The transcription factor SOX10 is essential for all stages of Schwann cell development including myelination. SOX10 cooperates with other transcription factors to activate the expression of key myelin genes in Schwann cells and is therefore a context-dependent, pro-myelination transcription factor. As such, the identification of genes regulated by SOX10 will provide insight into Schwann cell biology and related diseases. While genome-wide studies have successfully revealed SOX10 target genes, these efforts mainly focused on myelinating stages of Schwann cell development. We propose that less-biased approaches will reveal novel functions of SOX10 outside of myelination. We developed a stringent, computational-based screen for genome-wide identification of SOX10 response elements. Experimental validation of a pilot set of predicted binding sites in multiple systems revealed that SOX10 directly regulates a previously unreported alternative promoter at SOX6, which encodes a transcription factor that inhibits glial cell differentiation. We further explored the utility of our computational approach by combining it with DNase-seq analysis in cultured Schwann cells and previously published SOX10 ChIP-seq data from rat sciatic nerve. Remarkably, this analysis enriched for genomic segments that map to loci involved in the negative regulation of gliogenesis including SOX5, SOX6, NOTCH1, HMGA2, HES1, MYCN, ID4, and ID2. Functional studies in Schwann cells revealed that: (1) all eight loci are expressed prior to myelination and down-regulated subsequent to myelination; (2) seven of the eight loci harbor validated SOX10 binding sites; and (3) seven of the eight loci are down-regulated upon repressing SOX10 function. Our computational strategy revealed a putative novel function for SOX10 in Schwann cells, which suggests a model where SOX10 activates the expression of genes that inhibit myelination during non-myelinating stages of Schwann cell development. Importantly, the

  10. Remembering the Avonmouth mustard gas factory

    OpenAIRE

    2014-01-01

    Introduction \\ud \\ud The women of the Great War had undertaken a predominantly domestic role until that point in time. This changed during these testing times, as women took the place of the men in the factories. There was an urgent need to produce large quantities of ammunition and the women made up the majority of the workforce. In the factories of Avonmouth and Chittening hundreds of women worked in perilous conditions to produce shells, but these shells weren’t just filled with explosives...

  11. Transcription factories: genetic programming in three dimensions.

    Science.gov (United States)

    Edelman, Lucas Brandon; Fraser, Peter

    2012-04-01

    Among the most intensively studied systems in molecular biology is the eukaryotic transcriptional apparatus, which expresses genes in a regulated manner across hundreds of different cell types. Several studies over the past few years have added weight to the concept that transcription takes place within discrete 'transcription factories' assembled inside the cell nucleus. These studies apply innovative technical approaches to gain insights into the molecular constituents, dynamical behaviour and organizational regulators of transcription factories, providing exciting insights into the spatial dimension of transcriptional control.

  12. Relationships Between Indoor Air Pollution and Psychrometric and Effective Factors in the Polyurethane Factories with Emphasis on Methylene Diphenyl Diisocyanate

    Directory of Open Access Journals (Sweden)

    S. Etemadi Nejad

    2011-11-01

    Full Text Available The object of this study is determination of the relationship between airborne methylene diphenyl diisocyanate (MDI and selective psychrometric variables. The production of MDI factories were polyurethane adhesives, paints and varnishes and the workers were exposed to MDI in the indoor air. The air samples were collected by midget impinger and multiple regressions model was used to determine the relationship between variables. All of the samplers (midget impinger were connected to mini personal sampler pump fixed toworkstations near the source of pollution based on NIOSH method 5522. The first step in the analysis of a solution is derivatization of isocyanates for the separation through HPLC, for their qualitative as well as quantitative analysis. Air sampling and analysis was performed according to (NIOSH method 5522 for diisocyanate in air. The results revealed that a correlation between MDI concentration and relative humidity, dry bulb temperature, altitude and dimension of polyurethane factories. Dimension of factories yields reasonable negative relationship, the MDI concentration was ranged from 93.8 to 99(μg/m3 and statistically significant at 0.0001 level and the relative humidity was ranged from 42.6 to 45% and dry bulb temperatureranged from 28 to 29°C were statistically significant at 0.035 and 0.0001 level, respectively. A statistical predictive model was obtained from multiple regression modeling for MDI and psychrometric parameters. The result of the current study may be useful for the prediction of diisocyanate pollution for polyurethane factoriesin the same psychrometric condition. This indicates that the MDI concentration is attributed to psychrometric parameters.

  13. A beamformer analysis of MEG data reveals frontal generators of the musically elicited mismatch negativity.

    Directory of Open Access Journals (Sweden)

    Claudia Lappe

    Full Text Available To localize the neural generators of the musically elicited mismatch negativity with high temporal resolution we conducted a beamformer analysis (Synthetic Aperture Magnetometry, SAM on magnetoencephalography (MEG data from a previous musical mismatch study. The stimuli consisted of a six-tone melodic sequence comprising broken chords in C- and G-major. The musical sequence was presented within an oddball paradigm in which the last tone was lowered occasionally (20% by a minor third. The beamforming analysis revealed significant right hemispheric neural activation in the superior temporal (STC, inferior frontal (IFC, superior frontal (SFC and orbitofrontal (OFC cortices within a time window of 100-200 ms after the occurrence of a deviant tone. IFC and SFC activation was also observed in the left hemisphere. The pronounced early right inferior frontal activation of the auditory mismatch negativity has not been shown in MEG studies so far. The activation in STC and IFC is consistent with earlier electroencephalography (EEG, optical imaging and functional magnetic resonance imaging (fMRI studies that reveal the auditory and inferior frontal cortices as main generators of the auditory MMN. The observed right hemispheric IFC is also in line with some previous music studies showing similar activation patterns after harmonic syntactic violations. The results demonstrate that a deviant tone within a musical sequence recruits immediately a distributed neural network in frontal and prefrontal areas suggesting that top-down processes are involved when expectation violation occurs within well-known stimuli.

  14. Dynamic transcriptional signature and cell fate analysis reveals plasticity of individual neural plate border cells

    Science.gov (United States)

    Roellig, Daniela; Tan-Cabugao, Johanna; Esaian, Sevan; Bronner, Marianne E

    2017-01-01

    The ‘neural plate border’ of vertebrate embryos contains precursors of neural crest and placode cells, both defining vertebrate characteristics. How these lineages segregate from neural and epidermal fates has been a matter of debate. We address this by performing a fine-scale quantitative temporal analysis of transcription factor expression in the neural plate border of chick embryos. The results reveal significant overlap of transcription factors characteristic of multiple lineages in individual border cells from gastrula through neurula stages. Cell fate analysis using a Sox2 (neural) enhancer reveals that cells that are initially Sox2+ cells can contribute not only to neural tube but also to neural crest and epidermis. Moreover, modulating levels of Sox2 or Pax7 alters the apportionment of neural tube versus neural crest fates. Our results resolve a long-standing question and suggest that many individual border cells maintain ability to contribute to multiple ectodermal lineages until or beyond neural tube closure. DOI: http://dx.doi.org/10.7554/eLife.21620.001 PMID:28355135

  15. Phenotypic Analysis Reveals that the 2010 Haiti Cholera Epidemic Is Linked to a Hypervirulent Strain.

    Science.gov (United States)

    Satchell, Karla J F; Jones, Christopher J; Wong, Jennifer; Queen, Jessica; Agarwal, Shivani; Yildiz, Fitnat H

    2016-09-01

    Vibrio cholerae O1 El Tor strains have been responsible for pandemic cholera since 1961. These strains have evolved over time, spreading globally in three separate waves. Wave 3 is caused by altered El Tor (AET) variant strains, which include the strain with the signature ctxB7 allele that was introduced in 2010 into Haiti, where it caused a devastating epidemic. In this study, we used phenotypic analysis to compare an early isolate from the Haiti epidemic to wave 1 El Tor isolates commonly used for research. It is demonstrated that the Haiti isolate has increased production of cholera toxin (CT) and hemolysin, increased motility, and a reduced ability to form biofilms. This strain also outcompetes common wave 1 El Tor isolates for colonization of infant mice, indicating that it has increased virulence. Monitoring of CT production and motility in additional wave 3 isolates revealed that this phenotypic variation likely evolved over time rather than in a single genetic event. Analysis of available whole-genome sequences and phylogenetic analyses suggested that increased virulence arose from positive selection for mutations found in known and putative regulatory genes, including hns and vieA, diguanylate cyclase genes, and genes belonging to the lysR and gntR regulatory families. Overall, the studies presented here revealed that V. cholerae virulence potential can evolve and that the currently prevalent wave 3 AET strains are both phenotypically distinct from and more virulent than many El Tor isolates.

  16. Consistência interna e fatorial do Inventário Multifatorial de Coping para Adolescentes Reliability and confirmatory factorial analysis of the Multifactor Coping for Adolescents Inventory with Brazilian students

    Directory of Open Access Journals (Sweden)

    Marcos Alencar Abaide Balbinotti

    2006-12-01

    Full Text Available Coping é um construto multidimensional relativo às formas como as pessoas lidam com situações estressantes. Diversas pesquisas assinalam a importância dessas "respostas de enfrentamento". Este estudo visa verificar os índices de consistência interna e fatorial confirmatórios do Inventário Multifatorial de Coping para Adolescentes (IMCA-43. Assim, a coleta de dados foi realizada mediante aplicações coletivas, em sala de aula, em uma amostra de 285 estudantes do ensino fundamental e médio, de ambos os sexos e com idades variando de 13 a 18 anos. Os resultados dos índices alfa de Cronbach (0,71 a 0,89 foram satisfatórios. A adequação aos modelos tridimensional (x2/gl = 2,85; GFI = 0,757; AGFI = 0,724; RMSEA = 0,081 tetradimensional (x2/gl = 2,44; GFI = 0,724; AGFI = 0,695; RMSEA = 0,071 e pentadimensional (x2/gl = 2,32; GFI = 0,750; AGFI = 0,723; RMSEA = 0,068 é pouco recomendada. Os resultados indicam serem necessárias pesquisas continuadas a fim de melhorar certas qualidades métricas deste instrumento.Coping is a multidimensional concept concerning how people face and deal with stressful situations. Researches have been showing the importance of these forms of behavior responses. This study aimed to measure the internal consistency of the Multifactorial Inventory of Coping for Adolescents (IMCA-43 and evaluate the fit of the model through confirmatory factorial analysis. A sample of 285 students of Intermediate and High School, of both sexes, with ages ranging from 13 to 18 years old was used. The data was colected colectivelly in their classrooms. The results of the Cronbach alfa (0,71 to 0,89 were satisfactory. The index of adequacy for the tri-dimensional model (x2/gl = 2,85; GFI = 0,757; AGFI = 0,724; RMSEA = 0,081, tetra-dimensional (x2/gl = 2,44; GFI = 0,724; AGFI = 0,695; RMSEA = 0,071 and penta-dimensional (x2/gl = 2,32; GFI = 0,750; AGFI = 0,723; RMSEA = 0,068 are non-recommended for the fit of the model. The results

  17. Diffusion tensor imaging-derived measures of fractional anisotropy across the pyramidal tract are influenced by the cerebral hemisphere but not by gender in young healthy volunteers: a split-plot factorial analysis of variance

    Institute of Scientific and Technical Information of China (English)

    Ernesto Roldan-Valadez; Edgar Rios-Piedra; Rafael Favila; Sarael Alcauter; Camilo Rios

    2012-01-01

    Background Diffusion tensor imaging (DTI) permits quantitative examination within the pyramidal tract (PT) by measuring fractional anisotropy (FA).To the best of our knowledge,the inter-variability measures of FA along the PT remain unexplained.A clear understanding of these reference values would help radiologists and neuroscientists to understand normality as well as to detect early pathophysiologic changes of brain diseases.The aim of our study was to calculate the variability of the FA at eleven anatomical landmarks along the PT and the influences of gender and cerebral hemisphere in these measurements in a sample of young,healthy volunteers.Methods A retrospective,cross-sectional study was performed in twenty-three right-handed healthy volunteers who underwent magnetic resonance evaluation of the brain.Mean FA values from eleven anatomical landmarks across the PT (at centrum semiovale,corona radiata,posterior limb of internal capsule (PLIC),mesencephalon,pons,and medulla oblongata) were evaluated using split-plot factorial analysis of variance (ANOVA).Results We found a significant interaction effect between anatomical landmark and cerebral hemisphere (F (10,32)=4.516,P=0.001; Wilks' Lambda 0.415,with a large effect size (partial n2=0.585)).The influence of gender end age was non-significant.On average,the midbrain and PLIC FA values were higher than pons and medulla oblongata values; centrum semiovale measurements were higher than those of the corona radiata but lower than PLIC.Conclusions There is a normal variability of FA measurements along PT in healthy individuals,which is influenced by regions of interest location (anatomical landmarks) and cerebral hemisphere.FA measurements should be reported for comparing same-side and same-landmark PT to help avoid comparisons with the contralateral PT; ideally,normative values should exist for a clinically significant age group.A standardized package of selected DTI processing tools would allow DTI processing to be

  18. The benefits and challenges of sharing glidein factory operations across nine time zones between OSG and CMS

    CERN Document Server

    Sfiligoi, Igor; Zvada, Marian; Butenas, Ignas; Holzman, Burt; Wuerthwein, Frank Karl; Kreuzer, Peter; Teige, Scott W.; Quick, Robert; Hernandez, Jose M.; Flix Molina, Jose

    2012-01-01

    OSG has been operating for a few years at UCSD a glideinWMS factory for several scientific communities, including CMS analysis, HCC and GLOW. This setup worked fine, but it had become a single point of failure. OSG thus recently added another instance at Indiana University, serving the same user communities. Similarly, CMS has been operating a glidein factory dedicated to reprocessing activities at Fermilab, with similar results. Recently, CMS decided to host another glidein factory at CERN, to increase the availability of the system, both for analysis, MC and reprocessing jobs. Given the large overlap between this new factory and the three factories in the US, and given that CMS represents a significant fraction of glideins going through the OSG factories, CMS and OSG formed a common operations team that operates all of the above factories. The reasoning behind this arrangement is that most operational issues stem from Grid-related problems, and are very similar for all the factory instances. Solving a probl...

  19. Gene set based integrated data analysis reveals phenotypic differences in a brain cancer model.

    Directory of Open Access Journals (Sweden)

    Kjell Petersen

    Full Text Available A key challenge in the data analysis of biological high-throughput experiments is to handle the often low number of samples in the experiments compared to the number of biomolecules that are simultaneously measured. Combining experimental data using independent technologies to illuminate the same biological trends, as well as complementing each other in a larger perspective, is one natural way to overcome this challenge. In this work we investigated if integrating proteomics and transcriptomics data from a brain cancer animal model using gene set based analysis methodology, could enhance the biological interpretation of the data relative to more traditional analysis of the two datasets individually. The brain cancer model used is based on serial passaging of transplanted human brain tumor material (glioblastoma--GBM through several generations in rats. These serial transplantations lead over time to genotypic and phenotypic changes in the tumors and represent a medically relevant model with a rare access to samples and where consequent analyses of individual datasets have revealed relatively few significant findings on their own. We found that the integrated analysis both performed better in terms of significance measure of its findings compared to individual analyses, as well as providing independent verification of the individual results. Thus a better context for overall biological interpretation of the data can be achieved.

  20. CFD simulation and energy efficient analysis of stratified cleaning in large-space clean factory buildings%高大洁净厂房分层净化CFD模拟与节能性分析

    Institute of Scientific and Technical Information of China (English)

    董秀芳; 肖武; 赵彬

    2012-01-01

    分析了高大洁净厂房的空间特点、使用时间特点、净化负荷特点,提出了在高度上分层的净化空调方案.采用CFD模拟了某高大洁净厂房采用分层净化空调时的气流组织,浓度场、温度场的模拟结果表明,该方案适用于高大洁净厂房.%Analyses the characteristics of space, service time and cleaning load in the building, and provides the stratified cleaning air conditioning scheme. Simulates the air distribution of stratified cleaning air conditioning in a large-space clean factory building with CFD. The concentration and temperature fields obtained show that the stratified cleaning air conditioning scheme suits for large-space clean factory buildings.

  1. Long-term pulmonary complications of chemical weapons exposure in former poison gas factory workers.

    Science.gov (United States)

    Nishimura, Yoshifumi; Iwamoto, Hiroshi; Ishikawa, Nobuhisa; Hattori, Noboru; Horimasu, Yasushi; Ohshimo, Shinichiro; Fujitaka, Kazunori; Kondo, Keiichi; Hamada, Hironobu; Awai, Kazuo; Kohno, Nobuoki

    2016-07-01

    Sulfur mustard (SM) and lewisite are vesicant chemical warfare agents that can cause skin blistering and chronic lung complications. During 1929-1945, a Japanese factory produced poisonous gases, which included SM, lewisite and other chemical weapons. The aim of this study was to investigate the chest computed tomography (CT) findings among long-term survivors who worked at this factory. During 2009-2012, we evaluated chest CT findings from 346 long-term survivors who worked at the poison gas factory. Skin lesions were used as an indicator of significant exposure to vesicant agents. Among the 346 individuals, 53 (15%) individuals experienced skin lesions while working at the factory, and chest CT revealed abnormal findings in 179 individuals (52%). Emphysema was the most common CT finding and was observed in 75 individuals (22%), while honeycombing was observed in 8 individuals (2%). Emphysema and honeycombing were more prevalent among individuals with skin lesions, compared to individuals without skin lesions. Multivariate analyses revealed significant associations between the presence of emphysema and skin lesions (p = 0.008). Among individuals who never smoked, individuals with skin lesions (n = 26) exhibited a significantly higher rate of emphysema, compared to individuals without skin lesions (n = 200) (35% versus 7%, respectively; p factory, a history of skin lesions was associated with the presence of emphysema, even among never smokers, which suggests that emphysema might be a long-term complication of exposure to chemical warfare agents.

  2. Diversity of eukaryotic DNA replication origins revealed by genome-wide analysis of chromatin structure.

    Directory of Open Access Journals (Sweden)

    Nicolas M Berbenetz

    2010-09-01

    Full Text Available Eukaryotic DNA replication origins differ both in their efficiency and in the characteristic time during S phase when they become active. The biological basis for these differences remains unknown, but they could be a consequence of chromatin structure. The availability of genome-wide maps of nucleosome positions has led to an explosion of information about how nucleosomes are assembled at transcription start sites, but no similar maps exist for DNA replication origins. Here we combine high-resolution genome-wide nucleosome maps with comprehensive annotations of DNA replication origins to identify patterns of nucleosome occupancy at eukaryotic replication origins. On average, replication origins contain a nucleosome depleted region centered next to the ACS element, flanked on both sides by arrays of well-positioned nucleosomes. Our analysis identified DNA sequence properties that correlate with nucleosome occupancy at replication origins genome-wide and that are correlated with the nucleosome-depleted region. Clustering analysis of all annotated replication origins revealed a surprising diversity of nucleosome occupancy patterns. We provide evidence that the origin recognition complex, which binds to the origin, acts as a barrier element to position and phase nucleosomes on both sides of the origin. Finally, analysis of chromatin reconstituted in vitro reveals that origins are inherently nucleosome depleted. Together our data provide a comprehensive, genome-wide view of chromatin structure at replication origins and suggest a model of nucleosome positioning at replication origins in which the underlying sequence occludes nucleosomes to permit binding of the origin recognition complex, which then (likely in concert with nucleosome modifiers and remodelers positions nucleosomes adjacent to the origin to promote replication origin function.

  3. Metatranscriptomic analysis of diverse microbial communities reveals core metabolic pathways and microbiome-specific functionality.

    Science.gov (United States)

    Jiang, Yue; Xiong, Xuejian; Danska, Jayne; Parkinson, John

    2016-01-12

    Metatranscriptomics is emerging as a powerful technology for the functional characterization of complex microbial communities (microbiomes). Use of unbiased RNA-sequencing can reveal both the taxonomic composition and active biochemical functions of a complex microbial community. However, the lack of established reference genomes, computational tools and pipelines make analysis and interpretation of these datasets challenging. Systematic studies that compare data across microbiomes are needed to demonstrate the ability of such pipelines to deliver biologically meaningful insights on microbiome function. Here, we apply a standardized analytical pipeline to perform a comparative analysis of metatranscriptomic data from diverse microbial communities derived from mouse large intestine, cow rumen, kimchi culture, deep-sea thermal vent and permafrost. Sequence similarity searches allowed annotation of 19 to 76% of putative messenger RNA (mRNA) reads, with the highest frequency in the kimchi dataset due to its relatively low complexity and availability of closely related reference genomes. Metatranscriptomic datasets exhibited distinct taxonomic and functional signatures. From a metabolic perspective, we identified a common core of enzymes involved in amino acid, energy and nucleotide metabolism and also identified microbiome-specific pathways such as phosphonate metabolism (deep sea) and glycan degradation pathways (cow rumen). Integrating taxonomic and functional annotations within a novel visualization framework revealed the contribution of different taxa to metabolic pathways, allowing the identification of taxa that contribute unique functions. The application of a single, standard pipeline confirms that the rich taxonomic and functional diversity observed across microbiomes is not simply an artefact of different analysis pipelines but instead reflects distinct environmental influences. At the same time, our findings show how microbiome complexity and availability of

  4. School Refusal Assessment Scale-Revised: Factorial Invariance and Latent Means Differences across Gender and Age in Spanish Children

    Science.gov (United States)

    Gonzálvez, Carolina; Inglés, Cándido J.; Kearney, Christopher A.; Vicent, María; Sanmartín, Ricardo; García-Fernández, José M.

    2016-01-01

    The aim of this study was to analyze the factorial invariance and latent means differences of the Spanish version of the School Refusal Assessment Scale-Revised for Children (SRAS-R-C) in a sample of 1,078 students (50.8% boys) aged 8–11 years (M = 9.63, SD = 1.12). The results revealed that the proposed model in this study, with a structure of 18 items divided into four factors (Negative Affective, Social Aversion and/or Evaluation, To Pursue Attention and Tangible Reinforcements), was the best-fit model with a tetra-factorial structure, remaining invariant across gender and age. Analysis of latent means differences indicated that boys and 11-year-old students scored highest on the Tangible Reinforcements subscale compared with their 8- and 9-year-old peers. On the contrary, for the subscales of Social Aversion and/or Evaluation and to Pursue Attention, the differences were significant and higher in younger age groups compared to 11-year-olds. Appropriate indexes of reliability were obtained for SRAS-R-C subscales (0.70, 0.79, 0.87, and 0.72). Finally, the founded correlation coefficients of scores of the SRAS-R-C revealed a predictable pattern between school refusal and positive/negative affect and optimism/pessimism. PMID:28082938

  5. Guided and Interactive Factory Tours for Schools

    NARCIS (Netherlands)

    Kaibel, Andreas; Auwaerter, Andreas; Kravcik, Milos

    2006-01-01

    Please, cite this paper as: Kaibel, A., Auwaerter, A., & Kravcik, M. (2006). Guided and Interactive Factory Tours for Schools. Proceedings of the First European Conference on Technology Enhanced Learning. October 1st-4th, Crete, Greece: Springer. Retrieved October 18th, 2006, from http://dspace.lear

  6. Cell factories for a sustainable world

    DEFF Research Database (Denmark)

    Kindtler, Jens William

    2016-01-01

    The Novo Nordisk Foundation Center for Biosustainability (CFB) is a university research center under the Technical University of Denmark within the field of design, engineering and construction of superior cell factories for the production of biopharmaceuticals, anti-infective compounds, industrial...

  7. The Idea Factory: An Interactive Intergroup Exercise

    Science.gov (United States)

    Rosh, Lisa; Leach, Evan

    2011-01-01

    This article outlines the Idea Factory exercise, an interactive exercise designed to help participants examine group, individual, and organizational factors that affect intergroup conflict. Specific emphasis is placed on exploring the relationship between intra- and intergroup dynamics and identifying managerial practices that foster effective…

  8. An Epiphany in a Toilet Factory

    Science.gov (United States)

    Cobb, Catlin

    2009-01-01

    In this article, the author shares her experiences of the universality of art making and artistic experience of being a dancer and teaching artist. She describes her performance at Kohler, a worldwide leader in plumbing products in Spartanburg, South Carolina, where she had an epiphany dancing in a toilet factory--a sudden, intuitive moment of…

  9. Plant factories; crop transpiration and energy balance

    NARCIS (Netherlands)

    Graamans, Luuk; Dobbelsteen, van den Andy; Meinen, Esther; Stanghellini, Cecilia

    2017-01-01

    Population growth and rapid urbanisation may result in a shortage of food supplies for cities in the foreseeable future. Research on closed plant production systems, such as plant factories, has attempted to offer perspectives for robust (urban) agricultural systems. Insight into the explicit role

  10. The Energy Factory; EnergieFabriek

    Energy Technology Data Exchange (ETDEWEB)

    Van den Boomen, M.; Van den Dungen, G.J.; Elias, T.; Jansen, M. [Universiteit van Amsterdam UvA, Amsterdam (Netherlands)

    2009-05-15

    The Energy Factory is a collaboration of 26 Dutch local water boards in which options for energy saving and energy production are examined. According to the authors, the initiative of the Energy Factory will lead to a reframing of the role of the water boards. Moreover, they explain how the PPP concept (People, Planet, Profit) may act as platform for negotiations between actors who are involved in the Energy Factory. In addition, the PPP concept is used to demonstrate that the Energy Factory will lead to larger social involvement, social entrepreneurship and growing profits [Dutch] De Energiefabriek is een samenwerkingsverband van 26 waterschappen in Nederland waarin wordt gezocht naar mogelijkheden om energie te besparen en zelf energie te produceren. Volgens de auteurs van deze notitie leidt het initiatief van de Energiefabriek tot een reframing van de rol van waterschappen. Daarnaast leggen ze uit hoe het PPP-concept (People, Profit, Planet) kan fungeren als platform voor onderhandelingen tussen de actoren die betrokken zijn bij de Energiefabriek. Verder wordt met het PPP-concept aangetoond dat de Energiefabriek leidt tot ruimere maatschappelijke betrokkenheid, maatschappelijk ondernemen en winstvergroting.

  11. Software Development Factories, the Project Management Perspective

    OpenAIRE

    Felician ALECU

    2012-01-01

    In a software factory, the applications are developed in the same way Henri Ford started manufacturing cars. In such a way, a customized solution could be obtained within a reasonable budget and within the foreseen timeframe. This development method offers a flexible solution that can be readapted rapidly and automatically to the changing business needs, so the Project Management becomes a real challenge.

  12. Reinventing the Factory with Lifelong Learning.

    Science.gov (United States)

    Nopper, Norman S.

    1993-01-01

    Honeywell Inc.'s Canadian manufacturing facility offers comprehensive adult education and training programs. Courses offered spearhead cultural changes needed to become globally competitive. Changes start on the factory floor with those who directly affect three aspects of customer satisfaction: on-time delivery, product quality, and low cost.…

  13. Guided and Interactive Factory Tours for Schools

    NARCIS (Netherlands)

    Kaibel, Andreas; Auwaerter, Andreas; Kravcik, Milos

    2006-01-01

    Please, cite this paper as: Kaibel, A., Auwaerter, A., & Kravcik, M. (2006). Guided and Interactive Factory Tours for Schools. Proceedings of the First European Conference on Technology Enhanced Learning. October 1st-4th, Crete, Greece: Springer. Retrieved October 18th, 2006, from

  14. An Epiphany in a Toilet Factory

    Science.gov (United States)

    Cobb, Catlin

    2009-01-01

    In this article, the author shares her experiences of the universality of art making and artistic experience of being a dancer and teaching artist. She describes her performance at Kohler, a worldwide leader in plumbing products in Spartanburg, South Carolina, where she had an epiphany dancing in a toilet factory--a sudden, intuitive moment of…

  15. The Idea Factory: An Interactive Intergroup Exercise

    Science.gov (United States)

    Rosh, Lisa; Leach, Evan

    2011-01-01

    This article outlines the Idea Factory exercise, an interactive exercise designed to help participants examine group, individual, and organizational factors that affect intergroup conflict. Specific emphasis is placed on exploring the relationship between intra- and intergroup dynamics and identifying managerial practices that foster effective…

  16. Business plan Feed Factory Zambezi Valley, Mozambique

    NARCIS (Netherlands)

    Vernooij, A.G.; Wilschut, S.

    2015-01-01

    This business plan focuses on the establishment of a poultry feed factory, one of the essential elements of a sustainable and profitable poultry meat value chain. There is a growing demand for poultry meat in the Tete Province, and currently a large part of the consumed broilers come from other part

  17. Jean Desmet’s Dream Factory

    Directory of Open Access Journals (Sweden)

    Eline Grignard

    2015-07-01

    Full Text Available Exhibition review of "Jean Desmet’s Dream Factory. The Adventurous Years of Film (1907-1916" held in Eye Film Instituut in Amsterdam. Paying hommage to film operator and collector Jean Desmet, the exhibition presents a wide range of the film collection as well as a number of rare archival materials.

  18. Nematode community structure in the vicinity of a metallurgical factory.

    Science.gov (United States)

    Salamún, Peter; Renčo, Marek; Miklisová, Dana; Hanzelová, Vladimíra

    2011-12-01

    Soil nematode communities (taxa composition, trophic structure, ecological indices) in the area of metallurgical factory (Oravské ferozliatinárske závody) in Široká, Northern Slovakia were investigated in 2009. The factory belongs to main sources of emissions originated by ferroalloy production in this region. Four sites (meadows) were selected in a downwind direction from the factory: site A was located 0.85 km far from the factory, and the other sites were maintained in approximately 2-km intervals from each other. Chemical analysis of soil samples showed low concentrations of heavy metals (As, Cd, Cr, Cu, Ni, Pb and Zn), with all values being under Slovak limit concentrations of heavy metals in soils. Only the Cd content in the soil sample from site A slightly exceeded the allowable threshold, but it was decreasing with the distance from the factory, similarly as remaining metals except Cr, with slightly increasing trend of concentration. Within 64 identified nematode genera, the Helicotylenchus, Paratylenchus, Pratylenchus, Acrobeloides, Cephalobus and Rhabditis were most common and eudominant. This was clearly reflected on the trophic structure of nematode communities, where plant feeding nematodes and bacteriovorous prevailed. Significant negative correlation (P < 0.05) was observed between the abundance of bacteriovores and the concentration of Cu in the soil. On the other hand, fungivores showed significant correlation with Ni and Cr (P < 0.05) as well as predators with Cd, Pb and Zn contents in the soil (P < 0.01). The highly significant correlation (P < 0.05; P < 0.01) was found between As, Cd, Ni, Pb and Zn and Maturity Index 2-5. A negative relationship was detected between Maturity Index and the concentration of Cr in the soil (P < 0.01). On the other hand, Cu was in positive correlation with MI values. The MI, reflecting the degree of disturbances and changes in the structure and function of the soil ecosystem, was found

  19. Dynamic functional connectivity analysis reveals transient states of dysconnectivity in schizophrenia

    Directory of Open Access Journals (Sweden)

    E. Damaraju

    2014-01-01

    Full Text Available Schizophrenia is a psychotic disorder characterized by functional dysconnectivity or abnormal integration between distant brain regions. Recent functional imaging studies have implicated large-scale thalamo-cortical connectivity as being disrupted in patients. However, observed connectivity differences in schizophrenia have been inconsistent between studies, with reports of hyperconnectivity and hypoconnectivity between the same brain regions. Using resting state eyes-closed functional imaging and independent component analysis on a multi-site data that included 151 schizophrenia patients and 163 age- and gender matched healthy controls, we decomposed the functional brain data into 100 components and identified 47 as functionally relevant intrinsic connectivity networks. We subsequently evaluated group differences in functional network connectivity, both in a static sense, computed as the pairwise Pearson correlations between the full network time courses (5.4 minutes in length, and a dynamic sense, computed using sliding windows (44 s in length and k-means clustering to characterize five discrete functional connectivity states. Static connectivity analysis revealed that compared to healthy controls, patients show significantly stronger connectivity, i.e., hyperconnectivity, between the thalamus and sensory networks (auditory, motor and visual, as well as reduced connectivity (hypoconnectivity between sensory networks from all modalities. Dynamic analysis suggests that (1, on average, schizophrenia patients spend much less time than healthy controls in states typified by strong, large-scale connectivity, and (2, that abnormal connectivity patterns are more pronounced during these connectivity states. In particular, states exhibiting cortical–subcortical antagonism (anti-correlations and strong positive connectivity between sensory networks are those that show the group differences of thalamic hyperconnectivity and sensory hypoconnectivity

  20. Genomic and physiological analysis reveals versatile metabolic capacity of deep-sea Photobacterium phosphoreum ANT-2200.

    Science.gov (United States)

    Zhang, Sheng-Da; Santini, Claire-Lise; Zhang, Wei-Jia; Barbe, Valérie; Mangenot, Sophie; Guyomar, Charlotte; Garel, Marc; Chen, Hai-Tao; Li, Xue-Gong; Yin, Qun-Jian; Zhao, Yuan; Armengaud, Jean; Gaillard, Jean-Charles; Martini, Séverine; Pradel, Nathalie; Vidaud, Claude; Alberto, François; Médigue, Claudine; Tamburini, Christian; Wu, Long-Fei

    2016-05-01

    Bacteria of the genus Photobacterium thrive worldwide in oceans and show substantial eco-physiological diversity including free-living, symbiotic and piezophilic life styles. Genomic characteristics underlying this variability across species are poorly understood. Here we carried out genomic and physiological analysis of Photobacterium phosphoreum strain ANT-2200, the first deep-sea luminous bacterium of which the genome has been sequenced. Using optical mapping we updated the genomic data and reassembled it into two chromosomes and a large plasmid. Genomic analysis revealed a versatile energy metabolic potential and physiological analysis confirmed its growth capacity by deriving energy from fermentation of glucose or maltose, by respiration with formate as electron donor and trimethlyamine N-oxide (TMAO), nitrate or fumarate as electron acceptors, or by chemo-organo-heterotrophic growth in rich media. Despite that it was isolated at a site with saturated dissolved oxygen, the ANT-2200 strain possesses four gene clusters coding for typical anaerobic enzymes, the TMAO reductases. Elevated hydrostatic pressure enhances the TMAO reductase activity, mainly due to the increase of isoenzyme TorA1. The high copy number of the TMAO reductase isoenzymes and pressure-enhanced activity might imply a strategy developed by bacteria to adapt to deep-sea habitats where the instant TMAO availability may increase with depth.

  1. Topological robustness analysis of protein interaction networks reveals key targets for overcoming chemotherapy resistance in glioma

    Science.gov (United States)

    Azevedo, Hátylas; Moreira-Filho, Carlos Alberto

    2015-11-01

    Biological networks display high robustness against random failures but are vulnerable to targeted attacks on central nodes. Thus, network topology analysis represents a powerful tool for investigating network susceptibility against targeted node removal. Here, we built protein interaction networks associated with chemoresistance to temozolomide, an alkylating agent used in glioma therapy, and analyzed their modular structure and robustness against intentional attack. These networks showed functional modules related to DNA repair, immunity, apoptosis, cell stress, proliferation and migration. Subsequently, network vulnerability was assessed by means of centrality-based attacks based on the removal of node fractions in descending orders of degree, betweenness, or the product of degree and betweenness. This analysis revealed that removing nodes with high degree and high betweenness was more effective in altering networks’ robustness parameters, suggesting that their corresponding proteins may be particularly relevant to target temozolomide resistance. In silico data was used for validation and confirmed that central nodes are more relevant for altering proliferation rates in temozolomide-resistant glioma cell lines and for predicting survival in glioma patients. Altogether, these results demonstrate how the analysis of network vulnerability to topological attack facilitates target prioritization for overcoming cancer chemoresistance.

  2. Comprehensive DNA Adduct Analysis Reveals Pulmonary Inflammatory Response Contributes to Genotoxic Action of Magnetite Nanoparticles

    Directory of Open Access Journals (Sweden)

    Kousuke Ishino

    2015-02-01

    Full Text Available Nanosized-magnetite (MGT is widely utilized in medicinal and industrial fields; however, its toxicological properties are not well documented. In our previous report, MGT showed genotoxicity in both in vitro and in vivo assay systems, and it was suggested that inflammatory responses exist behind the genotoxicity. To further clarify mechanisms underlying the genotoxicity, a comprehensive DNA adduct (DNA adductome analysis was conducted using DNA samples derived from the lungs of mice exposed to MGT. In total, 30 and 42 types of DNA adducts were detected in the vehicle control and MGT-treated groups, respectively. Principal component analysis (PCA against a subset of DNA adducts was applied and several adducts, which are deduced to be formed by inflammation or oxidative stress, as the case of etheno-deoxycytidine (εdC, revealed higher contributions to MGT exposure. By quantitative-LC-MS/MS analysis, εdC levels were significantly higher in MGT-treated mice than those of the vehicle control. Taken together with our previous data, it is suggested that inflammatory responses might be involved in the genotoxicity induced by MGT in the lungs of mice.

  3. Geometric morphometric analysis reveals age-related differences in the distal femur of Europeans.

    Science.gov (United States)

    Cavaignac, Etienne; Savall, Frederic; Chantalat, Elodie; Faruch, Marie; Reina, Nicolas; Chiron, Philippe; Telmon, Norbert

    2017-12-01

    Few studies have looked into age-related variations in femur shape. We hypothesized that three-dimensional (3D) geometric morphometric analysis of the distal femur would reveal age-related differences. The purpose of this study was to show that differences in distal femur shape related to age could be identified, visualized, and quantified using three-dimensional (3D) geometric morphometric analysis. Geometric morphometric analysis was carried out on CT scans of the distal femur of 256 subjects living in the south of France. Ten landmarks were defined on 3D reconstructions of the distal femur. Both traditional metric and geometric morphometric analyses were carried out on these bone reconstructions. These analyses were used to identify trends in bone shape in various age-based subgroups (60). Only the average bone shape of the < 40-year subgroup was statistically different from that of the other two groups. When the population was divided into two subgroups using 40 years of age as a threshold, the subject's age was correctly assigned 80% of the time. Age-related differences are present in this bone segment. This reliable, accurate method could be used for virtual autopsy and to perform diachronic and interethnic comparisons. Moreover, this study provides updated morphometric data for a modern population in the south of France. Manufacturers of knee replacement implants will have to adapt their prosthesis models as the population evolves over time.

  4. Rapid genome evolution in Pms1 region of rice revealed by comparative sequence analysis

    Institute of Scientific and Technical Information of China (English)

    YU JinSheng; FAN YouRong; LIU Nan; SHAN Yan; LI XiangHua; ZHANG QiFa

    2007-01-01

    Pms1, a locus for photoperiod sensitive genic male sterility in rice, was identified and mapped to chromosome 7 in previous studies. Here we report an effort to identify the candidate genes for Pms1 by comparative sequencing of BAC clones from two cultivars Minghui 63 and Nongken 58, the parents for the initial mapping population. Annotation and comparison of the sequences of the two clones resulted in a total of five potential candidates which should be functionally tested. We also conducted comparative analysis of sequences of these two cultivars with two other cultivars, Nipponbare and 93-11,for which sequence data were available in public databases. The analysis revealed large differences in sequence composition among the four genotypes in the Pms1 region primarily due to retroelement activity leading to rapid recent growth and divergence of the genomes. High levels of polymorphism in the forms of indels and SNPs were found both in intra- and inter-subspecific comparisons. Dating analysis using LTRs of the retroelements in this region showed that the substitution rate of LTRs was much higher than reported in the literature. The results provided strong evidence for rapid genomic evolution of this region as a consequence of natural and artificial selection.

  5. Ecology of uncultured Prochlorococcus clades revealed through single-cell genomics and biogeographic analysis.

    Science.gov (United States)

    Malmstrom, Rex R; Rodrigue, Sébastien; Huang, Katherine H; Kelly, Libusha; Kern, Suzanne E; Thompson, Anne; Roggensack, Sara; Berube, Paul M; Henn, Matthew R; Chisholm, Sallie W

    2013-01-01

    Prochlorococcus is the numerically dominant photosynthetic organism throughout much of the world's oceans, yet little is known about the ecology and genetic diversity of populations inhabiting tropical waters. To help close this gap, we examined natural Prochlorococcus communities in the tropical Pacific Ocean using a single-cell whole-genome amplification and sequencing. Analysis of the gene content of just 10 single cells from these waters added 394 new genes to the Prochlorococcus pan-genome--that is, genes never before seen in a Prochlorococcus cell. Analysis of marker genes, including the ribosomal internal transcribed sequence, from dozens of individual cells revealed several representatives from two uncultivated clades of Prochlorococcus previously identified as HNLC1 and HNLC2. While the HNLC clades can dominate Prochlorococcus communities under certain conditions, their overall geographic distribution was highly restricted compared with other clades of Prochlorococcus. In the Atlantic and Pacific oceans, these clades were only found in warm waters with low Fe and high inorganic P levels. Genomic analysis suggests that at least one of these clades thrives in low Fe environments by scavenging organic-bound Fe, a process previously unknown in Prochlorococcus. Furthermore, the capacity to utilize organic-bound Fe appears to have been acquired horizontally and may be exchanged among other clades of Prochlorococcus. Finally, one of the single Prochlorococcus cells sequenced contained a partial genome of what appears to be a prophage integrated into the genome.

  6. Integrated systems analysis reveals a molecular network underlying autism spectrum disorders.

    Science.gov (United States)

    Li, Jingjing; Shi, Minyi; Ma, Zhihai; Zhao, Shuchun; Euskirchen, Ghia; Ziskin, Jennifer; Urban, Alexander; Hallmayer, Joachim; Snyder, Michael

    2014-12-30

    Autism is a complex disease whose etiology remains elusive. We integrated previously and newly generated data and developed a systems framework involving the interactome, gene expression and genome sequencing to identify a protein interaction module with members strongly enriched for autism candidate genes. Sequencing of 25 patients confirmed the involvement of this module in autism, which was subsequently validated using an independent cohort of over 500 patients. Expression of this module was dichotomized with a ubiquitously expressed subcomponent and another subcomponent preferentially expressed in the corpus callosum, which was significantly affected by our identified mutations in the network center. RNA-sequencing of the corpus callosum from patients with autism exhibited extensive gene mis-expression in this module, and our immunochemical analysis showed that the human corpus callosum is predominantly populated by oligodendrocyte cells. Analysis of functional genomic data further revealed a significant involvement of this module in the development of oligodendrocyte cells in mouse brain. Our analysis delineates a natural network involved in autism, helps uncover novel candidate genes for this disease and improves our understanding of its molecular pathology.

  7. Comparative Proteomic Analysis of Flag Leaves Reveals New Insight into Wheat Heat Adaptation

    Directory of Open Access Journals (Sweden)

    Yunze Lu

    2017-06-01

    Full Text Available Hexaploid wheat (Triticum aestivum L. is an important food crop but it is vulnerable to heat. The heat-responsive proteome of wheat remains to be fully elucidated because of previous technical and genomic limitations, and this has hindered our understanding of the mechanisms of wheat heat adaptation and advances in improving thermotolerance. Here, flag leaves of wheat during grain filling stage were subjected to high daytime temperature stress, and 258 heat-responsive proteins (HRPs were identified with iTRAQ analysis. Enrichment analysis revealed that chlorophyll synthesis, carbon fixation, protein turnover, and redox regulation were the most remarkable heat-responsive processes. The HRPs involved in chlorophyll synthesis and carbon fixation were significantly decreased, together with severe membrane damage, demonstrating the specific effects of heat on photosynthesis of wheat leaves. In addition, the decrease in chlorophyll content may result from the decrease in HRPs involved in chlorophyll precursor synthesis. Further analysis showed that the accumulated effect of heat stress played a critical role in photosynthesis reduction, suggested that improvement in heat tolerance of photosynthesis, and extending heat tolerant period would be major research targets. The significantly accumulation of GSTs and Trxs in response to heat suggested their important roles in redox regulation, and they could be the promising candidates for improving wheat thermotolerance. In summary, our results provide new insight into wheat heat adaption and provide new perspectives on thermotolerance improvement.

  8. Potential microRNA-mediated oncogenic intercellular communication revealed by pan-cancer analysis

    Science.gov (United States)

    Li, Yue; Zhang, Zhaolei

    2014-11-01

    Carcinogenesis consists of oncogenesis and metastasis, and intriguingly microRNAs (miRNAs) are involved in both processes. Although aberrant miRNA activities are prevalent in diverse tumor types, the exact mechanisms for how they regulate cancerous processes are not always clear. To this end, we performed a large-scale pan-cancer analysis via a novel probabilistic approach to infer recurrent miRNA-target interactions implicated in 12 cancer types using data from The Cancer Genome Atlas. We discovered ~20,000 recurrent miRNA regulations, which are enriched for cancer-related miRNAs/genes. Notably, miRNA 200 family (miR-200/141/429) is among the most prominent miRNA regulators, which is known to be involved in metastasis. Importantly, the recurrent miRNA regulatory network is not only enriched for cancer pathways but also for extracellular matrix (ECM) organization and ECM-receptor interactions. The results suggest an intriguing cancer mechanism involving miRNA-mediated cell-to-cell communication, which possibly involves delivery of tumorigenic miRNA messengers to adjacent cells via exosomes. Finally, survival analysis revealed 414 recurrent-prognostic associations, where both gene and miRNA involved in each interaction conferred significant prognostic power in one or more cancer types. Together, our comprehensive pan-cancer analysis provided not only biological insights into metastasis but also brought to bear the clinical relevance of the proposed recurrent miRNA-gene associations.

  9. Comparative Analysis of 35 Basidiomycete Genomes Reveals Diversity and Uniqueness of the Phylum

    Energy Technology Data Exchange (ETDEWEB)

    Riley, Robert; Salamov, Asaf; Otillar, Robert; Fagnan, Kirsten; Boussau, Bastien; Brown, Daren; Henrissat, Bernard; Levasseur, Anthony; Held, Benjamin; Nagy, Laszlo; Floudas, Dimitris; Morin, Emmanuelle; Manning, Gerard; Baker, Scott; Martin, Francis; Blanchette, Robert; Hibbett, David; Grigoriev, Igor V.

    2013-03-11

    Fungi of the phylum Basidiomycota (basidiomycetes), make up some 37percent of the described fungi, and are important in forestry, agriculture, medicine, and bioenergy. This diverse phylum includes symbionts, pathogens, and saprobes including wood decaying fungi. To better understand the diversity of this phylum we compared the genomes of 35 basidiomycete fungi including 6 newly sequenced genomes. The genomes of basidiomycetes span extremes of genome size, gene number, and repeat content. A phylogenetic tree of Basidiomycota was generated using the Phyldog software, which uses all available protein sequence data to simultaneously infer gene and species trees. Analysis of core genes reveals that some 48percent of basidiomycete proteins are unique to the phylum with nearly half of those (22percent) comprising proteins found in only one organism. Phylogenetic patterns of plant biomass-degrading genes suggest a continuum rather than a sharp dichotomy between the white rot and brown rot modes of wood decay among the members of Agaricomycotina subphylum. There is a correlation of the profile of certain gene families to nutritional mode in Agaricomycotina. Based on phylogenetically-informed PCA analysis of such profiles, we predict that that Botryobasidium botryosum and Jaapia argillacea have properties similar to white rot species, although neither has liginolytic class II fungal peroxidases. Furthermore, we find that both fungi exhibit wood decay with white rot-like characteristics in growth assays. Analysis of the rate of discovery of proteins with no or few homologs suggests the high value of continued sequencing of basidiomycete fungi.

  10. Meta-Analysis of EMT Datasets Reveals Different Types of EMT.

    Science.gov (United States)

    Liang, Lining; Sun, Hao; Zhang, Wei; Zhang, Mengdan; Yang, Xiao; Kuang, Rui; Zheng, Hui

    2016-01-01

    As a critical process during embryonic development, cancer progression and cell fate conversions, epithelial-mesenchymal transition (EMT) has been extensively studied over the last several decades. To further understand the nature of EMT, we performed meta-analysis of multiple microarray datasets to identify the related generic signature. In this study, 24 human and 17 mouse microarray datasets were integrated to identify conserved gene expression changes in different types of EMT. Our integrative analysis revealed that there is low agreement among the list of the identified signature genes and three other lists in previous studies. Since removing the datasets with weakly-induced EMT from the analysis did not significantly improve the overlapping in the signature-gene lists, we hypothesized the existence of different types of EMT. This hypothesis was further supported by the grouping of 74 human EMT-induction samples into five distinct clusters, and the identification of distinct pathways in these different clusters of EMT samples. The five clusters of EMT-induction samples also improves the understanding of the characteristics of different EMT types. Therefore, we concluded the existence of different types of EMT was the possible reason for its complex role in multiple biological processes.

  11. Phylogenomic Analysis of Oenococcus oeni Reveals Specific Domestication of Strains to Cider and Wines.

    Science.gov (United States)

    Campbell-Sills, Hugo; El Khoury, Mariette; Favier, Marion; Romano, Andrea; Biasioli, Franco; Spano, Giuseppe; Sherman, David J; Bouchez, Olivier; Coton, Emmanuel; Coton, Monika; Okada, Sanae; Tanaka, Naoto; Dols-Lafargue, Marguerite; Lucas, Patrick M

    2015-05-14

    Oenococcus oeni is a lactic acid bacteria species encountered particularly in wine, where it achieves the malolactic fermentation. Molecular typing methods have previously revealed that the species is made of several genetic groups of strains, some being specific to certain types of wines, ciders or regions. Here, we describe 36 recently released O. oeni genomes and the phylogenomic analysis of these 36 plus 14 previously reported genomes. We also report three genome sequences of the sister species Oenococcus kitaharae that were used for phylogenomic reconstructions. Phylogenomic and population structure analyses performed revealed that the 50 O. oeni genomes delineate two major groups of 12 and 37 strains, respectively, named A and B, plus a putative group C, consisting of a single strain. A study on the orthologs and single nucleotide polymorphism contents of the genetic groups revealed that the domestication of some strains to products such as cider, wine, or champagne, is reflected at the genetic level. While group A strains proved to be predominant in wine and to form subgroups adapted to specific types of wine such as champagne, group B strains were found in wine and cider. The strain from putative group C was isolated from cider and genetically closer to group B strains. The results suggest that ancestral O. oeni strains were adapted to low-ethanol containing environments such as overripe fruits, and that they were domesticated to cider and wine, with group A strains being naturally selected in a process of further domestication to specific wines such as champagne. © The Author(s) 2015. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution.

  12. Transcriptome analysis in tardigrade species reveals specific molecular pathways for stress adaptations.

    Science.gov (United States)

    Förster, Frank; Beisser, Daniela; Grohme, Markus A; Liang, Chunguang; Mali, Brahim; Siegl, Alexander Matthias; Engelmann, Julia C; Shkumatov, Alexander V; Schokraie, Elham; Müller, Tobias; Schnölzer, Martina; Schill, Ralph O; Frohme, Marcus; Dandekar, Thomas

    2012-01-01

    Tardigrades have unique stress-adaptations that allow them to survive extremes of cold, heat, radiation and vacuum. To study this, encoded protein clusters and pathways from an ongoing transcriptome study on the tardigrade Milnesium tardigradum were analyzed using bioinformatics tools and compared to expressed sequence tags (ESTs) from Hypsibius dujardini, revealing major pathways involved in resistance against extreme environmental conditions. ESTs are available on the Tardigrade Workbench along with software and databank updates. Our analysis reveals that RNA stability motifs for M. tardigradum are different from typical motifs known from higher animals. M. tardigradum and H. dujardini protein clusters and conserved domains imply metabolic storage pathways for glycogen, glycolipids and specific secondary metabolism as well as stress response pathways (including heat shock proteins, bmh2, and specific repair pathways). Redox-, DNA-, stress- and protein protection pathways complement specific repair capabilities to achieve the strong robustness of M. tardigradum. These pathways are partly conserved in other animals and their manipulation could boost stress adaptation even in human cells. However, the unique combination of resistance and repair pathways make tardigrades and M. tardigradum in particular so highly stress resistant.

  13. Precursors of stall and surge processes in gas turbines revealed by wavelet analysis

    Energy Technology Data Exchange (ETDEWEB)

    Dremin, I.M.; Ivanov, O.V.; Nechitailo, V.A. [P.N. Lebedev Physical Institute, Moscow (Russian Federation); Furletov, V.I. [Central Institute for Aviation Motors, Moscow (Russian Federation); Terziev, V.G. [TEKO, Moscow (Russian Federation)

    2002-06-01

    Multiresolution wavelet analysis of pressure variations in a gas turbine compressor reveals the existence of precursors of stall and surge processes. Signals from eight pressure sensors positioned at various places within the compressor were recorded and digitized in three different operating modes in stationary conditions with a recording interval of 1 ms during 5-6 s. It has been discovered that there exists a scale of 32 intervals over which the dispersion (variance) of the wavelet coefficients shows a remarkable drop of about 40% for more than 1 s prior to the development of the malfunction. A shuffled sample of the same values of the pressure does not show such a drop demonstrating the dynamical origin of this effect. Higher order correlation moments reveal different slopes in these two regions differing by the variance values. The log-log dependence of the moments does not show clear fractal behavior because the scales of 16 and 32 intervals are not on the straight line of monofractals. This is a clear indication of the nonlinear response of the system at this scale. These results provide a means for automatic regulation of an engine, preventing possible failures. (author)

  14. Dependency Network Analysis (DEPNA) Reveals Context Related Influence of Brain Network Nodes

    Science.gov (United States)

    Jacob, Yael; Winetraub, Yonatan; Raz, Gal; Ben-Simon, Eti; Okon-Singer, Hadas; Rosenberg-Katz, Keren; Hendler, Talma; Ben-Jacob, Eshel

    2016-01-01

    Communication between and within brain regions is essential for information processing within functional networks. The current methods to determine the influence of one region on another are either based on temporal resolution, or require a predefined model for the connectivity direction. However these requirements are not always achieved, especially in fMRI studies, which have poor temporal resolution. We thus propose a new graph theory approach that focuses on the correlation influence between selected brain regions, entitled Dependency Network Analysis (DEPNA). Partial correlations are used to quantify the level of influence of each node during task performance. As a proof of concept, we conducted the DEPNA on simulated datasets and on two empirical motor and working memory fMRI tasks. The simulations revealed that the DEPNA correctly captures the network’s hierarchy of influence. Applying DEPNA to the functional tasks reveals the dynamics between specific nodes as would be expected from prior knowledge. To conclude, we demonstrate that DEPNA can capture the most influencing nodes in the network, as they emerge during specific cognitive processes. This ability opens a new horizon for example in delineating critical nodes for specific clinical interventions. PMID:27271458

  15. Stable isotope analysis of vertebrae reveals ontogenetic changes in habitat in an endothermic pelagic shark.

    Science.gov (United States)

    Carlisle, Aaron B; Goldman, Kenneth J; Litvin, Steven Y; Madigan, Daniel J; Bigman, Jennifer S; Swithenbank, Alan M; Kline, Thomas C; Block, Barbara A

    2015-01-22

    Ontogenetic changes in habitat are driven by shifting life-history requirements and play an important role in population dynamics. However, large portions of the life history of many pelagic species are still poorly understood or unknown. We used a novel combination of stable isotope analysis of vertebral annuli, Bayesian mixing models, isoscapes and electronic tag data to reconstruct ontogenetic patterns of habitat and resource use in a pelagic apex predator, the salmon shark (Lamna ditropis). Results identified the North Pacific Transition Zone as the major nursery area for salmon sharks and revealed an ontogenetic shift around the age of maturity from oceanic to increased use of neritic habitats. The nursery habitat may reflect trade-offs between prey availability, predation pressure and thermal constraints on juvenile endothermic sharks. The ontogenetic shift in habitat coincided with a reduction of isotopic niche, possibly reflecting specialization upon particular prey or habitats. Using tagging data to inform Bayesian isotopic mixing models revealed that adult sharks primarily use neritic habitats of Alaska yet receive a trophic subsidy from oceanic habitats. Integrating the multiple methods used here provides a powerful approach to retrospectively study the ecology and life history of migratory species throughout their ontogeny.

  16. A novel meta-analysis approach of cancer transcriptomes reveals prevailing transcriptional networks in cancer cells.

    Science.gov (United States)

    Niida, Atsushi; Imoto, Seiya; Nagasaki, Masao; Yamaguchi, Rui; Miyano, Satoru

    2010-01-01

    Although microarray technology has revealed transcriptomic diversities underlining various cancer phenotypes, transcriptional programs controlling them have not been well elucidated. To decode transcriptional programs governing cancer transcriptomes, we have recently developed a computational method termed EEM, which searches for expression modules from prescribed gene sets defined by prior biological knowledge like TF binding motifs. In this paper, we extend our EEM approach to predict cancer transcriptional networks. Starting from functional TF binding motifs and expression modules identified by EEM, we predict cancer transcriptional networks containing regulatory TFs, associated GO terms, and interactions between TF binding motifs. To systematically analyze transcriptional programs in broad types of cancer, we applied our EEM-based network prediction method to 122 microarray datasets collected from public databases. The data sets contain about 15000 experiments for tumor samples of various tissue origins including breast, colon, lung etc. This EEM based meta-analysis successfully revealed a prevailing cancer transcriptional network which functions in a large fraction of cancer transcriptomes; they include cell-cycle and immune related sub-networks. This study demonstrates broad applicability of EEM, and opens a way to comprehensive understanding of transcriptional networks in cancer cells.

  17. Metagenomic analysis reveals significant changes of microbial compositions and protective functions during drinking water treatment.

    Science.gov (United States)

    Chao, Yuanqing; Ma, Liping; Yang, Ying; Ju, Feng; Zhang, Xu-Xiang; Wu, Wei-Min; Zhang, Tong

    2013-12-19

    The metagenomic approach was applied to characterize variations of microbial structure and functions in raw (RW) and treated water (TW) in a drinking water treatment plant (DWTP) at Pearl River Delta, China. Microbial structure was significantly influenced by the treatment processes, shifting from Gammaproteobacteria and Betaproteobacteria in RW to Alphaproteobacteria in TW. Further functional analysis indicated the basic metabolic functions of microorganisms in TW did not vary considerably. However, protective functions, i.e. glutathione synthesis genes in 'oxidative stress' and 'detoxification' subsystems, significantly increased, revealing the surviving bacteria may have higher chlorine resistance. Similar results were also found in glutathione metabolism pathway, which identified the major reaction for glutathione synthesis and supported more genes for glutathione metabolism existed in TW. This metagenomic study largely enhanced our knowledge about the influences of treatment processes, especially chlorination, on bacterial community structure and protective functions (e.g. glutathione metabolism) in ecosystems of DWTPs.

  18. Conformational Dynamics of apo-GlnBP Revealed by Experimental and Computational Analysis

    KAUST Repository

    Feng, Yitao

    2016-10-13

    The glutamine binding protein (GlnBP) binds l-glutamine and cooperates with its cognate transporters during glutamine uptake. Crystal structure analysis has revealed an open and a closed conformation for apo- and holo-GlnBP, respectively. However, the detailed conformational dynamics have remained unclear. Herein, we combined NMR spectroscopy, MD simulations, and single-molecule FRET techniques to decipher the conformational dynamics of apo-GlnBP. The NMR residual dipolar couplings of apo-GlnBP were in good agreement with a MD-derived structure ensemble consisting of four metastable states. The open and closed conformations are the two major states. This four-state model was further validated by smFRET experiments and suggests the conformational selection mechanism in ligand recognition of GlnBP. © 2016 Wiley-VCH Verlag GmbH & Co. KGaA, Weinheim

  19. Network-based diffusion analysis reveals cultural transmission of lobtail feeding in humpback whales.

    Science.gov (United States)

    Allen, Jenny; Weinrich, Mason; Hoppitt, Will; Rendell, Luke

    2013-04-26

    We used network-based diffusion analysis to reveal the cultural spread of a naturally occurring foraging innovation, lobtail feeding, through a population of humpback whales (Megaptera novaeangliae) over a period of 27 years. Support for models with a social transmission component was 6 to 23 orders of magnitude greater than for models without. The spatial and temporal distribution of sand lance, a prey species, was also important in predicting the rate of acquisition. Our results, coupled with existing knowledge about song traditions, show that this species can maintain multiple independently evolving traditions in its populations. These insights strengthen the case that cetaceans represent a peak in the evolution of nonhuman culture, independent of the primate lineage.

  20. Anomalous dispersion of Lagrangian particles in local regions of turbulent flows revealed by convex hull analysis

    CERN Document Server

    Pratt, J; Mueller, W -C; Chapman, S C; Watkins, N W

    2014-01-01

    Local regions of anomalous particle dispersion, and intermittent events that occur in turbulent flows can greatly influence the global statistical description of the flow. These local behaviors can be identified and analyzed by comparing the growth of neighboring convex hulls of Lagrangian tracer particles. Although in our simulations of homogeneous turbulence the convex hulls generally grow in size, after the Lagrangian particles that define the convex hulls begin to disperse, our analysis reveals short periods when the convex hulls of the Lagrangian particles shrink, evidence that particles are not dispersing simply. Shrinkage can be associated with anisotropic flows, since it occurs most frequently in the presence of a mean magnetic field or thermal convection. We compare dispersion between a wide range of statistically homogeneous and stationary turbulent flows ranging from homogeneous isotropic Navier-Stokes turbulence over different configurations of magnetohydrodynamic turbulence and Boussinesq convect...

  1. Integrated genomic analysis of relapsed childhood acute lymphoblastic leukemia reveals therapeutic strategies.

    Science.gov (United States)

    Hogan, Laura E; Meyer, Julia A; Yang, Jun; Wang, Jinhua; Wong, Nicholas; Yang, Wenjian; Condos, Gregory; Hunger, Stephen P; Raetz, Elizabeth; Saffery, Richard; Relling, Mary V; Bhojwani, Deepa; Morrison, Debra J; Carroll, William L

    2011-11-10

    Despite an increase in survival for children with acute lymphoblastic leukemia (ALL), the outcome after relapse is poor. To understand the genetic events that contribute to relapse and chemoresistance and identify novel targets of therapy, 3 high-throughput assays were used to identify genetic and epigenetic changes at relapse. Using matched diagnosis/relapse bone marrow samples from children with relapsed B-precursor ALL, we evaluated gene expression, copy number abnormalities (CNAs), and DNA methylation. Gene expression analysis revealed a signature of differentially expressed genes from diagnosis to relapse that is different for early (diversity of genetic changes are seen at relapse, integration of gene expression, CNA, and methylation data suggest a possible convergence on the WNT and mitogen-activated protein kinase pathways.

  2. Bifidobacterium asteroides PRL2011 genome analysis reveals clues for colonization of the insect gut.

    Directory of Open Access Journals (Sweden)

    Francesca Bottacini

    Full Text Available Bifidobacteria are known as anaerobic/microaerophilic and fermentative microorganisms, which commonly inhabit the gastrointestinal tract of various animals and insects. Analysis of the 2,167,301 bp genome of Bifidobacterium asteroides PRL2011, a strain isolated from the hindgut of Apis mellifera var. ligustica, commonly known as the honey bee, revealed its predicted capability for respiratory metabolism. Conservation of the latter gene clusters in various B. asteroides strains enforces the notion that respiration is a common metabolic feature of this ancient bifidobacterial species, which has been lost in currently known mammal-derived Bifidobacterium species. In fact, phylogenomic based analyses suggested an ancient origin of B. asteroides and indicates it as an ancestor of the genus Bifidobacterium. Furthermore, the B. asteroides PRL2011 genome encodes various enzymes for coping with toxic products that arise as a result of oxygen-mediated respiration.

  3. Proteomics analysis reveals a dynamic diurnal pattern of photosynthesis-related pathways in maize leaves.

    Science.gov (United States)

    Feng, Dan; Wang, Yanwei; Lu, Tiegang; Zhang, Zhiguo; Han, Xiao

    2017-01-01

    Plant leaves exhibit differentiated patterns of photosynthesis rates under diurnal light regulation. Maize leaves show a single-peak pattern without photoinhibition at midday when the light intensity is maximized. This mechanism contributes to highly efficient photosynthesis in maize leaves. To understand the molecular basis of this process, an isobaric tag for relative and absolute quantitation (iTRAQ)-based proteomics analysis was performed to reveal the dynamic pattern of proteins related to photosynthetic reactions. Steady, single-peak and double-peak protein expression patterns were discovered in maize leaves, and antenna proteins in these leaves displayed a steady pattern. In contrast, the photosystem, carbon fixation and citrate pathways were highly controlled by diurnal light intensity. Most enzymes in the limiting steps of these pathways were major sites of regulation. Thus, maize leaves optimize photosynthesis and carbon fixation outside of light harvesting to adapt to the changes in diurnal light intensity at the protein level.

  4. Dichotomy of cellular inhibition by small-molecule inhibitors revealed by single-cell analysis

    Science.gov (United States)

    Vogel, Robert M.; Erez, Amir; Altan-Bonnet, Grégoire

    2016-01-01

    Despite progress in drug development, a quantitative and physiological understanding of how small-molecule inhibitors act on cells is lacking. Here, we measure the signalling and proliferative response of individual primary T-lymphocytes to a combination of antigen, cytokine and drug. We uncover two distinct modes of signalling inhibition: digital inhibition (the activated fraction of cells diminishes upon drug treatment, but active cells appear unperturbed), versus analogue inhibition (the activated fraction is unperturbed whereas activation response is diminished). We introduce a computational model of the signalling cascade that accounts for such inhibition dichotomy, and test the model predictions for the phenotypic variability of cellular responses. Finally, we demonstrate that the digital/analogue dichotomy of cellular response as revealed on short (signal transduction) timescales, translates into similar dichotomy on longer (proliferation) timescales. Our single-cell analysis of drug action illustrates the strength of quantitative approaches to translate in vitro pharmacology into functionally relevant cellular settings. PMID:27687249

  5. Proteomic Analysis of Human Brown Adipose Tissue Reveals Utilization of Coupled and Uncoupled Energy Expenditure Pathways.

    Science.gov (United States)

    Müller, Sebastian; Balaz, Miroslav; Stefanicka, Patrik; Varga, Lukas; Amri, Ez-Zoubir; Ukropec, Jozef; Wollscheid, Bernd; Wolfrum, Christian

    2016-07-15

    Human brown adipose tissue (BAT) has become an attractive target to combat the current epidemical spread of obesity and its associated co-morbidities. Currently, information on its functional role is primarily derived from rodent studies. Here, we present the first comparative proteotype analysis of primary human brown adipose tissue versus adjacent white adipose tissue, which reveals significant quantitative differences in protein abundances and in turn differential functional capabilities. The majority of the 318 proteins with increased abundance in BAT are associated with mitochondrial metabolism and confirm the increased oxidative capacity. In addition to uncoupling protein 1 (UCP1), the main functional effector for uncoupled respiration, we also detected the mitochondrial creatine kinases (CKMT1A/B, CKMT2), as effective modulators of ATP synthase coupled respiration, to be exclusively expressed in BAT. The abundant expression and utilization of both energy expenditure pathways in parallel highlights the complex functional involvement of BAT in human physiology.

  6. Peptidomic analysis reveals proteolytic activity of kefir microorganisms on bovine milk proteins.

    Science.gov (United States)

    Dallas, David C; Citerne, Florine; Tian, Tian; Silva, Vitor L M; Kalanetra, Karen M; Frese, Steven A; Robinson, Randall C; Mills, David A; Barile, Daniela

    2016-04-15

    The microorganisms that make up kefir grains are well known for lactose fermentation, but the extent to which they hydrolyze and consume milk proteins remains poorly understood. Peptidomics technologies were used to examine the proteolytic activity of kefir grains on bovine milk proteins. Gel electrophoresis revealed substantial digestion of milk proteins by kefir grains, with mass spectrometric analysis showing the release of 609 protein fragments and alteration of the abundance of >1500 peptides that derived from 27 milk proteins. Kefir contained 25 peptides identified from the literature as having biological activity, including those with antihypertensive, antimicrobial, immunomodulatory, opioid and anti-oxidative functions. 16S rRNA and shotgun metagenomic sequencing identified the principle taxa in the culture as Lactobacillus species. The model kefir sample contained thousands of protein fragments released in part by kefir microorganisms and in part by native milk proteases. Copyright © 2015 Elsevier Ltd. All rights reserved.

  7. Bifidobacterium asteroides PRL2011 genome analysis reveals clues for colonization of the insect gut.

    Science.gov (United States)

    Bottacini, Francesca; Milani, Christian; Turroni, Francesca; Sánchez, Borja; Foroni, Elena; Duranti, Sabrina; Serafini, Fausta; Viappiani, Alice; Strati, Francesco; Ferrarini, Alberto; Delledonne, Massimo; Henrissat, Bernard; Coutinho, Pedro; Fitzgerald, Gerald F; Margolles, Abelardo; van Sinderen, Douwe; Ventura, Marco

    2012-01-01

    Bifidobacteria are known as anaerobic/microaerophilic and fermentative microorganisms, which commonly inhabit the gastrointestinal tract of various animals and insects. Analysis of the 2,167,301 bp genome of Bifidobacterium asteroides PRL2011, a strain isolated from the hindgut of Apis mellifera var. ligustica, commonly known as the honey bee, revealed its predicted capability for respiratory metabolism. Conservation of the latter gene clusters in various B. asteroides strains enforces the notion that respiration is a common metabolic feature of this ancient bifidobacterial species, which has been lost in currently known mammal-derived Bifidobacterium species. In fact, phylogenomic based analyses suggested an ancient origin of B. asteroides and indicates it as an ancestor of the genus Bifidobacterium. Furthermore, the B. asteroides PRL2011 genome encodes various enzymes for coping with toxic products that arise as a result of oxygen-mediated respiration.

  8. Comparative transcriptional analysis reveals differential gene expression between asymmetric and symmetric zygotic divisions in tobacco.

    Directory of Open Access Journals (Sweden)

    Tian-Xiang Hu

    Full Text Available Asymmetric cell divisions occur widely during many developmental processes in plants. In most angiosperms, the first zygotic cell division is asymmetric resulting in two daughter cells of unequal size and with distinct fates. However, the critical molecular mechanisms regulating this division remain unknown. Previously we showed that treatment of tobacco zygotes with beta-glucosyl Yariv (βGlcY could dramatically alter the first zygotic asymmetric division to produce symmetric two-celled proembryos. In the present study, we isolated zygotes and two-celled asymmetric proembryos in vivo by micromanipulation, and obtained symmetric, two-celled proembryos by in vitro cell cultures. Using suppression-subtractive hybridization (SSH and macroarray analysis differential gene expression between the zygote and the asymmetric and symmetric two-celled proembryos was investigated. After sequencing of the differentially expressed clones, a total of 1610 EST clones representing 685 non-redundant transcripts were obtained. Gene ontology (GO term analysis revealed that these transcripts include those involved in physiological processes such as response to stimulus, regulation of gene expression, and localization and formation of anatomical structures. A homology search against known genes from Arabidopsis indicated that some of the above transcripts are involved in asymmetric cell division and embryogenesis. Quantitative real-time PCR confirmed the up- or down-regulation of the selected candidate transcripts during zygotic division. A few of these transcripts were expressed exclusively in the zygote, or in either type of the two-celled proembryos. Expression analyses of select genes in different tissues and organs also revealed potential roles of these transcripts in fertilization, seed maturation and organ development. The putative roles of few of the identified transcripts in the regulation of zygotic division are discussed. Further functional work on these

  9. Cluster analysis reveals a binary effect of storage on boar sperm motility function.

    Science.gov (United States)

    Henning, Heiko; Petrunkina, Anna M; Harrison, Robin A P; Waberski, Dagmar

    2014-06-01

    Storage of liquid-preserved boar spermatozoa is associated with a loss of fertilising ability of the preserved spermatozoa, which standard semen parameters barely reflect. Monitoring responses to molecular effectors of sperm function (e.g. bicarbonate) has proven to be a more sensitive approach to investigating storage effects. Bicarbonate not only initiates capacitation in spermatozoa, but also induces motility activation. This occurs at ejaculation, but also happens throughout passage through the oviduct. In the present study we tested whether the specific response of boar sperm subpopulations to bicarbonate, as assessed by motility activation, is altered with the duration of storage in vitro. Three ejaculates from each of seven boars were diluted in Beltsville thawing solution and stored at 17°C. Only minor changes in the parameters of diluted semen were revealed over a period of 72h storage. For assessment of bicarbonate responses, subsamples of diluted spermatozoa were centrifuged through a discontinuous Percoll gradient after 12, 24 and 72h storage. Subsequently, spermatozoa were incubated in two Ca2+-free variants of Tyrode's medium either without (TyrControl) or with (TyrBic) 15mM bicarbonate, and computer-aided sperm analysis motility measurements were made. Cluster analysis of imaging data from motile spermatozoa revealed the presence of five major sperm subpopulations with distinct motility characteristics, differing between TyrBic and TyrControl at any given time (Psperm motility function descriptors to storage: although the quantitative descriptor (percentage of motile spermatozoa) declines in washed semen samples, the qualitative descriptor (percentage of spermatozoa stimulated into fast linear motion by bicarbonate) is sustained independent of the duration of storage.

  10. Metabolomic analysis reveals metabolic disturbance in the cortex and hippocampus of subchronic MK-801 treated rats.

    Directory of Open Access Journals (Sweden)

    Liya Sun

    Full Text Available BACKGROUND: Although a number of proteins and genes relevant to schizophrenia have been identified in recent years, few are known about the exact metabolic pathway involved in this disease. Our previous proteomic study has revealed the energy metabolism abnormality in subchronic MK-801 treated rat, a well-established animal model for schizophrenia. This prompted us to further investigate metabolite levels in the same rat model to better delineate the metabolism dysfunctions and provide insights into the pathology of schizophrenia. METHODS: Metabolomics, a high-throughput investigatory strategy developed in recent years, can offer comprehensive metabolite-level insights that complement protein and genetic findings. In this study, we employed a nondestructive metabolomic approach (1H-MAS-NMR to investigate the metabolic traits in cortex and hippocampus of MK-801 treated rats. Multivariate statistics and ingenuity pathways analyses (IPA were applied in data processing. The result was further integrated with our previous proteomic findings by IPA analysis to obtain a systematic view on our observations. RESULTS: Clear distinctions between the MK-801 treated group and the control group in both cortex and hippocampus were found by OPLS-DA models (with R(2X = 0.441, Q(2Y = 0.413 and R(2X = 0.698, Q(2Y = 0.677, respectively. The change of a series of metabolites accounted for the separation, such as glutamate, glutamine, citrate and succinate. Most of these metabolites fell in a pathway characterized by down-regulated glutamate synthesis and disturbed Krebs cycle. IPA analysis further confirmed the involvement of energy metabolism abnormality induced by MK-801 treatment. CONCLUSIONS: Our metabolomics findings reveal systematic changes in pathways of glutamate metabolism and Krebs cycle in the MK-801 treated rats' cortex and hippocampus, which confirmed and improved our previous proteomic observation and served as a valuable reference to

  11. Partial sequencing of the bottle gourd genome reveals markers useful for phylogenetic analysis and breeding

    Directory of Open Access Journals (Sweden)

    Wang Sha

    2011-09-01

    Full Text Available Abstract Background Bottle gourd [Lagenaria siceraria (Mol. Standl.] is an important cucurbit crop worldwide. Archaeological research indicates that bottle gourd was domesticated more than 10,000 years ago, making it one of the earliest plants cultivated by man. In spite of its widespread importance and long history of cultivation almost nothing has been known about the genome of this species thus far. Results We report here the partial sequencing of bottle gourd genome using the 454 GS-FLX Titanium sequencing platform. A total of 150,253 sequence reads, which were assembled into 3,994 contigs and 82,522 singletons were generated. The total length of the non-redundant singletons/assemblies is 32 Mb, theoretically covering ~ 10% of the bottle gourd genome. Functional annotation of the sequences revealed a broad range of functional types, covering all the three top-level ontologies. Comparison of the gene sequences between bottle gourd and the model cucurbit cucumber (Cucumis sativus revealed a 90% sequence similarity on average. Using the sequence information, 4395 microsatellite-containing sequences were identified and 400 SSR markers were developed, of which 94% amplified bands of anticipated sizes. Transferability of these markers to four other cucurbit species showed obvious decline with increasing phylogenetic distance. From analyzing polymorphisms of a subset of 14 SSR markers assayed on 44 representative China bottle gourd varieties/landraces, a principal coordinates (PCo analysis output and a UPGMA-based dendrogram were constructed. Bottle gourd accessions tended to group by fruit shape rather than geographic origin, although in certain subclades the lines from the same or close origin did tend to cluster. Conclusions This work provides an initial basis for genome characterization, gene isolation and comparative genomics analysis in bottle gourd. The SSR markers developed would facilitate marker assisted breeding schemes for efficient

  12. Pangenome and immuno-proteomics analysis of Acinetobacter baumannii strains revealed the core peptide vaccine targets.

    Science.gov (United States)

    Hassan, Afreenish; Naz, Anam; Obaid, Ayesha; Paracha, Rehan Zafar; Naz, Kanwal; Awan, Faryal Mehwish; Muhmmad, Syed Aun; Janjua, Hussnain Ahmed; Ahmad, Jamil; Ali, Amjad

    2016-09-15

    Acinetobacter baumannii has emerged as a significant nosocomial pathogen during the last few years, exhibiting resistance to almost all major classes of antibiotics. Alternative treatment options such as vaccines tend to be most promising and cost effective approaches against this resistant pathogen. In the current study, we have explored the pan-genome of A. baumannii followed by immune-proteomics and reverse vaccinology approaches to identify potential core vaccine targets. The pan-genome of all available A. baumannii strains (30 complete genomes) is estimated to contain 7,606 gene families and the core genome consists of 2,445 gene families (~32 % of the pan-genome). Phylogenetic tree, comparative genomic and proteomic analysis revealed both intra- and inter genomic similarities and evolutionary relationships. Among the conserved core genome, thirteen proteins, including P pilus assembly protein, pili assembly chaperone, AdeK, PonA, OmpA, general secretion pathway protein D, FhuE receptor, Type VI secretion system OmpA/MotB, TonB dependent siderophore receptor, general secretion pathway protein D, outer membrane protein, peptidoglycan associated lipoprotein and peptidyl-prolyl cis-trans isomerase are identified as highly antigenic. Epitope mapping of the target proteins revealed the presence of antigenic surface exposed 9-mer T-cell epitopes. Protein-protein interaction and functional annotation have shown their involvement in significant biological and molecular processes. The pipeline is validated by predicting already known immunogenic targets against Gram negative pathogen Helicobacter pylori as a positive control. The study, based upon combinatorial approach of pan-genomics, core genomics, proteomics and reverse vaccinology led us to find out potential vaccine candidates against A. baumannii. The comprehensive analysis of all the completely sequenced genomes revealed thirteen putative antigens which could elicit substantial immune response. The integration

  13. Comparative transcriptomic analysis reveals similarities and dissimilarities in Saccharomyces cerevisiae wine strains response to nitrogen availability.

    Directory of Open Access Journals (Sweden)

    Catarina Barbosa

    Full Text Available Nitrogen levels in grape-juices are of major importance in winemaking ensuring adequate yeast growth and fermentation performance. Here we used a comparative transcriptome analysis to uncover wine yeasts responses to nitrogen availability during fermentation. Gene expression was assessed in three genetically and phenotypically divergent commercial wine strains (CEG, VL1 and QA23, under low (67 mg/L and high nitrogen (670 mg/L regimes, at three time points during fermentation (12 h, 24 h and 96 h. Two-way ANOVA analysis of each fermentation condition led to the identification of genes whose expression was dependent on strain, fermentation stage and on the interaction of both factors. The high fermenter yeast strain QA23 was more clearly distinct from the other two strains, by differential expression of genes involved in flocculation, mitochondrial functions, energy generation and protein folding and stabilization. For all strains, higher transcriptional variability due to fermentation stage was seen in the high nitrogen fermentations. A positive correlation between maximum fermentation rate and the expression of genes involved in stress response was observed. The finding of common genes correlated with both fermentation activity and nitrogen up-take underlies the role of nitrogen on yeast fermentative fitness. The comparative analysis of genes differentially expressed between both fermentation conditions at 12 h, where the main difference was the level of nitrogen available, showed the highest variability amongst strains revealing strain-specific responses. Nevertheless, we were able to identify a small set of genes whose expression profiles can quantitatively assess the common response of the yeast strains to varying nitrogen conditions. The use of three contrasting yeast strains in gene expression analysis prompts the identification of more reliable, accurate and reproducible biomarkers that will facilitate the diagnosis of deficiency of this

  14. Implementing Smart Factory of Industrie 4.0: An Outlook

    National Research Council Canada - National Science Library

    Wang, Shiyong; Wan, Jiafu; Li, Di; Zhang, Chunhua

    2016-01-01

    ..., the end-to-end integration of engineering value chain, and the vertical integration of factory inside. In this paper, we focus on the vertical integration to implement flexible and reconfigurable smart factory...

  15. Production of Tetraquark State Tcc at B-Factories

    Science.gov (United States)

    Reyima, Rashidin

    2013-12-01

    We study production of the tetraquark state Tcc via virtual photon at the B-factories in the QCD factorization framework. We predict the cross section of tetraquark state production in the leading order at the B-factories.

  16. Factorial Correlators and Oscillatory Multiplicity Moments at the CERN SPS Energy for Ring-Like and Jet-Like Events

    Institute of Scientific and Technical Information of China (English)

    Prabir Kumar Haldar; Sanjib Kumar Manna

    2011-01-01

    We present an analysis of ring-like and jet-like events in terms of factorial correlations and oscillatory multiplicity moments of 32S-Ag/Br interactions at 200 A GeV. The investigation reveals that the correlated moments increase with decrease in bin-bin separation D, following the power law, which suggests the presence of an intermittent nature of self-similar dynamical fluctuations pattern for ring-like and jet-like events. The analysis further shows that the strength of the non-statistical fluctuations is larger for jet-like events than those of ring-like events and total events. However, ring-like and jet-like events are not to be consistent with the total events of the a model of intermittency. To go beyond the lower order correlation, the oscillatory multiplicity moments are used to study the higher order correlation. The ratios Hq (cumulant over factorial moments, Kq/Fq) are determined for ring-like, jet-like and the total events. The presence of few-particle short range correlation is established. It is extremely interesting to observe that the oscillations of ring-like events are different from the jet-like events and the total events. However, in almost all the cases, the simulated interactions fail to replicate the experimental results.

  17. An Interactive Simulation Tool for Production Planning in Bacon Factories

    DEFF Research Database (Denmark)

    Nielsen, Jens Frederik Dalsgaard; Nielsen, Kirsten Mølgaard

    1994-01-01

    The paper describes an interactive simulation tool for production planning in bacon factories. The main aim of the tool is to make it possible to combine the production plans of all parts of the factory......The paper describes an interactive simulation tool for production planning in bacon factories. The main aim of the tool is to make it possible to combine the production plans of all parts of the factory...

  18. Flow-based approach for holistic factory engineering and design

    OpenAIRE

    Constantinescu, C.; Westkämper, E.

    2010-01-01

    The engineering of future factories requires digital tools along life cycle phases from investment planning to ramp-up. Manufacturers need scientific-based integrated highly dynamic data management systems for the participative and integrated factory planning. The paper presents a new approach for the continuously integrated product design, factory and process planning, through a service-oriented architecture for the implementation of digital factory tools. A first prototype of the digital fa...

  19. Meta-analysis of Dense Genecentric Association Studies Reveals Common and Uncommon Variants Associated with Height

    Science.gov (United States)

    Lanktree, Matthew B.; Guo, Yiran; Murtaza, Muhammed; Glessner, Joseph T.; Bailey, Swneke D.; Onland-Moret, N. Charlotte; Lettre, Guillaume; Ongen, Halit; Rajagopalan, Ramakrishnan; Johnson, Toby; Shen, Haiqing; Nelson, Christopher P.; Klopp, Norman; Baumert, Jens; Padmanabhan, Sandosh; Pankratz, Nathan; Pankow, James S.; Shah, Sonia; Taylor, Kira; Barnard, John; Peters, Bas J.; M. Maloney, Cliona; Lobmeyer, Maximilian T.; Stanton, Alice; Zafarmand, M. Hadi; Romaine, Simon P.R.; Mehta, Amar; van Iperen, Erik P.A.; Gong, Yan; Price, Tom S.; Smith, Erin N.; Kim, Cecilia E.; Li, Yun R.; Asselbergs, Folkert W.; Atwood, Larry D.; Bailey, Kristian M.; Bhatt, Deepak; Bauer, Florianne; Behr, Elijah R.; Bhangale, Tushar; Boer, Jolanda M.A.; Boehm, Bernhard O.; Bradfield, Jonathan P.; Brown, Morris; Braund, Peter S.; Burton, Paul R.; Carty, Cara; Chandrupatla, Hareesh R.; Chen, Wei; Connell, John; Dalgeorgou, Chrysoula; Boer, Anthonius de; Drenos, Fotios; Elbers, Clara C.; Fang, James C.; Fox, Caroline S.; Frackelton, Edward C.; Fuchs, Barry; Furlong, Clement E.; Gibson, Quince; Gieger, Christian; Goel, Anuj; Grobbee, Diederik E.; Hastie, Claire; Howard, Philip J.; Huang, Guan-Hua; Johnson, W. Craig; Li, Qing; Kleber, Marcus E.; Klein, Barbara E.K.; Klein, Ronald; Kooperberg, Charles; Ky, Bonnie; LaCroix, Andrea; Lanken, Paul; Lathrop, Mark; Li, Mingyao; Marshall, Vanessa; Melander, Olle; Mentch, Frank D.; J. Meyer, Nuala; Monda, Keri L.; Montpetit, Alexandre; Murugesan, Gurunathan; Nakayama, Karen; Nondahl, Dave; Onipinla, Abiodun; Rafelt, Suzanne; Newhouse, Stephen J.; Otieno, F. George; Patel, Sanjey R.; Putt, Mary E.; Rodriguez, Santiago; Safa, Radwan N.; Sawyer, Douglas B.; Schreiner, Pamela J.; Simpson, Claire; Sivapalaratnam, Suthesh; Srinivasan, Sathanur R.; Suver, Christine; Swergold, Gary; Sweitzer, Nancy K.; Thomas, Kelly A.; Thorand, Barbara; Timpson, Nicholas J.; Tischfield, Sam; Tobin, Martin; Tomaszweski, Maciej; Verschuren, W.M. Monique; Wallace, Chris; Winkelmann, Bernhard; Zhang, Haitao; Zheng, Dongling; Zhang, Li; Zmuda, Joseph M.; Clarke, Robert; Balmforth, Anthony J.; Danesh, John; Day, Ian N.; Schork, Nicholas J.; de Bakker, Paul I.W.; Delles, Christian; Duggan, David; Hingorani, Aroon D.; Hirschhorn, Joel N.; Hofker, Marten H.; Humphries, Steve E.; Kivimaki, Mika; Lawlor, Debbie A.; Kottke-Marchant, Kandice; Mega, Jessica L.; Mitchell, Braxton D.; Morrow, David A.; Palmen, Jutta; Redline, Susan; Shields, Denis C.; Shuldiner, Alan R.; Sleiman, Patrick M.; Smith, George Davey; Farrall, Martin; Jamshidi, Yalda; Christiani, David C.; Casas, Juan P.; Hall, Alistair S.; Doevendans, Pieter A.; D. Christie, Jason; Berenson, Gerald S.; Murray, Sarah S.; Illig, Thomas; Dorn, Gerald W.; Cappola, Thomas P.; Boerwinkle, Eric; Sever, Peter; Rader, Daniel J.; Reilly, Muredach P.; Caulfield, Mark; Talmud, Philippa J.; Topol, Eric; Engert, James C.; Wang, Kai; Dominiczak, Anna; Hamsten, Anders; Curtis, Sean P.; Silverstein, Roy L.; Lange, Leslie A.; Sabatine, Marc S.; Trip, Mieke; Saleheen, Danish; Peden, John F.; Cruickshanks, Karen J.; März, Winfried; O'Connell, Jeffrey R.; Klungel, Olaf H.; Wijmenga, Cisca; Maitland-van der Zee, Anke Hilse; Schadt, Eric E.; Johnson, Julie A.; Jarvik, Gail P.; Papanicolaou, George J.; Grant, Struan F.A.; Munroe, Patricia B.; North, Kari E.; Samani, Nilesh J.; Koenig, Wolfgang; Gaunt, Tom R.; Anand, Sonia S.; van der Schouw, Yvonne T.; Soranzo, Nicole; FitzGerald, Garret A.; Reiner, Alex; Hegele, Robert A.; Hakonarson, Hakon; Keating, Brendan J.

    2011-01-01

    Height is a classic complex trait with common variants in a growing list of genes known to contribute to the phenotype. Using a genecentric genotyping array targeted toward cardiovascular-related loci, comprising 49,320 SNPs across approximately 2000 loci, we evaluated the association of common and uncommon SNPs with adult height in 114,223 individuals from 47 studies and six ethnicities. A total of 64 loci contained a SNP associated with height at array-wide significance (p < 2.4 × 10−6), with 42 loci surpassing the conventional genome-wide significance threshold (p < 5 × 10−8). Common variants with minor allele frequencies greater than 5% were observed to be associated with height in 37 previously reported loci. In individuals of European ancestry, uncommon SNPs in IL11 and SMAD3, which would not be genotyped with the use of standard genome-wide genotyping arrays, were strongly associated with height (p < 3 × 10−11). Conditional analysis within associated regions revealed five additional variants associated with height independent of lead SNPs within the locus, suggesting allelic heterogeneity. Although underpowered to replicate findings from individuals of European ancestry, the direction of effect of associated variants was largely consistent in African American, South Asian, and Hispanic populations. Overall, we show that dense coverage of genes for uncommon SNPs, coupled with large-scale meta-analysis, can successfully identify additional variants associated with a common complex trait. PMID:21194676

  20. Structure analysis reveals the flexibility of the ADAMTS-5 active site

    Energy Technology Data Exchange (ETDEWEB)

    Shieh, Huey-Sheng; Tomasselli, Alfredo G.; Mathis, Karl J.; Schnute, Mark E.; Woodard, Scott S.; Caspers, Nicole; Williams, Jennifer M.; Kiefer, James R.; Munie, Grace; Wittwer, Arthur; Malfait, Anne-Marie; Tortorella, Micky D. (Pfizer)

    2012-03-02

    A ((1S,2R)-2-hydroxy-2,3-dihydro-1H-inden-1-yl) succinamide derivative (here referred to as Compound 12) shows significant activity toward many matrix metalloproteinases (MMPs), including MMP-2, MMP-8, MMP-9, and MMP-13. Modeling studies had predicted that this compound would not bind to ADAMTS-5 (a disintegrin and metalloproteinase with thrombospondin motifs-5) due to its shallow S1' pocket. However, inhibition analysis revealed it to be a nanomolar inhibitor of both ADAMTS-4 and -5. The observed inconsistency was explained by analysis of crystallographic structures, which showed that Compound 12 in complex with the catalytic domain of ADAMTS-5 (cataTS5) exhibits an unusual conformation in the S1' pocket of the protein. This first demonstration that cataTS5 can undergo an induced conformational change in its active site pocket by a molecule like Compound 12 should enable the design of new aggrecanase inhibitors with better potency and selectivity profiles.

  1. Electrical Rhythms Revealed by Harmonic Analysis of a High-Resolution Cardiogram.

    Science.gov (United States)

    Revenko, S V; Selector, L Ya; Gavrilov, I Yu; Nesterov, A V; Limonov, E V; Mudraya, I S; Kirpatovskii, V I

    2015-05-01

    The front-end low-noise electronic amplifiers and high-throughput computing systems made it possible to record ECG with a high resolution in the low-frequency range including the respiration and Mayer frequencies and to analyze ECG with digital filtering technique and harmonic analysis. These tools yielded ECG spectra of narcotized rats, which contained the characteristic pulsatile triplets and pentaplets with splitting constant equal to respiration rate, as well as the peaks at respiration and Mayer frequencies. The harmonic analysis of ECG determined the frequency parameters employed to tune the software bandpass filters, which revealed the respiratory (R) and Mayer (M) waves in the time domain with the amplitudes of 20-30 μV amounting to 5% ECG amplitude. The depolarizing myorelaxant succinylcholine chloride capable to trigger various types of arrhythmias, transiently increased R-wave, inhibited M-wave, and provoked a negative U-wave within a heartbeat ECG cycle synchronously with inspiration. It is hypothesized that M-, R-, and U-waves in ECG reflect cardiotropic activity of autonomic nervous system. The respective spectral peaks in ECG can be employed to assess intensity of sympathetic and parasympathetic cardiotropic influences, their balance, and the risk of arrhythmias.

  2. Transcriptome analysis reveals dynamic changes in the gene expression of tobacco seedlings under low potassium stress

    Indian Academy of Sciences (India)

    Liming Lu; Yong Chen; Lin Lu; Yifei Lu; Liqin Li

    2015-09-01

    Potassium plays a key role in plant development and reproduction. In agricultural practice, potassium deficiency is common worldwide, and leads to crop growth inhibition and output reduction. In this study, we analysed the transcriptome of tobacco seedlings under low potassium stress. Tobacco seedlings with or without decreased potassium treatment were harvested after 0 (control), 6, 12, or 24 h and were submitted for microarray analysis. The results showed that up to 3790 genes were upregulated or downregulated more than 2-fold as a result of the decreased potassium treatment. Gene ontology analysis revealed significantly differentially expressed genes that were categorized as cation binding, transcription regulation, metabolic processes, transporter activity and enzyme regulation. Some potassium, nitrogen and phosphorus transporters; transcription factors; and plant signal molecules, such as CPKs were also significantly differentially expressed under potassium deficiency. Our results indicate that the expression profiles of a large number of genes involved in various plant physiological processes are significantly altered in response to potassium deficiency, which can result in physiological and morphological changes in tobacco plants.

  3. Comparative Genomic Analysis of Lactococcus garvieae Strains Isolated from Different Sources Reveals Candidate Virulence Genes

    Directory of Open Access Journals (Sweden)

    Eiji Miyauchi

    2012-01-01

    Full Text Available Lactococcus garvieae is a major pathogen for fish. Two complete (ATCC 49156 and Lg2 and three draft (UNIUD074, 8831, and 21881 genome sequences of L. garvieae have recently been released. We here present the results of a comparative genomic analysis of these fish and human isolates of L. garvieae. The pangenome comprised 1,542 core and 1,378 dispensable genes. The sequenced L. garvieae strains shared most of the possible virulence genes, but the capsule gene cluster was found only in fish-pathogenic strain Lg2. The absence of the capsule gene cluster in other nonpathogenic strains isolated from mastitis and vegetable was also confirmed by PCR. The fish and human isolates of L. garvieae contained the specific two and four adhesin genes, respectively, indicating that these adhesion proteins may be involved in the host specificity differences of L. garvieae. The discoveries revealed by the pangenomic analysis may provide significant insights into the biology of L. garvieae.

  4. Comprehensive Proteomics Analysis of Laticifer Latex Reveals New Insights into Ethylene Stimulation of Natural Rubber Production.

    Science.gov (United States)

    Wang, Xuchu; Wang, Dan; Sun, Yong; Yang, Qian; Chang, Lili; Wang, Limin; Meng, Xueru; Huang, Qixing; Jin, Xiang; Tong, Zheng

    2015-09-08

    Ethylene is a stimulant to increase natural rubber latex. After ethylene application, both fresh yield and dry matter of latex are substantially improved. Moreover, we found that ethylene improves the generation of small rubber particles. However, most genes involved in rubber biosynthesis are inhibited by exogenous ethylene. Therefore, we conducted a proteomics analysis of ethylene-stimulated rubber latex, and identified 287 abundant proteins as well as 143 ethylene responsive latex proteins (ERLPs) with mass spectrometry from the 2-DE and DIGE gels, respectively. In addition, more than 1,600 proteins, including 404 ERLPs, were identified by iTRAQ. Functional classification of ERLPs revealed that enzymes involved in post-translational modification, carbohydrate metabolism, hydrolase activity, and kinase activity were overrepresented. Some enzymes for rubber particle aggregation were inhibited to prolong latex flow, and thus finally improved latex production. Phosphoproteomics analysis identified 59 differential phosphoproteins; notably, specific isoforms of rubber elongation factor and small rubber particle protein that were phosphorylated mainly at serine residues. This post-translational modification and isoform-specific phosphorylation might be important for ethylene-stimulated latex production. These results not only deepen our understanding of the rubber latex proteome but also provide new insights into the use of ethylene to stimulate rubber latex production.

  5. Comparative Transcriptome Analysis Reveals Different Silk Yields of Two Silkworm Strains.

    Directory of Open Access Journals (Sweden)

    Juan Li

    Full Text Available Cocoon and silk yields are the most important characteristics of sericulture. However, few studies have examined the genes that modulate these features. Further studies of these genes will be useful for improving the products of sericulture. JingSong (JS and Lan10 (L10 are two strains having significantly different cocoon and silk yields. In the current study, RNA-Seq and quantitative polymerase chain reaction (qPCR were performed on both strains in order to determine divergence of the silk gland, which controls silk biosynthesis in silkworms. Compared with L10, JS had 1375 differentially expressed genes (DEGs; 738 up-regulated genes and 673 down-regulated genes. Nine enriched gene ontology (GO terms were identified by GO enrichment analysis based on these DEGs. KEGG enrichment analysis results showed that the DEGs were enriched in three pathways, which were mainly associated with the processing and biosynthesis of proteins. The representative genes in the enrichment pathways and ten significant DEGs were further verified by qPCR, the results of which were consistent with the RNA-Seq data. Our study has revealed differences in silk glands between the two silkworm strains and provides a perspective for understanding the molecular mechanisms determining silk yield.

  6. Metagenomic Analysis Reveals Symbiotic Relationship among Bacteria in Microcystis-Dominated Community.

    Science.gov (United States)

    Xie, Meili; Ren, Minglei; Yang, Chen; Yi, Haisi; Li, Zhe; Li, Tao; Zhao, Jindong

    2016-01-01

    Microcystis bloom, a cyanobacterial mass occurrence often found in eutrophicated water bodies, is one of the most serious threats to freshwater ecosystems worldwide. In nature, Microcystis forms aggregates or colonies that contain heterotrophic bacteria. The Microcystis-bacteria colonies were persistent even when they were maintained in lab culture for a long period. The relationship between Microcystis and the associated bacteria was investigated by a metagenomic approach in this study. We developed a visualization-guided method of binning for genome assembly after total colony DNA sequencing. We found that the method was effective in grouping sequences and it did not require reference genome sequence. Individual genomes of the colony bacteria were obtained and they provided valuable insights into microbial community structures. Analysis of metabolic pathways based on these genomes revealed that while all heterotrophic bacteria were dependent upon Microcystis for carbon and energy, Vitamin B12 biosynthesis, which is required for growth by Microcystis, was accomplished in a cooperative fashion among the bacteria. Our analysis also suggests that individual bacteria in the colony community contributed a complete pathway for degradation of benzoate, which is inhibitory to the cyanobacterial growth, and its ecological implication for Microcystis bloom is discussed.

  7. Integrative microbial community analysis reveals full-scale enhanced biological phosphorus removal under tropical conditions

    Science.gov (United States)

    Law, Yingyu; Kirkegaard, Rasmus Hansen; Cokro, Angel Anisa; Liu, Xianghui; Arumugam, Krithika; Xie, Chao; Stokholm-Bjerregaard, Mikkel; Drautz-Moses, Daniela I.; Nielsen, Per Halkjær; Wuertz, Stefan; Williams, Rohan B. H.

    2016-05-01

    Management of phosphorus discharge from human waste is essential for the control of eutrophication in surface waters. Enhanced biological phosphorus removal (EBPR) is a sustainable, efficient way of removing phosphorus from waste water without employing chemical precipitation, but is assumed unachievable in tropical temperatures due to conditions that favour glycogen accumulating organisms (GAOs) over polyphosphate accumulating organisms (PAOs). Here, we show these assumptions are unfounded by studying comparative community dynamics in a full-scale plant following systematic perturbation of operational conditions, which modified community abundance, function and physicochemical state. A statistically significant increase in the relative abundance of the PAO Accumulibacter was associated with improved EBPR activity. GAO relative abundance also increased, challenging the assumption of competition. An Accumulibacter bin-genome was identified from a whole community metagenomic survey, and comparative analysis against extant Accumulibacter genomes suggests a close relationship to Type II. Analysis of the associated metatranscriptome data revealed that genes encoding proteins involved in the tricarboxylic acid cycle and glycolysis pathways were highly expressed, consistent with metabolic modelling results. Our findings show that tropical EBPR is indeed possible, highlight the translational potential of studying competition dynamics in full-scale waste water communities and carry implications for plant design in tropical regions.

  8. Metagenomic analysis reveals that bacteriophages are reservoirs of antibiotic resistance genes.

    Science.gov (United States)

    Subirats, Jéssica; Sànchez-Melsió, Alexandre; Borrego, Carles M; Balcázar, José Luis; Simonet, Pascal

    2016-08-01

    A metagenomics approach was applied to explore the presence of antibiotic resistance genes (ARGs) in bacteriophages from hospital wastewater. Metagenomic analysis showed that most phage sequences affiliated to the order Caudovirales, comprising the tailed phage families Podoviridae, Siphoviridae and Myoviridae. Moreover, the relative abundance of ARGs in the phage DNA fraction (0.26%) was higher than in the bacterial DNA fraction (0.18%). These differences were particularly evident for genes encoding ATP-binding cassette (ABC) and resistance-nodulation-cell division (RND) proteins, phosphotransferases, β-lactamases and plasmid-mediated quinolone resistance. Analysis of assembled contigs also revealed that blaOXA-10, blaOXA-58 and blaOXA-24 genes belonging to class D β-lactamases as well as a novel blaTEM (98.9% sequence similarity to the blaTEM-1 gene) belonging to class A β-lactamases were detected in a higher proportion in phage DNA. Although preliminary, these findings corroborate the role of bacteriophages as reservoirs of resistance genes and thus highlight the necessity to include them in future studies on the emergence and spread of antibiotic resistance in the environment. Copyright © 2016 Elsevier B.V. and International Society of Chemotherapy. All rights reserved.

  9. Pre-2014 mudslides at Oso revealed by InSAR and multi-source DEM analysis

    Science.gov (United States)

    Kim, J. W.; Lu, Z.; QU, F.

    2014-12-01

    The landslide is a process that results in the downward and outward movement of slope-reshaping materials including rocks and soils and annually causes the loss of approximately $3.5 billion and tens of casualties in the United States. The 2014 Oso mudslide was an extreme event costing nearly 40 deaths and damaging civilian properties. Landslides are often unpredictable, but in many cases, catastrophic events are repetitive. Historic record in the Oso mudslide site indicates that there have been serial events in decades, though the extent of sliding events varied from time to time. In our study, the combination of multi-source DEMs, InSAR, and time-series InSAR analysis has enabled to characterize the Oso mudslide. InSAR results from ALOS PALSAR show that there was no significant deformation between mid-2006 and 2011. The combination of time-series InSAR analysis and old-dated DEM indicated revealed topographic changes associated the 2006 sliding event, which is confirmed by the difference of multiple LiDAR DEMs. Precipitation and discharge measurements before the 2006 and 2014 landslide events did not exhibit extremely anomalous records, suggesting the precipitation is not the controlling factor in determining the sliding events at Oso. The lack of surface deformation during 2006-2011 and weak correlation between the precipitation and the sliding event, suggest other factors (such as porosity) might play a critical role on the run-away events at this Oso and other similar landslides.

  10. Automated image analysis reveals the dynamic 3-dimensional organization of multi-ciliary arrays.

    Science.gov (United States)

    Galati, Domenico F; Abuin, David S; Tauber, Gabriel A; Pham, Andrew T; Pearson, Chad G

    2015-12-23

    Multi-ciliated cells (MCCs) use polarized fields of undulating cilia (ciliary array) to produce fluid flow that is essential for many biological processes. Cilia are positioned by microtubule scaffolds called basal bodies (BBs) that are arranged within a spatially complex 3-dimensional geometry (3D). Here, we develop a robust and automated computational image analysis routine to quantify 3D BB organization in the ciliate, Tetrahymena thermophila. Using this routine, we generate the first morphologically constrained 3D reconstructions of Tetrahymena cells and elucidate rules that govern the kinetics of MCC organization. We demonstrate the interplay between BB duplication and cell size expansion through the cell cycle. In mutant cells, we identify a potential BB surveillance mechanism that balances large gaps in BB spacing by increasing the frequency of closely spaced BBs in other regions of the cell. Finally, by taking advantage of a mutant predisposed to BB disorganization, we locate the spatial domains that are most prone to disorganization by environmental stimuli. Collectively, our analyses reveal the importance of quantitative image analysis to understand the principles that guide the 3D organization of MCCs.

  11. Analysis of spatial-temporal gene expression patterns reveals dynamics and regionalization in developing mouse brain.

    Science.gov (United States)

    Chou, Shen-Ju; Wang, Chindi; Sintupisut, Nardnisa; Niou, Zhen-Xian; Lin, Chih-Hsu; Li, Ker-Chau; Yeang, Chen-Hsiang

    2016-01-20

    Allen Brain Atlas (ABA) provides a valuable resource of spatial/temporal gene expressions in mammalian brains. Despite rich information extracted from this database, current analyses suffer from several limitations. First, most studies are either gene-centric or region-centric, thus are inadequate to capture the superposition of multiple spatial-temporal patterns. Second, standard tools of expression analysis such as matrix factorization can capture those patterns but do not explicitly incorporate spatial dependency. To overcome those limitations, we proposed a computational method to detect recurrent patterns in the spatial-temporal gene expression data of developing mouse brains. We demonstrated that regional distinction in brain development could be revealed by localized gene expression patterns. The patterns expressed in the forebrain, medullary and pontomedullary, and basal ganglia are enriched with genes involved in forebrain development, locomotory behavior, and dopamine metabolism respectively. In addition, the timing of global gene expression patterns reflects the general trends of molecular events in mouse brain development. Furthermore, we validated functional implications of the inferred patterns by showing genes sharing similar spatial-temporal expression patterns with Lhx2 exhibited differential expression in the embryonic forebrains of Lhx2 mutant mice. These analysis outcomes confirm the utility of recurrent expression patterns in studying brain development.

  12. Large-scale analysis by SAGE reveals new mechanisms of v-erbA oncogene action

    Directory of Open Access Journals (Sweden)

    Faure Claudine

    2007-10-01

    Full Text Available Abstract Background: The v-erbA oncogene, carried by the Avian Erythroblastosis Virus, derives from the c-erbAα proto-oncogene that encodes the nuclear receptor for triiodothyronine (T3R. v-ErbA transforms erythroid progenitors in vitro by blocking their differentiation, supposedly by interference with T3R and RAR (Retinoic Acid Receptor. However, v-ErbA target genes involved in its transforming activity still remain to be identified. Results: By using Serial Analysis of Gene Expression (SAGE, we identified 110 genes deregulated by v-ErbA and potentially implicated in the transformation process. Bioinformatic analysis of promoter sequence and transcriptional assays point out a potential role of c-Myb in the v-ErbA effect. Furthermore, grouping of newly identified target genes by function revealed both expected (chromatin/transcription and unexpected (protein metabolism functions potentially deregulated by v-ErbA. We then focused our study on 15 of the new v-ErbA target genes and demonstrated by real time PCR that in majority their expression was activated neither by T3, nor RA, nor during differentiation. This was unexpected based upon the previously known role of v-ErbA. Conclusion: This paper suggests the involvement of a wealth of new unanticipated mechanisms of v-ErbA action.

  13. Glycoproteomic Analysis of Seven Major Allergenic Proteins Reveals Novel Post-translational Modifications*

    Science.gov (United States)

    Halim, Adnan; Carlsson, Michael C.; Madsen, Caroline Benedicte; Brand, Stephanie; Møller, Svenning Rune; Olsen, Carl Erik; Vakhrushev, Sergey Y.; Brimnes, Jens; Wurtzen, Peter Adler; Ipsen, Henrik; Petersen, Bent L.; Wandall, Hans H.

    2015-01-01

    Allergenic proteins such as grass pollen and house dust mite (HDM) proteins are known to trigger hypersensitivity reactions of the immune system, leading to what is commonly known as allergy. Key allergenic proteins including sequence variants have been identified but characterization of their post-translational modifications (PTMs) is still limited. Here, we present a detailed PTM1 characterization of a series of the main and clinically relevant allergens used in allergy tests and vaccines. We employ Orbitrap-based mass spectrometry with complementary fragmentation techniques (HCD/ETD) for site-specific PTM characterization by bottom-up analysis. In addition, top-down mass spectrometry is utilized for targeted analysis of individual proteins, revealing hitherto unknown PTMs of HDM allergens. We demonstrate the presence of lysine-linked polyhexose glycans and asparagine-linked N-acetylhexosamine glycans on HDM allergens. Moreover, we identified more complex glycan structures than previously reported on the major grass pollen group 1 and 5 allergens, implicating important roles for carbohydrates in allergen recognition and response by the immune system. The new findings are important for understanding basic disease-causing mechanisms at the cellular level, which ultimately may pave the way for instigating novel approaches for targeted desensitization strategies and improved allergy vaccines. PMID:25389185

  14. Glycoproteomic analysis of seven major allergenic proteins reveals novel post-translational modifications.

    Science.gov (United States)

    Halim, Adnan; Carlsson, Michael C; Madsen, Caroline Benedicte; Brand, Stephanie; Møller, Svenning Rune; Olsen, Carl Erik; Vakhrushev, Sergey Y; Brimnes, Jens; Wurtzen, Peter Adler; Ipsen, Henrik; Petersen, Bent L; Wandall, Hans H

    2015-01-01

    Allergenic proteins such as grass pollen and house dust mite (HDM) proteins are known to trigger hypersensitivity reactions of the immune system, leading to what is commonly known as allergy. Key allergenic proteins including sequence variants have been identified but characterization of their post-translational modifications (PTMs) is still limited. Here, we present a detailed PTM(1) characterization of a series of the main and clinically relevant allergens used in allergy tests and vaccines. We employ Orbitrap-based mass spectrometry with complementary fragmentation techniques (HCD/ETD) for site-specific PTM characterization by bottom-up analysis. In addition, top-down mass spectrometry is utilized for targeted analysis of individual proteins, revealing hitherto unknown PTMs of HDM allergens. We demonstrate the presence of lysine-linked polyhexose glycans and asparagine-linked N-acetylhexosamine glycans on HDM allergens. Moreover, we identified more complex glycan structures than previously reported on the major grass pollen group 1 and 5 allergens, implicating important roles for carbohydrates in allergen recognition and response by the immune system. The new findings are important for understanding basic disease-causing mechanisms at the cellular level, which ultimately may pave the way for instigating novel approaches for targeted desensitization strategies and improved allergy vaccines.

  15. Dynamic allostery in the methionine repressor revealed by force distribution analysis.

    Directory of Open Access Journals (Sweden)

    Wolfram Stacklies

    2009-11-01

    Full Text Available Many fundamental cellular processes such as gene expression are tightly regulated by protein allostery. Allosteric signal propagation from the regulatory to the active site requires long-range communication, the molecular mechanism of which remains a matter of debate. A classical example for long-range allostery is the activation of the methionine repressor MetJ, a transcription factor. Binding of its co-repressor SAM increases its affinity for DNA several-fold, but has no visible conformational effect on its DNA binding interface. Our molecular dynamics simulations indicate correlated domain motions within MetJ, and quenching of these dynamics upon SAM binding entropically favors DNA binding. From monitoring conformational fluctuations alone, it is not obvious how the presence of SAM is communicated through the largely rigid core of MetJ and how SAM thereby is able to regulate MetJ dynamics. We here directly monitored the propagation of internal forces through the MetJ structure, instead of relying on conformational changes as conventionally done. Our force distribution analysis successfully revealed the molecular network for strain propagation, which connects collective domain motions through the protein core. Parts of the network are directly affected by SAM binding, giving rise to the observed quenching of fluctuations. Our results are in good agreement with experimental data. The force distribution analysis suggests itself as a valuable tool to gain insight into the molecular function of a whole class of allosteric proteins.

  16. Comparative transcriptome and proteome analysis to reveal the biosynthesis of gold nanoparticles in Arabidopsis.

    Science.gov (United States)

    Tiwari, Manish; Krishnamurthy, Sneha; Shukla, Devesh; Kiiskila, Jeffrey; Jain, Ajay; Datta, Rupali; Sharma, Nilesh; Sahi, Shivendra V

    2016-02-23

    A large number of plants have been tested and exploited in search of a green chemistry approach for the fabrication of gold or other precious metal nanomaterials. Despite the potential of plant based methods, very little is known about the underlying biochemical reactions and genes involved in the biotransformation mechanism of AuCl4 into gold nanoparticles (AuNPs). In this research, we thus focused on studying the effect of Au on growth and nanoparticles formation by analyses of transcriptome, proteome and ionome shift in Arabidopsis. Au exposure favored the growth of Arabidopsis seedling and induced formation of nanoparticles in root and shoot, as indicated by optical and hyperspectral imaging. Root transcriptome analysis demonstrated the differential expression of the members of WRKY, MYB and BHLH gene families, which are involved in the Fe and other essential metals homeostasis. The proteome analysis revealed that Glutathione S-transferases were induced in the shoot and suggested its potential role in the biosynthesis AuNPs. This study also demonstrated the role of plant hormone auxin in determining the Au induced root system architecture. This is the first study using an integrated approach to understand the in planta biotransformation of KAuCl4 into AuNPs.

  17. Independent component analysis of DTI data reveals white matter covariances in Alzheimer's disease

    Science.gov (United States)

    Ouyang, Xin; Sun, Xiaoyu; Guo, Ting; Sun, Qiaoyue; Chen, Kewei; Yao, Li; Wu, Xia; Guo, Xiaojuan

    2014-03-01

    Alzheimer's disease (AD) is a progressive neurodegenerative disease with the clinical symptom of the continuous deterioration of cognitive and memory functions. Multiple diffusion tensor imaging (DTI) indices such as fractional anisotropy (FA) and mean diffusivity (MD) can successfully explain the white matter damages in AD patients. However, most studies focused on the univariate measures (voxel-based analysis) to examine the differences between AD patients and normal controls (NCs). In this investigation, we applied a multivariate independent component analysis (ICA) to investigate the white matter covariances based on FA measurement from DTI data in 35 AD patients and 45 NCs from the Alzheimer's Disease Neuroimaging Initiative (ADNI) database. We found that six independent components (ICs) showed significant FA reductions in white matter covariances in AD compared with NC, including the genu and splenium of corpus callosum (IC-1 and IC-2), middle temporal gyral of temporal lobe (IC-3), sub-gyral of frontal lobe (IC-4 and IC-5) and sub-gyral of parietal lobe (IC-6). Our findings revealed covariant white matter loss in AD patients and suggest that the unsupervised data-driven ICA method is effective to explore the changes of FA in AD. This study assists us in understanding the mechanism of white matter covariant reductions in the development of AD.

  18. Joint genetic analysis using variant sets reveals polygenic gene-context interactions.

    Directory of Open Access Journals (Sweden)

    Francesco Paolo Casale

    2017-04-01

    Full Text Available Joint genetic models for multiple traits have helped to enhance association analyses. Most existing multi-trait models have been designed to increase power for detecting associations, whereas the analysis of interactions has received considerably less attention. Here, we propose iSet, a method based on linear mixed models to test for interactions between sets of variants and environmental states or other contexts. Our model generalizes previous interaction tests and in particular provides a test for local differences in the genetic architecture between contexts. We first use simulations to validate iSet before applying the model to the analysis of genotype-environment interactions in an eQTL study. Our model retrieves a larger number of interactions than alternative methods and reveals that up to 20% of cases show context-specific configurations of causal variants. Finally, we apply iSet to test for sub-group specific genetic effects in human lipid levels in a large human cohort, where we identify a gene-sex interaction for C-reactive protein that is missed by alternative methods.

  19. Bach Is the Father of Harmony: Revealed by a 1/f Fluctuation Analysis across Musical Genres.

    Directory of Open Access Journals (Sweden)

    Dan Wu

    Full Text Available Harmony is a fundamental attribute of music. Close connections exist between music and mathematics since both pursue harmony and unity. In music, the consonance of notes played simultaneously partly determines our perception of harmony; associates with aesthetic responses; and influences the emotion expression. The consonance could be considered as a window to understand and analyze harmony. Here for the first time we used a 1/f fluctuation analysis to investigate whether the consonance fluctuation structure in music with a wide range of composers and genres followed the scale free pattern that has been found for pitch, melody, rhythm, human body movements, brain activity, natural images and geographical features. We then used a network graph approach to investigate which composers were the most influential both within and across genres. Our results showed that patterns of consonance in music did follow scale-free characteristics, suggesting that this feature is a universally evolved one in both music and the living world. Furthermore, our network analysis revealed that Bach's harmony patterns were having the most influence on those used by other composers, followed closely by Mozart.

  20. Principal Component Analysis reveals correlation of cavities evolution and functional motions in proteins.

    Science.gov (United States)

    Desdouits, Nathan; Nilges, Michael; Blondel, Arnaud

    2015-02-01

    Protein conformation has been recognized as the key feature determining biological function, as it determines the position of the essential groups specifically interacting with substrates. Hence, the shape of the cavities or grooves at the protein surface appears to drive those functions. However, only a few studies describe the geometrical evolution of protein cavities during molecular dynamics simulations (MD), usually with a crude representation. To unveil the dynamics of cavity geometry evolution, we developed an approach combining cavity detection and Principal Component Analysis (PCA). This approach was applied to four systems subjected to MD (lysozyme, sperm whale myoglobin, Dengue envelope protein and EF-CaM complex). PCA on cavities allows us to perform efficient analysis and classification of the geometry diversity explored by a cavity. Additionally, it reveals correlations between the evolutions of the cavities and structures, and can even suggest how to modify the protein conformation to induce a given cavity geometry. It also helps to perform fast and consensual clustering of conformations according to cavity geometry. Finally, using this approach, we show that both carbon monoxide (CO) location and transfer among the different xenon sites of myoglobin are correlated with few cavity evolution modes of high amplitude. This correlation illustrates the link between ligand diffusion and the dynamic network of internal cavities.

  1. Proteomic analysis of mice fed methionine and choline deficient diet reveals marker proteins associated with steatohepatitis.

    Directory of Open Access Journals (Sweden)

    Su Jin Lee

    Full Text Available The mechanisms underlying the progression of simple steatosis to steatohepatitis are yet to be elucidated. To identify the proteins involved in the development of liver tissue inflammation, we performed comparative proteomic analysis of non-alcoholic steatohepatitis (NASH. Mice fed a methionine and choline deficient diet (MCD developed hepatic steatosis characterized by increased free fatty acid (FFA and triglyceride levels as well as alpha-SMA. Two-dimensional proteomic analysis revealed that the change from the normal diet to the MCD diet affected the expressions of 50 proteins. The most-pronounced changes were observed in the expression of proteins involved in Met metabolism and oxidative stress, most of which were significantly downregulated in NASH model animals. Peroxiredoxin (Prx is the most interesting among the modulated proteins identified in this study. In particular, cross-regulated Prx1 and Prx6 are likely to participate in cellular defense against the development of hepatitis. Thus, these Prx isoforms may be a useful new marker for early stage steatohepatitis. Moreover, curcumin treatment results in alleviation of the severity of hepatic inflammation in steatohepatitis. Notably, curcumin administration in MCD-fed mice dramatically reduced CYP2E1 as well as Prx1 expression, while upregulating Prx6 expression. These findings suggest that curcumin may have a protective role against MCD fed-induced oxidative stress.

  2. Bach Is the Father of Harmony: Revealed by a 1/f Fluctuation Analysis across Musical Genres.

    Science.gov (United States)

    Wu, Dan; Kendrick, Keith M; Levitin, Daniel J; Li, Chaoyi; Yao, Dezhong

    2015-01-01

    Harmony is a fundamental attribute of music. Close connections exist between music and mathematics since both pursue harmony and unity. In music, the consonance of notes played simultaneously partly determines our perception of harmony; associates with aesthetic responses; and influences the emotion expression. The consonance could be considered as a window to understand and analyze harmony. Here for the first time we used a 1/f fluctuation analysis to investigate whether the consonance fluctuation structure in music with a wide range of composers and genres followed the scale free pattern that has been found for pitch, melody, rhythm, human body movements, brain activity, natural images and geographical features. We then used a network graph approach to investigate which composers were the most influential both within and across genres. Our results showed that patterns of consonance in music did follow scale-free characteristics, suggesting that this feature is a universally evolved one in both music and the living world. Furthermore, our network analysis revealed that Bach's harmony patterns were having the most influence on those used by other composers, followed closely by Mozart.

  3. Metagenomic analysis reveals symbiotic relationship among bacteria in Microcystis-dominated community

    Directory of Open Access Journals (Sweden)

    Meili eXie

    2016-02-01

    Full Text Available Microcystis bloom, a cyanobacterial mass occurrence often found in eutrophicated water bodies, is one of the most serious threats to freshwater ecosystems worldwide. In nature, Microcystis forms aggregates or colonies that contain heterotrophic bacteria. The Microcystis-bacteria colonies were persistent even when they were maintained in lab culture for a long period. The relationship between Microcystis and the associated bacteria was investigated by a metagenomic approach in this study. We developed a visualization-guided method of binning for genome assembly after total colony DNA sequencing. We found that the method was effective in grouping sequences and it did not require reference genome sequence. Individual genomes of the colony bacteria were obtained and they provided valuable insights into microbial community structures. Analysis of metabolic pathways based on these genomes revealed that while all heterotrophic bacteria were dependent upon Microcystis for carbon and energy, Vitamin B12 biosynthesis, which is required for growth by Microcystis, was accomplished in a cooperative fashion among the bacteria. Our analysis also suggests that individual bacteria in the colony community contributed a complete pathway for degradation of benzoate, which is inhibitory to the cyanobacterial growth, and its ecological implication for Microcystis bloom is discussed.

  4. Bioinformatic analysis of the neprilysin (M13 family of peptidases reveals complex evolutionary and functional relationships

    Directory of Open Access Journals (Sweden)

    Pinney John W

    2008-01-01

    Full Text Available Abstract Background The neprilysin (M13 family of endopeptidases are zinc-metalloenzymes, the majority of which are type II integral membrane proteins. The best characterised of this family is neprilysin, which has important roles in inactivating signalling peptides involved in modulating neuronal activity, blood pressure and the immune system. Other family members include the endothelin converting enzymes (ECE-1 and ECE-2, which are responsible for the final step in the synthesis of potent vasoconstrictor endothelins. The ECEs, as well as neprilysin, are considered valuable therapeutic targets for treating cardiovascular disease. Other members of the M13 family have not been functionally characterised, but are also likely to have biological roles regulating peptide signalling. The recent sequencing of animal genomes has greatly increased the number of M13 family members in protein databases, information which can be used to reveal evolutionary relationships and to gain insight into conserved biological roles. Results The phylogenetic analysis successfully resolved vertebrate M13 peptidases into seven classes, one of which appears to be specific to mammals, and insect genes into five functional classes and a series of expansions, which may include inactive peptidases. Nematode genes primarily resolved into groups containing no other taxa, bar the two nematode genes associated with Drosophila DmeNEP1 and DmeNEP4. This analysis reconstructed only one relationship between chordate and invertebrate clusters, that of the ECE sub-group and the DmeNEP3 related genes. Analysis of amino acid utilisation in the active site of M13 peptidases reveals a basis for their biochemical properties. A relatively invariant S1' subsite gives the majority of M13 peptidases their strong preference for hydrophobic residues in P1' position. The greater variation in the S2' subsite may be instrumental in determining the specificity of M13 peptidases for their substrates

  5. Factorial validation of the Attitudes toward Women Scale for Adolescents (AWSA in assessing sexual behaviour patterns in Bolivian and Ecuadorian adolescents

    Directory of Open Access Journals (Sweden)

    Lina Jaruseviciene

    2014-01-01

    Full Text Available Background: Adolescents’ health is greatly influenced by social determinants, including gender norms. Although research has shown that there is an association between gender attitudes and adolescents’ sexual behaviour, few studies have assessed this relationship carefully. The Attitudes toward Women Scale for Adolescents (AWSA is widely used to assess gender attitudes among adolescents; however, to our knowledge it has not been applied in Latin America. Objective: To apply AWSA in Latin America for the first time, to perform a factorial validation of this scale and to assess the relationship of gender attitudes and sexual behaviour in Bolivian and Ecuadorian adolescents. Design: This cross-sectional study was carried out in 2011 among 14–18 year olds in 20 high schools in Cochabamba (Bolivia and six in Cuenca (Ecuador as a part of a larger project. Schools were purposively selected. A Spanish version of the 12-item AWSA was employed for this study. The assessed aspects of adolescent sexual behaviour were: reported sexual intercourse, reported positive experience during last sexual intercourse and reported current use of contraception. The psychometric properties of AWSA were investigated, and both explanatory and confirmatory factorial analyses were performed. Results: The number of questionnaires included in the analysis was 3,518 in Bolivia and 2,401 in Ecuador. A factorial analysis of AWSA resulted in three factors: power dimension (PD, equality dimension (ED and behavioural dimension (BD. ED showed the highest correlates with adolescent sexual behaviour. Higher scores of this dimension were associated with a more positive experience of sexual relationships, a higher current use of modern contraception and greater sexual activity among girls. Conclusions: This study revealed a three-factorial structure of AWSA and demonstrated that by employing factors, the sensitivity of AWSA increases as compared to using the scale as a whole to

  6. 27 CFR 40.47 - Other businesses within factory.

    Science.gov (United States)

    2010-04-01

    ... factory. 40.47 Section 40.47 Alcohol, Tobacco Products and Firearms ALCOHOL AND TOBACCO TAX AND TRADE... AND TUBES, AND PROCESSED TOBACCO Administrative Provisions § 40.47 Other businesses within factory. (a) General. The appropriate TTB officer may authorize such other businesses within the factory of...

  7. 46 CFR 164.009-23 - Factory inspection.

    Science.gov (United States)

    2010-10-01

    ... 46 Shipping 6 2010-10-01 2010-10-01 false Factory inspection. 164.009-23 Section 164.009-23...: SPECIFICATIONS AND APPROVAL MATERIALS Noncombustible Materials for Merchant Vessels § 164.009-23 Factory... regular schedule. However, the Commander of the Coast Guard District in which a factory is located...

  8. 46 CFR 162.050-13 - Factory production and inspection.

    Science.gov (United States)

    2010-10-01

    ... 46 Shipping 6 2010-10-01 2010-10-01 false Factory production and inspection. 162.050-13 Section....050-13 Factory production and inspection. (a) Equipment manufactured under Coast Guard approval must... any time to visit a factory where the equipment is manufactured to conduct an inspection of...

  9. 27 CFR 40.72 - Use of factory premises.

    Science.gov (United States)

    2010-04-01

    ... 27 Alcohol, Tobacco Products and Firearms 2 2010-04-01 2010-04-01 false Use of factory premises... factory premises. (a) General. Unless otherwise authorized by the appropriate TTB officer as provided in § 40.47, the premises used by a manufacturer of tobacco products for his factory shall be...

  10. 27 CFR 45.33 - Return of shipment to factory.

    Science.gov (United States)

    2010-04-01

    ... factory. 45.33 Section 45.33 Alcohol, Tobacco Products and Firearms ALCOHOL AND TOBACCO TAX AND TRADE... factory. Tobacco products, and cigarette papers and tubes which have been removed, under this part, may be returned to the factory without internal revenue supervision. (72 Stat. 1418, as amended; 26 U.S.C. 5704)...

  11. Internet factories: Creating application-specific networks on-demand

    NARCIS (Netherlands)

    Strijkers, R.J.; Makkes, M.X.; Laat, C. de; Meijer, R.J.

    2014-01-01

    We introduce the concept of Internet factories. Internet factories structure the task of creating and managing application-specific overlay networks using infrastructure-as-a-service clouds. We describe the Internet factory architecture and report on a proof of concept with three examples that progr

  12. Virus factories, double membrane vesicles and viroplasm generated in animal cells.

    Science.gov (United States)

    Netherton, Christopher L; Wileman, Tom

    2011-11-01

    Many viruses reorganise cellular membrane compartments and the cytoskeleton to generate subcellular microenvironments called virus factories or 'viroplasm'. These create a platform to concentrate replicase proteins, virus genomes and host proteins required for replication and also protect against antiviral defences. There is growing interest in understanding how viruses induce such large changes in cellular organisation, and recent studies are beginning to reveal the relationship between virus factories and viroplasm and the cellular structures that house them. In this review, we discuss how three supergroups of (+)RNA viruses generate replication sites from membrane-bound organelles and highlight research on perinuclear factories induced by the nucleocytoplasmic large DNA viruses. Copyright © 2011 Elsevier B.V. All rights reserved.

  13. Quasi-gaussian fixed points and factorial cumulants in nuclear multifragmentation

    CERN Document Server

    Lacroix, D

    1996-01-01

    We re-analyze the conditions for the phenomenon of intermittency (self-similar fluctuations) to occur in models of multifragmentation. Analyzing two different mechanisms, the bond-percolation and the ERW (Elattari, Richert and Wagner) statistical fragmentation models, we point out a common quasi-gaussian shape of the total multiplicity distribution in the critical range. The fixed-point property is also observed for the multiplicity of the second bin. Fluctuations are studied using scaled factorial cumulants instead of scaled factorial moments. The second-order cumulant displays the intermittency signal while higher order cumulants are equal to zero, revealing a large information redundancy in scaled factorial moments. A practical criterion is proposed to identify the gaussian feature of light-fragment production, distinguishing between a self-similarity mechanism (ERW) and the superposition of independent sources (percolation).

  14. ALE meta-analysis reveals dissociable networks for affective and discriminative aspects of touch.

    Science.gov (United States)

    Morrison, India

    2016-04-01

    Emotionally-laden tactile stimulation-such as a caress on the skin or the feel of velvet-may represent a functionally distinct domain of touch, underpinned by specific cortical pathways. In order to determine whether, and to what extent, cortical functional neuroanatomy supports a distinction between affective and discriminative touch, an activation likelihood estimate (ALE) meta-analysis was performed. This meta-analysis statistically mapped reported functional magnetic resonance imaging (fMRI) activations from 17 published affective touch studies in which tactile stimulation was associated with positive subjective evaluation (n = 291, 34 experimental contrasts). A separate ALE meta-analysis mapped regions most likely to be activated by tactile stimulation during detection and discrimination tasks (n = 1,075, 91 experimental contrasts). These meta-analyses revealed dissociable regions for affective and discriminative touch, with posterior insula (PI) more likely to be activated for affective touch, and primary somatosensory cortices (SI) more likely to be activated for discriminative touch. Secondary somatosensory cortex had a high likelihood of engagement by both affective and discriminative touch. Further, meta-analytic connectivity (MCAM) analyses investigated network-level co-activation likelihoods independent of task or stimulus, across a range of domains and paradigms. Affective-related PI and discriminative-related SI regions co-activated with different networks, implicated in dissociable functions, but sharing somatosensory co-activations. Taken together, these meta-analytic findings suggest that affective and discriminative touch are dissociable both on the regional and network levels. However, their degree of shared activation likelihood in somatosensory cortices indicates that this dissociation reflects functional biases within tactile processing networks, rather than functionally and anatomically distinct pathways.

  15. Regulators of skeletal development: a cluster analysis of 206 bone tumors reveals diagnostically useful markers.

    Science.gov (United States)

    Horvai, Andrew E; Roy, Ritu; Borys, Dariusz; O'Donnell, Richard J

    2012-11-01

    The molecules Indian hedgehog (IHH), SP7 (also known as osterix), sex-determining region Y-box 9 (SOX9), runt-related transcription factor 2 (RUNX2) and TWIST1 regulate the normal differentiation of osteo- and chondrogenic cells from precursors during skeletal development and remodeling. The aberrant function of the same molecules has been implicated in the pathogenesis of bone tumors. Preliminary studies suggest that antibodies against these molecules have practical, diagnostic or prognostic utility in tumors. However, a comprehensive analysis of the expression of these molecules in a large, diverse set of bone tumors has yet to be reported. The goals of this study were to compare the immunohistochemical profiles of IHH, SP7, SOX9, RUNX2 and TWIST1 among bone tumors and to determine the optimum panel for diagnostic utility. Tissue microarrays prepared from 206 undecalcified tumors (71 osteosarcomas, 26 osteoblastomas/osteoid osteomas, 50 giant cell tumors, 5 chondromyxoid fibromas and 54 chondroblastomas) were stained with antibodies to IHH, SP7, SOX9, RUNX2 and TWIST1. The stains were scored for intensity (0-3+) and distribution. The results were analyzed by cluster analysis. Optimum antibody panels for diagnostic sensitivity and specificity were calculated. Analysis revealed six main clusters that corresponded well to tumor types and suggested a close relationship between the stromal cells of giant cell tumor and the osteoblasts of osteosarcoma. The expression profile of chondromyxoid fibroma and chondroblastoma also suggested related differentiation. The distribution of osteoblastomas and osteoid osteomas was more heterogeneous. RUNX2, SOX9 and TWIST1 represented the most sensitive and specific immunohistochemical panel to distinguish among these diagnoses with the limitation that no result could discriminate between chondroblastoma and chondromyxoid fibroma. IHH and SP7 did not yield additional utility.

  16. Transcriptional regulation of rod photoreceptor homeostasis revealed by in vivo NRL targetome analysis.

    Directory of Open Access Journals (Sweden)

    Hong Hao

    Full Text Available A stringent control of homeostasis is critical for functional maintenance and survival of neurons. In the mammalian retina, the basic motif leucine zipper transcription factor NRL determines rod versus cone photoreceptor cell fate and activates the expression of many rod-specific genes. Here, we report an integrated analysis of NRL-centered gene regulatory network by coupling chromatin immunoprecipitation followed by high-throughput sequencing (ChIP-Seq data from Illumina and ABI platforms with global expression profiling and in vivo knockdown studies. We identified approximately 300 direct NRL target genes. Of these, 22 NRL targets are associated with human retinal dystrophies, whereas 95 mapped to regions of as yet uncloned retinal disease loci. In silico analysis of NRL ChIP-Seq peak sequences revealed an enrichment of distinct sets of transcription factor binding sites. Specifically, we discovered that genes involved in photoreceptor function include binding sites for both NRL and homeodomain protein CRX. Evaluation of 26 ChIP-Seq regions validated their enhancer functions in reporter assays. In vivo knockdown of 16 NRL target genes resulted in death or abnormal morphology of rod photoreceptors, suggesting their importance in maintaining retinal function. We also identified histone demethylase Kdm5b as a novel secondary node in NRL transcriptional hierarchy. Exon array analysis of flow-sorted photoreceptors in which Kdm5b was knocked down by shRNA indicated its role in regulating rod-expressed genes. Our studies identify candidate genes for retinal dystrophies, define cis-regulatory module(s for photoreceptor-expressed genes and provide a framework for decoding transcriptional regulatory networks that dictate rod homeostasis.

  17. Desiccation tolerance mechanism in resurrection fern-ally Selaginella tamariscina revealed by physiological and proteomic analysis.

    Science.gov (United States)

    Wang, Xiaonan; Chen, Sixue; Zhang, Heng; Shi, Lei; Cao, Fenglin; Guo, Lihai; Xie, Yongming; Wang, Tai; Yan, Xiufeng; Dai, Shaojun

    2010-12-03

    Drought is one of the most severe limitations to plant growth and productivity. Resurrection plants have evolved a unique capability to tolerate desiccation in vegetative tissues. Fern-ally Selaginella tamariscina (Beauv.) is one of the most primitive vascular resurrection plants, which can survive a desiccated state and recover when water becomes available. To better understand the mechanism of desiccation tolerance, we have applied physiological and proteomic analysis. Samples of S. tamariscina were water-deprived for up to seven days followed by 12 h of rewatering. Our results showed that endogenous abscisic acid (ABA) increased to regulate dehydration-responsive genes/proteins and physiological processes. In the course of dehydration, the contents of osmolytes represented by soluble sugars and proline were increased to maintain cell structure integrity. The activities of four antioxidant enzymes (superoxide dismutase (SOD), peroxidase (POD), catalase (CAT), and glutathione reductase (GR)) also increased. In contrast, both the rate of photosynthesis and the chlorophyll content decreased, and plasma membrane integrity was lost. We identified 138 desiccation-responsive two-dimensional electrophoresis (2-DE) spots, representing 103 unique proteins. Hierarchical clustering analysis revealed that 83% of the proteins were down-regulated upon dehydration. They were mainly involved in photosynthesis, carbohydrate and energy metabolism, stress and defense, protein metabolism, signaling, membrane/transport, cell structure, and cell division. The dynamic expression changes of the desiccation-responsive proteins provide strong evidence that cell structure modification, photosynthesis reduction, antioxidant system activation, and protein post-transcriptional/translational modifications are essential to the poikilochlorophyllous fern-ally S. tamariscina in response to dehydration. In addition, our comparative analysis of dehydration-responsive proteins in vegetative tissues

  18. Time series analysis of satellite data reveals continuous deforestation of New England since the 1980s

    Science.gov (United States)

    Olofsson, Pontus; Holden, Christopher E.; Bullock, Eric L.; Woodcock, Curtis E.

    2016-06-01

    Land cover and land change were monitored continuously between 1985 and 2011 at 30 m resolution across New England in the Northeastern United States in support of modeling the terrestrial carbon budget. It was found that the forest area has been decreasing throughout the study period in each state of the region since the 1980s. A total of 386 657 ± 98 137 ha (95% confidence interval) of forest has been converted to other land covers since 1985. Mainly driven by low density residential development, the deforestation accelerated in the mid-1990s until 2007 when it plateaued as a result of declining new residential construction and in turn, the financial crisis of 2007-08. The area of forest harvest, estimated at 226 519 ± 66 682 ha, was mapped separately and excluded from the deforestation estimate, while the area of forest expansion on non-forested lands was found to not be significantly different from zero. New England is often held as a principal example of a forest transition with historical widespread deforestation followed by recovery of forestlands as farming activities diminished, but the results of this study support the notion of a reversal of the forest transition as the region again is experiencing widespread deforestation. All available Landsat imagery acquired after 1985 for the study area were collected and used in the analysis. Areas of land cover and land change were estimated from a random sample of reference observations stratified by a twelve-class land change map encompassing the entire study area and period. The statistical analysis revealed that the net change in forest area and the associated modeled impact on the terrestrial carbon balance would have been considerably different if the results of the map were used without inferring the area of forest change by analysis of a reference sample.

  19. Transcriptional regulation of rod photoreceptor homeostasis revealed by in vivo NRL targetome analysis.

    Science.gov (United States)

    Hao, Hong; Kim, Douglas S; Klocke, Bernward; Johnson, Kory R; Cui, Kairong; Gotoh, Norimoto; Zang, Chongzhi; Gregorski, Janina; Gieser, Linn; Peng, Weiqun; Fann, Yang; Seifert, Martin; Zhao, Keji; Swaroop, Anand

    2012-01-01

    A stringent control of homeostasis is critical for functional maintenance and survival of neurons. In the mammalian retina, the basic motif leucine zipper transcription factor NRL determines rod versus cone photoreceptor cell fate and activates the expression of many rod-specific genes. Here, we report an integrated analysis of NRL-centered gene regulatory network by coupling chromatin immunoprecipitation followed by high-throughput sequencing (ChIP-Seq) data from Illumina and ABI platforms with global expression profiling and in vivo knockdown studies. We identified approximately 300 direct NRL target genes. Of these, 22 NRL targets are associated with human retinal dystrophies, whereas 95 mapped to regions of as yet uncloned retinal disease loci. In silico analysis of NRL ChIP-Seq peak sequences revealed an enrichment of distinct sets of transcription factor binding sites. Specifically, we discovered that genes involved in photoreceptor function include binding sites for both NRL and homeodomain protein CRX. Evaluation of 26 ChIP-Seq regions validated their enhancer functions in reporter assays. In vivo knockdown of 16 NRL target genes resulted in death or abnormal morphology of rod photoreceptors, suggesting their importance in maintaining retinal function. We also identified histone demethylase Kdm5b as a novel secondary node in NRL transcriptional hierarchy. Exon array analysis of flow-sorted photoreceptors in which Kdm5b was knocked down by shRNA indicated its role in regulating rod-expressed genes. Our studies identify candidate genes for retinal dystrophies, define cis-regulatory module(s) for photoreceptor-expressed genes and provide a framework for decoding transcriptional regulatory networks that dictate rod homeostasis.

  20. Large-scale analysis of Arabidopsis transcription reveals a basal co-regulation network

    Directory of Open Access Journals (Sweden)

    Chamovitz Daniel A

    2009-09-01

    Full Text Available Abstract Background Analyses of gene expression data from microarray experiments has become a central tool for identifying co-regulated, functional gene modules. A crucial aspect of such analysis is the integration of data from different experiments and different laboratories. How to weigh the contribution of different experiments is an important point influencing the final outcomes. We have developed a novel method for this integration, and applied it to genome-wide data from multiple Arabidopsis microarray experiments performed under a variety of experimental conditions. The goal of this study is to identify functional globally co-regulated gene modules in the Arabidopsis genome. Results Following the analysis of 21,000 Arabidopsis genes in 43 datasets and about 2 × 108 gene pairs, we identified a globally co-expressed gene network. We found clusters of globally co-expressed Arabidopsis genes that are enriched for known Gene Ontology annotations. Two types of modules were identified in the regulatory network that differed in their sensitivity to the node-scoring parameter; we further showed these two pertain to general and specialized modules. Some of these modules were further investigated using the Genevestigator compendium of microarray experiments. Analyses of smaller subsets of data lead to the identification of condition-specific modules. Conclusion Our method for identification of gene clusters allows the integration of diverse microarray experiments from many sources. The analysis reveals that part of the Arabidopsis transcriptome is globally co-expressed, and can be further divided into known as well as novel functional gene modules. Our methodology is general enough to apply to any set of microarray experiments, using any scoring function.

  1. Transcriptional regulation of rod photoreceptor homeostasis revealed by in vivo NRL targetome analysis.

    Directory of Open Access Journals (Sweden)

    Hong Hao

    Full Text Available A stringent control of homeostasis is critical for functional maintenance and survival of neurons. In the mammalian retina, the basic motif leucine zipper transcription factor NRL determines rod versus cone photoreceptor cell fate and activates the expression of many rod-specific genes. Here, we report an integrated analysis of NRL-centered gene regulatory network by coupling chromatin immunoprecipitation followed by high-throughput sequencing (ChIP-Seq data from Illumina and ABI platforms with global expression profiling and in vivo knockdown studies. We identified approximately 300 direct NRL target genes. Of these, 22 NRL targets are associated with human retinal dystrophies, whereas 95 mapped to regions of as yet uncloned retinal disease loci. In silico analysis of NRL ChIP-Seq peak sequences revealed an enrichment of distinct sets of transcription factor binding sites. Specifically, we discovered that genes involved in photoreceptor function include binding sites for both NRL and homeodomain protein CRX. Evaluation of 26 ChIP-Seq regions validated their enhancer functions in reporter assays. In vivo knockdown of 16 NRL target genes resulted in death or abnormal morphology of rod photoreceptors, suggesting their importance in maintaining retinal function. We also identified histone demethylase Kdm5b as a novel secondary node in NRL transcriptional hierarchy. Exon array analysis of flow-sorted photoreceptors in which Kdm5b was knocked down by shRNA indicated its role in regulating rod-expressed genes. Our studies identify candidate genes for retinal dystrophies, define cis-regulatory module(s for photoreceptor-expressed genes and provide a framework for decoding transcriptional regulatory networks that dictate rod homeostasis.

  2. [Cohort mortality study of workers in an automobile foundry factory].

    Science.gov (United States)

    Zeng, Yu-Yu; Liu, Fu-Ying; Zhang, Min; Lu, Rui; Yao, Hui-Lin; Yang, Qiu-Ling; Chen, Wei-Hong

    2008-10-01

    To understand the major causes of death in automobile foundry workers and investigate casting manipulations hazards to health. A cohort study of 3529 foundry workers registered in one big automobile factory in Shiyan city of China was performed. Standardized mortality ratios (SMRs) were calculated for the main causes of death by using Chinese national mortality rates as reference. The cohort mortality was traced from 1980 to the end of 2005 with an accumulation of 84 999 person-years, revealed 265 deaths. The results of this study showed that the standardized mortality ratio for all subjects was 0.96 (95% CI: 0.85 approximately 1.08), which was very close to that expected on the basis of the China national mortality rates. The SMR increased with age, the SMR became greater than 1 in all groups of age 50 and higher. The results showed that malignant neoplasm (3.43%), accidents (1.16%), cerebro-vascular diseases (1.08%), cardio-vascular diseases (0.79%) were the first four illnesses that threatened workers' life span. Statistically significant mortality of malignant neoplasm (SMR = 7.87), accidents (SMR = 2.70), cardio-vascular diseases (SMR = 2.68) and digestive diseases (SMR = 2.79) were found in the foundry workers. The relative risk of malignant neoplasm for first line workers to assistant workers was 1.99 (P < 0.05). The occupational hazards in foundry factory have harmful impact on the workers' health and life span.

  3. Performance Evaluation of Wastewater Treated Plant for Ninava Drug Factory

    Directory of Open Access Journals (Sweden)

    Amar Hamad

    2013-05-01

    Full Text Available In this study the characteristics of raw and treated wastewater from Ninava drug factory were evaluated. The results revealed that the strength of raw wastewater can be classified as medium concentrated wastewater with respect to its BOD5 since the average value is 231.7 mg/l. In addition a strong correlations were found between many characteristics of raw waste. The characteristics of produced effluent from waste water treatment plant of the factory were within the Iraqi specification for the disposed wastewater constraints in 1997, where the average is 7.8 for pH, 40mg/l for SS, 2.8 mg/l for PO4-3, 45 mg/l for BOD5 and 104.3 mg/l for COD. The heavy metals concentrations for both raw and treated wastewater is to be less than those of the related literatures for Tigris river, municipal wastewater and water supply in Mosul city, the average heavy metal concentrations of raw and treated wastewater were 0.5 mg/l for Iron, 0.2 mg/l for zinc and 0.005 mg/l for copper, and there is no significant difference between raw and treated heavy metal concentrations.

  4. Lattice Commissioning Stretgy Simulation for the B Factory

    Energy Technology Data Exchange (ETDEWEB)

    Lee, M.; Whittum, D.; Yan, Y.; Cai, Y.; Shoaee, H.; /SLAC

    2011-08-26

    To prepare for the PEP-II turn on, we have studied one commissioning strategy with simulated lattice errors. Features such as difference and absolute orbit analysis and correction are discussed. To prepare for the commissioning of the PEP-II injection line and high energy ring (HER), we have developed a system for on-line orbit analysis by merging two existing codes: LEGO and RESOLVE. With the LEGO-RESOLVE system, we can study the problem of finding quadrupole alignment and beam position (BPM) offset errors with simulated data. We have increased the speed and versatility of the orbit analysis process by using a command file written in a script language designed specifically for RESOLVE. In addition, we have interfaced the LEGO-RESOLVE system to the control system of the B-Factory. In this paper, we describe online analysis features of the LEGO-RESOLVE system and present examples of practical applications.

  5. Analysis of SSH library of rice variety Aganni reveals candidate gall midge resistance genes.

    Science.gov (United States)

    Divya, Dhanasekar; Singh, Y Tunginba; Nair, Suresh; Bentur, J S

    2016-03-01

    The Asian rice gall midge, Orseolia oryzae, is a serious insect pest causing extensive yield loss. Interaction between the gall midge and rice genotypes is known to be on a gene-for-gene basis. Here, we report molecular basis of HR- (hypersensitive reaction-negative) type of resistance in Aganni (an indica rice variety possessing gall midge resistance gene Gm8) through the construction and analysis of a suppressive subtraction hybridization (SSH) cDNA library. In all, 2,800 positive clones were sequenced and analyzed. The high-quality ESTs were assembled into 448 non-redundant gene sequences. Homology search with the NCBI databases, using BlastX and BlastN, revealed that 73% of the clones showed homology to genes with known function and majority of ESTs belonged to the gene ontology category 'biological process'. Validation of 27 putative candidate gall midge resistance genes through real-time PCR, following gall midge infestation, in contrasting parents and their derived pre-NILs (near isogenic lines) revealed induction of specific genes related to defense and metabolism. Interestingly, four genes, belonging to families of leucine-rich repeat (LRR), heat shock protein (HSP), pathogenesis related protein (PR), and NAC domain-containing protein, implicated in conferring HR+ type of resistance, were found to be up-regulated in Aganni. Two of the reactive oxygen intermediates (ROI)-scavenging-enzyme-coding genes Cytosolic Ascorbate Peroxidase1, 2 (OsAPx1 and OsAPx2) were found up-regulated in Aganni in incompatible interaction possibly suppressing HR. We suggest that Aganni has a deviant form of inducible, salicylic acid (SA)-mediated resistance but without HR.

  6. Systematic prioritization and integrative analysis of copy number variations in schizophrenia reveal key schizophrenia susceptibility genes.

    Science.gov (United States)

    Luo, Xiongjian; Huang, Liang; Han, Leng; Luo, Zhenwu; Hu, Fang; Tieu, Roger; Gan, Lin

    2014-11-01

    Schizophrenia is a common mental disorder with high heritability and strong genetic heterogeneity. Common disease-common variants hypothesis predicts that schizophrenia is attributable in part to common genetic variants. However, recent studies have clearly demonstrated that copy number variations (CNVs) also play pivotal roles in schizophrenia susceptibility and explain a proportion of missing heritability. Though numerous CNVs have been identified, many of the regions affected by CNVs show poor overlapping among different studies, and it is not known whether the genes disrupted by CNVs contribute to the risk of schizophrenia. By using cumulative scoring, we systematically prioritized the genes affected by CNVs in schizophrenia. We identified 8 top genes that are frequently disrupted by CNVs, including NRXN1, CHRNA7, BCL9, CYFIP1, GJA8, NDE1, SNAP29, and GJA5. Integration of genes affected by CNVs with known schizophrenia susceptibility genes (from previous genetic linkage and association studies) reveals that many genes disrupted by CNVs are also associated with schizophrenia. Further protein-protein interaction (PPI) analysis indicates that protein products of genes affected by CNVs frequently interact with known schizophrenia-associated proteins. Finally, systematic integration of CNVs prioritization data with genetic association and PPI data identifies key schizophrenia candidate genes. Our results provide a global overview of genes impacted by CNVs in schizophrenia and reveal a densely interconnected molecular network of de novo CNVs in schizophrenia. Though the prioritized top genes represent promising schizophrenia risk genes, further work with different prioritization methods and independent samples is needed to confirm these findings. Nevertheless, the identified key candidate genes may have important roles in the pathogenesis of schizophrenia, and further functional characterization of these genes may provide pivotal targets for future therapeutics and

  7. Dysconnection topography in schizophrenia revealed with state-space analysis of EEG.

    Directory of Open Access Journals (Sweden)

    Mahdi Jalili

    Full Text Available BACKGROUND: The dysconnection hypothesis has been proposed to account for pathophysiological mechanisms underlying schizophrenia. Widespread structural changes suggesting abnormal connectivity in schizophrenia have been imaged. A functional counterpart of the structural maps would be the EEG synchronization maps. However, due to the limits of currently used bivariate methods, functional correlates of dysconnection are limited to the isolated measurements of synchronization between preselected pairs of EEG signals. METHODS/RESULTS: To reveal a whole-head synchronization topography in schizophrenia, we applied a new method of multivariate synchronization analysis called S-estimator to the resting dense-array (128 channels EEG obtained from 14 patients and 14 controls. This method determines synchronization from the embedding dimension in a state-space domain based on the theoretical consequence of the cooperative behavior of simultaneous time series-the shrinking of the state-space embedding dimension. The S-estimator imaging revealed a specific synchronization landscape in schizophrenia patients. Its main features included bilaterally increased synchronization over temporal brain regions and decreased synchronization over the postcentral/parietal region neighboring the midline. The synchronization topography was stable over the course of several months and correlated with the severity of schizophrenia symptoms. In particular, direct correlations linked positive, negative, and general psychopathological symptoms to the hyper-synchronized temporal clusters over both hemispheres. Along with these correlations, general psychopathological symptoms inversely correlated within the hypo-synchronized postcentral midline region. While being similar to the structural maps of cortical changes in schizophrenia, the S-maps go beyond the topography limits, demonstrating a novel aspect of the abnormalities of functional cooperation: namely, regionally reduced or

  8. Comparative whole-genome analysis of clinical isolates reveals characteristic architecture of Mycobacterium tuberculosis pangenome.

    Science.gov (United States)

    Periwal, Vinita; Patowary, Ashok; Vellarikkal, Shamsudheen Karuthedath; Gupta, Anju; Singh, Meghna; Mittal, Ashish; Jeyapaul, Shamini; Chauhan, Rajendra Kumar; Singh, Ajay Vir; Singh, Pravin Kumar; Garg, Parul; Katoch, Viswa Mohan; Katoch, Kiran; Chauhan, Devendra Singh; Sivasubbu, Sridhar; Scaria, Vinod

    2015-01-01

    The tubercle complex consists of closely related mycobacterium species which appear to be variants of a single species. Comparative genome analysis of different strains could provide useful clues and insights into the genetic diversity of the species. We integrated genome assemblies of 96 strains from Mycobacterium tuberculosis complex (MTBC), which included 8 Indian clinical isolates sequenced and assembled in this study, to understand its pangenome architecture. We predicted genes for all the 96 strains and clustered their respective CDSs into homologous gene clusters (HGCs) to reveal a hard-core, soft-core and accessory genome component of MTBC. The hard-core (HGCs shared amongst 100% of the strains) was comprised of 2,066 gene clusters whereas the soft-core (HGCs shared amongst at least 95% of the strains) comprised of 3,374 gene clusters. The change in the core and accessory genome components when observed as a function of their size revealed that MTBC has an open pangenome. We identified 74 HGCs that were absent from reference strains H37Rv and H37Ra but were present in most of clinical isolates. We report PCR validation on 9 candidate genes depicting 7 genes completely absent from H37Rv and H37Ra whereas 2 genes shared partial homology with them accounting to probable insertion and deletion events. The pangenome approach is a promising tool for studying strain specific genetic differences occurring within species. We also suggest that since selecting appropriate target genes for typing purposes requires the expected target gene be present in all isolates being typed, therefore estimating the core-component of the species becomes a subject of prime importance.

  9. Comparative whole-genome analysis of clinical isolates reveals characteristic architecture of Mycobacterium tuberculosis pangenome.

    Directory of Open Access Journals (Sweden)

    Vinita Periwal

    Full Text Available The tubercle complex consists of closely related mycobacterium species which appear to be variants of a single species. Comparative genome analysis of different strains could provide useful clues and insights into the genetic diversity of the species. We integrated genome assemblies of 96 strains from Mycobacterium tuberculosis complex (MTBC, which included 8 Indian clinical isolates sequenced and assembled in this study, to understand its pangenome architecture. We predicted genes for all the 96 strains and clustered their respective CDSs into homologous gene clusters (HGCs to reveal a hard-core, soft-core and accessory genome component of MTBC. The hard-core (HGCs shared amongst 100% of the strains was comprised of 2,066 gene clusters whereas the soft-core (HGCs shared amongst at least 95% of the strains comprised of 3,374 gene clusters. The change in the core and accessory genome components when observed as a function of their size revealed that MTBC has an open pangenome. We identified 74 HGCs that were absent from reference strains H37Rv and H37Ra but were present in most of clinical isolates. We report PCR validation on 9 candidate genes depicting 7 genes completely absent from H37Rv and H37Ra whereas 2 genes shared partial homology with them accounting to probable insertion and deletion events. The pangenome approach is a promising tool for studying strain specific genetic differences occurring within species. We also suggest that since selecting appropriate target genes for typing purposes requires the expected target gene be present in all isolates being typed, therefore estimating the core-component of the species becomes a subject of prime importance.

  10. Analysis of virus genomes from glacial environments reveals novel virus groups with unusual host interactions

    Science.gov (United States)

    Bellas, Christopher M.; Anesio, Alexandre M.; Barker, Gary

    2015-01-01

    Microbial communities in glacial ecosystems are diverse, active, and subjected to strong viral pressures and infection rates. In this study we analyse putative virus genomes assembled from three dsDNA viromes from cryoconite hole ecosystems of Svalbard and the Greenland Ice Sheet to assess the potential hosts and functional role viruses play in these habitats. We assembled 208 million reads from the virus-size fraction and developed a procedure to select genuine virus scaffolds from cellular contamination. Our curated virus library contained 546 scaffolds up to 230 Kb in length, 54 of which were circular virus consensus genomes. Analysis of virus marker genes revealed a wide range of viruses had been assembled, including bacteriophages, cyanophages, nucleocytoplasmic large DNA viruses and a virophage, with putative hosts identified as Cyanobacteria, Alphaproteobacteria, Gammaproteobacteria, Actinobacteria, Firmicutes, eukaryotic algae and amoebae. Whole genome comparisons revealed the majority of circular genome scaffolds (CGS) formed 12 novel groups, two of which contained multiple phage members with plasmid-like properties, including a group of phage-plasmids possessing plasmid-like partition genes and toxin-antitoxin addiction modules to ensure their replication and a satellite phage-plasmid group. Surprisingly we also assembled a phage that not only encoded plasmid partition genes, but a clustered regularly interspaced short palindromic repeat (CRISPR)/Cas adaptive bacterial immune system. One of the spacers was an exact match for another phage in our virome, indicating that in a novel use of the system, the lysogen was potentially capable of conferring immunity on its bacterial host against other phage. Together these results suggest that highly novel and diverse groups of viruses are present in glacial environments, some of which utilize very unusual life strategies and genes to control their replication and maintain a long-term relationship with their hosts

  11. Genome-wide analysis of gene expression in primate taste buds reveals links to diverse processes.

    Directory of Open Access Journals (Sweden)

    Peter Hevezi

    Full Text Available Efforts to unravel the mechanisms underlying taste sensation (gustation have largely focused on rodents. Here we present the first comprehensive characterization of gene expression in primate taste buds. Our findings reveal unique new insights into the biology of taste buds. We generated a taste bud gene expression database using laser capture microdissection (LCM procured fungiform (FG and circumvallate (CV taste buds from primates. We also used LCM to collect the top and bottom portions of CV taste buds. Affymetrix genome wide arrays were used to analyze gene expression in all samples. Known taste receptors are preferentially expressed in the top portion of taste buds. Genes associated with the cell cycle and stem cells are preferentially expressed in the bottom portion of taste buds, suggesting that precursor cells are located there. Several chemokines including CXCL14 and CXCL8 are among the highest expressed genes in taste buds, indicating that immune system related processes are active in taste buds. Several genes expressed specifically in endocrine glands including growth hormone releasing hormone and its receptor are also strongly expressed in taste buds, suggesting a link between metabolism and taste. Cell type-specific expression of transcription factors and signaling molecules involved in cell fate, including KIT, reveals the taste bud as an active site of cell regeneration, differentiation, and development. IKBKAP, a gene mutated in familial dysautonomia, a disease that results in loss of taste buds, is expressed in taste cells that communicate with afferent nerve fibers via synaptic transmission. This database highlights the power of LCM coupled with transcriptional profiling to dissect the molecular composition of normal tissues, represents the most comprehensive molecular analysis of primate taste buds to date, and provides a foundation for further studies in diverse aspects of taste biology.

  12. Portable Material Culture and Death Factory Auschwitz

    Directory of Open Access Journals (Sweden)

    Adrian T. Myers

    2007-11-01

    Full Text Available Like any other factory, the death factory of Auschwitz consumed primary materials and produced secondary products. Unique to Auschwitz, though, is that the primary material consumed was human life; not just the life of the breathing human body, but also the material possessions associated with that life. The detritus of this most efficient genocide – clothing, jewellery, food, corpses – was appropriated and put to new uses by the SS and the prisoners. Others have recognised the various postwar material cultural outcomes of the camp: the writing, the film, the theatre, the art, the tourism. This article, however, demonstrates that the material culture of Auschwitz is not a phenomenon exclusive to the postwar era. It focuses on the fact that inside the camp during the war, despite the landscape of death and deprivation, intimate interaction between humans and material culture continued.

  13. The Physics of the B Factories

    Energy Technology Data Exchange (ETDEWEB)

    Bevan, A.J. [Queen Mary Univ., London (United Kingdom); Golob, B. [Ljubljana Univ. (Slovenia). Faculty of Mathematics and Physics; J. Stefan Institute, Ljubljana (Slovenia); Mannel, T. [Siegen Univ. (Germany). Theoretische Physik 1; Collaboration: BABAR Collaboration; Belle Collaboration; and others

    2014-11-15

    The inspiration for this book came from Fran@cois le Diberder. During his term as spokesperson for BABAR he laid down a vision for the two B Factory detector collaborations, BABAR and Belle, to work together on a book that would describe the methodologies used and physics results obtained by those experiments. A key ideal emphasized from the outset was that this book should be written from a pedagogical perspective; it should be of interest to the student and expert alike. This vision was presented during a BABAR collaboration meeting on the island of Elba in May 2008 and a follow up Belle collaboration meeting at KEK, with visiting colleagues from the BABAR collaboration, and was embraced by the community. A number of workshops involving people from the theoretical community as well as the two collaborations were held on four continents over the following years. The resulting book, ''The Physics of the B Factories'', is a testament to the way that this concept captured the zeitgeist on both sides of the Pacific Ocean. This book is divided into three parts, the first of which provides a brief description of the B Factories, including a short (though not exhaustive) historical perspective, as well as descriptions of the detectors, ancillary data acquisition systems and data (re)processing systems that were built by the two detector collaborations in the late 1990's. The second part of the book discusses tools and methods that are frequently used when analyzing the data collected. These range from details of low level reconstruction algorithms and abstract summaries of statistical methods to high level prescriptions used when evaluating systematic uncertainties on measurements of observables. The third part of the book is devoted to physics results. This includes sufficient theoretical discussion in order for the reader to understand the context of the work being described. We are indebted to our colleagues from the theoretical community who

  14. Assessment of noise in furniture factories

    Directory of Open Access Journals (Sweden)

    Alexandre Petusk Filipe

    2014-12-01

    Full Text Available Work safety is of great importance in all industrial activities. The Norm NR15 of the Brazilian law determines that the work environment be tailored to employees to minimize biological, ergonomic, physical, chemical risks and accidents. The aim of this study was to evaluate the exposure of intermittent noise in a daily dose to workers in furniture factories. Measurements were made with a sound level meter and dosimeter in a workday of eight hours in 14 furniture factories located in the South of Minas Gerais. Noise values ranged from 66.0 to 117.4 dB(A. At a dose of 8 working hours it was observed that the values exceed the tolerance limit of a unit, being from 2.76 to 30.52 for minimum and maximum units, respectively. Both noises and daily doses were superior than the values set by the NR-15-Annex 01 (BRASIL, 2008.

  15. A fractional-factorial probabilistic-possibilistic optimization framework for planning water resources management systems with multi-level parametric interactions.

    Science.gov (United States)

    Wang, S; Huang, G H; Zhou, Y

    2016-05-01

    In this study, a multi-level factorial-vertex fuzzy-stochastic programming (MFFP) approach is developed for optimization of water resources systems under probabilistic and possibilistic uncertainties. MFFP is capable of tackling fuzzy parameters at various combinations of α-cut levels, reflecting distinct attitudes of decision makers towards fuzzy parameters in the fuzzy discretization process based on the α-cut concept. The potential interactions among fuzzy parameters can be explored through a multi-level factorial analysis. A water resources management problem with fuzzy and random features is used to demonstrate the applicability of the proposed methodology. The results indicate that useful solutions can be obtained for the optimal allocation of water resources under fuzziness and randomness. They can help decision makers to identify desired water allocation schemes with maximized total net benefits. A variety of decision alternatives can also be generated under different scenarios of water management policies. The findings from the factorial experiment reveal the interactions among design factors (fuzzy parameters) and their curvature effects on the total net benefit, which are helpful in uncovering the valuable information hidden beneath the parameter interactions affecting system performance. A comparison between MFFP and the vertex method is also conducted to demonstrate the merits of the proposed methodology.

  16. Biophysical analysis of HTLV-1 particles reveals novel insights into particle morphology and Gag stochiometry

    Directory of Open Access Journals (Sweden)

    Fogarty Keir H

    2010-09-01

    Full Text Available Abstract Background Human T-lymphotropic virus type 1 (HTLV-1 is an important human retrovirus that is a cause of adult T-cell leukemia/lymphoma. While an important human pathogen, the details regarding virus replication cycle, including the nature of HTLV-1 particles, remain largely unknown due to the difficulties in propagating the virus in tissue culture. In this study, we created a codon-optimized HTLV-1 Gag fused to an EYFP reporter as a model system to quantitatively analyze HTLV-1 particles released from producer cells. Results The codon-optimized Gag led to a dramatic and highly robust level of Gag expression as well as virus-like particle (VLP production. The robust level of particle production overcomes previous technical difficulties with authentic particles and allowed for detailed analysis of particle architecture using two novel methodologies. We quantitatively measured the diameter and morphology of HTLV-1 VLPs in their native, hydrated state using cryo-transmission electron microscopy (cryo-TEM. Furthermore, we were able to determine HTLV-1 Gag stoichiometry as well as particle size with the novel biophysical technique of fluorescence fluctuation spectroscopy (FFS. The average HTLV-1 particle diameter determined by cryo-TEM and FFS was 71 ± 20 nm and 75 ± 4 nm, respectively. These values are significantly smaller than previous estimates made of HTLV-1 particles by negative staining TEM. Furthermore, cryo-TEM reveals that the majority of HTLV-1 VLPs lacks an ordered structure of the Gag lattice, suggesting that the HTLV-1 Gag shell is very likely to be organized differently compared to that observed with HIV-1 Gag in immature particles. This conclusion is supported by our observation that the average copy number of HTLV-1 Gag per particle is estimated to be 510 based on FFS, which is significantly lower than that found for HIV-1 immature virions. Conclusions In summary, our studies represent the first quantitative biophysical

  17. LAMPF: the meson factory. A LASL monograph

    Energy Technology Data Exchange (ETDEWEB)

    Allred, J.C.

    1977-08-01

    A general and simplified introduction to the entire concept of LAMPF is given in terms of its experimental capabilities. Parts of the current experimental program are used as illustrative examples. Topics discussed include: (1) the evolution of the meson factory; (2) accelerator construction; (3) strong focusing; (4) accelerator innovations at LAMPF; (5) photons and pions; (6) muons as nuclear probes; (7) nuclear chemistry; (8) radiobiology and medical applications; (9) radioisotope production; (10) materials testing; and (11) LAMPF management and users group. (PMA)

  18. Muon front end for the neutrino factory

    Directory of Open Access Journals (Sweden)

    C. T. Rogers

    2013-04-01

    Full Text Available In the neutrino factory, muons are produced by firing high-energy protons onto a target to produce pions. The pions decay to muons and pass through a capture channel known as the muon front end, before acceleration to 12.6 GeV. The muon front end comprises a variable frequency rf system for longitudinal capture and an ionization cooling channel. In this paper we detail recent improvements in the design of the muon front end.

  19. Muon front end for the neutrino factory

    CERN Document Server

    Rogers, C T; Prior, G; Gilardoni, S; Neuffer, D; Snopok, P; Alekou, A; Pasternak, J

    2013-01-01

    In the neutrino factory, muons are produced by firing high-energy protons onto a target to produce pions. The pions decay to muons and pass through a capture channel known as the muon front end, before acceleration to 12.6 GeV. The muon front end comprises a variable frequency rf system for longitudinal capture and an ionization cooling channel. In this paper we detail recent improvements in the design of the muon front end.

  20. Anaerobic digestion of cassava starch factory effluent.

    Science.gov (United States)

    Manilal, V B; Narayanan, C S; Balagopalan, C

    1990-06-01

    Biomethanation of cassava starch factory effluent in a batch digester produced 130 l biogas/kg dry matter with an average melthane content of 59%. About 63% COD was removed during 60 days. In semicontinuous digesters, gas production was 3251/kg dry matter with a retention time of 33,3 days giving a COD reduction of 50%. Size of starter inoculum was important for good biogasification of the effluent.

  1. Software Development Factories, the Project Management Perspective

    Directory of Open Access Journals (Sweden)

    Felician ALECU

    2012-01-01

    Full Text Available In a software factory, the applications are developed in the same way Henri Ford started manufacturing cars. In such a way, a customized solution could be obtained within a reasonable budget and within the foreseen timeframe. This development method offers a flexible solution that can be readapted rapidly and automatically to the changing business needs, so the Project Management becomes a real challenge.

  2. Evaluation of Mother-Child Agreement and Factorial Structures of the SCARED Questionnaire in an Italian Clinical Sample

    Science.gov (United States)

    Scaini, Simona; Ogliari, Anna; De Carolis, Ludovica; Bellodi, Laura; Di Serio, Clelia; Brombin, Chiara

    2017-01-01

    Background: A great part of the literature has confirmed the importance of both child and parents reports as source of factual information, especially for childhood emotional syndromes. In our study we aimed at: (i) calculating mother-child agreement and (ii) evaluating factorial structure of the Screen for Child Anxiety Related Emotional Disorders (SCARED) questionnaire in an Italian clinical sample. The novelty of this contribution is two-fold: first, from a clinical point of view, we investigated the parent-child agreement level and examined separately the factorial structures of both parent and child versions of the SCARED for the first time in an Italian clinical sample. Second, unlike previous studies, we used statistical approaches specifically suited to account for the ordinal nature of the collected variables. Method: In a clinical sample of 171 children and adolescents aged 8–18 and their mothers we evaluated inter-rater agreement using weighted kappa indices to assess agreement for each item belonging to a certain SCARED subscale. Exploratory factor analysis for ordinal data was then performed on the polychoric correlation matrix calculated on SCARED items. Differences in the numbers of symptoms reported by children and parents were evaluated as well. Results and Conclusions: Our results reveal moderate to strong mother-child agreement. A significant age effect is present. Two different factorial solutions emerged for parent and child SCARED versions (a 5 factor structure for parents and a 6 factor solution in the child version, including a new factor “Worry about Parents”). This study confirmed the importance of evaluating both child and parent reports in assessment protocols for anxiety disorders. Our findings could help clinicians to determine which information, and from which rater, must be accounted for in evaluating treatment decisions. Moreover, we find that patients characteristics, such as gender and age, should be taken into account when

  3. Nitric Oxide Plasma Level as a Barometer of Endothelial Dysfunction in Factory Workers.

    Science.gov (United States)

    Miyata, Seiko; Noda, Akiko; Hara, Yuki; Ueyama, Jun; Kitaichi, Kiyoyuki; Kondo, Takaaki; Koike, Yasuo

    2017-07-27

    Objective Nitric oxide (NO) plays a key role in the regulation of vascular tone and is known as one of the key markers of endothelial dysfunction. We investigated the relationship between NO and risk factors of lifestyle-related disease in factory workers. Methods Our study included 877 factory workers presenting hypertension, dyslipidemia and type 2 diabetes. oxidated forms of NO, NO2-/NO3- (NOx) plasma concentrations were measured using a colorimetric method. Results NOx plasma levels in patients with lifestyle-related disease were significantly lower than those in the controls. The brachial-ankle pulse wave velocity (baPWV) measured in those patients was significantly greater than that of the controls. Multiple regression analysis revealed that LDL cholesterol was an independent risk factor for reducing NOx plasma concentrations. Interestingly, individuals with low NOx plasma concentrations were more likely to present type 2 diabetes compared to those with the highest plasma levels of NOx (odds ratio [OR] [95% confidence interval; CI]=3.65 [1.61-8.28], P=0.002, 2.67 [1.15-6.20], P=0.022, and 3.27 [1.43-7.48], P=0.005). Subjects with the lowest levels of plasma NOx were more likely to present dyslipidemia (OR [95% CI]=1.69 [1.13-2.53], P=0.01). Conclusion Endothelial function evaluated with plasma NOx may be indicative of lifestyle-related diseases independently from the vascular function assessed using baPWV. © Georg Thieme Verlag KG Stuttgart · New York.

  4. Neutrinos: from the Workshop to the Factory

    CERN Multimedia

    2001-01-01

    Over the next 5 years much work will be done to reach a theoretical and practical description of a neutrino factory. How could this project turn out to be an interesting future option for CERN? Neutrino beams travelling from CERN to the Canary Islands? And to the Svalbard archipelago in Norway? Or even to the Pyhaesalmi Mine in Finland? Why neutrinos? And why so far? The answers provide one of CERN's next challenging options: the construction of a high-energy muon storage ring to provide neutrino beams. This project, nicknamed 'neutrino factory', now figures in CERN's middle term plan as a recognized and supported research and development project. International collaborations, with other European laboratories and also with America and Japan, are now being set up. Long baseline locations for neutrino oscillations studies at a CERN based neutrino factory. Early in its history, LEP established that there exist just three kinds of light neutrinos, those associated with the electron, muon, and tau leptons. For a...

  5. Factorial complexity and Morally Debatable Behaviors

    Directory of Open Access Journals (Sweden)

    Grimaldo Muchotrigo, Mirian P.

    2011-12-01

    Full Text Available Currently, from the scientific and professional practice point of view, comes out the necessity to know more about moral permissiveness, as it seems to be an increase in “moral relativism”.. Because it, it this is important to have tools to collect valid and reliable information about moral in social situations defined as social and personal behavior issue. This paper presents a technical note of The Morally Debatable Behaviors Scale (MDBS from Harding & Phillips (1986, which was developed in USA and mainly focused on young people and adults. This technical note makes direct reference to a recent Latin American study (Merino & Grimaldo, 2010; this article focuses on the internal structure and the problems associated with evidences of factorial complexity among items of the MDBS. This means that the interpretation of scores is not factorially simple and could not be achieved by a conceptual distinction between the latent constructs applied to the study sample.. The results in the previous study of the factorial complexity leads the researcher to decide whether an instrument for measuring this aspect may contain a reasonable amount of complexity that is consistent with what is in reality, or look for the unidimensional and simple structure.

  6. An asymmetric B factory based on PEP

    Energy Technology Data Exchange (ETDEWEB)

    1991-02-01

    In this report we describe a design for a high-luminosity Asymmetric B Factory to be built in the PEP tunnel on the SLAC site. This proposal, a collaborative effort SLAC, LBL, and LLNL, is the culmination of more than two years of effort aimed at the design and construction of an asymmetric e{sup +}e{sup {minus}} collider capable of achieving a luminosity of L = 3 {times} 10{sup 33} cm{sup {minus}2} s{sup {minus}1}. The configuration adopted utilizes two storage rings, and electron ring operating at 9 GeV and a positron ring at 3.1 GeV, each with a circumference of 2200 m. The high-energy ring is an upgrade of the PEP storage ring at SLAC; all PEP magnets and most power supplies will be reused. The upgrade consists primarily of replacing the PEP vacuum chamber and RF system with newly designed versions optimized for the high-current environment of the B Factory. The low-energy ring will be newly constructed and will be situated atop the high-energy ring in the PEP tunnel. Utilities already installed in the PEP tunnel are largely sufficient to operate the two B Factory storage rings.

  7. RNA microarray analysis in prenatal mouse cochlea reveals novel IGF-I target genes: implication of MEF2 and FOXM1 transcription factors.

    Directory of Open Access Journals (Sweden)

    Hortensia Sanchez-Calderon

    Full Text Available BACKGROUND: Insulin-like growth factor-I (IGF-I provides pivotal cell survival and differentiation signals during inner ear development throughout evolution. Homozygous mutations of human IGF1 cause syndromic sensorineural deafness, decreased intrauterine and postnatal growth rates, and mental retardation. In the mouse, deficits in IGF-I result in profound hearing loss associated with reduced survival, differentiation and maturation of auditory neurons. Nevertheless, little is known about the molecular basis of IGF-I activity in hearing and deafness. METHODOLOGY/PRINCIPAL FINDINGS: A combination of quantitative RT-PCR, subcellular fractionation and Western blotting, along with in situ hybridization studies show IGF-I and its high affinity receptor to be strongly expressed in the embryonic and postnatal mouse cochlea. The expression of both proteins decreases after birth and in the cochlea of E18.5 embryonic Igf1(-/- null mice, the balance of the main IGF related signalling pathways is altered, with lower activation of Akt and ERK1/2 and stronger activation of p38 kinase. By comparing the Igf1(-/- and Igf1(+/+ transcriptomes in E18.5 mouse cochleae using RNA microchips and validating their results, we demonstrate the up-regulation of the FoxM1 transcription factor and the misexpression of the neural progenitor transcription factors Six6 and Mash1 associated with the loss of IGF-I. Parallel, in silico promoter analysis of the genes modulated in conjunction with the loss of IGF-I revealed the possible involvement of MEF2 in cochlear development. E18.5 Igf1(+/+ mouse auditory ganglion neurons showed intense MEF2A and MEF2D nuclear staining and MEF2A was also evident in the organ of Corti. At P15, MEF2A and MEF2D expression were shown in neurons and sensory cells. In the absence of IGF-I, nuclear levels of MEF2 were diminished, indicating less transcriptional MEF2 activity. By contrast, there was an increase in the nuclear accumulation of FoxM1 and a

  8. The Feasibility Analysis of Solar Street Lamps in Salt Making Factory Area%制盐工厂厂区太阳能路灯可行性分析

    Institute of Scientific and Technical Information of China (English)

    张健

    2016-01-01

    Solar energy is a kind of clean energy, and it has expansive further application. It can reduce the power consumption in salt making factory area if uses solar energy for illumination, and it can also improve the production benefits of companies. This paper, according to the relative standard requirements for the current photo-voltaic technology in China, analyzes the feasibility of applying solar street lamps in salt making factory area.%太阳能是一种清净能源,其应用前景非常广阔。在制盐厂区利用太阳能实现照明将有助于降低电耗,提高企业生产效益。本文根据国家现行光伏技术及照明等相关规范要求对太阳能路灯在制盐厂区中应用的可行性进行分析。

  9. 两种豆制品厂煎炸油净化方法效果的比较研究%The comparative analysis of two kinds of purification methods of frying oil in processing factory of bean products

    Institute of Scientific and Technical Information of China (English)

    谢志镭; 任莉萍; 杨琦

    2015-01-01

    This paper has conducted the research of the effection of purification methods on quality in two different bean products factory of frying oil. It choosed two companies using the method of natural sedimentation purification and water purification,then choosed two similar products to study the index of acid value,carbonyl value and polar compounds in frying oil which under factory conditions. The results showed that the two kind of frying oil purification methods has significant effect on the quality of frying oil.%本文对两种不同的豆制品厂煎炸油净化方法对煎炸油品质的影响进行了研究,选择了两家分别采用自然沉降净化法和加水净化法的企业,再选择两种相同的产品,在工厂条件下对煎炸油的酸价、羰基价和极性物质指标进行研究。研究结果显示两种煎炸油净化方法对煎炸油品质具有显著影响。

  10. Assessment of the confiability and factorial structure of three scales measuring chronic procrastination

    Directory of Open Access Journals (Sweden)

    Doris Argumedo Bustinza

    2005-06-01

    Full Text Available This study explores the confiability and factorial structure of three scales measuring chronic procrastination: Scale of General Procrastination (EPG. Lay. 1986. Adult Procrastinatio Inventory (lPA. McCown & Johnson as cited in Ferrari. Johnson & McCown. 1995 and the Scale of Procrastination in Decision-Making (PTF. Mann. 1982. The sample included 514 adults between 20 and 65 years of age from Lima. The three scales showed high levels of intemal consistency and factorial analysis showed three factors for EPG and IPA and one factor for PTD A second degree factorial analysis suggested the presence of only one factor based on the grouping of items of the EPG and IPA scales The study did not find theoretically relevant dlfferences in chronic procrastination according to gender, age or education level. However,with respect to socioeconomic status. there were higher levels of chronic procrastmation in the poorest sector

  11. Human processing of short temporal intervals as revealed by an ERP waveform analysis

    Directory of Open Access Journals (Sweden)

    Yoshitaka eNakajima

    2011-12-01

    Full Text Available To clarify the time course over which the human brain processes information about durations up to ~300 ms, we reanalyzed the data that were previously reported by Mitsudo et al. (2009 using a multivariate analysis method. Event-related potentials were recorded from 19 scalp electrodes on 11 (9 original and 2 additional participants while they judged whether two neighboring empty time intervals—called t1 and t2 and marked by three tone bursts—had equal durations. There was also a control condition in which the participants were presented the same temporal patterns but without a judgment task. In the present reanalysis, we sought to visualize how the temporal patterns were represented in the brain over time. A correlation matrix across channels was calculated for each temporal pattern. Geometric separations between the correlation matrices were calculated, and subjected to multidimensional scaling. We performed such analyses for a moving 100-ms time window after the t1 presentations. In the windows centered at < 100 ms after the t2 presentation, the analyses revealed the local maxima of categorical separation between temporal patterns of perceptually equal durations versus perceptually unequal durations, both in the judgment condition and in the control condition. Such categorization of the temporal patterns was prominent only in narrow temporal regions. The analysis indicated that the participants determined whether the two neighboring time intervals were of equal duration mostly within 100 ms after the presentation of the temporal patterns. A very fast brain activity was related to the perception of elementary temporal patterns without explicit judgments. This is consistent with the findings of Mitsudo et al., and it is in line with the processing time hypothesis proposed by Nakajima et al. (2004. The validity of the correlation matrix analyses turned out to be an effective tool to grasp the overall responses of the brain to temporal

  12. Interspecies insertion polymorphism analysis reveals recent activity of transposable elements in extant coelacanths.

    Science.gov (United States)

    Naville, Magali; Chalopin, Domitille; Volff, Jean-Nicolas

    2014-01-01

    Coelacanths are lobe-finned fish represented by two extant species, Latimeria chalumnae in South Africa and Comoros and L. menadoensis in Indonesia. Due to their intermediate phylogenetic position between ray-finned fish and tetrapods in the vertebrate lineage, they are of great interest from an evolutionary point of view. In addition, extant specimens look similar to 300 million-year-old fossils; because of their apparent slowly evolving morphology, coelacanths have been often described as « living fossils ». As an underlying cause of such a morphological stasis, several authors have proposed a slow evolution of the coelacanth genome. Accordingly, sequencing of the L. chalumnae genome has revealed a globally low substitution rate for protein-coding regions compared to other vertebrates. However, genome and gene evolution can also be influenced by transposable elements, which form a major and dynamic part of vertebrate genomes through their ability to move, duplicate and recombine. In this work, we have searched for evidence of transposition activity in coelacanth genomes through the comparative analysis of orthologous genomic regions from both Latimeria species. Comparison of 5.7 Mb (0.2%) of the L. chalumnae genome with orthologous Bacterial Artificial Chromosome clones from L. menadoensis allowed the identification of 27 species-specific transposable element insertions, with a strong relative contribution of CR1 non-LTR retrotransposons. Species-specific homologous recombination between the long terminal repeats of a new coelacanth endogenous retrovirus was also detected. Our analysis suggests that transposon activity is responsible for at least 0.6% of genome divergence between both Latimeria species. Taken together, this study demonstrates that coelacanth genomes are not evolutionary inert: they contain recently active transposable elements, which have significantly contributed to post-speciation genome divergence in Latimeria.

  13. Interspecies insertion polymorphism analysis reveals recent activity of transposable elements in extant coelacanths.

    Directory of Open Access Journals (Sweden)

    Magali Naville

    Full Text Available Coelacanths are lobe-finned fish represented by two extant species, Latimeria chalumnae in South Africa and Comoros and L. menadoensis in Indonesia. Due to their intermediate phylogenetic position between ray-finned fish and tetrapods in the vertebrate lineage, they are of great interest from an evolutionary point of view. In addition, extant specimens look similar to 300 million-year-old fossils; because of their apparent slowly evolving morphology, coelacanths have been often described as « living fossils ». As an underlying cause of such a morphological stasis, several authors have proposed a slow evolution of the coelacanth genome. Accordingly, sequencing of the L. chalumnae genome has revealed a globally low substitution rate for protein-coding regions compared to other vertebrates. However, genome and gene evolution can also be influenced by transposable elements, which form a major and dynamic part of vertebrate genomes through their ability to move, duplicate and recombine. In this work, we have searched for evidence of transposition activity in coelacanth genomes through the comparative analysis of orthologous genomic regions from both Latimeria species. Comparison of 5.7 Mb (0.2% of the L. chalumnae genome with orthologous Bacterial Artificial Chromosome clones from L. menadoensis allowed the identification of 27 species-specific transposable element insertions, with a strong relative contribution of CR1 non-LTR retrotransposons. Species-specific homologous recombination between the long terminal repeats of a new coelacanth endogenous retrovirus was also detected. Our analysis suggests that transposon activity is responsible for at least 0.6% of genome divergence between both Latimeria species. Taken together, this study demonstrates that coelacanth genomes are not evolutionary inert: they contain recently active transposable elements, which have significantly contributed to post-speciation genome divergence in Latimeria.

  14. Proteomic analysis of Ketogulonicigenium vulgare under glutathione reveals high demand for thiamin transport and antioxidant protection.

    Directory of Open Access Journals (Sweden)

    Qian Ma

    Full Text Available Ketogulonicigenium vulgare, though grows poorly when mono-cultured, has been widely used in the industrial production of the precursor of vitamin C with the coculture of Bacillus megaterium. Various efforts have been made to clarify the synergic pattern of this artificial microbial community and to improve the growth and production ability of K. vulgare, but there is still no sound explanation. In previous research, we found that the addition of reduced glutathione into K. vulgare monoculture could significantly improve its growth and productivity. By performing SEM and TEM, we observed that after adding GSH into K. vulgare monoculture, cells became about 4-6 folds elongated, and formed intracytoplasmic membranes (ICM. To explore the molecular mechanism and provide insights into the investigation of the synergic pattern of the co-culture system, we conducted a comparative iTRAQ-2-D-LC-MS/MS-based proteomic analysis of K. vulgare grown under reduced glutathione. Principal component analysis of proteomic data showed that after the addition of glutathione, proteins for thiamin/thiamin pyrophosphate (TPP transport, glutathione transport and the maintenance of membrane integrity, together with several membrane-bound dehydrogenases had significant up-regulation. Besides, several proteins participating in the pentose phosphate pathway and tricarboxylic acid cycle were also up-regulated. Additionally, proteins combating intracellular reactive oxygen species were also up-regulated, which similarly occurred in K. vulgare when the co-cultured B. megaterium cells lysed from our former research results. This study reveals the demand for transmembrane transport of substrates, especially thiamin, and the demand for antioxidant protection of K. vulgare.

  15. Secretome analysis of Aspergillus fumigatus reveals Asp-hemolysin as a major secreted protein.

    Science.gov (United States)

    Wartenberg, Dirk; Lapp, Katrin; Jacobsen, Ilse D; Dahse, Hans-Martin; Kniemeyer, Olaf; Heinekamp, Thorsten; Brakhage, Axel A

    2011-11-01

    Surface-associated and secreted proteins represent primarily exposed components of Aspergillus fumigatus during host infection. Several secreted proteins are known to be involved in defense mechanisms or immune evasion, thus, probably contributing to pathogenicity. Furthermore, several secreted antigens were identified as possible biomarkers for the verification of diseases caused by Aspergillus species. Nevertheless, there is only limited knowledge about the composition of the secretome and about molecular functions of particular proteins. To identify secreted proteins potentially essential for virulence, the core secretome of A. fumigatus grown in minimal medium was determined. Two-dimensional gel electrophoretic separation and subsequent MALDI-TOF-MS/MS analyses resulted in the identification of 64 different proteins. Additionally, secretome analyses of A. fumigatus utilizing elastin, collagen or keratin as main carbon and nitrogen source were performed. Thereby, the alkaline serine protease Alp1 was identified as the most abundant protein and hence presumably represents an important protease during host infection. Interestingly, the Asp-hemolysin (Asp-HS), which belongs to the protein family of aegerolysins and which was often suggested to be involved in fungal virulence, was present in the secretome under all growth conditions tested. In addition, a second, non-secreted protein with an aegerolysin domain annotated as Asp-hemolysin-like (HS-like) protein can be found to be encoded in the genome of A. fumigatus. Generation and analysis of Asp-HS and HS-like deletion strains revealed no differences in phenotype compared to the corresponding wild-type strain. Furthermore, hemolysis and cytotoxicity was not altered in both single-deletion and double-deletion mutants lacking both aegerolysin genes. All mutant strains showed no attenuation in virulence in a mouse infection model for invasive pulmonary aspergillosis. Overall, this study provides a comprehensive

  16. RNASeq analysis reveals biological processes governing the clinical behaviour of endometrioid and serous endometrial cancers.

    Science.gov (United States)

    Lemetre, Christophe; Vieites, Begoña; Ng, Charlotte K Y; Piscuoglio, Salvatore; Schultheis, Anne M; Marchiò, Caterina; Murali, Rajmohan; Lopez-García, Maria A; Palacios, Jose C; Jungbluth, Achim A; Terracciano, Luigi M; Reis-Filho, Jorge S; Weigelt, Britta

    2016-09-01

    Endometrial carcinoma comprises a group of tumours with distinct histologic and molecular features and clinical behaviour. Here, we sought to define the biological processes that govern the clinical behaviour of endometrial cancers. Sixteen prototype genes representative of different biological processes that would likely play a role in endometrial and other hormone-driven cancers were defined. RNA-sequencing gene expression data from 323 endometrial cancers from The Cancer Genome Atlas (TCGA) were used to determine the transcription module of each prototype gene. The expression of prototype genes and modules and their association with outcome was assessed in univariate and multivariate survival analyses. The association of MSH6 expression with outcome was validated in an independent cohort of 243 primary endometrial cancers using immunohistochemistry. We observed that the clinical behaviour of endometrial cancers as a group was associated with hormone receptor signalling, PI3K pathway signalling and DNA mismatch repair processes. When analysed separately, in endometrioid carcinomas, hormone receptor, PI3K and DNA mismatch repair modules were significantly associated with outcome in univariate analysis, whereas the clinical behaviour of serous cancers was likely governed by apoptosis and Wnt signalling. Multivariate survival analysis revealed that MSH6 gene expression was associated with outcome of endometrial cancer patients independently from traditional prognostic clinicopathologic parameters, which was confirmed in an independent cohort at the protein level. Endometrioid and serous endometrial cancers are underpinned by distinct molecular pathways. MSH6 expression levels may be associated with outcome in endometrial cancers as a group. Copyright © 2016 Elsevier Ltd. All rights reserved.

  17. Comparative Genomic Analysis of Clinical and Environmental Vibrio Vulnificus Isolates Revealed Biotype 3 Evolutionary Relationships

    Directory of Open Access Journals (Sweden)

    Yael eKotton

    2015-01-01

    Full Text Available In 1996 a common-source outbreak of severe soft tissue and bloodstream infections erupted among Israeli fish farmers and fish consumers due to changes in fish marketing policies. The causative pathogen was a new strain of Vibrio vulnificus, named biotype 3, which displayed a unique biochemical and genotypic profile. Initial observations suggested that the pathogen erupted as a result of genetic recombination between two distinct populations. We applied a whole genome shotgun sequencing approach using several V. vulnificus strains from Israel in order to study the pan genome of V. vulnificus and determine the phylogenetic relationship of biotype 3 with existing populations. The core genome of V. vulnificus based on 16 draft and complete genomes consisted of 3068 genes, representing between 59% and 78% of the whole genome of 16 strains. The accessory genome varied in size from 781 kbp to 2044 kbp. Phylogenetic analysis based on whole, core, and accessory genomes displayed similar clustering patterns with two main clusters, clinical (C and environmental (E, all biotype 3 strains formed a distinct group within the E cluster. Annotation of accessory genomic regions found in biotype 3 strains and absent from the core genome yielded 1732 genes, of which the vast majority encoded hypothetical proteins, phage-related proteins, and mobile element proteins. A total of 1916 proteins (including 713 hypothetical proteins were present in all human pathogenic strains (both biotype 3 and non-biotype 3 and absent from the environmental strains. Clustering analysis of the non-hypothetical proteins revealed 148 protein clusters shared by all human pathogenic strains; these included transcriptional regulators, arylsulfatases, methyl-accepting chemotaxis proteins, acetyltransferases, GGDEF family proteins, transposases, type IV secretory system (T4SS proteins, and integrases. Our study showed that V. vulnificus biotype 3 evolved from environmental populations and

  18. Comparative genome analysis of pathogenic and non-pathogenic Clavibacter strains reveals adaptations to their lifestyle.

    Science.gov (United States)

    Załuga, Joanna; Stragier, Pieter; Baeyen, Steve; Haegeman, Annelies; Van Vaerenbergh, Johan; Maes, Martine; De Vos, Paul

    2014-05-22

    The genus Clavibacter harbors economically important plant pathogens infecting agricultural crops such as potato and tomato. Although the vast majority of Clavibacter strains are pathogenic, there is an increasing number of non-pathogenic isolates reported. Non-pathogenic Clavibacter strains isolated from tomato seeds are particularly problematic because they affect the current detection and identification tests for Clavibacter michiganensis subsp. michiganensis (Cmm), which is regulated with a zero tolerance in tomato seed. Their misidentification as pathogenic Cmm hampers a clear judgment on the seed quality and health. To get more insight in the genetic features linked to the lifestyle of these bacteria, a whole-genome sequence of the tomato seed-borne non-pathogenic Clavibacter LMG 26808 was determined. To gain a better understanding of the molecular determinants of pathogenicity, the genome sequence of LMG 26808 was compared with that of the pathogenic Cmm strain (NCPPB 382). The comparative analysis revealed that LMG 26808 does not contain plasmids pCM1 and pCM2 and also lacks the majority of important virulence factors described so far for pathogenic Cmm. This explains its apparent non-pathogenic nature in tomato plants. Moreover, the genome analysis of LMG 26808 detected sequences from a plasmid originating from a member of Enterobacteriaceae/Klebsiella relative. Genes received that way and coding for antibiotic resistance may provide a competitive advantage for survival of LMG 26808 in its ecological niche. Genetically, LMG 26808 was the most similar to the pathogenic Cmm NCPPB 382 but contained more mobile genetic elements. The genome of this non-pathogenic Clavibacter strain contained also a high number of transporters and regulatory genes. The genome sequence of the non-pathogenic Clavibacter strain LMG 26808 and the comparative analyses with other pathogenic Clavibacter strains provided a better understanding of the genetic bases of virulence and

  19. Comorbid Analysis of Genes Associated with Autism Spectrum Disorders Reveals Differential Evolutionary Constraints

    Science.gov (United States)

    David, Maude M.; Enard, David; Ozturk, Alp; Daniels, Jena; Jung, Jae-Yoon; Diaz-Beltran, Leticia; Wall, Dennis. P.

    2016-01-01

    The burden of comorbidity in Autism Spectrum Disorder (ASD) is substantial. The symptoms of autism overlap with many other human conditions, reflecting common molecular pathologies suggesting that cross-disorder analysis will help prioritize autism gene candidates. Genes in the intersection between autism and related conditions may represent nonspecific indicators of dysregulation while genes unique to autism may play a more causal role. Thorough literature review allowed us to extract 125 ICD-9 codes comorbid to ASD that we mapped to 30 specific human disorders. In the present work, we performed an automated extraction of genes associated with ASD and its comorbid disorders, and found 1031 genes involved in ASD, among which 262 are involved in ASD only, with the remaining 779 involved in ASD and at least one comorbid disorder. A pathway analysis revealed 13 pathways not involved in any other comorbid disorders and therefore unique to ASD, all associated with basal cellular functions. These pathways differ from the pathways associated with both ASD and its comorbid conditions, with the latter being more specific to neural function. To determine whether the sequence of these genes have been subjected to differential evolutionary constraints, we studied long term constraints by looking into Genomic Evolutionary Rate Profiling, and showed that genes involved in several comorbid disorders seem to have undergone more purifying selection than the genes involved in ASD only. This result was corroborated by a higher dN/dS ratio for genes unique to ASD as compare to those that are shared between ASD and its comorbid disorders. Short-term evolutionary constraints showed the same trend as the pN/pS ratio indicates that genes unique to ASD were under significantly less evolutionary constraint than the genes associated with all other disorders. PMID:27414027

  20. Comparative transcriptome analysis reveals the genetic basis of skin color variation in common carp.

    Directory of Open Access Journals (Sweden)

    Yanliang Jiang

    Full Text Available The common carp is an important aquaculture species that is widely distributed across the world. During the long history of carp domestication, numerous carp strains with diverse skin colors have been established. Skin color is used as a visual criterion to determine the market value of carp. However, the genetic basis of common carp skin color has not been extensively studied.In this study, we performed Illumina sequencing on two common carp strains: the reddish Xingguo red carp and the brownish-black Yellow River carp. A total of 435,348,868 reads were generated, resulting in 198,781 assembled contigs that were used as reference sequences. Comparisons of skin transcriptome files revealed 2,012 unigenes with significantly different expression in the two common carp strains, including 874 genes that were up-regulated in Xingguo red carp and 1,138 genes that were up-regulated in Yellow River carp. The expression patterns of 20 randomly selected differentially expressed genes were validated using quantitative RT-PCR. Gene pathway analysis of the differentially expressed genes indicated that melanin biosynthesis, along with the Wnt and MAPK signaling pathways, is highly likely to affect the skin pigmentation process. Several key genes involved in the skin pigmentation process, including TYRP1, SILV, ASIP and xCT, showed significant differences in their expression patterns between the two strains.In this study, we conducted a comparative transcriptome analysis of Xingguo red carp and Yellow River carp skins, and we detected key genes involved in the common carp skin pigmentation process. We propose that common carp skin pigmentation depends upon at least three pathways. Understanding fish skin color genetics will facilitate future molecular selection of the fish skin colors with high market values.

  1. Comparative Transcriptome Analysis Reveals the Genetic Basis of Skin Color Variation in Common Carp

    Science.gov (United States)

    Jiang, Yanliang; Zhang, Songhao; Xu, Jian; Feng, Jianxin; Mahboob, Shahid; Al-Ghanim, Khalid A.; Sun, Xiaowen; Xu, Peng

    2014-01-01

    Background The common carp is an important aquaculture species that is widely distributed across the world. During the long history of carp domestication, numerous carp strains with diverse skin colors have been established. Skin color is used as a visual criterion to determine the market value of carp. However, the genetic basis of common carp skin color has not been extensively studied. Methodology/Principal Findings In this study, we performed Illumina sequencing on two common carp strains: the reddish Xingguo red carp and the brownish-black Yellow River carp. A total of 435,348,868 reads were generated, resulting in 198,781 assembled contigs that were used as reference sequences. Comparisons of skin transcriptome files revealed 2,012 unigenes with significantly different expression in the two common carp strains, including 874 genes that were up-regulated in Xingguo red carp and 1,138 genes that were up-regulated in Yellow River carp. The expression patterns of 20 randomly selected differentially expressed genes were validated using quantitative RT-PCR. Gene pathway analysis of the differentially expressed genes indicated that melanin biosynthesis, along with the Wnt and MAPK signaling pathways, is highly likely to affect the skin pigmentation process. Several key genes involved in the skin pigmentation process, including TYRP1, SILV, ASIP and xCT, showed significant differences in their expression patterns between the two strains. Conclusions In this study, we conducted a comparative transcriptome analysis of Xingguo red carp and Yellow River carp skins, and we detected key genes involved in the common carp skin pigmentation process. We propose that common carp skin pigmentation depends upon at least three pathways. Understanding fish skin color genetics will facilitate future molecular selection of the fish skin colors with high market values. PMID:25255374

  2. RNA-Seq analysis reveals a six-gene SoxR regulon in Streptomyces coelicolor.

    Directory of Open Access Journals (Sweden)

    Nawar Naseer

    Full Text Available The redox-regulated transcription factor SoxR is conserved in diverse bacteria, but emerging studies suggest that this protein plays distinct physiological roles in different bacteria. SoxR regulates a global oxidative stress response (involving > 100 genes against exogenous redox-cycling drugs in Escherichia coli and related enterics. In the antibiotic producers Streptomyces coelicolor and Pseudomonas aeruginosa, however, SoxR regulates a smaller number of genes that encode membrane transporters and proteins with homology to antibiotic-tailoring enzymes. In both S. coelicolor and P. aeruginosa, SoxR-regulated genes are expressed in stationary phase during the production of endogenously-produced redox-active antibiotics. These observations suggest that SoxR evolved to sense endogenous secondary metabolites and activate machinery to process and transport them in antibiotic-producing bacteria. Previous bioinformatics analysis that searched the genome for SoxR-binding sites in putative promoters defined a five-gene SoxR regulon in S. coelicolor including an ABC transporter, two oxidoreductases, a monooxygenase and an epimerase/dehydratase. Since this in silico screen may have missed potential SoxR-targets, we conducted a whole genome transcriptome comparison of wild type S. coelicolor and a soxR-deficient mutant in stationary phase using RNA-Seq. Our analysis revealed a sixth SoxR-regulated gene in S. coelicolor that encodes a putative quinone oxidoreductase. Knowledge of the full complement of genes regulated by SoxR will facilitate studies to elucidate the function of this regulatory molecule in antibiotic producers.

  3. Analysis of gene expression during parabolic flights reveals distinct early gravity responses in Arabidopsis roots.

    Science.gov (United States)

    Aubry-Hivet, D; Nziengui, H; Rapp, K; Oliveira, O; Paponov, I A; Li, Y; Hauslage, J; Vagt, N; Braun, M; Ditengou, F A; Dovzhenko, A; Palme, K

    2014-01-01

    Plant roots are among most intensively studied biological systems in gravity research. Altered gravity induces asymmetric cell growth leading to root bending. Differential distribution of the phytohormone auxin underlies root responses to gravity, being coordinated by auxin efflux transporters from the PIN family. The objective of this study was to compare early transcriptomic changes in roots of Arabidopsis thaliana wild type, and pin2 and pin3 mutants under parabolic flight conditions and to correlate these changes to auxin distribution. Parabolic flights allow comparison of transient 1-g, hypergravity and microgravity effects in living organisms in parallel. We found common and mutation-related genes differentially expressed in response to transient microgravity phases. Gene ontology analysis of common genes revealed lipid metabolism, response to stress factors and light categories as primarily involved in response to transient microgravity phases, suggesting that fundamental reorganisation of metabolic pathways functions upstream of a further signal mediating hormonal network. Gene expression changes in roots lacking the columella-located PIN3 were stronger than in those deprived of the epidermis and cortex cell-specific PIN2. Moreover, repetitive exposure to microgravity/hypergravity and gravity/hypergravity flight phases induced an up-regulation of auxin responsive genes in wild type and pin2 roots, but not in pin3 roots, suggesting a critical function of PIN3 in mediating auxin fluxes in response to transient microgravity phases. Our study provides important insights towards understanding signal transduction processes in transient microgravity conditions by combining for the first time the parabolic flight platform with the transcriptome analysis of different genetic mutants in the model plant, Arabidopsis. © 2013 German Botanical Society and The Royal Botanical Society of the Netherlands.

  4. Complexity of free energy landscapes of peptides revealed by nonlinear principal component analysis.

    Science.gov (United States)

    Nguyen, Phuong H

    2006-12-01

    Employing the recently developed hierarchical nonlinear principal component analysis (NLPCA) method of Saegusa et al. (Neurocomputing 2004;61:57-70 and IEICE Trans Inf Syst 2005;E88-D:2242-2248), the complexities of the free energy landscapes of several peptides, including triglycine, hexaalanine, and the C-terminal beta-hairpin of protein G, were studied. First, the performance of this NLPCA method was compared with the standard linear principal component analysis (PCA). In particular, we compared two methods according to (1) the ability of the dimensionality reduction and (2) the efficient representation of peptide conformations in low-dimensional spaces spanned by the first few principal components. The study revealed that NLPCA reduces the dimensionality of the considered systems much better, than did PCA. For example, in order to get the similar error, which is due to representation of the original data of beta-hairpin in low dimensional space, one needs 4 and 21 principal components of NLPCA and PCA, respectively. Second, by representing the free energy landscapes of the considered systems as a function of the first two principal components obtained from PCA, we obtained the relatively well-structured free energy landscapes. In contrast, the free energy landscapes of NLPCA are much more complicated, exhibiting many states which are hidden in the PCA maps, especially in the unfolded regions. Furthermore, the study also showed that many states in the PCA maps are mixed up by several peptide conformations, while those of the NLPCA maps are more pure. This finding suggests that the NLPCA should be used to capture the essential features of the systems.

  5. Proteomic analysis reveals resistance mechanism against biofuel hexane in Synechocystis sp. PCC 6803.

    Science.gov (United States)

    Liu, Jie; Chen, Lei; Wang, Jiangxin; Qiao, Jianjun; Zhang, Weiwen

    2012-09-07

    Recent studies have demonstrated that photosynthetic cyanobacteria could be an excellent cell factory to produce renewable biofuels and chemicals due to their capability to utilize solar energy and CO2 as the sole energy and carbon sources. Biosynthesis of carbon-neutral biofuel alkanes with good chemical and physical properties has been proposed. However, to make the process economically feasible, one major hurdle to improve the low cell tolerance to alkanes needed to be overcome. Towards the goal to develop robust and high-alkane-tolerant hosts, in this study, the responses of model cyanobacterial Synechocystis PCC 6803 to hexane, a representative of alkane, were investigated using a quantitative proteomics approach with iTRAQ - LC-MS/MS technologies. In total, 1,492 unique proteins were identified, representing about 42% of all predicted protein in the Synechocystis genome. Among all proteins identified, a total of 164 and 77 proteins were found up- and down-regulated, respectively. Functional annotation and KEGG pathway enrichment analyses showed that common stress responses were induced by hexane in Synechocystis. Notably, a large number of transporters and membrane-bound proteins, proteins against oxidative stress and proteins related to sulfur relay system and photosynthesis were induced, suggesting that they are possibly the major protection mechanisms against hexane toxicity. The study provided the first comprehensive view of the complicated molecular mechanism employed by cyanobacterial model species, Synechocystis to defend against hexane stress. The study also provided a list of potential targets to engineer Synechocystis against hexane stress.

  6. Systematic analysis of human oncogenic viruses in colon cancer revealed EBV latency in lymphoid infiltrates.

    Science.gov (United States)

    Fiorina, Loretta; Ricotti, Mattia; Vanoli, Alessandro; Luinetti, Ombretta; Dallera, Elena; Riboni, Roberta; Paolucci, Stefania; Brugnatelli, Silvia; Paulli, Marco; Pedrazzoli, Paolo; Baldanti, Fausto; Perfetti, Vittorio

    2014-01-01

    Environmental factors may play a role in colon cancer. In this view, several studies investigated tumor samples for the presence of various viral DNA with conflicting results. We undertook a systematic DNA analysis of 44 consecutive, prospectively collected primary tumor samples by real time and qualitative PCR for viruses of known or potential oncogenic role in humans, including polyomavirus (JCV, BKV, Merkel cell polyomavirus), HPV, HTLV, HHV-8 and EBV. Negative controls consisted of surgical resection margins. No evidence of genomic DNA fragments from tested virus were detected, except for EBV, which was found in a significant portion of tumors (23/44, 52%). Real-time PCR showed that EBV DNA was present at a highly variable content (median 258 copies in 10(5) cells, range 15-4837). Presence of EBV DNA had a trend to be associated with high lymphocyte infiltration (p = 0.06, χ2 test), and in situ hybridization with EBER1-2 probes revealed latency in a fraction of these lymphoid cells, with just a few scattered plasma cells positive for BZLF-1, an immediate early protein expressed during lytic replication. LMP-1 expression was undetectable by immunohistochemistry. These results argue against a significant involvement of the tested oncogenic viruses in established colon cancer.

  7. RNA sequencing analysis of human podocytes reveals glucocorticoid regulated gene networks targeting non-immune pathways

    Science.gov (United States)

    Jiang, Lulu; Hindmarch, Charles C. T.; Rogers, Mark; Campbell, Colin; Waterfall, Christy; Coghill, Jane; Mathieson, Peter W.; Welsh, Gavin I.

    2016-01-01

    Glucocorticoids are steroids that reduce inflammation and are used as immunosuppressive drugs for many diseases. They are also the mainstay for the treatment of minimal change nephropathy (MCN), which is characterised by an absence of inflammation. Their mechanisms of action remain elusive. Evidence suggests that immunomodulatory drugs can directly act on glomerular epithelial cells or ‘podocytes’, the cell type which is the main target of injury in MCN. To understand the nature of glucocorticoid effects on non-immune cell functions, we generated RNA sequencing data from human podocyte cell lines and identified the genes that are significantly regulated in dexamethasone-treated podocytes compared to vehicle-treated cells. The upregulated genes are of functional relevance to cytoskeleton-related processes, whereas the downregulated genes mostly encode pro-inflammatory cytokines and growth factors. We observed a tendency for dexamethasone-upregulated genes to be downregulated in MCN patients. Integrative analysis revealed gene networks composed of critical signaling pathways that are likely targeted by dexamethasone in podocytes. PMID:27774996

  8. Solutions to Peto's paradox revealed by mathematical modelling and cross-species cancer gene analysis.

    Science.gov (United States)

    Caulin, Aleah F; Graham, Trevor A; Wang, Li-San; Maley, Carlo C

    2015-07-19

    Whales have 1000-fold more cells than humans and mice have 1000-fold fewer; however, cancer risk across species does not increase with the number of somatic cells and the lifespan of the organism. This observation is known as Peto's paradox. How much would evolution have to change the parameters of somatic evolution in order to equalize the cancer risk between species that differ by orders of magnitude in size? Analysis of previously published models of colorectal cancer suggests that a two- to three-fold decrease in the mutation rate or stem cell division rate is enough to reduce a whale's cancer risk to that of a human. Similarly, the addition of one to two required tumour-suppressor gene mutations would also be sufficient. We surveyed mammalian genomes and did not find a positive correlation of tumour-suppressor genes with increasing body mass and longevity. However, we found evidence of the amplification of TP53 in elephants, MAL in horses and FBXO31 in microbats, which might explain Peto's paradox in those species. Exploring parameters that evolution may have fine-tuned in large, long-lived organisms will help guide future experiments to reveal the underlying biology responsible for Peto's paradox and guide cancer prevention in humans.

  9. A quorum-sensing factor in vegetative Dictyostelium discoideum cells revealed by quantitative migration analysis.

    Directory of Open Access Journals (Sweden)

    Laurent Golé

    Full Text Available BACKGROUND: Many cells communicate through the production of diffusible signaling molecules that accumulate and once a critical concentration has been reached, can activate or repress a number of target genes in a process termed quorum sensing (QS. In the social amoeba Dictyostelium discoideum, QS plays an important role during development. However little is known about its effect on cell migration especially in the growth phase. METHODS AND FINDINGS: To investigate the role of cell density on cell migration in the growth phase, we use multisite timelapse microscopy and automated cell tracking. This analysis reveals a high heterogeneity within a given cell population, and the necessity to use large data sets to draw reliable conclusions on cell motion. In average, motion is persistent for short periods of time (t ≤ 5 min, but normal diffusive behavior is recovered over longer time periods. The persistence times are positively correlated with the migrated distances. Interestingly, the migrated distance decreases as well with cell density. The adaptation of cell migration to cell density highlights the role of a secreted quorum sensing factor (QSF on cell migration. Using a simple model describing the balance between the rate of QSF generation and the rate of QSF dilution, we were able to gather all experimental results into a single master curve, showing a sharp cell transition between high and low motile behaviors with increasing QSF. CONCLUSION: This study unambiguously demonstrates the central role played by QSF on amoeboid motion in the growth phase.

  10. Genomic analysis reveals the molecular basis for capsule loss in the group B Streptococcus population.

    Science.gov (United States)

    Rosini, Roberto; Campisi, Edmondo; De Chiara, Matteo; Tettelin, Hervé; Rinaudo, Daniela; Toniolo, Chiara; Metruccio, Matteo; Guidotti, Silvia; Sørensen, Uffe B Skov; Kilian, Mogens; Ramirez, Mario; Janulczyk, Robert; Donati, Claudio; Grandi, Guido; Margarit, Immaculada

    2015-01-01

    The human and bovine bacterial pathogen Streptococcus agalactiae (Group B Streptococcus, GBS) expresses a thick polysaccharide capsule that constitutes a major virulence factor and vaccine target. GBS can be classified into ten distinct serotypes differing in the chemical composition of their capsular polysaccharide. However, non-typeable strains that do not react with anti-capsular sera are frequently isolated from colonized and infected humans and cattle. To gain a comprehensive insight into the molecular basis for the loss of capsule expression in GBS, a collection of well-characterized non-typeable strains was investigated by genome sequencing. Genome based phylogenetic analysis extended to a wide population of sequenced strains confirmed the recently observed high clonality among GBS lineages mainly containing human strains, and revealed a much higher degree of diversity in the bovine population. Remarkably, non-typeable strains were equally distributed in all lineages. A number of distinct mutations in the cps operon were identified that were apparently responsible for inactivation of capsule synthesis. The most frequent genetic alterations were point mutations leading to stop codons in the cps genes, and the main target was found to be cpsE encoding the portal glycosyl transferase of capsule biosynthesis. Complementation of strains carrying missense mutations in cpsE with a wild-type gene restored capsule expression allowing the identification of amino acid residues essential for enzyme activity.

  11. Lipidomic profiling analysis reveals the dynamics of phospholipid molecules in Arabidopsis thaliana seedling growth

    Institute of Scientific and Technical Information of China (English)

    Yi-Sheng Wang; Hong-Yan Yao; Hong-Wei Xue

    2016-01-01

    High-throughput lipidomic profiling provides a sensitive approach for discovering minor lipid species. By using an advance in electrospray ionization tandem mass spectrome-try, a large set of phospholipid molecular species (126 species) with high resolution were identified from Arabidopsis seedling;of them 31 species are newly identified (16 are unique in plants), including 13 species of phosphatidic acid (PA), nine phosphati-dylcholine, six phosphatidylinositol and three phosphatidylser-ine. Further analysis of the lipidomic profile reveals dynamics of phospholipids and distinct species alterations during seedling development. PA molecules are found at the lowest levels in imbibition and fol ow an increasing trend during seedling growth, while phosphatidylethanolamine (PE) molecules show the opposite pattern with highest levels at imbibition and a general decreasing trend at later stages. Of PA molecular species, 34:2-, 34:3-, 36:4-, 36:5-, 38:3- and 38:4-PA increase during radicle emergence, and 34:2-and 34:3-PA reach highest levels during hypocotyl and cotyledon emergence from the seed coat. Conversely, molecular species of PE show higher levels in imbibition and decrease in later stages. These results suggest the crucial roles of specific molecular species and homeostasis of phospholipid molecules in seedling growth and provide insights into the mechanisms of how phospholipid molecules are involved in regulating plant development.

  12. Transcriptome analysis reveals positive selection on the divergent between topmouth culter and zebrafish.

    Science.gov (United States)

    Ren, Li; Tan, Xing-Jun; Xiong, Ya-Feng; Xu, Kang; Zhou, Yi; Zhong, Huan; Liu, Yun; Hong, Yun-Han; Liu, Shao-Jun

    2014-12-01

    The topmouth culter (Erythroculter ilishaeformis) is a predatory cyprinid fish that distributes widely in the East Asia. Here we report the liver transcriptome in this organism as a model of predatory fish. Sequencing of 5 Gb raw reads led to 27,741 unigenes and produced 11,131 annotatable genes. A total of 7093 (63.7%) genes were found to have putative functions by gene ontology analysis. Importantly, a blast search revealed 4033 culter genes that were orthologous to the zebrafish. Extracted from 38 candidate positive selection genes, 4 genes exhibit strong positive selection based on the ratio of nonsynonymous (Ka) to synonymous substitutions (Ks). In addition, the four genes also indicated the strong positive selection by comparing them between blunt snout bream (Megalobrama amblycephala) and zebrafish. These genes were involved in activator of gene expression, metabolic processes and development. The transcriptome variation may be reflective of natural selection in the early life history of Cyprinidae. Based on Ks ratios, date of the separation between topmouth culter and zebrafish is approximately 64 million years ago. We conclude that natural selection acts in diversifying the genomes between topmouth culter and zebrafish.

  13. Genomic analysis reveals the molecular basis for capsule loss in the group B Streptococcus population.

    Directory of Open Access Journals (Sweden)

    Roberto Rosini

    Full Text Available The human and bovine bacterial pathogen Streptococcus agalactiae (Group B Streptococcus, GBS expresses a thick polysaccharide capsule that constitutes a major virulence factor and vaccine target. GBS can be classified into ten distinct serotypes differing in the chemical composition of their capsular polysaccharide. However, non-typeable strains that do not react with anti-capsular sera are frequently isolated from colonized and infected humans and cattle. To gain a comprehensive insight into the molecular basis for the loss of capsule expression in GBS, a collection of well-characterized non-typeable strains was investigated by genome sequencing. Genome based phylogenetic analysis extended to a wide population of sequenced strains confirmed the recently observed high clonality among GBS lineages mainly containing human strains, and revealed a much higher degree of diversity in the bovine population. Remarkably, non-typeable strains were equally distributed in all lineages. A number of distinct mutations in the cps operon were identified that were apparently responsible for inactivation of capsule synthesis. The most frequent genetic alterations were point mutations leading to stop codons in the cps genes, and the main target was found to be cpsE encoding the portal glycosyl transferase of capsule biosynthesis. Complementation of strains carrying missense mutations in cpsE with a wild-type gene restored capsule expression allowing the identification of amino acid residues essential for enzyme activity.

  14. Phylum-specific environmental DNA analysis reveals remarkably high global biodiversity of Cercozoa (Protozoa).

    Science.gov (United States)

    Bass, David; Cavalier-Smith, Thomas

    2004-11-01

    This study presents the first 18S rRNA multi-library environmental PCR survey of a single protozoan phylum, Cercozoa Cavalier-Smith 1998, from a range of different habitats. Phylogenetic analysis reveals at least nine novel clades within the phylum, several possibly at the level of order or above. Further experiments are described to ascertain the true ecological and geographical distributions of some clades that might be inferred from the tree to be restricted in either or both ways. These results suggest that the diversity of cercozoan taxa may run into thousands of lineages, making it comparable in diversity to the largest better-characterized protozoan phyla, e.g. Ciliophora (ciliates and suctorians) and Foraminifera. New sequences of cultured Spongomonas, Metromonas and Metopion are also presented. In the light of these additions, and the increased taxon sampling from the environmental libraries, some revisions of cercozoan classification are made: the transfer of Spongomonadea from Reticulofilosa to Monadofilosa; the removal of Metopiida from Sarcomonadea; and the creation of the new order Metromonadida, currently containing the single genus Metromonas. Although Metromonas groups with weak to moderate support with Chlorarachnea, it is here placed in superclass Monadofilosa, to which it is morphologically more similar.

  15. Latent physiological factors of complex human diseases revealed by independent component analysis of clinarrays

    Directory of Open Access Journals (Sweden)

    Chen David P

    2010-10-01

    Full Text Available Abstract Background Diagnosis and treatment of patients in the clinical setting is often driven by known symptomatic factors that distinguish one particular condition from another. Treatment based on noticeable symptoms, however, is limited to the types of clinical biomarkers collected, and is prone to overlooking dysfunctions in physiological factors not easily evident to medical practitioners. We used a vector-based representation of patient clinical biomarkers, or clinarrays, to search for latent physiological factors that underlie human diseases directly from clinical laboratory data. Knowledge of these factors could be used to improve assessment of disease severity and help to refine strategies for diagnosis and monitoring disease progression. Results Applying Independent Component Analysis on clinarrays built from patient laboratory measurements revealed both known and novel concomitant physiological factors for asthma, types 1 and 2 diabetes, cystic fibrosis, and Duchenne muscular dystrophy. Serum sodium was found to be the most significant factor for both type 1 and type 2 diabetes, and was also significant in asthma. TSH3, a measure of thyroid function, and blood urea nitrogen, indicative of kidney function, were factors unique to type 1 diabetes respective to type 2 diabetes. Platelet count was significant across all the diseases analyzed. Conclusions The results demonstrate that large-scale analyses of clinical biomarkers using unsupervised methods can offer novel insights into the pathophysiological basis of human disease, and suggest novel clinical utility of established laboratory measurements.

  16. Metatranscriptome analysis reveals host-microbiome interactions in traps of carnivorous Genlisea species

    Directory of Open Access Journals (Sweden)

    Hieu X. Cao

    2015-07-01

    Full Text Available In the carnivorous plant genus Genlisea a unique lobster pot trapping mechanism supplements nutrition in nutrient-poor habitats. A wide spectrum of microbes frequently occurs in Genlisea’s leaf-derived traps without clear relevance for Genlisea carnivory. We sequenced the metatranscriptomes of subterrestrial traps versus the aerial chlorophyll-containing leaves of G. nigrocaulis and of G. hispidula. Ribosomal RNA assignment revealed soil-borne microbial diversity in Genlisea traps, with 92 genera of 19 phyla present in more than one sample. Microbes from 16 of these phyla including proteobacteria, green algae, amoebozoa, fungi, ciliates and metazoans, contributed additionally short-lived mRNA to the metatranscriptome. Furthermore, transcripts of 438 members of hydrolases (e.g. proteases, phosphatases, lipases, mainly resembling those of metazoans, ciliates and green algae, were found. Compared to aerial leaves, Genlisea traps displayed a transcriptional up-regulation of endogenous NADH oxidases generating reactive oxygen species as well as of acid phosphatases for prey digestion. A leaf-versus-trap transcriptome comparison reflects that carnivory provides inorganic P- and different forms of N-compounds (ammonium, nitrate, amino acid, oligopeptides and implies the need to protect trap cells against oxidative stress. The analysis elucidates a complex food web inside the Genlisea traps, and suggests ecological relationships between this plant genus and its entrapped microbiome.

  17. GC--MS analysis reveals production of 2--Phenylethanol from Aspergillus niger endophytic in rose.

    Science.gov (United States)

    Wani, Masood Ahmed; Sanjana, Kaul; Kumar, Dhar Manoj; Lal, Dhar Kanahya

    2010-02-01

    Endophytes include all organisms that during a variable period of their life, colonize the living internal tissues of their hosts without causing detectable symptoms. Several fungal endophytes have been isolated from a variety of plant species which have proved themselves as a rich source of secondary metabolites. The reported natural products from endophytes include antibiotics, immunosuppresants, anticancer compounds, antioxidant agents, etc. For the first time Rosa damacaena (rose) has been explored for its endophytes. The rose oil industry is the major identified deligence for its application in perfumery, flavouring, ointments, and pharmaceuticals including various herbal products. During the present investigation fungal endophytes were isolated from Rosa damacaena. A total of fifty four isolates were isolated out of which sixteen isolates were screened for the production of secondary metabolites. GCMS analysis reveals the production of 2-phenylethanol by one of the isolates JUBT 3M which was identified as Aspergillus niger. This is the first report of production of 2-phenylethanol from endophytic A. niger. 2-phenylethanol is an important constituent of rose oil constituting about 4.06% of rose oil. Presence of 2-phenylethanol indicates that the endophyte of rose may duplicate the biosynthesis of phenyl propanoids by rose plant. Besides this, the other commercial applications of phenylethanol include its use in antiseptics, disinfectants, anti-microbials and preservative in pharmaceuticals.

  18. RNA-Seq Analysis Reveals Candidate Targets for Curcumin against Tetranychus cinnabarinus

    Directory of Open Access Journals (Sweden)

    Xuejiao Liu

    2016-01-01

    Full Text Available Tetranychus cinnabarinus is an important agricultural pest with a broad host range. We previously identified curcumin as a promising acaricidal compound against T. cinnabarinus. However, the acaricidal mechanism of curcumin remains unknown. In this study, RNA-seq was employed to analyze the transcriptome changes in T. cinnabarinus treated with curcumin or the solvent. A total of 105,706,297 clean sequence reads were generated by sequencing, with more than 90% of the reads successfully mapped to the reference sequence. The RNA-seq identified 111 and 96 differentially expressed genes between curcumin- and solvent-treated mites at 24 and 48 h after treatment, respectively. GO enrichment analysis of differentially expressed genes showed that the cellular process was the dominant group at both time points. Finally, we screened 23 differentially expressed genes that were functionally identical or similar to the targets of common insecticide/acaricides or genes that were associated with mite detoxification and metabolism. Calmodulin, phospholipase A2, and phospholipase C were activated upon curcumin treatment suggesting that the calcium channel related genes might play important roles in mite’s response to curcumin. Overall our results revealed the global transcriptional changes in T. cinnabarinus after curcumin treatment to enable further identification of the targets of curcumin in mites.

  19. Temporal proteomic analysis reveals continuous impairment of intestinal development in neonatal piglets with intrauterine growth restriction.

    Science.gov (United States)

    Wang, Xiaoqiu; Wu, Weizong; Lin, Gang; Li, Defa; Wu, Guoyao; Wang, Junjun

    2010-02-01

    Efficiency of nutrient utilization is reduced in neonates with intrauterine growth restriction (IUGR) compared with those with a normal birth weight (NBW). However, the underlying mechanisms are largely unknown. In this study, we applied temporal proteomic approach, coupled with histological and biochemical analyses, to study dynamic changes of the proteome in the small intestinal mucosa of IUGR piglets during the nursing period (Days 1, 7 and 21). We identified 56 differentially expressed protein spots between IUGR and NBW piglets. These proteins participate in key biological processes, including (1) absorption, digestion and transport of nutrients; (2) cell structure and motility; (3) glucose and energy metabolism; (4) lipid metabolism; (5) amino acid metabolism; (6) mineral and vitamin metabolism; (7) cellular redox homeostasis; (8) stress response; and (9) apoptosis. The results of our temporal proteomics analysis reveal continuous impairment of intestinal development in neonatal piglets with IUGR. The findings have important implications for understanding metabolic defects in the small intestine of IUGR neonates and are expected to provide new strategies to improve their survival and growth.

  20. Mitochondrial DNA analysis of Tunisians reveals a mosaic genetic structure with recent population expansion.

    Science.gov (United States)

    Frigi, S; Mota-Vieira, L; Cherni, L; van Oven, M; Pires, R; Boussetta, S; El-Gaaied, A Ben Ammar

    2017-05-19

    Tunisia is a country of great interest for human population genetics due to its strategic geographic position and rich human settlement history. These factors significantly contributed to the genetic makeup of present-day Tunisians harbouring components of diverse geographic origins. Here, we investigated the genetic structure of Tunisians by performing a mitochondrial DNA (mtDNA) comparison of 15 Tunisian population groups, in order to explore their complex genetic landscape. All Tunisian data were also analysed against 40 worldwide populations. Statistical results (Tajima's D and Fu's FS tests) suggested recent population expansion for the majority of studied populations, as well as showed (AMOVA test) that all populations were significantly different from each other, which is evidence of population structure even if it is not guided by geographic and ethnic effects. Gene flow analysis revealed the assignment of Tunisians to multiple ancestries, which agrees with their genetic heterogeneity. The resulting picture for the mtDNA pool confirms the evidence of a recent expansion of the Tunisian population and is in accordance with a mosaic structure, composed by North African, Middle Easterner, European and Sub-Saharan lineages, resulting from a complex settlement history. Copyright © 2017 Elsevier GmbH. All rights reserved.

  1. Genome-wide analysis of homeobox genes from Mesobuthus martensii reveals Hox gene duplication in scorpions.

    Science.gov (United States)

    Di, Zhiyong; Yu, Yao; Wu, Yingliang; Hao, Pei; He, Yawen; Zhao, Huabin; Li, Yixue; Zhao, Guoping; Li, Xuan; Li, Wenxin; Cao, Zhijian

    2015-06-01

    Homeobox genes belong to a large gene group, which encodes the famous DNA-binding homeodomain that plays a key role in development and cellular differentiation during embryogenesis in animals. Here, one hundred forty-nine homeobox genes were identified from the Asian scorpion, Mesobuthus martensii (Chelicerata: Arachnida: Scorpiones: Buthidae) based on our newly assembled genome sequence with approximately 248 × coverage. The identified homeobox genes were categorized into eight classes including 82 families: 67 ANTP class genes, 33 PRD genes, 11 LIM genes, five POU genes, six SINE genes, 14 TALE genes, five CUT genes, two ZF genes and six unclassified genes. Transcriptome data confirmed that more than half of the genes were expressed in adults. The homeobox gene diversity of the eight classes is similar to the previously analyzed Mandibulata arthropods. Interestingly, it is hypothesized that the scorpion M. martensii may have two Hox clusters. The first complete genome-wide analysis of homeobox genes in Chelicerata not only reveals the repertoire of scorpion, arachnid and chelicerate homeobox genes, but also shows some insights into the evolution of arthropod homeobox genes.

  2. Transmission permeability of tuberculosis involving immigrants, revealed by a multicentre analysis of clusters.

    Science.gov (United States)

    Alonso Rodríguez, N; Chaves, F; Iñigo, J; Bouza, E; García de Viedma, D; Andrés, S; Cías, R; Daza, R; Domingo, D; Esteban, J; García, J; Gómez Mampaso, E; Herranz, M; Palenque, E; Ruiz Serrano, M J

    2009-05-01

    In recent years, the number of cases of tuberculosis (TB) among immigrants in Spain has increased markedly, and led to this analysis of the recent transmission patterns of TB in the immigrant population in Madrid. The countries from which the highest number of immigrant cases have been reported were Ecuador (21%), Romania (16%), Morocco (12%), Peru (11%) and Bolivia (9%). Fifty-one per cent of the cases were from South America. In a multicentre study (2004-2006), IS6110 restriction fragment length polymorphism and spoligotyping were used to genotype the Mycobacterium tuberculosis isolates from 632 immigrant cases from 47 countries. A total of 183 cases (29%) were grouped into 59 clusters, which are markers of potential transmission events. Most of the clusters (81%) included patients living in different healthcare districts, and 54% of the clusters were multinational. When a sample of 478 autochthonous cases was included, 53% of the clusters involving immigrants also included autochthonous cases. This study revealed marked transmission permeability among nationalities and between the immigrant and the autochthonous populations.

  3. Retrospective stable isotope analysis reveals ecosystem responses to river regulation over the last century.

    Science.gov (United States)

    Turner, Thomas F; Krabbenhoft, Trevor I; Collyer, Michael L; Krabbenhoft, Corey A; Edwards, Melanie S; Sharp, Zachary D

    2015-12-01

    Disruption of natural flow regimes, nutrient pollution, and other consequences of human population growth and development have impacted most major rivers of the world. Alarming losses of aquatic biodiversity coincide with human-caused river alteration, but effects of biotic homogenization on aquatic ecosystem processes are not as well documented. This is because unaltered systems for comparison are scarce, and some ecosystem-wide effects may take decades to manifest. We evaluated aquatic ecosystem responses to extensive river- floodplain engineering and nutrient addition in the Rio Grande of southwestern North America as revealed by changes in trophic structure of, and resource availability to, the fish community. Stable Isotope Analysis (SIA) was conducted on museum-preserved fishes collected over a 70-year period of intensive river management and exponential human population growth. Trophic complexity and resource heterogeneity for fish consumers (measured as "isotopic niche breadth") decreased following sediment deprivation and channelization, and these effects persist into the present. Increased nutrient inputs led to δ15N enrichment in the entire fish community at all affected sites, and a shift to autochthonous sources of carbon at the most proximal site downstream of wastewater release, probably via bottom-up transfer. Overall, retrospective SIA of apex consumers suggests radical change and functional impairment of a floodplain river ecosystem already marked by significant biodiversity loss.

  4. Biometric variability of goat populations revealed by means of principal component analysis.

    Science.gov (United States)

    Pires, Luanna Chácara; Machado, Théa M Medeiros; Araújo, Adriana Mello; Olson, Timothy A; da Silva, João Batista Lopes; Torres, Robledo Almeida; Costa, Márcio da Silva

    2012-12-01

    The aim was to analyze variation in 12 Brazilian and Moroccan goat populations, and, through principal component analysis (PCA), check the importance of body measures and their indices as a means of distinguishing among individuals and populations. The biometric measurements were wither height (WH), brisket height (BH) and ear length (EL). Thorax depth (WH-BH) and the three indices, TD/WH, EL/TD and EL/WH, were also calculated. Of the seven components extracted, the first three principal components were sufficient to explain 99.5% of the total variance of the data. Graphical dispersion by genetic groups revealed that European dairy breeds clustered together. The Moroccan breeds were separated into two groups, one comprising the Drâa and the other the Zagora and Rhâali breeds. Whereas, on the one side, the Anglo-Nubian and undefined breeds were the closest to one another the goats of the Azul were observed to have the highest variation of all the breeds. The Anglo-Nubian and Boer breeds were similar to each other. The Nambi-type goats remained distinct from all the other populations. In general, the use of graphical representation of PCA values allowed to distinguish genetic groups.

  5. Biometric variability of goat populations revealed by means of principal component analysis

    Directory of Open Access Journals (Sweden)

    Luanna Chácara Pires

    2012-01-01

    Full Text Available The aim was to analyze variation in 12 Brazilian and Moroccan goat populations, and, through principal component analysis (PCA, check the importance of body measures and their indices as a means of distinguishing among individuals and populations. The biometric measurements were wither height (WH, brisket height (BH and ear length (EL. Thorax depth (WH-BH and the three indices, TD/WH, EL/TD and EL/WH, were also calculated. Of the seven components extracted, the first three principal components were sufficient to explain 99.5% of the total variance of the data. Graphical dispersion by genetic groups revealed that European dairy breeds clustered together. The Moroccan breeds were separated into two groups, one comprising the Drâa and the other the Zagora and Rhâali breeds. Whereas, on the one side, the Anglo-Nubian and undefined breeds were the closest to one another the goats of the Azul were observed to have the highest variation of all the breeds. The Anglo-Nubian and Boer breeds were similar to each other. The Nambi-type goats remained distinct from all the other populations. In general, the use of graphical representation of PCA values allowed to distinguish genetic groups.

  6. Genome-Wide Analysis Revealed the Complex Regulatory Network of Brassinosteroid Effects in Photomorphogenesis

    Institute of Scientific and Technical Information of China (English)

    Li Song; Xiao-Yi Zhou; Li Li; Liang-Jiao Xue; Xi Yang; Hong-Wei Xue

    2009-01-01

    Light and brassinosteroids (BRs) have been proved to be crucial in regulating plant growth and development;however,the mechanism of how they synergistically function is still largely unknown.To explore the underlying mechanisms in photomorphogenesis,genome-wide analyses were carried out through examining the gene expressions of the dark-grown WT or BR biosynthesis-defective mutant det2 seedlings in the presence of light stimuli or exogenous Brassinolide (BL).Results showed that BR deficiency stimulates,while BL treatment suppresses,the expressions of lightresponsive genes and photomorphogenesis,confirming the negative effects of BR in photomorphogenesis.This is consistent with the specific effects of BR on the expression of genes involved in cell wall modification,cellular metabolism and energy utilization during dark-light transition.Further analysis revealed that hormone biosynthesis and signaling-related genes,especially those of auxin,were altered under BL treatment or light stimuli,indicating that BR may modulate photomorphogenesis through synergetic regulation with other hormones.Additionally,suppressed ubiquitin-cycle pathway during light-dark transition hinted the presence of a complicated network among light,hormone,and protein degradation.The study provides the direct evidence of BR effects in photomorphogenesis and identified the genes involved in BR and light signaling pathway,which will help to elucidate the molecular mechanism of plant photomorphogenesis.

  7. Transcriptional analysis of the endothelial response to diabetes reveals a role for galectin-3.

    Science.gov (United States)

    Darrow, April L; Shohet, Ralph V; Maresh, J Gregory

    2011-10-20

    To characterize the endothelial dysfunction associated with Type II diabetes, we surveyed transcriptional responses in the vascular endothelia of mice receiving a diabetogenic, high-fat diet. Tie2-GFP mice were fed a diet containing 60% fat calories (HFD); controls were littermates fed normal chow. Following 4, 6, and 8 wk, aortic and leg muscle tissues were enzymatically dispersed, and endothelial cells were obtained by fluorescence-activated cell sorting. Relative mRNA abundance in HFD vs. control endothelia was measured with long-oligo microarrays; highly dysregulated genes were confirmed by real-time PCR and protein quantification. HFD mice were hyperglycemic by 2 wk and displayed vascular insulin resistance and decreased glucose tolerance by 5 and 6 wk, respectively. Endothelial transcripts upregulated by HFD included galectin-3 (Lgals3), 5-lipoxygenase-activating protein, and chemokine ligands 8 and 9. Increased LGALS3 protein was detected in muscle endothelium by immunohistology accompanied by elevated LGALS3 in the serum of HFD mice. Our comprehensive analysis of the endothelial transcriptional response in a model of Type II diabetes reveals novel regulation of transcripts with roles in inflammation, insulin sensitivity, oxidative stress, and atherosclerosis. Increased endothelial expression and elevated humoral levels of LGALS3 supports a role for this molecule in the vascular response to diabetes, and its potential as a direct biomarker for the inflammatory state in diabetes.

  8. Phenotypic factor analysis of psychopathology reveals a new body-related transdiagnostic factor.

    Science.gov (United States)

    Pezzoli, Patrizia; Antfolk, Jan; Santtila, Pekka

    2017-01-01

    Comorbidity challenges the notion of mental disorders as discrete categories. An increasing body of literature shows that symptoms cut across traditional diagnostic boundaries and interact in shaping the latent structure of psychopathology. Using exploratory and confirmatory factor analysis, we reveal the latent sources of covariation among nine measures of psychopathological functioning in a population-based sample of 13024 Finnish twins and their siblings. By implementing unidimensional, multidimensional, second-order, and bifactor models, we illustrate the relationships between observed variables, specific, and general latent factors. We also provide the first investigation to date of measurement invariance of the bifactor model of psychopathology across gender and age groups. Our main result is the identification of a distinct "Body" factor, alongside the previously identified Internalizing and Externalizing factors. We also report relevant cross-disorder associations, especially between body-related psychopathology and trait anger, as well as substantial sex and age differences in observed and latent means. The findings expand the meta-structure of psychopathology, with implications for empirical and clinical practice, and demonstrate shared mechanisms underlying attitudes towards nutrition, self-image, sexuality and anger, with gender- and age-specific features.

  9. Comparative Genomic Analysis Reveals Organization, Function and Evolution of ars Genes in Pantoea spp.

    Science.gov (United States)

    Wang, Liying; Wang, Jin; Jing, Chuanyong

    2017-01-01

    Numerous genes are involved in various strategies to resist toxic arsenic (As). However, the As resistance strategy in genus Pantoea is poorly understood. In this study, a comparative genome analysis of 23 Pantoea genomes was conducted. Two vertical genetic arsC-like genes without any contribution to As resistance were found to exist in the 23 Pantoea strains. Besides the two arsC-like genes, As resistance gene clusters arsRBC or arsRBCH were found in 15 Pantoea genomes. These ars clusters were found to be acquired by horizontal gene transfer (HGT) from sources related to Franconibacter helveticus, Serratia marcescens, and Citrobacter freundii. During the history of evolution, the ars clusters were acquired more than once in some species, and were lost in some strains, producing strains without As resistance capability. This study revealed the organization, distribution and the complex evolutionary history of As resistance genes in Pantoea spp.. The insights gained in this study improved our understanding on the As resistance strategy of Pantoea spp. and its roles in the biogeochemical cycling of As. PMID:28377759

  10. Comparative Genomic Analysis Reveals Organization, Function and Evolution of ars Genes in Pantoea spp.

    Science.gov (United States)

    Wang, Liying; Wang, Jin; Jing, Chuanyong

    2017-01-01

    Numerous genes are involved in various strategies to resist toxic arsenic (As). However, the As resistance strategy in genus Pantoea is poorly understood. In this study, a comparative genome analysis of 23 Pantoea genomes was conducted. Two vertical genetic arsC-like genes without any contribution to As resistance were found to exist in the 23 Pantoea strains. Besides the two arsC-like genes, As resistance gene clusters arsRBC or arsRBCH were found in 15 Pantoea genomes. These ars clusters were found to be acquired by horizontal gene transfer (HGT) from sources related to Franconibacter helveticus, Serratia marcescens, and Citrobacter freundii. During the history of evolution, the ars clusters were acquired more than once in some species, and were lost in some strains, producing strains without As resistance capability. This study revealed the organization, distribution and the complex evolutionary history of As resistance genes in Pantoea spp.. The insights gained in this study improved our understanding on the As resistance strategy of Pantoea spp. and its roles in the biogeochemical cycling of As.

  11. Highly distinct chromosomal structures in cowpea (Vigna unguiculata), as revealed by molecular cytogenetic analysis.

    Science.gov (United States)

    Iwata-Otsubo, Aiko; Lin, Jer-Young; Gill, Navdeep; Jackson, Scott A

    2016-05-01

    Cowpea (Vigna unguiculata (L.) Walp) is an important legume, particularly in developing countries. However, little is known about its genome or chromosome structure. We used molecular cytogenetics to characterize the structure of pachytene chromosomes to advance our knowledge of chromosome and genome organization of cowpea. Our data showed that cowpea has highly distinct chromosomal structures that are cytologically visible as brightly DAPI-stained heterochromatic regions. Analysis of the repetitive fraction of the cowpea genome present at centromeric and pericentromeric regions confirmed that two retrotransposons are major components of pericentromeric regions and that a 455-bp tandem repeat is found at seven out of 11 centromere pairs in cowpea. These repeats likely evolved after the divergence of cowpea from common bean and form chromosomal structure unique to cowpea. The integration of cowpea genetic and physical chromosome maps reveals potential regions of suppressed recombination due to condensed heterochromatin and a lack of pairing in a few chromosomal termini. This study provides fundamental knowledge on cowpea chromosome structure and molecular cytogenetics tools for further chromosome studies.

  12. Dynamics of Natural Killer Cell Receptor Revealed by Quantitative Analysis of Photoswitchable Protein

    Science.gov (United States)

    Pageon, Sophie V.; Aquino, Gerardo; Lagrue, Kathryn; Köhler, Karsten; Endres, Robert G.; Davis, Daniel M.

    2013-11-01

    Natural Killer (NK) cell activation is dynamically regulated by numerous activating and inhibitory surface receptors that accumulate at the immune synapse. Quantitative analysis of receptor dynamics has been limited by methodologies which rely on indirect measurements such as fluorescence recovery after photobleaching. Here, we report a novel approach to study how proteins traffic to and from the immune synapse using NK cell receptors tagged with the photoswitchable fluorescent protein tdEosFP, which can be irreversibly photoswitched from a green to red fluorescent state by ultraviolet light. Thus, following a localized switching event, the movement of the photoswitched molecules can be temporally and spatially resolved by monitoring fluorescence in two regions of interest. By comparing images with mathematical models, we evaluated the diffusion coefficient of the receptor KIR2DL1 (0.23 +- 0.06 micron^2/s) and assessed how synapse formation affects receptor dynamics. Our data conclude that the inhibitory NK cell receptor KIR2DL1 is continually trafficked into the synapse and remains surprisingly stable there. Unexpectedly however, in NK cells forming synapses with multiple target cells simultaneously, KIR2DL1 at one synapse can relocate to another synapse. Thus, our results reveal a previously undetected inter-synaptic exchange of protein.

  13. Systematic Pan-Cancer Analysis Reveals Immune Cell Interactions in the Tumor Microenvironment.

    Science.gov (United States)

    Varn, Frederick S; Wang, Yue; Mullins, David W; Fiering, Steven; Cheng, Chao

    2017-03-15

    With the recent advent of immunotherapy, there is a critical need to understand immune cell interactions in the tumor microenvironment in both pan-cancer and tissue-specific contexts. Multidimensional datasets have enabled systematic approaches to dissect these interactions in large numbers of patients, furthering our understanding of the patient immune response to solid tumors. Using an integrated approach, we inferred the infiltration levels of distinct immune cell subsets in 23 tumor types from The Cancer Genome Atlas. From these quantities, we constructed a coinfiltration network, revealing interactions between cytolytic cells and myeloid cells in the tumor microenvironment. By integrating patient mutation data, we found that while mutation burden was associated with immune infiltration differences between distinct tumor types, additional factors likely explained differences between tumors originating from the same tissue. We concluded this analysis by examining the prognostic value of individual immune cell subsets as well as how coinfiltration of functionally discordant cell types associated with patient survival. In multiple tumor types, we found that the protective effect of CD8(+) T cell infiltration was heavily modulated by coinfiltration of macrophages and other myeloid cell types, suggesting the involvement of myeloid-derived suppressor cells in tumor development. Our findings illustrate complex interactions between different immune cell types in the tumor microenvironment and indicate these interactions play meaningful roles in patient survival. These results demonstrate the importance of personalized immune response profiles when studying the factors underlying tumor immunogenicity and immunotherapy response. Cancer Res; 77(6); 1271-82. ©2017 AACR.

  14. Chk1 inhibits replication factory activation but allows dormant origin firing in existing factories

    Science.gov (United States)

    Ge, Xin Quan

    2010-01-01

    Replication origins are licensed by loading MCM2-7 hexamers before entry into S phase. However, only ∼10% of licensed origins are normally used in S phase, with the others remaining dormant. When fork progression is inhibited, dormant origins initiate nearby to ensure that all of the DNA is eventually replicated. In apparent contrast, replicative stress activates ataxia telangiectasia and rad-3–related (ATR) and Chk1 checkpoint kinases that inhibit origin firing. In this study, we show that at low levels of replication stress, ATR/Chk1 predominantly suppresses origin initiation by inhibiting the activation of new replication factories, thereby reducing the number of active factories. At the same time, inhibition of replication fork progression allows dormant origins to initiate within existing replication factories. The inhibition of new factory activation by ATR/Chk1 therefore redirects replication toward active factories where forks are inhibited and away from regions that have yet to start replication. This minimizes the deleterious consequences of fork stalling and prevents similar problems from arising in unreplicated regions of the genome. PMID:21173116

  15. Can Parasites Really Reveal Environmental Impact?

    Science.gov (United States)

    This review assesses the usefulness of parasites as bioindicators of environmental impact. Relevant studies published in the past decade were compiled; factorial meta-analysis demonstrated significant effects and interactions between parasite levels and the presence and concentra...

  16. The Immersive Virtual Reality Experience: A Typology of Users Revealed Through Multiple Correspondence Analysis Combined with Cluster Analysis Technique.

    Science.gov (United States)

    Rosa, Pedro J; Morais, Diogo; Gamito, Pedro; Oliveira, Jorge; Saraiva, Tomaz

    2016-03-01

    Immersive virtual reality is thought to be advantageous by leading to higher levels of presence. However, and despite users getting actively involved in immersive three-dimensional virtual environments that incorporate sound and motion, there are individual factors, such as age, video game knowledge, and the predisposition to immersion, that may be associated with the quality of virtual reality experience. Moreover, one particular concern for users engaged in immersive virtual reality environments (VREs) is the possibility of side effects, such as cybersickness. The literature suggests that at least 60% of virtual reality users report having felt symptoms of cybersickness, which reduces the quality of the virtual reality experience. The aim of this study was thus to profile the right user to be involved in a VRE through head-mounted display. To examine which user characteristics are associated with the most effective virtual reality experience (lower cybersickness), a multiple correspondence analysis combined with cluster analysis technique was performed. Results revealed three distinct profiles, showing that the PC gamer profile is more associated with higher levels of virtual reality effectiveness, that is, higher predisposition to be immersed and reduced cybersickness symptoms in the VRE than console gamer and nongamer. These findings can be a useful orientation in clinical practice and future research as they help identify which users are more predisposed to benefit from immersive VREs.

  17. Comparative Genomic Analysis Reveals Habitat-Specific Genes and Regulatory Hubs within the Genus Novosphingobium

    Science.gov (United States)

    Kumar, Roshan; Verma, Helianthous; Haider, Shazia; Bajaj, Abhay; Sood, Utkarsh; Ponnusamy, Kalaiarasan; Nagar, Shekhar; Shakarad, Mallikarjun N.; Negi, Ram Krishan; Singh, Yogendra; Khurana, J. P.; Gilbert, Jack A.

    2017-01-01

    ABSTRACT Species belonging to the genus Novosphingobium are found in many different habitats and have been identified as metabolically versatile. Through comparative genomic analysis, we identified habitat-specific genes and regulatory hubs that could determine habitat selection for Novosphingobium spp. Genomes from 27 Novosphingobium strains isolated from diverse habitats such as rhizosphere soil, plant surfaces, heavily contaminated soils, and marine and freshwater environments were analyzed. Genome size and coding potential were widely variable, differing significantly between habitats. Phylogenetic relationships between strains were less likely to describe functional genotype similarity than the habitat from which they were isolated. In this study, strains (19 out of 27) with a recorded habitat of isolation, and at least 3 representative strains per habitat, comprised four ecological groups—rhizosphere, contaminated soil, marine, and freshwater. Sulfur acquisition and metabolism were the only core genomic traits to differ significantly in proportion between these ecological groups; for example, alkane sulfonate (ssuABCD) assimilation was found exclusively in all of the rhizospheric isolates. When we examined osmolytic regulation in Novosphingobium spp. through ectoine biosynthesis, which was assumed to be marine habitat specific, we found that it was also present in isolates from contaminated soil, suggesting its relevance beyond the marine system. Novosphingobium strains were also found to harbor a wide variety of mono- and dioxygenases, responsible for the metabolism of several aromatic compounds, suggesting their potential to act as degraders of a variety of xenobiotic compounds. Protein-protein interaction analysis revealed β-barrel outer membrane proteins as habitat-specific hubs in each of the four habitats—freshwater (Saro_1868), marine water (PP1Y_AT17644), rhizosphere (PMI02_00367), and soil (V474_17210). These outer membrane proteins could play a

  18. Comparative Genomic Analysis Reveals Habitat-Specific Genes and Regulatory Hubs within the Genus Novosphingobium.

    Science.gov (United States)

    Kumar, Roshan; Verma, Helianthous; Haider, Shazia; Bajaj, Abhay; Sood, Utkarsh; Ponnusamy, Kalaiarasan; Nagar, Shekhar; Shakarad, Mallikarjun N; Negi, Ram Krishan; Singh, Yogendra; Khurana, J P; Gilbert, Jack A; Lal, Rup

    2017-01-01

    Species belonging to the genus Novosphingobium are found in many different habitats and have been identified as metabolically versatile. Through comparative genomic analysis, we identified habitat-specific genes and regulatory hubs that could determine habitat selection for Novosphingobium spp. Genomes from 27 Novosphingobium strains isolated from diverse habitats such as rhizosphere soil, plant surfaces, heavily contaminated soils, and marine and freshwater environments were analyzed. Genome size and coding potential were widely variable, differing significantly between habitats. Phylogenetic relationships between strains were less likely to describe functional genotype similarity than the habitat from which they were isolated. In this study, strains (19 out of 27) with a recorded habitat of isolation, and at least 3 representative strains per habitat, comprised four ecological groups-rhizosphere, contaminated soil, marine, and freshwater. Sulfur acquisition and metabolism were the only core genomic traits to differ significantly in proportion between these ecological groups; for example, alkane sulfonate (ssuABCD) assimilation was found exclusively in all of the rhizospheric isolates. When we examined osmolytic regulation in Novosphingobium spp. through ectoine biosynthesis, which was assumed to be marine habitat specific, we found that it was also present in isolates from contaminated soil, suggesting its relevance beyond the marine system. Novosphingobium strains were also found to harbor a wide variety of mono- and dioxygenases, responsible for the metabolism of several aromatic compounds, suggesting their potential to act as degraders of a variety of xenobiotic compounds. Protein-protein interaction analysis revealed β-barrel outer membrane proteins as habitat-specific hubs in each of the four habitats-freshwater (Saro_1868), marine water (PP1Y_AT17644), rhizosphere (PMI02_00367), and soil (V474_17210). These outer membrane proteins could play a key role in

  19. Differential Genes Expression between Fertile and Infertile Spermatozoa Revealed by Transcriptome Analysis.

    Directory of Open Access Journals (Sweden)

    Sandeep Kumar Bansal

    Full Text Available It was believed earlier that spermatozoa have no traces of RNA because of loss of most of the cytoplasm. Recent studies have revealed the presence of about 3000 different kinds of mRNAs in ejaculated spermatozoa. However, the correlation of transcriptome profile with infertility remains obscure.Total RNA from sperm (after exclusion of somatic cells of 60 men consisting of individuals with known fertility (n=20, idiopathic infertility (normozoospermic patients, n=20, and asthenozoospermia (n=20 was isolated. After RNA quality check on Bioanalyzer, AffymetrixGeneChip Human Gene 1.0 ST Array was used for expression profiling, which consisted of >30,000 coding transcripts and >11,000 long intergenic non-coding transcripts.Comparison between all three groups revealed that two thousand and eighty one transcripts were differentially expressed. Analysis of these transcripts showed that some transcripts [ribosomal proteins (RPS25, RPS11, RPS13, RPL30, RPL34, RPL27, RPS5, HINT1, HSP90AB1, SRSF9, EIF4G2, ILF2] were up-regulated in the normozoospermic group, but down-regulated in the asthenozoospermic group in comparison to the control group. Some transcripts were specific to the normozoospermic group (up-regulated: CAPNS1, FAM153C, ARF1, CFL1, RPL19, USP22; down-regulated: ZNF90, SMNDC1, c14orf126, HNRNPK, while some were specific to the asthenozo