WorldWideScience

Sample records for analysing comparable greenhouse

  1. Comparative analyses of built environment exposures relevant to health of greenhouse gas emissions reduction strategies in Serbia

    Directory of Open Access Journals (Sweden)

    Stefanović Sandra P.

    2014-01-01

    Full Text Available Paper presents comparative analysis of residential indoor air pollutant concentration change over future specified time horizon, implementing building physical and thermal retrofit measures, thus creating pollution mitigation scenarios for existing Belgrade and Nis housing stock followed by greenhouse gas emission reduction scenarios up to 2050. Regarding specified mitigation scenarios, the set of typical housing unit models has been generated which define existing housing stock of Belgrade and Nis. Extensive monitoring of physical and thermal parameters as well as detailed socio-technical survey of selected households was performed and used as an initial modeling input. Relationship between environment pollution and building performances was investigated, with respect to indooroutdoor sources of pollution, thermal and physical properties of the stock samples and occupant’s behavior. As a final output, indoor pollutant concentrations for each of the modelled cases was obtained and validated against the available data. This housing modelling framework has been created in order to develop an assessment of present and future exposure and health impact quantity regarding single/multiple scenario interventions introduced to the housing stock. This paper provides each strategy guidelines for taking measures towards achieving the healthier indoor environments. [FP7-ENV-2010: PURGE-Public health impacts in urban environments of greenhouse gas emissions reduction strategies, Project number: 265325, financed by the European Commission

  2. Contesting Citizenship: Comparative Analyses

    DEFF Research Database (Denmark)

    Siim, Birte; Squires, Judith

    2007-01-01

    . Comparative citizenship analyses need to be considered in relation to multipleinequalities and their intersections and to multiple governance and trans-national organisinf. This, in turn, suggests that comparative citizenship analysis needs to consider new spaces in which struggles for equal citizenship occur...

  3. Broader perspectives for comparing different greenhouse gases.

    Science.gov (United States)

    Manning, Martin; Reisinger, Andy

    2011-05-28

    Over the last 20 years, different greenhouse gases have been compared, in the context of climate change, primarily through the concept of global warming potentials (GWPs). This considers the climate forcing caused by pulse emissions and integrated over a fixed time horizon. Recent studies have shown that uncertainties in GWP values are significantly larger than previously thought and, while past literature in this area has raised alternative means of comparison, there is not yet any clear alternative. We propose that a broader framework for comparing greenhouse gases has become necessary and that this cannot be addressed by using simple fixed exchange rates. From a policy perspective, the framework needs to be clearly aligned with the goal of climate stabilization, and we show that comparisons between gases can be better addressed in this context by the forcing equivalence index (FEI). From a science perspective, a framework for comparing greenhouse gases should also consider the full range of processes that affect atmospheric composition and how these may alter for climate stabilization at different levels. We cover a basis for a broader approach to comparing greenhouse gases by summarizing the uncertainties in GWPs, linking those to uncertainties in the FEIs consistent with stabilization, and then to a framework for addressing uncertainties in the corresponding biogeochemical processes.

  4. Greenhouse

    Data.gov (United States)

    Federal Laboratory Consortium — PurposeThe greenhouse at ERDC’s Cold Regions Research and Engineering Laboratory (CRREL) is used for germination and root-growth studies to support basic and field...

  5. Understanding the Greenhouse Effect by Embodiment - Analysing and Using Students' and Scientists' Conceptual Resources

    Science.gov (United States)

    Niebert, Kai; Gropengießer, Harald

    2014-01-01

    Over the last 20 years, science education studies have reported that there are very different understandings among students of science regarding the key aspects of climate change. We used the cognitive linguistic framework of experientialism to shed new light on this valuable pool of studies to identify the conceptual resources of understanding climate change. In our study, we interviewed 35 secondary school students on their understanding of the greenhouse effect and analysed the conceptions of climate scientists as drawn from textbooks and research reports. We analysed all data by metaphor analysis and qualitative content analysis to gain insight into students' and scientists' resources for understanding. In our analysis, we found that students and scientists refer to the same schemata to understand the greenhouse effect. We categorised their conceptions into three different principles the conceptions are based on: warming by more input, warming by less output, and warming by a new equilibrium. By interrelating students' and scientists' conceptions, we identified the students' learning demand: First, our students were afforded with experiences regarding the interactions of electromagnetic radiation and CO2. Second, our students reflected about the experience-based schemata they use as source domains for metaphorical understanding of the greenhouse effect. By uncovering the-mostly unconscious-deployed schemata, we gave students access to their source domains. We implemented these teaching guidelines in interventions and evaluated them in teaching experiments to develop evidence-based and theory-guided learning activities on the greenhouse effect.

  6. Validation of aerosols, reactive gases and greenhouse gases in the CAMS forecasts, analyses and reanalyses

    Science.gov (United States)

    Eskes, Henk; Basart, Sara; Blechschmidt, Anne; Chabrillat, Simon; Clark, Hannah; Cuevas, Emilio; Engelen, Richard; Kapsomenakis, John; Katragkou, Eleni; Mantzius Hansen, Kaj; Niemeijer, Sander; Ramonet, Michel; Schulz, Michael; Sudarchikova, Natalia; Wagner, Annette; Warneke, Thorsten

    2016-04-01

    The Atmosphere Monitoring Service of the European Copernicus Programme (CAMS) is an operational service providing analyses, reanalyses and daily forecasts of aerosols, reactive gases and greenhouse gases on a global scale, and air quality forecasts and reanalyses on a regional scale. CAMS is based on the systems developed during the European MACC I-II-III (Monitoring Atmospheric Composition and Climate) research projects. In CAMS data assimilation techniques are applied to combine in-situ and remote sensing observations with global and European-scale models of atmospheric reactive gases, aerosols and greenhouse gases. The global component is based on the Integrated Forecast System of the ECMWF, and the regional component on an ensemble of 7 European air quality models. CAMS is implemented by ECMWF, and the transition from MACC to CAMS is currently being implemented (2015-2016). CAMS has a dedicated validation activity, a partnership of 13 institutes co-ordinated by KNMI, to document the quality of the atmospheric composition products. In our contribution we discuss this validation activity, including the measurement data sets, validation requirements, the operational aspects, the upgrade procedure, the validation reports and scoring methods, and the model configurations and assimilation systems validated. Of special concern are the forecasts of high pollution concentration events (fires, dust storms, air pollution events, volcano ash and SO2). A few interesting validation results will be shown.

  7. Manure management and greenhouse gas mitigation techniques : a comparative analysis

    Energy Technology Data Exchange (ETDEWEB)

    Langmead, C.

    2003-09-03

    Alberta is the second largest agricultural producer in Canada, ranking just behind Ontario. Approximately 62 per cent of the province's farm cash receipts are attributable to the livestock industry. Farmers today maintain large numbers of a single animal type. The drivers for more advanced manure management systems include: the trend towards confined feeding operations (CFO) is creating large, concentrated quantities of manure; public perception of CFO; implementation of provincial legislation regulating the expansion and construction of CFO; ratification of the Kyoto Protocol raised interest in the development of improved manure management systems capable of reducing greenhouse gas (GHG) emissions; and rising energy costs. The highest methane emissions factors are found with liquid manure management systems. They contribute more than 80 per cent of the total methane emissions from livestock manure in Alberta. The author identified and analyzed three manure management techniques to mitigate GHG emissions. They were: bio-digesters, gasification systems, and composting. Three recommendations were made to establish a strategy to support emissions offsets and maximize the reduction of methane emissions from the livestock industry. The implementation of bio-digesters, especially for the swine industry, was recommended. It was suggested that a gasification pilot project for poultry manure should be pursued by Climate Change Central. Public outreach programs promoting composting of cattle manure for beef feedlots and older style dairy barns should also be established. 19 refs., 11 tabs., 3 figs.

  8. Economic analyses of the Dutch greenhouse chain in a changing environment

    NARCIS (Netherlands)

    Verreth, D.M.I.

    2013-01-01

    Horticultural greenhouse firms operate in a changing environment. This thesis has investigated the socio-economic consequences of market environment changes on supply, demand and prices throughout the Dutch greenhouse horticulture chain. The following market changes were studied: the increasing need

  9. Targeting Energy Management : Analysing targets, outcomes and impacts of corporate energy and greenhouse gas management programmes

    NARCIS (Netherlands)

    Rietbergen, M.G.

    2015-01-01

    Global greenhouse gas emissions must be reduced drastically to limit global increases in temperature to the relatively safe level of maximum 2 degrees Celsius. In the coming decades, energy efficiency improvement will be the main strategy for reducing energy-related greenhouse gas emissions. Energy

  10. Comparative analyses of bidirectional promoters in vertebrates

    Directory of Open Access Journals (Sweden)

    Taylor James

    2008-05-01

    Full Text Available Abstract Background Orthologous genes with deep phylogenetic histories are likely to retain similar regulatory features. In this report we utilize orthology assignments for pairs of genes co-regulated by bidirectional promoters to map the ancestral history of the promoter regions. Results Our mapping of bidirectional promoters from humans to fish shows that many such promoters emerged after the divergence of chickens and fish. Furthermore, annotations of promoters in deep phylogenies enable detection of missing data or assembly problems present in higher vertebrates. The functional importance of bidirectional promoters is indicated by selective pressure to maintain the arrangement of genes regulated by the promoter over long evolutionary time spans. Characteristics unique to bidirectional promoters are further elucidated using a technique for unsupervised classification, known as ESPERR. Conclusion Results of these analyses will aid in our understanding of the evolution of bidirectional promoters, including whether the regulation of two genes evolved as a consequence of their proximity or if function dictated their co-regulation.

  11. Comparative analyses of plasma probe diagnostics techniques

    Energy Technology Data Exchange (ETDEWEB)

    Godyak, V. A. [Electrical Engineering and Computer Science Department, University of Michigan, Ann Arbor, Michigan 48109, USA and RF Plasma Consulting, Brookline, Massachusetts 02446 (United States); Alexandrovich, B. M. [Plasma Sensors, Brookline, Massachusetts 02446 (United States)

    2015-12-21

    The subject of this paper is a comparative analysis of the plasma parameters inferred from the classical Langmuir probe procedure, from different theories of the ion current to the probe, and from measured electron energy distribution function (EEDF) obtained by double differentiation of the probe characteristic. We concluded that the plasma parameters inferred from the classical Langmuir procedure can be subjected to significant inaccuracy due to the non-Maxwellian EEDF, uncertainty of locating the plasma potential, and the arbitrariness of the ion current approximation. The plasma densities derived from the ion part of the probe characteristics diverge by as much as an order of magnitude from the density calculated according to Langmuir procedure or calculated as corresponding integral of the measured EEDF. The electron temperature extracted from the ion part is always subjected to uncertainty. Such inaccuracy is attributed to modification of the EEDF for fast electrons due to inelastic electron collisions, and to deficiencies in the existing ion current theories; i.e., unrealistic assumptions about Maxwellian EEDFs, underestimation of the ion collisions and the ion ambipolar drift, and discounting deformation of the one-dimensional structure of the region perturbed by the probe. We concluded that EEDF measurement is the single reliable probe diagnostics for the basic research and industrial applications of highly non-equilibrium gas discharge plasmas. Examples of EEDF measurements point up importance of examining the probe current derivatives in real time and reiterate significance of the equipment technical characteristics, such as high energy resolution and wide dynamic range.

  12. Monitoring greenhouse gas emissions in Australian landscapes: Comparing ground based mobile surveying data to GOSAT observations

    Science.gov (United States)

    Bashir, S.; Iverach, C.; Kelly, B. F. J.

    2016-12-01

    Climate change is threatening the health and stability of the natural world and human society. Such concerns were emphasized at COP21 conference in Paris 2015 which highlighted the global need to improve our knowledge of sources of greenhouse gas and to develop methods to mitigate the effects of their emissions. Ongoing spatial and temporal measurements of greenhouse gases at both point and regional scales is important for clarification of climate change mechanisms and accounting. The Greenhouse gas Observing SATellite (GOSAT) is designed to monitor the global distribution of carbon dioxide (CO2) and methane (CH4) from orbit. As existing ground monitoring stations are limited and still unevenly distributed, satellite observations provide important frequent, spatially extensive, but low resolution observations. Recent developments in portable laser based greenhouse gas measurement systems have enabled the rapid measurement of greenhouse gases in ppb at the ground surface. This study was conducted to map major sources of CO2 and CH4 in the eastern states of Australia at the landscape scale and to compare the results to GOSAT observations. During April 2016 we conducted a regional CH4 and CO2 mobile survey, using an LGR greenhouse gas analyzer. Measurements were made along a 4000 KM circuit through major cities, country towns, dry sclerophyll forests, coastal wetlands, coal mining regions, coal seam gas developments, dryland farming and irrigated agricultural landscapes. The ground-based survey data were then compared with the data (L2) from GOSAT. Ground-based mobile surveys showed that there are clear statistical differences in the ground level atmospheric concentration of CH4 and CO2 associated with all major changes in land use. These changes extend for kilometers, and cover one or more GOSAT pixels. In the coal mining districts the ground-level atmospheric concentration of CH4 exceeded 2 ppm for over 40 km, yet this was not discernable in the retrieved data (L2

  13. Energy analyses and greenhouse gas emissions assessment for saffron production cycle.

    Science.gov (United States)

    Bakhtiari, Amir Abbas; Hematian, Amir; Sharifi, Azin

    2015-10-01

    Population growth and world climate changes are putting high pressure on agri-food production systems. Exacerbating use of energy sources and expanding the environmental damaging symptoms are the results of these difficult situations. This study was conducted to determine the energy balance for saffron production cycle and investigate the corresponding greenhouse gas (GHG) emissions in Iran. Saffron (Crocus sativus L.) is one of the main spice that historically cultivated in Iran. Data were obtained from 127 randomly selected saffron growers using a face to face questionnaire technique. The results revealed that in 5 years of saffron production cycle, the overall input and output energy use were to be 163,912.09 and 184,868.28 MJ ha(-1), respectively. The highest-level of energy consumption belongs to seeds (23.7 %) followed by chemical fertilizers (23.4 %). Energy use efficiency, specific energy, net energy, and energy productivity of saffron production were 1.1, 13.4 MJ kg(-1), 20,956.2 MJ ha(-1), and 0.1 kg MJ(-1), respectively. The result shows that the cultivation of saffron emits 2325.5 kg CO2 eq. ha(-1) greenhouse gas, in which around 46.5 % belonged to electricity followed by chemical fertilizers. In addition the Cobb-Douglas production function was applied into EViews 7 software to define the functional relationship. The results of econometric model estimation showed that the impact of human labor, electricity, and water for irrigation on stigma, human labor, electricity, and seed on corm and also human labor and farmyard manure (FYM) on flower and leaf yield were found to be statistically significant. Sensitivity analysis results of the energy inputs demonstrated that the marginal physical productivity (MPP) worth of electricity energy was the highest for saffron stigma and corm, although saffron flower and leaf had more sensitivity on chemicals energy inputs. Moreover, MPP values of renewable and indirect energies were higher than non-renewable and

  14. Human intake fractions of pesticides via greenhouse tomato consumption: comparing model estimates with measurements for Captan.

    Science.gov (United States)

    Juraske, R; Antón, A; Castells, F; Huijbregts, M A J

    2007-04-01

    Human intake due to pesticide residues in food commodities can be much higher than those related to water consumption and air inhalation, stressing the importance to correctly estimate pesticide uptake into plants and predict subsequent intake by humans. We calculated the human intake fraction of captan via tomato consumption taking into account the time between pesticide application and harvest, the time between harvest and consumption, the absorption of spray deposit on plant surfaces, transfer properties through the cuticle, degradation inside the plant and loss due to food processing. Human population intake fractions due to ingestion were calculated for complete, washed and peeled tomatoes. The calculated intake fractions were compared with measurements derived from an experimental setup in a Mediterranean greenhouse. The fraction of captan applied in the greenhouse as plant treatment that eventually is ingested by the human population is on average 10(-2)-10(-5), depending on the time between pesticide application and ingestion of tomatoes and the processing step considered. Model and experimentally derived intake fractions deviated less than a factor of 2 for complete and washed tomatoes and a factor of 3 for peeled tomatoes. Intake fractions due to air inhalation and consumption of drinking water are expected to be significantly lower (5-9 orders of magnitude) than those induced by the intake of tomatoes in this case study.

  15. Plant-soil feedbacks: a comparative study on the relative importance of soil feedbacks in the greenhouse versus the field.

    Science.gov (United States)

    Heinze, Johannes; Sitte, M; Schindhelm, A; Wright, J; Joshi, J

    2016-06-01

    Interactions between plants and soil microorganisms influence individual plant performance and thus plant-community composition. Most studies on such plant-soil feedbacks (PSFs) have been performed under controlled greenhouse conditions, whereas no study has directly compared PSFs under greenhouse and natural field conditions. We grew three grass species that differ in local abundance in grassland communities simultaneously in the greenhouse and field on field-collected soils either previously conditioned by these species or by the general grassland community. As soils in grasslands are typically conditioned by mixes of species through the patchy and heterogeneous plant species' distributions, we additionally compared the effects of species-specific versus non-specific species conditioning on PSFs in natural and greenhouse conditions. In almost all comparisons PSFs differed between the greenhouse and field. In the greenhouse, plant growth in species-specific and non-specific soils resulted in similar effects with neutral PSFs for the most abundant species and positive PSFs for the less abundant species. In contrast, in the field all grass species tested performed best in non-specific plots, whereas species-specific PSFs were neutral for the most abundant and varied for the less abundant species. This indicates a general beneficial effect of plant diversity on PSFs in the field. Controlled greenhouse conditions might provide valuable insights on the nominal effects of soils on plants. However, the PSFs observed in greenhouse conditions may not be the determining drivers in natural plant communities where their effects may be overwhelmed by the diversity of abiotic and biotic above- and belowground interactions in the field.

  16. A comparative analysis of vehicle-related greenhouse gas emissions between organic and conventional dairy production.

    Science.gov (United States)

    Aggestam, Vivianne; Buick, Jon

    2017-08-01

    Agricultural industrialisation and globalisation have steadily increased the transportation of food across the world. In efforts to promote sustainability and self-sufficiency, organic milk producers in Sweden are required to produce a higher level of cattle feed on-farm in the hope that increased self-sufficiency will reduce reliance on external inputs and reduce transport-related greenhouse gas emissions. Using data collected from 20 conventional and 20 organic milk producers in Sweden this paper aims to assess the global warming impact of farmyard vehicles and the transportation of feed produced 'off-farm' in order to compare the impact of vehicle-related emissions from the different production methods. The findings show organic and conventional production methods have different vehicle-related emission outputs that vary according to a reliance on either road transportation or increased farmyard machinery use. Mechanical weeding is more fuel demanding than conventional agrichemical sprayers. However, artificial fertilising is one of the highest farmyard vehicle-related emitters. The general findings show organic milk production emits higher levels of farm vehicle-related emissions that fail to be offset by reduced emissions occurring from international transport emissions. This paper does not propose to cover a comprehensive supply chain carbon footprint for milk production or attempt to determine which method of production has the largest climatic impact. However, it does demonstrate that Sweden's legal requirements for organic producers to produce more feed on-farm to reduce transport emissions have brought emissions back within Sweden's greenhouse gas inventory and raises questions around the effectiveness of policies to reduce vehicle-related emissions. Further research is needed into the effectiveness of climate change mitigation on food production policies, in particular looking at various trade-offs that affects the entire food supply chain.

  17. ALTERNATIVE METHODS FOR CONDUCTING COMPARATIVE ANALYSES OF CADASTRAL SYSTEMS

    Institute of Scientific and Technical Information of China (English)

    2002-01-01

    The conception of an efficient cadastral system is an important element in the development of each coun-try. It is crucial for the efficient operation of the real estate market-the security and liberty of making transactions, register-ing a property, planning operations, the introduction of an ad valorem tax on property and more rational use of space. InEurope there are different types of cadastral systems, because the countries in Europe have different cultural back-grounds, different economical and social backgrounds. Through the centuries, many types of cadastral systems evolvedand their differences often depend upon local cultural heritage, physical geography, land use, technology, etc. Compara-tive analyses of cadastral systems have been the subjects of many publications and studies in world literature. It was as-sessed that the useful tools in conducting comparative analyses of various cadastral systems include the procedures of statisti-cal inference. This paper presents the results of a project to compare the performance of ten cadastral systems international-ly by creating appropriate integrated indicators of a cadastral system using statistical technique. Such indicators willmake it possible to compare different cadastral systems and present them hierarchically in relation to their quality, struc-ture, as well as legal, organizational and technological solutions. From a good number of methods available, techniquesoriginating from two spheres of statistic inference were selected: distribution free methods and multivariate analysis meth-ods. For analyses with the distribution free methods, FRIEDMAN's test (FRIENDMAN's non-parametric variance analy-sis) as well as KENDALL's test (KENDALL's compatibility ratio) were selected. For analyses with the multivariate analy-sis methods, factor analysis was selected.

  18. Accounting for rate variation among lineages in comparative demographic analyses

    Science.gov (United States)

    Hope, Andrew G.; Ho, Simon Y. W.; Malaney, Jason L.; Cook, Joseph A.; Talbot, Sandra L.

    2014-01-01

    Genetic analyses of contemporary populations can be used to estimate the demographic histories of species within an ecological community. Comparison of these demographic histories can shed light on community responses to past climatic events. However, species experience different rates of molecular evolution, and this presents a major obstacle to comparative demographic analyses. We address this problem by using a Bayesian relaxed-clock method to estimate the relative evolutionary rates of 22 small mammal taxa distributed across northwestern North America. We found that estimates of the relative molecular substitution rate for each taxon were consistent across the range of sampling schemes that we compared. Using three different reference rates, we rescaled the relative rates so that they could be used to estimate absolute evolutionary timescales. Accounting for rate variation among taxa led to temporal shifts in our skyline-plot estimates of demographic history, highlighting both uniform and idiosyncratic evolutionary responses to directional climate trends for distinct ecological subsets of the small mammal community. Our approach can be used in evolutionary analyses of populations from multiple species, including comparative demographic studies.

  19. Expanding the Action Project Method to Encompass Comparative Analyses

    Directory of Open Access Journals (Sweden)

    José F. Domene PhD

    2008-03-01

    Full Text Available This article is an exploration of the possibility and pragmatics of conducting between-groups comparative analysis in action theory and the action project method of qualitative research. After establishing the need for such a procedure and describing the compatibility of these analyses with the paradigm assumptions of action theory, the authors describe a specific set of procedures for conducting qualitative comparisons within the action project method. They also discuss limitations of the procedure and future directions for continuing the expansion of methods of comparison in qualitative research. Finally, they present a case illustration of the use of this comparative analysis method.

  20. A comparative study of floor construction on sloping sites: an analysis of cumulative energy demand and greenhouse gas emissions

    Directory of Open Access Journals (Sweden)

    Grace Ding

    2016-03-01

    Full Text Available In order to make environmentally aware decisions, there is growing interest in the comparative energy and greenhouse gas (GHG performance of competing construction methods. Little research has been done concerning competing ground floor construction methods, especially given different site variables, such as slope and soil type. A life cycle assessment approach was adopted to analyse environmental impacts, including cumulative energy demand and GHG emissions for detached housing construction in Australia. Data was drawn from 24 case study housing projects, including 12 reinforced concrete and 12 suspended timber floor projects. The data presented in the paper compares cumulative energy demand, GHG and the constituent parts of competing construction methods. The findings indicate that the timber floors use/create significantly less cumulative energy demand and GHG emissions than concrete floors—approximately 2.1 to 2.7 times less energy and 2.3 to 2.9 times less GHG. These findings are limited to the site slope and foundation soil types identified in the paper. The main application of the work is in guidance concerning the lowest environmental impact options for detached housing construction.

  1. Life Cycle Greenhouse Gas Emissions from Electricity Generation: A Comparative Analysis of Australian Energy Sources

    Directory of Open Access Journals (Sweden)

    Robert G. Hynes

    2012-03-01

    Full Text Available Electricity generation is one of the major contributors to global greenhouse gas emissions. Transitioning the World’s energy economy to a lower carbon future will require significant investment in a variety of cleaner technologies, including renewables and nuclear power. In the short term, improving the efficiency of fossil fuel combustion in energy generation can provide an important contribution. Availability of life cycle GHG intensity data will allow decision-makers to move away from overly simplistic assertions about the relative merits of certain fuels, and focus on the complete picture, especially the critical roles of technology selection and application of best practice. This analysis compares the life-cycle greenhouse gas (GHG intensities per megawatt-hour (MWh of electricity produced for a range of Australian and other energy sources, including coal, conventional liquefied natural gas (LNG, coal seam gas LNG, nuclear and renewables, for the Australian export market. When Australian fossil fuels are exported to China, life cycle greenhouse gas emission intensity in electricity production depends to a significant degree on the technology used in combustion. LNG in general is less GHG intensive than black coal, but the gap is smaller for gas combusted in open cycle gas turbine plant (OCGT and for LNG derived from coal seam gas (CSG. On average, conventional LNG burned in a conventional OCGT plant is approximately 38% less GHG intensive over its life cycle than black coal burned in a sub-critical plant, per MWh of electricity produced. However, if OCGT LNG combustion is compared to the most efficient new ultra-supercritical coal power, the GHG intensity gap narrows considerably. Coal seam gas LNG is approximately 13–20% more GHG intensive across its life cycle, on a like-for like basis, than conventional LNG. Upstream fugitive emissions from CSG (assuming best practice gas extraction techniques do not materially alter the life cycle

  2. Economic efficiency assessment of greenhouse gases mitigation for agriculture; Analyse af omkostningseffektiviteten ved drivhusgasreducerende tiltag i relation til landbruget

    Energy Technology Data Exchange (ETDEWEB)

    Dubgaard, A.; Moeller Laugesen, F.; Staehl, E.E.; Bang, J.R.; Schou, E.; Jacobsen, Brian H.; Oerum, J.E.; Dejgaerd Jensen, J.

    2013-08-15

    The report contains the contributions by the Institute of Food and Resource Economics (IFRO) to a Danish Government appraisal of greenhouse gas (GHG) reduction measures. The policy goal is a 40 per cent reduction in total Danish GHG emissions by 2020 compared to 1990. The GHGs analysed in the present study include emissions of CO{sub 2}, nitrous oxide and methane plus soil carbon sequestration. The purpose of the study is to identify GHG mitigation measures related to agriculture which can deliver cost-effective contributions to the targeted reduction in GHG emissions in Denmark. A total of 21 GHG mitigation measures are included in the assessment. The stipulated implementation period is 2013 to 2020. The cost calculations have a time horizon equal to 30 years, i.e. from 2013 to 2042. The GHG reduction potential, expressed in CO{sub 2} equivalents (CO{sub 2}-eq), is calculated as the sum of the effect on the emission of CO{sub 2} (with and without changes in soil carbon), methane and nitrous oxide. The 21 mitigation measures are listed below (figures in brackets show the assumed implementation potential): 1. Biogas from livestock manure/slurry (10 % of total slurry production) 2. Biogas from slurry and maize (10 % of total slurry production) 3. Biogas from organic clover 4. Additional fat in diet for dairy cows (80% of conventional dairy cow stock and 20 % of organic dairy cow stock) 5. Additional concentrated feed in diet for other cattle (25 % of cattle stock under 2 years of age) 6. Prolonged lactation period for dairy cows (10 % of dairy cow stock) 7. Acidification of slurry (10 % of total slurry production) 8. Covers on slurry containers (40 % of total slurry production) 9. Cooling of pig slurry (10 % of pig slurry) 10. Nitrification inhibitors in nitrate fertilisers (100 % of chemical fertilisers with nitrogen) 11. Increased nitrogen utilization requirement for degassed slurry in nitrogen quota system (50 % of total slurry production) 12. Increased nitrogen

  3. Comparative analyses of the banking environment in transition countries

    Directory of Open Access Journals (Sweden)

    Djalilov Khurshid

    2016-01-01

    Full Text Available This paper investigates the dynamics of the banking environment in early and late transition countries for the period 2000-2012. We consider macroeconomic, governance, economic freedom, financial depth, industrial, bankspecific, and CSR variables to compare the banking environment in transition countries. Our analyses show the presence of differences in the banking environment of two groups of transition countries: however, this gap shrunk over the period 2000-2012. The late transition countries have lower scores in the variables ‘Investment’ and ‘Financial freedom’, implying that in the future the governments of these countries may focus on improving the investment and financial climate.

  4. Comparative Study of Evolutionary Multi-objective Optimization Algorithms for a Non-linear Greenhouse Climate Control Problem

    DEFF Research Database (Denmark)

    Ghoreishi, Newsha; Sørensen, Jan Corfixen; Jørgensen, Bo Nørregaard

    2015-01-01

    compare the performance of state-of-the-art multi-objective evolutionary algorithms to solve a non-linear multi-objective multi-issue optimisation problem found in Greenhouse climate control. The chosen algorithms in the study includes NSGAII, eNSGAII, eMOEA, PAES, PESAII and SPEAII. The performance...

  5. Comparing embodied greenhouse gas emissions of modern computing and electronics products.

    Science.gov (United States)

    Teehan, Paul; Kandlikar, Milind

    2013-05-07

    Information and communications technology (ICT) contributes substantially to global greenhouse gas (GHG) pollutant emissions, but it is time-consuming to estimate the environmental impacts caused by the production of ICT devices, and the literature lacks coverage for newer products. Using a process-sum life cycle assessment (LCA) approach, we estimate and compare the embodied GHG emissions of 11 ICT products, including large- and small-form-factor desktop and laptop personal computers, a thin client device, an LCD monitor, newer mobile devices (an Apple iPad, an iPod Touch, and an Amazon Kindle), a rack server, and a network switch. Full bills of materials are provided via hand disassembly and weighing and are mapped to processes in the ecoinvent v2.2 database to produce impact estimates. Results are analyzed to develop simplified impact estimation models using linear regressions based on product characteristics. A simple and robust linear relationship between mass and embodied emissions is identified; a more sophisticated linear model using display mass, battery mass, and circuit board mass as inputs is slightly more accurate. Embodied GHG emissions for newer products are 50-60% lower than corresponding older products with similar functionality, largely due to decreased material usage, especially reductions in integrated circuit content.

  6. Comparing solubility algorithms of greenhouse gases in Earth-System modelling

    Directory of Open Access Journals (Sweden)

    V. M. N. C. S. Vieira

    2015-09-01

    Full Text Available Accurate solubility estimates are fundamental for (i Earth-System models forecasting the climate change taking into consideration the atmosphere–ocean balances and trades of greenhouse gases, and (ii using field data to calibrate and validate the algorithms simulating those trades. We found important differences between the formulation generally accepted and a recently proposed alternative relying on a different chemistry background. First, we tested with field data from the Baltic Sea, which also enabled finding differences between using water temperatures measured at 0.5 or 4 m depths. Then, we used data simulated by atmospheric (Meteodata application of WRF and oceanographic (WW3-NEMO models of the European Coastal Ocean and Mediterranean to compare the use of the two solubility algorithms in Earth-System modelling. The mismatches between both formulations lead to a difference of millions of tons of CO2, and hundreds of tons of CH4 and N2O, dissolved in the first meter below the sea surface of the whole modelled region.

  7. Variability analyses, site characterization, and regional [OH] estimates using trace gas measurements from the NOAA Global Greenhouse Gas Reference Network

    Directory of Open Access Journals (Sweden)

    Jan Pollmann

    2016-10-01

    Full Text Available Abstract Trace gas measurements from whole air samples collected weekly into glass flasks at background monitoring sites within the NOAA Global Greenhouse Gas Reference Network program (with most of the sites also being World Meteorological Organization (WMO Global Atmospheric Watch (GAW stations were used to investigate the variability-lifetime relationship for site characterization and to estimate regional and seasonal OH concentrations. Chemical species considered include the atmospheric trace gases CO, H2, and CH4, as well as the non-methane hydrocarbons (NMHC ethane (C2H6, propane (C3H8, i-butane (i-C4H10, and n-butane (n-C4H10. The correlation between atmospheric variability and lifetime was applied on a global scale spanning 42 sites with observations covering a period of 5 years. More than 50,000 individual flask measurement results were included in this analysis, making this the most extensive study of the variability-lifetime relationship to date. Regression variables calculated from the variability-lifetime relationship were used to assess the “remoteness” of sampling sites and to estimate the effect of local pollution on the measured distribution of atmospheric trace gases. It was found that this relationship yields reasonable results for description of the site remoteness and local pollution influences. Comparisons of seasonal calculated OH concentrations ([OH] from the variability-lifetime relationships with six direct station measurements yielded variable agreement, with deviations ranging from ∼20% to a factor of ∼2–3 for locations where [OH] monitoring results had been reported. [OH] calculated from the variability-lifetime relationships was also compared to outputs from a global atmospheric model. Resutls were highly variable, with approximately half of the sites yielding agreement to within a factor of 2–3, while others showed deviations of up to an order of magnitude, especially during winter.

  8. LED lighting and the Next Generation of Greenhouse Cultivation. Scenario analyses Tomato; LED belichting en Het Nieuwe Telen. Scenario analyses Tomaat

    Energy Technology Data Exchange (ETDEWEB)

    Rappoldt, C. [EcoCurves, Kamperfoelieweg 17, 9753 ER Haren (Netherlands); Schapendonk, A.H.C.M. [Plant-Dynamics, Englaan 8, 6703 EW Wageningen (Netherlands)

    2012-01-15

    The results of calculations with the Explorer greenhouse climate simulation model are reported. The model calculates the greenhouse climate and crop growth and thus simulates both energy consumption and productivity. Based on an experiment, carried out at the Improvement Center in Bleiswijk, Netherlands, in the period 2010-2011, calculations were also carried out to test effects of climate control on yields and energy costs. Attention is paid to illumination, the use of air conditioning, heating and screens [Dutch] Er wordt verslag gedaan van berekeningen met het Explorer kasklimaat simulatiemodel. Dat model berekent het kasklimaat en de gewasgroei en simuleert daarmee zowel energiegebruik als opbrengst. Aan de hand van een experiment op het Improvement Center in Bleiswijk (2010-2011) werden berekeningen verricht om het effect van diverse klimaatregelingen te testen op opbrengsteffecten en energiekosten. Er is aandacht voor belichten, de inzet van luchtbehandeling, schermen en verwarmen.

  9. LED lighting and the Next Generation of Greenhouse Cultivation. Scenario analyses Tomato; LED belichting en Het Nieuwe Telen. Scenario analyses Tomaat

    Energy Technology Data Exchange (ETDEWEB)

    Rappoldt, C. [EcoCurves, Kamperfoelieweg 17, 9753 ER Haren (Netherlands); Schapendonk, A.H.C.M. [Plant-Dynamics, Englaan 8, 6703 EW Wageningen (Netherlands)

    2012-01-15

    The results of calculations with the Explorer greenhouse climate simulation model are reported. The model calculates the greenhouse climate and crop growth and thus simulates both energy consumption and productivity. Based on an experiment, carried out at the Improvement Center in Bleiswijk, Netherlands, in the period 2010-2011, calculations were also carried out to test effects of climate control on yields and energy costs. Attention is paid to illumination, the use of air conditioning, heating and screens [Dutch] Er wordt verslag gedaan van berekeningen met het Explorer kasklimaat simulatiemodel. Dat model berekent het kasklimaat en de gewasgroei en simuleert daarmee zowel energiegebruik als opbrengst. Aan de hand van een experiment op het Improvement Center in Bleiswijk (2010-2011) werden berekeningen verricht om het effect van diverse klimaatregelingen te testen op opbrengsteffecten en energiekosten. Er is aandacht voor belichten, de inzet van luchtbehandeling, schermen en verwarmen.

  10. Bio fuels. A comparative analysis; Biokraftstoffe. Eine vergleichende Analyse

    Energy Technology Data Exchange (ETDEWEB)

    Schmitz, Norbert; Henke, Jan; Klepper, Gernot

    2009-07-01

    The market for bio fuels is subject to very high dynamics worldwide. Due to the extreme rise of the prices of raw materials as well as due to the retrogressive tax reductions for bio fuels in Germany one hardly invests in bio fuels. Substantial changes are experienced in the markets for fossil raw materials. The prices for agrarian raw material used in this contribution originate from the years 2006 and 2007. The effects of clearly higher oil prices on the bio fuel market are described. The investigation under consideration also deals with criteria of sustainability. The contribution of the individual bio fuels to the reduction of greenhouse gases is analyzed. The costs resulting from this are numerated. This enables a well-established comparison in which less representative bio fuels such as bio methane, BtL fuels and cellulose ethanol also are included.

  11. Comparing modelling techniques for analysing urban pluvial flooding.

    Science.gov (United States)

    van Dijk, E; van der Meulen, J; Kluck, J; Straatman, J H M

    2014-01-01

    Short peak rainfall intensities cause sewer systems to overflow leading to flooding of streets and houses. Due to climate change and densification of urban areas, this is expected to occur more often in the future. Hence, next to their minor (i.e. sewer) system, municipalities have to analyse their major (i.e. surface) system in order to anticipate urban flooding during extreme rainfall. Urban flood modelling techniques are powerful tools in both public and internal communications and transparently support design processes. To provide more insight into the (im)possibilities of different urban flood modelling techniques, simulation results have been compared for an extreme rainfall event. The results show that, although modelling software is tending to evolve towards coupled one-dimensional (1D)-two-dimensional (2D) simulation models, surface flow models, using an accurate digital elevation model, prove to be an easy and fast alternative to identify vulnerable locations in hilly and flat areas. In areas at the transition between hilly and flat, however, coupled 1D-2D simulation models give better results since catchments of major and minor systems can differ strongly in these areas. During the decision making process, surface flow models can provide a first insight that can be complemented with complex simulation models for critical locations.

  12. Humus and energy balances and greenhouse gas emissions with compost fertilization in organic farming compared with mineral fertilization

    Science.gov (United States)

    Erhart, Eva; Schmid, Harald; Hülsbergen, Kurt-Jürgen; Hartl, Wilfried

    2015-04-01

    Humus and energy balances and greenhouse gas emissions with compost fertilization in organic farming compared with mineral fertilization E. Erhart, H. Schmid, K.-J. Hülsbergen, W. Hartl The positive effects of compost fertilization on soil humus with their associated benefits for soil quality are well-established. The aim of the present study was to assess the effect of compost fertilization on humus and energy balances and greenhouse gas emissions and to compare the results of the humus balances with the changes in soil organic carbon contents measured in the soil of the experimental field. In order to assess the effects of compost use in organic farming as compared to conventional farming practice using mineral fertilizers, the field experiment with compost fertilization 'STIKO' was set up in 1992 near Vienna, Austria, on a Molli-gleyic Fluvisol. It included three treatments with compost fertilization (C1, C2 and C3 with 8, 14 and 20 t ha-1 y-1 f. m. on average of 14 years), three treatments with mineral nitrogen fertilization (N1, N2 and N3 with 29, 46 and 63 kg N ha-1 y 1 on average) and an unfertilized control (0) in six replications in a latin rectangle design. In the field trial, biowaste compost from the composting plant of the City of Vienna was used. Data from the field experiment (from 14 experimental years) were fed into the model software REPRO to calculate humus and energy balances and greenhouse gas emissions. The model software REPRO (REPROduction of soil fertility) couples the balancing of C, N and energy fluxes. For the determination of the net greenhouse effect, REPRO performs calculations of C sequestration in the soil, CO2 emissions from the use of fossil energy and N2O emissions from the soil. Humus balances showed that compost fertilization at a rate of 8 t ha-1 y-1 (C1) resulted in a positive humus balance of +115 kg C ha-1 y-1. With 14 and 20 t ha-1 y-1 compost (C2 and C3), respectively, humus accumulated at rates of 558 and 1021 kg C ha-1

  13. Determination and in-depth chromatographic analyses of alkaloids in South American and greenhouse-cultivated coca leaves.

    Science.gov (United States)

    Moore, J M; Casale, J F; Klein, R F; Cooper, D A; Lydon, J

    1994-01-21

    Methodology is described for the detection and/or determination of cocaine and minor alkaloids in South American coca as well as in greenhouse- and tropical-cultivated field coca of known taxonomy. Coca leaf from Bolivia, Peru, Ecuador and Colombia were subjected to the determination of cocaine, cis- and trans-cinnamoylcocaine, tropacocaine, hygrine, cuscohygrine and the isomeric truxillines. The greenhouse samples were cocaine-bearing leaves of the genus Erythroxylum and included E. coca var. coca, E. novogranatense var. novogranatense and E. novogranatense var. truxillense, and the alkaloids determined were cocaine, ecgonine methyl ester, cuscohygrine, tropacocaine and the cinnamoylcocaines. The tropical-cultivated coca were E. novogranatense var. novogranatense and E. coca var. coca. Cocaine and minor alkaloids were isolated from basified powdered leaf samples using a toluene extractant, followed by acid-Celite column chromatography. The isolated alkaloids were determined by capillary gas chromatography with flame ionization or electron-capture detection. Methodology is also presented for the isolation and mass spectral analysis of numerous trace-level coca alkaloids of unknown structure.

  14. Leakage and comparative advantage implications of agricultural participation in greenhouse gas emission mitigation

    Energy Technology Data Exchange (ETDEWEB)

    Lee, H.C. [Western Ontario Univ., London, ON (Canada). Dept. of Economics; McCarl, B.A. [Texas A and M Univ., College Station, TX (United States). Dept. of Agricultural Economics; Schneider, U.A. [Hamburg Univ., Hamburg (Germany). Dept. of Geosciences and Economics; Chen, C.C. [National Chung Hsing Univ., Taichung, Taiwan (China). Dept. of Agricultural Economics

    2004-07-01

    Greenhouse gas (GHG) emissions reduction strategies may involve the agricultural sector through tree-planting initiatives, crop and livestock management changes and the production of biofuels. In a free trade arena, reduced domestic food production could stimulate increased production and exports in countries that are not pursuing mitigation options. As a result, net emission reductions in implementing countries may be offset by activities stimulated in other countries. The competitive effects of differential mitigation efforts on agricultural food production and international trade were investigated in this paper. A greenhouse gas (GHG) version of the United States (US) Agricultural Sector Model (ASM) was optimized with the addition of details on soil type dependent production and a global trade representation via spatial equilibrium models for 8 commodities. The combined model considered agricultural production, consumption, and trade in developed and developing countries simultaneously. Implementation was considered in 3 scenarios: (1) unilaterally by the US; (2) by all Kyoto Protocol Annex 1 countries; and (3) globally. Results indicated that compliance causes supply cut-backs in regulated countries and increases in non-regulated countries. Results also showed that US agricultural producers were likely to benefit from a Kyoto Protocol-like environment, but that consumers were likely to be negatively impacted in terms of their agricultural welfare. It was suggested that if national agricultural GHG mitigation policies are not synchronized with foreign GHG emission policies, substantial leakage may occur. Emission reductions in Annex 1 countries would most likely be accompanied by emission increases in developing countries. In addition, the abatement of GHG through the agricultural sector would result in higher agricultural commodity prices. It was observed that if implementation of an equivalent mitigation policy or clean development mechanism in all countries

  15. Comparative Analyses of Exoproteinases Produced by Three Phytopathogenic Microorganisms

    Directory of Open Access Journals (Sweden)

    Tatiana A. Valueva

    2011-01-01

    Full Text Available Proteinases secreted by the oomycete Phytophthora infestans (Mont. de Bary, Rhizoctonia solani, and Fusarium culmorum belonging to different families of fungi have been studied to determine if the exoenzyme secretion depends on the environmental conditions and the phylogenetic position of the pathogen. The substrate specificity of the extracellular proteinases of F. culmorum, R. solani, and P. infestans and their sensitivity to the action of synthetic and protein inhibitors suggest that they contain trypsin-like and subtilisin-like enzymes regardless of culture medium composition. The relation of trypsin-like and subtilisin-like enzymes is dependent on the culture medium composition, especially on the form of nitrogen nutrition, particularly in the case of the exoenzymes secreted by R. solani. Phylogenetic analyses have shown that the exoproteinase set of ascomycetes and oomycetes has more similarities than basidiomycetes although they are more distant relatives. Our data suggests that the multiple proteinases secreted by pathogenic fungi could play different roles in pathogenesis, increasing the adaptability and host range, or could have different functions in survival in various ecological habitats outside the host.

  16. Cochrane reviews compared with industry supported meta-analyses and other meta-analyses of the same drugs: systematic review

    DEFF Research Database (Denmark)

    Jørgensen, Anders W; Hilden, Jørgen; Gøtzsche, Peter C

    2006-01-01

    OBJECTIVE: To compare the methodological quality and conclusions in Cochrane reviews with those in industry supported meta-analyses and other meta-analyses of the same drugs. DESIGN: Systematic review comparing pairs of meta-analyses that studied the same two drugs in the same disease and were...... reviews had a meta-analysis that compared two drugs. Twenty four meta-analyses that matched the Cochrane reviews were found: eight were industry supported, nine had undeclared support, and seven had no support or were supported by non-industry sources. On a 0-7 scale, the median quality score was 7...... patients or studies. The seven industry supported reviews that had conclusions recommended the experimental drug without reservations, compared with none of the Cochrane reviews (P = 0.02), although the estimated treatment effect was similar on average (z = 0.46, P = 0.64). Reviews with undeclared support...

  17. Greenhouse Gas Emissions and the Australian Diet—Comparing Dietary Recommendations with Average Intakes

    Directory of Open Access Journals (Sweden)

    Gilly A. Hendrie

    2014-01-01

    Full Text Available Nutrition guidelines now consider the environmental impact of food choices as well as maintaining health. In Australia there is insufficient data quantifying the environmental impact of diets, limiting our ability to make evidence-based recommendations. This paper used an environmentally extended input-output model of the economy to estimate greenhouse gas emissions (GHGe for different food sectors. These data were augmented with food intake estimates from the 1995 Australian National Nutrition Survey. The GHGe of the average Australian diet was 14.5 kg carbon dioxide equivalents (CO2e per person per day. The recommended dietary patterns in the Australian Dietary Guidelines are nutrient rich and have the lowest GHGe (~25% lower than the average diet. Food groups that made the greatest contribution to diet-related GHGe were red meat (8.0 kg CO2e per person per day and energy-dense, nutrient poor “non-core” foods (3.9 kg CO2e. Non-core foods accounted for 27% of the diet-related emissions. A reduction in non-core foods and consuming the recommended serves of core foods are strategies which may achieve benefits for population health and the environment. These data will enable comparisons between changes in dietary intake and GHGe over time, and provide a reference point for diets which meet population nutrient requirements and have the lowest GHGe.

  18. An experimental comparative analyse between three low capacity PLCs

    Science.gov (United States)

    Popa, G. N.; Diniş, C. M.; lagăr, A.; Popa, I.

    2017-01-01

    PLCs are used increasingly more often in industrial applications and beyond. PLCs from different companies involved different programming languages. Some of the PLCs can be programmed in all languages, while others do not. For three types of PLCs was made an application for a traffic light with priority. PLCs usually have a general and a special set of instructions that only some of these are found from a PLC to another. Programs were made with specific instruction set of respectively PLC. The programs were carried out in three languages. For a case study, it makes a comparative analysis between three programming languages.

  19. Analysing uncertainties: Towards comparing Bayesian and interval probabilities'

    Science.gov (United States)

    Blockley, David

    2013-05-01

    Two assumptions, commonly made in risk and reliability studies, have a long history. The first is that uncertainty is either aleatoric or epistemic. The second is that standard probability theory is sufficient to express uncertainty. The purposes of this paper are to provide a conceptual analysis of uncertainty and to compare Bayesian approaches with interval approaches with an example relevant to research on climate change. The analysis reveals that the categorisation of uncertainty as either aleatoric or epistemic is unsatisfactory for practical decision making. It is argued that uncertainty emerges from three conceptually distinctive and orthogonal attributes FIR i.e., fuzziness, incompleteness (epistemic) and randomness (aleatory). Characterisations of uncertainty, such as ambiguity, dubiety and conflict, are complex mixes of interactions in an FIR space. To manage future risks in complex systems it will be important to recognise the extent to which we 'don't know' about possible unintended and unwanted consequences or unknown-unknowns. In this way we may be more alert to unexpected hazards. The Bayesian approach is compared with an interval probability approach to show one way in which conflict due to incomplete information can be managed.

  20. Natural heritage values and comparative analyses of Kanas,China

    Institute of Scientific and Technical Information of China (English)

    Geoffrey; WALL

    2010-01-01

    Kanas is a National Nature Reserve and National 5A Scenic Area,and it is also high on China’s National Natural Heritage List. In this paper,with an integrated analysis and comparative geo-graphical approach,the genesis and current features of the Kanas landscape are analyzed systematically according to the criteria for outstanding universal values that must be met for designation by the United Nations as World Natural Heritage. It is concluded that Kanas has outstanding universal values in geosciences,biology and aesthetics. Through comparison with other World Natural Heritage sites of the same geological types,in the same biogeographic zone and in the same latitude,it is concluded that Kanas meets criteria vii,viii,ix and x for designation as World Natural Heritage. Thus,this work establishes a scientific foundation for nomination of Kanas for such a status.

  1. COMPARATIVE ANALYSES OF DIAGNOSTIC METHODS IN KNEE INJURIES

    Directory of Open Access Journals (Sweden)

    Džoleva-Tolevska Roza

    2016-03-01

    Full Text Available Objective:This study is analyzing the role and significance of the three diagnostic methods (clinical diagnosis, magnetic resonance imaging (MRI and arthroscopy, in establishing accurate diagnosis in knee injuries. The goal is to determine the diagnostic accuracy of each diagnostic method, using arthroscopy as gold standard. Material and Methods: We examined 70 patients with knee injuries. Clinical diagnosis was established using patient’s history and positive clinical tests for meniscal lesions, ACL injury and articular cartilage lesions. All patients underwent MRI on a 1.5 T magnet for MRI diagnosis. This was followed by arthroscopy for making the final diagnosis. Results: We analyzed the results of clinical tests for meniscal, ligamentous and articular cartilage injuries of the patients in both groups. Validity of the clinical tests was compared to the results got from MRI and arthroscopy. Accuracy of clinical diagnosis versus MRI diagnosis for medial(69.6% vs. 68.5% and lateral (84% vs. 82.6%meniscal lesions was almost identical. Accuracy of clinical diagnosis compared with the accuracy of MRI diagnosis for ACL injuries was higher (91.3% vs. 81.4%. Accuracy (85.5% vs. 72.8% of clinical diagnosis versus MRI diagnosis for articular cartilage lesions was better. Conclusion: Affirmation of clinical diagnosis in this study is a result of usage of standard clinical signs and tests which are fundamental in establishing clinical diagnosis of knee injuries. MRI is a diagnostic method which enriches the diagnostic process. Arthroscopy is defined as superior diagnostic method, also a gold standard for comparison of the other two diagnostic methods.

  2. Retrospective analyses versus RCTs: comparing like with like?

    Directory of Open Access Journals (Sweden)

    Baron R

    2017-03-01

    Full Text Available Ralf Baron,1 Lieven Nils Kennes,2 Christian Elling31Division of Neurological Pain Research and Therapy, Department of Neurology, University Hospital of Schleswig-Holstein, Kiel Campus, Kiel, 2Department of Economics and Business Administration, University of Applied Sciences Stralsund, Stralsund, 3Grünenthal GmbH, Medical Affairs Europe and North America, Aachen, GermanyIn their recent retrospective analysis assessing oxycodone/naloxone (OXN vs. tapentadol (TAP treatment for chronic low-back pain with a neuropathic component, Ueberall and Mueller-Schwefe1 compare their results to the findings of an earlier phase 3b/4 study.2 In our opinion, a proper comparison to the prospective, randomized, controlled, open-label study by Baron and colleagues is scientifically not appropriate. Although Ueberall and Mueller-Schwefe use the terms “prospective,” “randomly,” and “blinded” and refer to the PROBE design (prospective, randomized, open-label, blinded endpoint,3 their database study is retrospective, nonrandomized, and nonblinded with the treatment choice left to the discretion of the physicians. In this context, the use of the term “intention-to-treat (ITT population” is inappropriate because ITT is unambiguously defined as including all randomized subjects and thus inseparable from true randomization (ICH E9.4View original paper by Ueberall and Mueller-Schwefe.

  3. Comparative study of rhizobacterial communities in pepper greenhouses and examination of the effects of salt accumulation under different cropping systems.

    Science.gov (United States)

    Hahm, Mi-Seon; Son, Jin-Soo; Kim, Byung-Soo; Ghim, Sa-Youl

    2017-03-01

    This study compared rhizobacterial communities in pepper greenhouses under a paddy-upland (rice-pepper) rotational system (PURS) and a monoculture repeated cropping system (RCS) and examined adverse effects of high salinity on soil properties. The following soil properties were analyzed: electrical conductivity (EC), pH, concentration of four cations (Na, Ca, Mg, and K), total nitrogen, and organic matter content. Rhizobacterial communities were analyzed using culture-based and culture-independent (pyrosequencing) methods. In addition, all culturable bacteria isolated from each soil sample were tested for traits related to plant growth promotion. The EC of rhizospheric soils was 5.32-5.54 dS/m for the RCS and 2.05-2.19 dS/m for the PURS. The culture-based method indicated that the bacterial communities and bacterial characteristics were significantly more diverse in the PURS soil than in the RCS soil. The pyrosequencing data also indicated that the richness and diversity of bacterial communities were greater in the PURS soil. Proteobacteria was the most abundant phylum in soil samples under both cropping systems. However, Firmicutes and Gemmatimonadetes were more prevalent in the RCS soil, while the PURS soil contained a greater number of Chloroflexi. Spearman's correlation coefficients showed that soil EC was significantly positively correlated with the abundance of Firmicutes and Gemmatimonadetes and negatively correlated with the abundance of Acidobacteria, Chloroflexi, and Deltaproteobacteria. This is the first study on the rhizobacterial communities in pepper greenhouses under two different cropping systems using both culture- and pyrosequencing-based methods.

  4. Quantification of greenhouse gas emissions from waste management processes for municipalities--a comparative review focusing on Africa.

    Science.gov (United States)

    Friedrich, Elena; Trois, Cristina

    2011-07-01

    The amount of greenhouse gases (GHG) emitted due to waste management in the cities of developing countries is predicted to rise considerably in the near future; however, these countries have a series of problems in accounting and reporting these gases. Some of these problems are related to the status quo of waste management in the developing world and some to the lack of a coherent framework for accounting and reporting of greenhouse gases from waste at municipal level. This review summarizes and compares GHG emissions from individual waste management processes which make up a municipal waste management system, with an emphasis on developing countries and, in particular, Africa. It should be seen as a first step towards developing a more holistic GHG accounting model for municipalities. The comparison between these emissions from developed and developing countries at process level, reveals that there is agreement on the magnitude of the emissions expected from each process (generation of waste, collection and transport, disposal and recycling). The highest GHG savings are achieved through recycling, and these savings would be even higher in developing countries which rely on coal for energy production (e.g. South Africa, India and China) and where non-motorized collection and transport is used. The highest emissions are due to the methane released by dumpsites and landfills, and these emissions are predicted to increase significantly, unless more of the methane is captured and either flared or used for energy generation. The clean development mechanism (CDM) projects implemented in the developing world have made some progress in this field; however, African countries lag behind. Copyright © 2011 Elsevier Ltd. All rights reserved.

  5. Greenhouse gas network design using backward Lagrangian particle dispersion modelling – Part 2: Sensitivity analyses and South African test case

    Directory of Open Access Journals (Sweden)

    A. Nickless

    2014-05-01

    Full Text Available This is the second part of a two-part paper considering network design based on a Lagrangian stochastic particle dispersion model (LPDM, aimed at reducing the uncertainty of the flux estimates achievable for the region of interest by the continuous observation of atmospheric CO2 concentrations at fixed monitoring stations. The LPDM model, which can be used to derive the sensitivity matrix used in an inversion, was run for each potential site for the months of July (representative of the Southern Hemisphere Winter and January (Summer. The magnitude of the boundary contributions to each potential observation site was tested to determine its inclusion in the network design, but found to be minimal. Through the use of the Bayesian inverse modelling technique, the sensitivity matrix, together with the prior estimates for the covariance matrices of the observations and surface fluxes were used to calculate the posterior covariance matrix of the estimated fluxes, used for the calculation of the cost function of the optimisation procedure. The optimisation procedure was carried out for South Africa under a standard set of conditions, similar to those applied to the Australian test case in Part 1, for both months and for the combined two months. The conditions were subtly changed, one at a time, and the optimisation routine re-run under each set of modified conditions, and compared to the original optimal network design. The results showed that changing the height of the surface grid cells, including an uncertainty estimate for the oceans, or increasing the night time observational uncertainty did not result in any major changes in the positioning of the stations relative to the basic design, but changing the covariance matrix or increasing the spatial resolution did. The genetic algorithm was able to find a slightly better solution than the incremental optimisation procedure, but did not drastically alter the solution compared to the standard case

  6. Carbon Disclosures: Comparability, the Carbon Disclosure Project and the Greenhouse Gas Protocol

    Directory of Open Access Journals (Sweden)

    Jane Andrew

    2011-12-01

    Full Text Available Corporate carbon disclosures have become increasingly commonplace and are often presented as a useful voluntary mechanism for internal and external decision making. The production of the data is said to assistcorporations position themselves strategically in terms of the carbon risks and opportunities they may face. External to the firm, carbon disclosures hold the promise of assisting capital allocation decisions that are ‘carbon responsible’. It is claimed that the process of disclosure can sensitise the market to globalenvironmental problems such as climate change. In order to consider these claims, the broad purpose of this paper is to question whether the voluntary information that is produced can live up to its expectations and provide a meaningful basis for climate change related decision making. To that end, this exploratory studyexamines the carbon disclosures of Australasian mining companies over three years in compliance with a voluntary carbon disclosure regime – the Carbon Disclosure Project (CDP – and assesses those disclosureswith respect to comparability, an important criterion for information usefulness.

  7. Greenhouse gas emissions under conservation agriculture compared to traditional cultivation of maize in the central highlands of Mexico

    Energy Technology Data Exchange (ETDEWEB)

    Dendooven, Luc, E-mail: dendooven@me.com [Laboratory of Soil Ecology, ABACUS, Cinvestav, Avenida Instituto Politecnico Nacional 2508, C.P. 07360 Mexico, D.F. (Mexico); Gutierrez-Oliva, Vicente F. [Laboratory of Plant Biotechnology, Instituto Tecnologico de Tuxtla-Gutierrez, Tuxtla-Gutierrez, Chiapas (Mexico); Patino-Zuniga, Leonardo [Laboratory of Soil Ecology, ABACUS, Cinvestav, Avenida Instituto Politecnico Nacional 2508, C.P. 07360 Mexico, D.F. (Mexico); Ramirez-Villanueva, Daniel A. [Departamento de Microbiologia, Escuela Nacional de Ciencias Biologicas-IPN, Av. Prolongacion de Carpio y Plan de Ayala, C.P. 11340 Mexico, D.F. (Mexico); Verhulst, Nele [International Maize and Wheat Improvement Centre (CIMMYT), Apdo. Postal 6-641, 06600, Mexico D.F. (Mexico); Luna-Guido, Marco; Marsch, Rodolfo [Laboratory of Soil Ecology, ABACUS, Cinvestav, Avenida Instituto Politecnico Nacional 2508, C.P. 07360 Mexico, D.F. (Mexico); Montes-Molina, Joaquin; Gutierrez-Miceli, Federico A. [Laboratory of Plant Biotechnology, Instituto Tecnologico de Tuxtla-Gutierrez, Tuxtla-Gutierrez, Chiapas (Mexico); Vasquez-Murrieta, Soledad [Departamento de Microbiologia, Escuela Nacional de Ciencias Biologicas-IPN, Av. Prolongacion de Carpio y Plan de Ayala, C.P. 11340 Mexico, D.F. (Mexico); Govaerts, Bram [International Maize and Wheat Improvement Centre (CIMMYT), Apdo. Postal 6-641, 06600, Mexico D.F. (Mexico)

    2012-08-01

    In 1991, the 'International Maize and Wheat Improvement Center' (CIMMYT) started a field experiment in the rain fed Mexican highlands to investigate conservation agriculture (CA) as a sustainable alternative for conventional maize production practices (CT). CT techniques, characterized by deep tillage, monoculture and crop residue removal, have deteriorated soil fertility and reduced yields. CA, which combines minimum tillage, crop rotations and residue retention, restores soil fertility and increases yields. Soil organic matter increases in CA compared to CT, but increases in greenhouse gas emissions (GHG) in CA might offset the gains obtained to mitigate global warming. Therefore, CO{sub 2}, CH{sub 4} and N{sub 2}O emissions, soil temperature, C and water content were monitored in CA and CT treatments in 2010-2011. The cumulative GHG emitted were similar for CA and CT in both years, but the C content in the 0-60 cm layer was higher in CA (117.7 Mg C ha{sup -1}) than in CT (69.7 Mg C ha{sup -1}). The net global warming potential (GWP) of CA (considering soil C sequestration, GHG emissions, fuel use, and fertilizer and seeds production) was - 7729 kg CO{sub 2} ha{sup -1} y{sup -1} in 2008-2009 and - 7892 kg CO{sub 2} ha{sup -1} y{sup -1} in 2010-2011, whereas that of CT was 1327 and 1156 kg CO{sub 2} ha{sup -1} y{sup -1}. It was found that the contribution of CA to GWP was small compared to that of CT. - Highlights: Black-Right-Pointing-Pointer Conservation agriculture (CA) and conventional agriculture (CT) systems Black-Right-Pointing-Pointer Greenhouse gasses emitted were similar from CA and CT. Black-Right-Pointing-Pointer C content in the 0-60 cm layer was much higher in CA than in CT. Black-Right-Pointing-Pointer The net global warming potential of CA was negative, but positive in CT. Black-Right-Pointing-Pointer C sequestered in soil is far more important than GHG emitted.

  8. Taxonomy and Phylogeny Can Yield Comparable Results in Comparative Paleontological Analyses.

    Science.gov (United States)

    Soul, Laura C; Friedman, Matt

    2015-07-01

    Many extinct taxa with extensive fossil records and mature taxonomic classifications have not yet been the subject of formal phylogenetic analysis. Here, we test whether the taxonomies available for such groups represent useful (i.e., non-misleading) substitutes for trees derived from matrix-based phylogenetic analyses. We collected data for 52 animal clades that included fossil representatives, and for which a recent cladogram and pre-cladistic taxonomy were available. We quantified the difference between the time-scaled phylogenies implied by taxonomies and cladograms using the matching cluster distance metric. We simulated phenotypic trait values and used them to estimate a series of commonly used, phylogenetically explicit measures (phylogenetic signal [Blomberg's [Formula: see text

  9. Compared Biochar and Compost effects on plant growth and soil factors as reported for three consequent greenhouse trial setups

    Science.gov (United States)

    Schulz, H. S.; Glaser, B. G.

    2012-04-01

    Since ten years there is a major increase in research concerning biochar applications to soils trying to mimic effects known from Terra Preta do Indio (Glaser 2002). We conducted a preliminary study in which we analyzed the synergistic effects of biochar in combination with conventional and with organic fertilizers, whereas our latter experiments use biochar which was blended with fresh organic material and underwent the whole composting procedure leading to the first known composted biochars. Our first pot experiment (with two consequent growth periods without additional fertilization) helped to distinguish the effects from conventional and organic fertilizers in combination with biochar, where biochar revealed abilities for stabilizing carbon content (Total Organic and Black Carbon) and reducing nitrification. Plant weights were highest with pure compost, but biochar combined with compost (50:50) showed a sustained progression comparing second growth period's results. Those outcomes let us focus on biochar-compost-mixes. Our second greenhouse experiment concentrated on the question of the minimal biochar content to enhance plant growth and soil properties and was performed on a very poor sandy and on a richer loamy soil with rising concentrations between 0% and 1% biochar per compost. We could not find significant differences between the pure compost and the biochar amended pots. For our third experiment we tried to elevate the biochar share as high as possible and tested treatments with up to 200 Mg ha-1(eq.) in steps with up to 50% biochar content, again in poor sandy and richer loamy soil pots. The measured seed weight of applied Avena sativa L. plants showed very different results on sandy soil compared to the loamy soil. Whereas compost on loam showed a seed weight 2 times higher than on pure loam control and seed weights 1.6 times higher compared to compost with highest biochar amounts, on sand the pure compost was even slightly less productive than pure

  10. Greener greenhouses

    Energy Technology Data Exchange (ETDEWEB)

    Paksoy, Halime; Turgut, Bekir; Beyhan, Beyza; Dasgan, H. Yildiz; Evliya, Hunay; Abak, Kazim; Bozdag, Saziye

    2010-09-15

    Agricultural greenhouses are solution to the increased demand for higher production yields, facilitating off season cultivation and allowing the growth of certain varieties in areas where it was not possible earlier. Heating and/or cooling system, required to maintain the inside micro-climate in greenhouses mostly rely on fossil fuels and/or electricity. This paper aims to discuss the 'greener' solutions for heating and cooling systems of greenhouses based on different thermal energy storage concepts. Results from a greenhouse Aquifer Thermal Energy Storage (ATES) application in Turkey producing tomatoes with zero fossil fuels and up to 40% higher yield are presented.

  11. Bringing a needle to a laser fight: comparing greenhouse gas sampling methods with gas chromatography and fourier transform infrared spectroscopy

    Science.gov (United States)

    As scientists, producers, policymakers, and the general public become more concerned about impacts of climate change, there is an increasing need to understand and quantify greenhouse gas emissions from agricultural practices, which often feed into global, multi-institution databases. Current best p...

  12. Mist greenhouse

    NARCIS (Netherlands)

    Weel, van P.A.; Voogt, J.O.

    2007-01-01

    The present invention relates to a greenhouse system with a climate regulation which is controlled through measuring the stomatal aperture of the plants present in the greenhouse. The regulation mainly consists of controlling a misting installation and optionally of adjusting other, conventional

  13. Comparation of Greenhouse Gas Emission Disclosure Before and After Enactment of the Indonesia Act No. 17 of 2004

    Directory of Open Access Journals (Sweden)

    Yuztitya Asmaranti

    2014-12-01

    Full Text Available Indonesia, as a country with high vulnerable to the effects of global climate change due to greenhouse gas emissions, is committed to implementing the Kyoto Protocol by issuing the Law No. 17 of 2004 regulating the ratification of the Kyoto Protocol to the United Nations Framework Convention on Climate Change. On the other hand, Indonesia with the second largest tropical forest in the world is expected to contribute oxygen to protect the world's top greenhouse gas effect as the main cause of global warming. This study aims to provide empirical evidence of the extent to which the response of companies in Indonesia in addressing global warming due to carbon emissions leading to dumping greenhouse gases and what efforts done as a form of corporate social responsibility. This study found that there are differences in the disclosure of carbon emissions before and after the enactment of Indonesian Act No. 17 of 2004. However, the study also found that only about 10% of manufacturing companies in Indonesia have an action associated with a reduction in carbon emissions of the company.

  14. Comparing effects of low levels of herbicides on greenhouse- and field-grown potatoes (Solanum tuberosum L.), soybeans (Glycine max L.), and peas (Pisum sativum L.).

    Science.gov (United States)

    Pfleeger, Thomas; Olszyk, David; Lee, E Henry; Plocher, Milton

    2011-02-01

    Although laboratory toxicology tests are generally easy to perform, cost effective, and readily interpreted, they have been questioned for their environmental relevance. In contrast, field tests are considered realistic while producing results that are difficult to interpret and expensive to obtain. Toxicology tests were conducted on potatoes, peas, and soybeans grown in a native soil in pots in the greenhouse and were compared to plants grown outside under natural environmental conditions to determine toxicological differences between environments, whether different plant developmental stages were more sensitive to herbicides, and whether these species were good candidates for plant reproductive tests. The reproductive and vegetative endpoints of the greenhouse plants and field-grown plants were also compared. The herbicides bromoxynil, glyphosate, MCPA ([4-chloro-2-methylphenoxy] acetic acid), and sulfometuron-methyl were applied at below field application rates to potato plants at two developmental stages. Peas and soybeans were exposed to sulfometuron-methyl at similar rates at three developmental stages. The effective herbicide concentrations producing a 25% reduction in a given measure differed between experimental conditions but were generally within a single order of magnitude within a species, even though there were differences in plant morphology. This study demonstrated that potatoes, peas, and soybeans grown in pots in a greenhouse produce phytotoxicity results similar to those grown outside in pots; that reproductive endpoints in many cases were more sensitive than vegetative ones; and that potato and pea plants are reasonable candidates for asexual and sexual reproductive phytotoxicity tests, respectively. Plants grown in pots in a greenhouse and outside varied little in toxicity. However, extrapolating those toxicity results to native plant communities in the field is basically unknown and in need of research. © 2010 SETAC.

  15. Comparative physiological and proteomic analyses of poplar (Populus yunnanensis plantlets exposed to high temperature and drought.

    Directory of Open Access Journals (Sweden)

    Xiong Li

    Full Text Available Plantlets of Populus yunnanensis Dode were examined in a greenhouse for 48 h to analyze their physiological and proteomic responses to sustained heat, drought, and combined heat and drought. Compared with the application of a single stress, simultaneous treatment with both stresses damaged the plantlets more heavily. The plantlets experienced two apparent response stages under sustained heat and drought. During the first stage, malondialdehyde and reactive oxygen species (ROS contents were induced by heat, but many protective substances, including antioxidant enzymes, proline, abscisic acid (ABA, dehydrin, and small heat shock proteins (sHSPs, were also stimulated. The plants thus actively defended themselves against stress and exhibited few pathological morphological features, most likely because a new cellular homeostasis was established through the collaborative operation of physiological and proteomic responses. During the second stage, ROS homeostasis was overwhelmed by substantial ROS production and a sharp decline in antioxidant enzyme activities, while the synthesis of some protective elements, such as proline and ABA, was suppressed. As a result, photosynthetic levels in P. yunnanensis decreased sharply and buds began to die, despite continued accumulation of sHSPs and dehydrin. This study supplies important information about the effects of extreme abiotic environments on woody plants.

  16. Initial results of detected methane emissions from landfills in the Los Angeles Basin during the COMEX campaign by the Methane Airborne MAPper (MAMAP) instrument and a greenhouse gas in-situ analyser

    Science.gov (United States)

    Krautwurst, Sven; Gerilowski, Konstantin; Kolyer, Richard; Jonsson, Haflidi; Krings, Thomas; Horstjann, Markus; Leifer, Ira; Vigil, Sam; Buchwitz, Michael; Schüttemeyer, Dirk; Fladeland, Matthew M.; Burrows, John P.; Bovensmann, Heinrich

    2015-04-01

    Methane (CH4) is the second most important anthropogenic greenhouse gas beside carbon dioxide (CO2). Significant contributors to the global methane budget are fugitive emissions from landfills. Due to the growing world population, it is expected that the amount of waste and, therefore, waste disposal sites will increase in number and size in parts of the world, often adjacent growing megacities. Besides bottom-up modelling, a variety of ground based methods (e.g., flux chambers, trace gases, radial plume mapping, etc.) have been used to estimate (top-down) these fugitive emissions. Because landfills usually are large, sometimes with significant topographic relief, vary temporally, and leak/emit heterogeneously across their surface area, assessing total emission strength by ground-based techniques is often difficult. In this work, we show how airborne based remote sensing measurements of the column-averaged dry air mole fraction of CH4 can be utilized to estimate fugitive emissions from landfills in an urban environment by a mass balance approach. Subsequently, these emission rates are compared to airborne in-situ horizontal cross section measurements of CH4 taken within the planetary boundary layer (PBL) upwind and downwind of the landfill at different altitudes immediately after the remote sensing measurements were finished. Additional necessary parameters (e.g., wind direction, wind speed, aerosols, dew point temperature, etc.) for the data inversion are provided by a standard instrumentation suite for atmospheric measurements aboard the aircraft, and nearby ground-based weather stations. These measurements were part of the CO2 and Methane EXperiment (COMEX), which was executed during the summer 2014 in California and was co-funded by the European Space Agency (ESA) and the National Aeronautics and Space Administration (NASA). The remote sensing measurements were taken by the Methane Airborne MAPper (MAMAP) developed and operated by the University of Bremen and

  17. Comparative metagenomic analyses of the poultry enteric virome: implications for diagnostics

    Science.gov (United States)

    Previous comparative metagenomic analyses of the viral communities present in the poultry gut have revealed novel enteric viruses that may affect the overall performance of birds or that may play roles in disease syndromes such as Runting-Stunting Syndrome (RSS) or Poult Enteritis Complex (PEC). Ou...

  18. Comparative evolutionary analyses of beta globin gene in eutherian, dinosaurian and neopterygii taxa

    Directory of Open Access Journals (Sweden)

    Gauri Awasthi, Garima Srivastava & Aparup Das

    2011-03-01

    Full Text Available Background & objectives: Comparative genomics and evolutionary analyses of conserved genes have enabled usto understand the complexity of genomes of closely related species. For example: -globin gene present inhuman hemoglobin is one such gene that has experienced many genetic changes in many related taxa andproduced more than 600 variants. One of the variant, HBS causes sickle-cell anemia in humans but offersprotection against severe malaria due to Plasmodium falciparum. In the present study, we characterized andperformed evolutionary comparative analyses of the -globin gene in different related and unrelated taxa tohave a comprehensive view of its evolution.Methods: DNA and protein sequences of -globin gene were downloaded from NCBI and characterized in detailin nine eutherian (Homo sapiens, Pan troglodytes, Macaca mulatta, Mus musculus, Rattus norvegicus, Bostaurus, Canis familiaris, Equus caballus, Oryctolagus cuniculus, a dinosaurian (Gallus gallus and a neopterygii(Danio rerio taxa. Three more eutherian (Papio anubis, Ovis aries and Sus scrofa taxa were included for ananalysis at the protein level but not included at the gene level owing to lack of genomic information. Computationaland phylogenetic analyses were performed using evolutionary comparative approach.Results: Results of comparative and phylogenetic analyses revealed less conservation of genetic architecture of-globin compared to its protein architecture in all eutherian taxa. Both dinosaurian and neopterygii taxa servedas outgroups and varied at gene and protein levels.Interpretation & conclusion: Most remarkably, all primates from eutherian taxa including P. anubis showedonly nine codon position differences and an absolute similarity between H. sapiens and P. troglodytes. Absoluteconservation of coding region in Equus caballus (horse was observed. The results were discussed with aninference on the role of evolutionary forces in maintaining such close similarities

  19. Plastic and Glass Greenhouses Detection and Delineation from WORLDVIEW-2 Satellite Imagery

    Science.gov (United States)

    Koc-San, D.; Sonmez, N. K.

    2016-06-01

    Greenhouse detection using remote sensing technologies is an important research area for yield estimation, sustainable development, urban and rural planning and management. An approach was developed in this study for the detection and delineation of greenhouse areas from high resolution satellite imagery. Initially, the candidate greenhouse patches were detected using supervised classification techniques. For this purpose, Maximum Likelihood (ML), Random Forest (RF), and Support Vector Machines (SVM) classification techniques were applied and compared. Then, sieve filter and morphological operations were performed for improving the classification results. Finally, the obtained candidate plastic and glass greenhouse areas were delineated using boundary tracing and Douglas Peucker line simplification algorithms. The proposed approach was implemented in the Kumluca district of Antalya, Turkey utilizing pan-sharpened WorldView-2 satellite imageries. Kumluca is the prominent district of Antalya with greenhouse cultivation and includes both plastic and glass greenhouses intensively. When the greenhouse classification results were analysed, it can be stated that the SVM classification provides most accurate results and RF classification follows this. The SVM classification overall accuracy was obtained as 90.28%. When the greenhouse boundary delineation results were considered, the plastic greenhouses were delineated with 92.11% accuracy, while glass greenhouses were delineated with 80.67% accuracy. The obtained results indicate that, generally plastic and glass greenhouses can be detected and delineated successfully from WorldView-2 satellite imagery.

  20. A comparative study of vertical flow and free-water surface constructed wetlands for low C/N ratio domestic wastewater treatment and its greenhouse gases emission

    Science.gov (United States)

    Xu, K.; Liu, C.; Ebie, Y.; Inamori, Y.

    2008-12-01

    Constructed wetland (CW) systems are reliable, flexible in design, and can be built, operated, and maintained at lower costs compared to conventional methods of chemical treatment. Therefore, CW systems are widely used for controlling water-body eutrophication as an ease-operation and cost-effective ecological technology in developing countries. However, growing attention has been directed to its greenhouse side-effect and global-warming potential in recent years. In this study, two typical constructed wetlands: Vertical flow (VF) and Free-water surface (FWS) constructed wetlands were used not only to compare the nutrients removal performance for treatment of low C/N ratio loading domestic wastewater, but also to investigate and compare their CH4 and N2O greenhouse gases emission characteristics. The results indicated that the VF CW showed a comparatively good performance for nitrogen and phosphorus removal than FWS constructed wetland, which was 98.5, 95.9, 93.2 and 90.7 percent for BOD5, SS, NH4-N and TP under 6 days HRT, respectively. It was found that the FWS CW had the higher tendency to emit CH4 than the VF CW during four seasons of one year.

  1. Comparative 3D analyses and palaeoecology of giant early amphibians (Temnospondyli: Stereospondyli)

    Science.gov (United States)

    Fortuny, Josep; Marcé-Nogué, Jordi; Steyer, J.-Sébastien; de Esteban-Trivigno, Soledad; Mujal, Eudald; Gil, Lluís

    2016-01-01

    Macroevolutionary, palaeoecological and biomechanical analyses in deep time offer the possibility to decipher the structural constraints, ecomorphological patterns and evolutionary history of extinct groups. Here, 3D comparative biomechanical analyses of the extinct giant early amphibian group of stereospondyls together with living lissamphibians and crocodiles, shows that: i) stereospondyls had peculiar palaeoecological niches with proper bites and stress patterns very different than those of giant salamanders and crocodiles; ii) their extinction may be correlated with the appearance of neosuchians, which display morphofunctional innovations. Stereospondyls weathered the end-Permian mass extinction, re-radiated, acquired gigantic sizes and dominated (semi) aquatic ecosystems during the Triassic. Because these ecosystems are today occupied by crocodilians, and stereospondyls are extinct amphibians, their palaeobiology is a matter of an intensive debate: stereospondyls were a priori compared with putative living analogous such as giant salamanders and/or crocodilians and our new results try to close this debate. PMID:27457883

  2. Comparative survey of dynamic analyses of free-piston stirling engines

    Energy Technology Data Exchange (ETDEWEB)

    Kankam, M.D. [National Aeronautics and Space Administration, Cleveland, OH (United States). Lewis Research Center; Rauch, J.S. [Sverdrup Technology, Inc., Brook Park, OH (United States). Lewis Research Center Group

    1994-09-01

    This paper compares reported dynamic analyses for evaluating the steady-state response and stability of free-piston Stirling engine (FPSE) systems. Various analytical approaches are discussed to provide guidance on their salient features. Recommendations are made in the recommendations remarks for an approach which captures most of the inherent properties of the engine. Such an approach has the potential for yielding results which will closely match practical FPSE-load systems.

  3. Coalescent species delimitation in milksnakes (genus Lampropeltis) and impacts on phylogenetic comparative analyses.

    Science.gov (United States)

    Ruane, Sara; Bryson, Robert W; Pyron, R Alexander; Burbrink, Frank T

    2014-03-01

    Both gene-tree discordance and unrecognized diversity are sources of error for accurate estimation of species trees, and can affect downstream diversification analyses by obscuring the correct number of nodes, their density, and the lengths of the branches subtending them. Although the theoretical impact of gene-tree discordance on evolutionary analyses has been examined previously, the effect of unsampled and cryptic diversity has not. Here, we examine how delimitation of previously unrecognized diversity in the milksnake (Lampropeltis triangulum) and use of a species-tree approach affects both estimation of the Lampropeltis phylogeny and comparative analyses with respect to the timing of diversification. Coalescent species delimitation indicates that L. triangulum is not monophyletic and that there are multiple species of milksnake, which increases the known species diversity in the genus Lampropeltis by 40%. Both genealogical and temporal discordance occurs between gene trees and the species tree, with evidence that mitochondrial DNA (mtDNA) introgression is a main factor. This discordance is further manifested in the preferred models of diversification, where the concatenated gene tree strongly supports an early burst of speciation during the Miocene, in contrast to species-tree estimates where diversification follows a birth-death model and speciation occurs mostly in the Pliocene and Pleistocene. This study highlights the crucial interaction among coalescent-based phylogeography and species delimitation, systematics, and species diversification analyses.

  4. Pilot Greenhouse

    CERN Multimedia

    1983-01-01

    This pilot greenhouse was built in collaboration with the "Association des Maraichers" of Geneva in the frame of the study for making use of the heat rejected as warm water by CERN accelerators and experiments. Among other improvements, more automated and precise regulation systems for heating and ventilation were developed. See also 8305598X.

  5. Comparative chloroplast genomics: Analyses including new sequencesfrom the angiosperms Nuphar advena and Ranunculus macranthus

    Energy Technology Data Exchange (ETDEWEB)

    Raubeso, Linda A.; Peery, Rhiannon; Chumley, Timothy W.; Dziubek,Chris; Fourcade, H. Matthew; Boore, Jeffrey L.; Jansen, Robert K.

    2007-03-01

    The number of completely sequenced plastid genomes available is growing rapidly. This new array of sequences presents new opportunities to perform comparative analyses. In comparative studies, it is most useful to compare across wide phylogenetic spans and, within angiosperms, to include representatives from basally diverging lineages such as the new genomes reported here: Nuphar advena (from a basal-most lineage) and Ranunculus macranthus (from the basal group of eudicots). We report these two new plastid genome sequences and make comparisons (within angiosperms, seed plants, or all photosynthetic lineages) to evaluate features such as the status of ycf15 and ycf68 as protein coding genes, the distribution of simple sequence repeats (SSRs) and longer dispersed repeats (SDR), and patterns of nucleotide composition.

  6. Comparative genome analyses of Serratia marcescens FS14 reveals its high antagonistic potential.

    Directory of Open Access Journals (Sweden)

    Pengpeng Li

    Full Text Available S. marcescens FS14 was isolated from an Atractylodes macrocephala Koidz plant that was infected by Fusarium oxysporum and showed symptoms of root rot. With the completion of the genome sequence of FS14, the first comprehensive comparative-genomic analysis of the Serratia genus was performed. Pan-genome and COG analyses showed that the majority of the conserved core genes are involved in basic cellular functions, while genomic factors such as prophages contribute considerably to genome diversity. Additionally, a Type I restriction-modification system, a Type III secretion system and tellurium resistance genes are found in only some Serratia species. Comparative analysis further identified that S. marcescens FS14 possesses multiple mechanisms for antagonism against other microorganisms, including the production of prodigiosin, bacteriocins, and multi-antibiotic resistant determinants as well as chitinases. The presence of two evolutionarily distinct Type VI secretion systems (T6SSs in FS14 may provide further competitive advantages for FS14 against other microbes. To our knowledge, this is the first report of comparative analysis on T6SSs in the genus, which identifies four types of T6SSs in Serratia spp.. Competition bioassays of FS14 against the vital plant pathogenic bacterium Ralstonia solanacearum and fungi Fusarium oxysporum and Sclerotinia sclerotiorum were performed to support our genomic analyses, in which FS14 demonstrated high antagonistic activities against both bacterial and fungal phytopathogens.

  7. Comparative Analyses of the UAE and the IRI Investment Policy in African Countries

    Directory of Open Access Journals (Sweden)

    A K Voronkov

    2010-12-01

    Full Text Available The article focuses on comparative analyses of the investment policy of the UAE and the IRI in African countries in a context of foreign policy activities. The author examines the main approaches and methods practiced by the OAE and the IRI investment bodies for achieving success in Africa in various spheres of economy. The special attention is given to cluster principle of diversification strategy, which ensured the transformation of the OAE from a weakly developed country fully dependent on the export of oil into a state with a diversified economy.

  8. An example of fingerprint detection of greenhouse climate changes

    Energy Technology Data Exchange (ETDEWEB)

    Karoly, D.J.; Cohen, J.A. [Monash Univ., Clayton, Victoria (Australia); Meehl, G.A. [National Center for Atmospheric Research, Boulder, CO (United States)] [and others

    1994-07-01

    As an example of the technique of fingerprint detection of greenhouse climate change, a multivariate signal or fingerprint of the enhanced greenhouse effect is defined using the zonal mean atmospheric temperature change as a function of height and latitude between equilibrium climate model simulations with control and doubled CO{sub 2} concentrations. This signal is compared with observed atmospheric temperature variations over the period 1963 to 1988 from radiosonde-based global analyses. There is a signiificant increase of this greenhouse signal in the observational data over this period. These results must be treated with caution. Upper air data are available for a short period only, possibly, to be able to resolve any real greenhouse climate change. The greenhouse fingerprint used in this study may not be unique to the enhanced greenhouse effect and may be due to other forcing mechanisms. However, it is shown that the patterns of atmospheric temperature change associated with uniform global increases of sea surface temperature, with El Nino-Southern Oscillation events and with decreases of stratospheric ozone concentrations individually are different from the greenhouse fingerprint used here. 30 refs., 6 figs., 2 tabs.

  9. Comparative analyses in Lotus: the cytogenetic map of Lotus uliginosus Schkuhr.

    Science.gov (United States)

    Ferreira, J; Mendes, S; Dall'agnol, M; Sandal, N; Sato, S; Pedrosa-Harand, A

    2012-01-01

    A comparative cytogenetic map was built for Lotusuliginosus (2n = 12), expanding previous analyses that revealed intra- and interspecific chromosomal rearrangements in the model legume L. japonicus, L. filicaulis, and L. burttii. This species is positioned in a sister clade of the previously-mapped species and is proposed as one of the progenitors of L. corniculatus, the main forage crop of the genus. The cytogenetic map allowed the location of 12 genomic regions to be compared between these species. A high macrosynteny was revealed, but it was interrupted by a translocation involving chromosomes 3 and 5, a new rearrangement for the genus. Also, a transposition on chromosome 2 was found in L. japonicus 'Miyakojima'. Furthermore, changes in the number, size, and position of rDNA sites were observed, as well as an intraspecific size heteromorphism of the 5S rDNA site on L. uliginosus chromosome 6. The karyotype differences observed are proportional to the phylogenetic distance among these species.

  10. Genome-based comparative analyses of Antarctic and temperate species of Paenibacillus.

    Directory of Open Access Journals (Sweden)

    Melissa Dsouza

    Full Text Available Antarctic soils represent a unique environment characterised by extremes of temperature, salinity, elevated UV radiation, low nutrient and low water content. Despite the harshness of this environment, members of 15 bacterial phyla have been identified in soils of the Ross Sea Region (RSR. However, the survival mechanisms and ecological roles of these phyla are largely unknown. The aim of this study was to investigate whether strains of Paenibacillus darwinianus owe their resilience to substantial genomic changes. For this, genome-based comparative analyses were performed on three P. darwinianus strains, isolated from gamma-irradiated RSR soils, together with nine temperate, soil-dwelling Paenibacillus spp. The genome of each strain was sequenced to over 1,000-fold coverage, then assembled into contigs totalling approximately 3 Mbp per genome. Based on the occurrence of essential, single-copy genes, genome completeness was estimated at approximately 88%. Genome analysis revealed between 3,043-3,091 protein-coding sequences (CDSs, primarily associated with two-component systems, sigma factors, transporters, sporulation and genes induced by cold-shock, oxidative and osmotic stresses. These comparative analyses provide an insight into the metabolic potential of P. darwinianus, revealing potential adaptive mechanisms for survival in Antarctic soils. However, a large proportion of these mechanisms were also identified in temperate Paenibacillus spp., suggesting that these mechanisms are beneficial for growth and survival in a range of soil environments. These analyses have also revealed that the P. darwinianus genomes contain significantly fewer CDSs and have a lower paralogous content. Notwithstanding the incompleteness of the assemblies, the large differences in genome sizes, determined by the number of genes in paralogous clusters and the CDS content, are indicative of genome content scaling. Finally, these sequences are a resource for further

  11. Comparative Genomic and Transcriptional Analyses of CRISPR Systems Across the Genus Pyrobaculum

    Directory of Open Access Journals (Sweden)

    David L Bernick

    2012-07-01

    Full Text Available Within the domain Archaea, the CRISPR immune system appears to be nearly ubiquitous based on computational genome analyses. Initial studies in bacteria demonstrated that the CRISPR system targets invading plasmid and viral DNA. Recent experiments in the model archaeon Pyrococcus furiosus uncovered a novel RNA-targeting variant of the CRISPR system potentially unique to archaea. Because our understanding of CRISPR system evolution in other archaea is limited, we have taken a comparative genomic and transcriptomic view of the CRISPR arrays across six diverse species within the crenarchaeal genus Pyrobaculum. We present transcriptional data from each of four species in the genus (P. aerophilum, P. islandicum, P. calidifontis, P. arsenaticum, analyzing mature CRISPR-associated small RNA abundance from over 20 arrays. Within the genus, there is remarkable conservation of CRISPR array structure, as well as unique features that are have not been studied in other archaeal systems. These unique features include: a nearly invariant CRISPR promoter, conservation of direct repeat families, the 5' polarity of CRISPR-associated small RNA abundance, and a novel CRISPR-specific association with homologues of nurA and herA. These analyses provide a genus-level evolutionary perspective on archaeal CRISPR systems, broadening our understanding beyond existing non-comparative model systems.

  12. Parametric analyses of summative scores may lead to conflicting inferences when comparing groups: A simulation study.

    Science.gov (United States)

    Khan, Asaduzzaman; Chien, Chi-Wen; Bagraith, Karl S

    2015-04-01

    To investigate whether using a parametric statistic in comparing groups leads to different conclusions when using summative scores from rating scales compared with using their corresponding Rasch-based measures. A Monte Carlo simulation study was designed to examine between-group differences in the change scores derived from summative scores from rating scales, and those derived from their corresponding Rasch-based measures, using 1-way analysis of variance. The degree of inconsistency between the 2 scoring approaches (i.e. summative and Rasch-based) was examined, using varying sample sizes, scale difficulties and person ability conditions. This simulation study revealed scaling artefacts that could arise from using summative scores rather than Rasch-based measures for determining the changes between groups. The group differences in the change scores were statistically significant for summative scores under all test conditions and sample size scenarios. However, none of the group differences in the change scores were significant when using the corresponding Rasch-based measures. This study raises questions about the validity of the inference on group differences of summative score changes in parametric analyses. Moreover, it provides a rationale for the use of Rasch-based measures, which can allow valid parametric analyses of rating scale data.

  13. Simultaneous detection and quantification of Phytophthora nicotianae and P. cactorum, and distribution analyses in strawberry greenhouses by duplex real-time PCR.

    Science.gov (United States)

    Li, Mingzhu; Inada, Minoru; Watanabe, Hideki; Suga, Haruhisa; Kageyama, Koji

    2013-01-01

    Phytophthora nicotianae and P. cactorum cause Phytophthora rot of strawberry. A duplex real-time PCR technique for simultaneous detection and quantification of the two pathogens was developed. Species-specific primers for P. nicotianae and P. cactorum were designed based on the internal transcribed spacer regions (ITS) of rDNA and the ras-related protein gene Ypt1, respectively. TaqMan probes were labeled with FAM for P. nicotianae and HEX for P. cactorum. Specificities were demonstrated using 52 isolates, including various soil-borne pathogens. Sensitivities for P. nicotianae and P. cactorum DNAs were 10 fg and 1 pg, respectively. The technique was applied to naturally infested soil and root samples; the two pathogens were detected and the target DNA concentrations were quantified. Significant correlations of DNA quantities in roots and the surrounding soils were found. The minimum soil DNA concentration predicting the development of disease symptoms was estimated as 20 pg (g soil)(-1). In three strawberry greenhouses examined, the target DNA concentrations ranged from 1 to 1,655 pg (g soil)(-1) for P. nicotianae and from 13 to 233 pg (g soil)(-1) for P. cactorum. The method proved fast and reliable, and provides a useful tool to monitor P. nicotianae and P. cactorum in plants or soils.

  14. Laparoscopic cholecystectomy under neuraxial anesthesia compared with general anesthesia: Systematic review and meta-analyses.

    Science.gov (United States)

    Longo, Marcelo A; Cavalheiro, Bárbara T; de Oliveira Filho, Getúlio R

    2017-09-01

    Pneumoperitoneum during laparoscopic cholecystectomy (LC) can cause hypercapnia, hypoxemia, hemodynamic changes and shoulder pain. General anesthesia (GA) enables the control of intraoperative pain and ventilation. The need for GA has been questioned by studies suggesting that neuraxial anesthesia (NA) is adequate for LC. To quantify the prevalence of intraoperative pain and to verify whether evidence on the maintenance of ventilation, circulation and surgical anesthesia during NA compared with GA is consistent. Systematic review with meta-analyses. Anesthesia for laparoscopic cholecystectomy. We searched Medline, Cochrane and EBSCO databases up to 2016 for randomized controlled trials that compared LC in the two groups under study, neuraxial (subarachnoid or epidural) and general anesthesia. The primary outcome was the prevalence of intraoperative pain referred to the shoulder in the NA group. Hemodynamic and respiratory outcomes and adverse effects in both groups were also collected. Eleven comparative studies were considered eligible. The pooled prevalence of shoulder pain was 25%. Intraoperative hypotension and bradycardia occurred more frequently in patients who received NA, with a risk ratio of 4.61 (95% confidence interval [CI] 1.70-12.48, p=0.003) and 6.67 (95% CI 2.02-21.96, p=0.002), respectively. Postoperative nausea and vomiting was more prevalent in patients who submitted to GA. The prevalence of postoperative urinary retention did not differ between the techniques. Postoperative headache was more prevalent in patients who received NA, while the postoperative pain intensity was lower in this group. Performing meta-analyses on hypertension, hypercapnia and hypoxemia was not possible. NA as sole anesthetic technique, although feasible for LC, was associated with intraoperative pain referred to the shoulder, required anesthetic conversion in 3.4% of the cases and did not demonstrate evidence of respiratory benefits for patients with normal pulmonary

  15. Comparing methods of analysing datasets with small clusters: case studies using four paediatric datasets.

    Science.gov (United States)

    Marston, Louise; Peacock, Janet L; Yu, Keming; Brocklehurst, Peter; Calvert, Sandra A; Greenough, Anne; Marlow, Neil

    2009-07-01

    Studies of prematurely born infants contain a relatively large percentage of multiple births, so the resulting data have a hierarchical structure with small clusters of size 1, 2 or 3. Ignoring the clustering may lead to incorrect inferences. The aim of this study was to compare statistical methods which can be used to analyse such data: generalised estimating equations, multilevel models, multiple linear regression and logistic regression. Four datasets which differed in total size and in percentage of multiple births (n = 254, multiple 18%; n = 176, multiple 9%; n = 10 098, multiple 3%; n = 1585, multiple 8%) were analysed. With the continuous outcome, two-level models produced similar results in the larger dataset, while generalised least squares multilevel modelling (ML GLS 'xtreg' in Stata) and maximum likelihood multilevel modelling (ML MLE 'xtmixed' in Stata) produced divergent estimates using the smaller dataset. For the dichotomous outcome, most methods, except generalised least squares multilevel modelling (ML GH 'xtlogit' in Stata) gave similar odds ratios and 95% confidence intervals within datasets. For the continuous outcome, our results suggest using multilevel modelling. We conclude that generalised least squares multilevel modelling (ML GLS 'xtreg' in Stata) and maximum likelihood multilevel modelling (ML MLE 'xtmixed' in Stata) should be used with caution when the dataset is small. Where the outcome is dichotomous and there is a relatively large percentage of non-independent data, it is recommended that these are accounted for in analyses using logistic regression with adjusted standard errors or multilevel modelling. If, however, the dataset has a small percentage of clusters greater than size 1 (e.g. a population dataset of children where there are few multiples) there appears to be less need to adjust for clustering.

  16. Emergence and evolutionary analysis of the human DDR network: implications in comparative genomics and downstream analyses.

    Science.gov (United States)

    Arcas, Aida; Fernández-Capetillo, Oscar; Cases, Ildefonso; Rojas, Ana M

    2014-04-01

    The DNA damage response (DDR) is a crucial signaling network that preserves the integrity of the genome. This network is an ensemble of distinct but often overlapping subnetworks, where different components fulfill distinct functions in precise spatial and temporal scenarios. To understand how these elements have been assembled together in humans, we performed comparative genomic analyses in 47 selected species to trace back their emergence using systematic phylogenetic analyses and estimated gene ages. The emergence of the contribution of posttranslational modifications to the complex regulation of DDR was also investigated. This is the first time a systematic analysis has focused on the evolution of DDR subnetworks as a whole. Our results indicate that a DDR core, mostly constructed around metabolic activities, appeared soon after the emergence of eukaryotes, and that additional regulatory capacities appeared later through complex evolutionary process. Potential key posttranslational modifications were also in place then, with interacting pairs preferentially appearing at the same evolutionary time, although modifications often led to the subsequent acquisition of new targets afterwards. We also found extensive gene loss in essential modules of the regulatory network in fungi, plants, and arthropods, important for their validation as model organisms for DDR studies.

  17. A multicassette Gateway vector set for high throughput and comparative analyses in ciona and vertebrate embryos.

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    Agnès Roure

    Full Text Available BACKGROUND: The past few years have seen a vast increase in the amount of genomic data available for a growing number of taxa, including sets of full length cDNA clones and cis-regulatory sequences. Large scale cross-species comparisons of protein function and cis-regulatory sequences may help to understand the emergence of specific traits during evolution. PRINCIPAL FINDINGS: To facilitate such comparisons, we developed a Gateway compatible vector set, which can be used to systematically dissect cis-regulatory sequences, and overexpress wild type or tagged proteins in a variety of chordate systems. It was developed and first characterised in the embryos of the ascidian Ciona intestinalis, in which large scale analyses are easier to perform than in vertebrates, owing to the very efficient embryo electroporation protocol available in this organism. Its use was then extended to fish embryos and cultured mammalian cells. CONCLUSION: This versatile vector set opens the way to the mid- to large-scale comparative analyses of protein function and cis-regulatory sequences across chordate evolution. A complete user manual is provided as supplemental material.

  18. Comparative Genome Analyses of Vibrio anguillarum Strains Reveal a Link with Pathogenicity Traits

    DEFF Research Database (Denmark)

    Castillo, Daniel; D'Alvise, Paul; Xu, Ruiqi

    2017-01-01

    Vibrio anguillarum is a marine bacterium that can cause vibriosis in many fish and shellfish species, leading to high mortalities and economic losses in aquaculture. Although putative virulence factors have been identified, the mechanism of pathogenesis of V. anguillarum is not fully understood....... anguillarum strains that were medium to nonvirulent had a high degree of genomic homogeneity. Finally, we found that a phylogeny based on the core genomes clustered the strains with moderate to no virulence, while six out of nine high-virulence strains represented phylogenetically separate clusters. Hence, we suggest...... be a powerful tool to discover acquisition of mobile genetic elements related to virulence. Here, we compared 28 V. anguillarum strains that differed in virulence in fish larval models. By pan-genome analyses, we found that six of nine highly virulent strains had a unique core and accessory genome. In contrast...

  19. Bootstrap, Bayesian probability and maximum likelihood mapping: exploring new tools for comparative genome analyses

    Directory of Open Access Journals (Sweden)

    Gogarten J Peter

    2002-02-01

    Full Text Available Abstract Background Horizontal gene transfer (HGT played an important role in shaping microbial genomes. In addition to genes under sporadic selection, HGT also affects housekeeping genes and those involved in information processing, even ribosomal RNA encoding genes. Here we describe tools that provide an assessment and graphic illustration of the mosaic nature of microbial genomes. Results We adapted the Maximum Likelihood (ML mapping to the analyses of all detected quartets of orthologous genes found in four genomes. We have automated the assembly and analyses of these quartets of orthologs given the selection of four genomes. We compared the ML-mapping approach to more rigorous Bayesian probability and Bootstrap mapping techniques. The latter two approaches appear to be more conservative than the ML-mapping approach, but qualitatively all three approaches give equivalent results. All three tools were tested on mitochondrial genomes, which presumably were inherited as a single linkage group. Conclusions In some instances of interphylum relationships we find nearly equal numbers of quartets strongly supporting the three possible topologies. In contrast, our analyses of genome quartets containing the cyanobacterium Synechocystis sp. indicate that a large part of the cyanobacterial genome is related to that of low GC Gram positives. Other groups that had been suggested as sister groups to the cyanobacteria contain many fewer genes that group with the Synechocystis orthologs. Interdomain comparisons of genome quartets containing the archaeon Halobacterium sp. revealed that Halobacterium sp. shares more genes with Bacteria that live in the same environment than with Bacteria that are more closely related based on rRNA phylogeny . Many of these genes encode proteins involved in substrate transport and metabolism and in information storage and processing. The performed analyses demonstrate that relationships among prokaryotes cannot be accurately

  20. A modeling approach to compare ΣPCB concentrations between congener-specific analyses

    Science.gov (United States)

    Gibson, Polly P.; Mills, Marc A.; Kraus, Johanna M.; Walters, David M.

    2017-01-01

    Changes in analytical methods over time pose problems for assessing long-term trends in environmental contamination by polychlorinated biphenyls (PCBs). Congener-specific analyses vary widely in the number and identity of the 209 distinct PCB chemical configurations (congeners) that are quantified, leading to inconsistencies among summed PCB concentrations (ΣPCB) reported by different studies. Here we present a modeling approach using linear regression to compare ΣPCB concentrations derived from different congener-specific analyses measuring different co-eluting groups. The approach can be used to develop a specific conversion model between any two sets of congener-specific analytical data from similar samples (similar matrix and geographic origin). We demonstrate the method by developing a conversion model for an example data set that includes data from two different analytical methods, a low resolution method quantifying 119 congeners and a high resolution method quantifying all 209 congeners. We used the model to show that the 119-congener set captured most (93%) of the total PCB concentration (i.e., Σ209PCB) in sediment and biological samples. ΣPCB concentrations estimated using the model closely matched measured values (mean relative percent difference = 9.6). General applications of the modeling approach include (a) generating comparable ΣPCB concentrations for samples that were analyzed for different congener sets; and (b) estimating the proportional contribution of different congener sets to ΣPCB. This approach may be especially valuable for enabling comparison of long-term remediation monitoring results even as analytical methods change over time. 

  1. Comparative phylogeographic analyses illustrate the complex evolutionary history of threatened cloud forests of northern Mesoamerica.

    Directory of Open Access Journals (Sweden)

    Juan Francisco Ornelas

    Full Text Available Comparative phylogeography can elucidate the influence of historical events on current patterns of biodiversity and can identify patterns of co-vicariance among unrelated taxa that span the same geographic areas. Here we analyze temporal and spatial divergence patterns of cloud forest plant and animal species and relate them to the evolutionary history of naturally fragmented cloud forests--among the most threatened vegetation types in northern Mesoamerica. We used comparative phylogeographic analyses to identify patterns of co-vicariance in taxa that share geographic ranges across cloud forest habitats and to elucidate the influence of historical events on current patterns of biodiversity. We document temporal and spatial genetic divergence of 15 species (including seed plants, birds and rodents, and relate them to the evolutionary history of the naturally fragmented cloud forests. We used fossil-calibrated genealogies, coalescent-based divergence time inference, and estimates of gene flow to assess the permeability of putative barriers to gene flow. We also used the hierarchical Approximate Bayesian Computation (HABC method implemented in the program msBayes to test simultaneous versus non-simultaneous divergence of the cloud forest lineages. Our results show shared phylogeographic breaks that correspond to the Isthmus of Tehuantepec, Los Tuxtlas, and the Chiapas Central Depression, with the Isthmus representing the most frequently shared break among taxa. However, dating analyses suggest that the phylogeographic breaks corresponding to the Isthmus occurred at different times in different taxa. Current divergence patterns are therefore consistent with the hypothesis of broad vicariance across the Isthmus of Tehuantepec derived from different mechanisms operating at different times. This study, coupled with existing data on divergence cloud forest species, indicates that the evolutionary history of contemporary cloud forest lineages is complex

  2. Comparative phylogeographic analyses illustrate the complex evolutionary history of threatened cloud forests of northern Mesoamerica.

    Science.gov (United States)

    Ornelas, Juan Francisco; Sosa, Victoria; Soltis, Douglas E; Daza, Juan M; González, Clementina; Soltis, Pamela S; Gutiérrez-Rodríguez, Carla; de los Monteros, Alejandro Espinosa; Castoe, Todd A; Bell, Charles; Ruiz-Sanchez, Eduardo

    2013-01-01

    Comparative phylogeography can elucidate the influence of historical events on current patterns of biodiversity and can identify patterns of co-vicariance among unrelated taxa that span the same geographic areas. Here we analyze temporal and spatial divergence patterns of cloud forest plant and animal species and relate them to the evolutionary history of naturally fragmented cloud forests--among the most threatened vegetation types in northern Mesoamerica. We used comparative phylogeographic analyses to identify patterns of co-vicariance in taxa that share geographic ranges across cloud forest habitats and to elucidate the influence of historical events on current patterns of biodiversity. We document temporal and spatial genetic divergence of 15 species (including seed plants, birds and rodents), and relate them to the evolutionary history of the naturally fragmented cloud forests. We used fossil-calibrated genealogies, coalescent-based divergence time inference, and estimates of gene flow to assess the permeability of putative barriers to gene flow. We also used the hierarchical Approximate Bayesian Computation (HABC) method implemented in the program msBayes to test simultaneous versus non-simultaneous divergence of the cloud forest lineages. Our results show shared phylogeographic breaks that correspond to the Isthmus of Tehuantepec, Los Tuxtlas, and the Chiapas Central Depression, with the Isthmus representing the most frequently shared break among taxa. However, dating analyses suggest that the phylogeographic breaks corresponding to the Isthmus occurred at different times in different taxa. Current divergence patterns are therefore consistent with the hypothesis of broad vicariance across the Isthmus of Tehuantepec derived from different mechanisms operating at different times. This study, coupled with existing data on divergence cloud forest species, indicates that the evolutionary history of contemporary cloud forest lineages is complex and often lineage

  3. Comparative and functional genomic analyses of the pathogenicity of phytopathogen Xanthomonas campestris pv. campestris.

    Science.gov (United States)

    Qian, Wei; Jia, Yantao; Ren, Shuang-Xi; He, Yong-Qiang; Feng, Jia-Xun; Lu, Ling-Feng; Sun, Qihong; Ying, Ge; Tang, Dong-Jie; Tang, Hua; Wu, Wei; Hao, Pei; Wang, Lifeng; Jiang, Bo-Le; Zeng, Shenyan; Gu, Wen-Yi; Lu, Gang; Rong, Li; Tian, Yingchuan; Yao, Zhijian; Fu, Gang; Chen, Baoshan; Fang, Rongxiang; Qiang, Boqin; Chen, Zhu; Zhao, Guo-Ping; Tang, Ji-Liang; He, Chaozu

    2005-06-01

    Xanthomonas campestris pathovar campestris (Xcc) is the causative agent of crucifer black rot disease, which causes severe losses in agricultural yield world-wide. This bacterium is a model organism for studying plant-bacteria interactions. We sequenced the complete genome of Xcc 8004 (5,148,708 bp), which is highly conserved relative to that of Xcc ATCC 33913. Comparative genomics analysis indicated that, in addition to a significant genomic-scale rearrangement cross the replication axis between two IS1478 elements, loss and acquisition of blocks of genes, rather than point mutations, constitute the main genetic variation between the two Xcc strains. Screening of a high-density transposon insertional mutant library (16,512 clones) of Xcc 8004 against a host plant (Brassica oleraceae) identified 75 nonredundant, single-copy insertions in protein-coding sequences (CDSs) and intergenic regions. In addition to known virulence factors, full virulence was found to require several additional metabolic pathways and regulatory systems, such as fatty acid degradation, type IV secretion system, cell signaling, and amino acids and nucleotide metabolism. Among the identified pathogenicity-related genes, three of unknown function were found in Xcc 8004-specific chromosomal segments, revealing a direct correlation between genomic dynamics and Xcc virulence. The present combination of comparative and functional genomic analyses provides valuable information about the genetic basis of Xcc pathogenicity, which may offer novel insight toward the development of efficient methods for prevention of this important plant disease.

  4. Comparative analyses of venoms from American and African Sicarius spiders that differ in sphingomyelinase D activity.

    Science.gov (United States)

    Zobel-Thropp, Pamela A; Bodner, Melissa R; Binford, Greta J

    2010-06-15

    Spider venoms are cocktails of toxic proteins and peptides, whose composition varies at many levels. Understanding patterns of variation in chemistry and bioactivity is fundamental for understanding factors influencing variation. The venom toxin sphingomyelinase D (SMase D) in sicariid spider venom (Loxosceles and Sicarius) causes dermonecrotic lesions in mammals. Multiple forms of venom-expressed genes with homology to SMase D are expressed in venoms of both genera. SMase D activity levels differ among major clades with American Sicarius vastly reduced relative to all Loxosceles and African Sicarius despite expression of SMase D homologs in venoms of American Sicarius. Here we report comparative analyses of protein composition and insecticidal activity of crude venoms from three Sicarius species, two from South Africa and one from Central America. Comparative 2-dimensional electrophoresis shows dense regions of proteins in the size range of SMase D in all three species, but there are differences in sizes and isoelectric points (pIs). Few proteins strictly co-migrate and there are clusters of proteins with similar pIs and molecular weights whose patterns of similarity do not necessarily reflect phylogenetic relatedness. In addition, PD(50) estimates on crickets indicate a small though significant decrease in potency of South American Sicarius venoms relative to African species.

  5. Comparative effectiveness research: using systematic reviews and meta-analyses to synthesize empirical evidence.

    Science.gov (United States)

    Katapodi, Maria C; Northouse, Laurel L

    2011-01-01

    The increased demand for evidence-based health care practices calls for comparative effectiveness research (CER), namely the generation and synthesis of research evidence to compare the benefits and harms of alternative methods of care. A significant contribution of CER is the systematic identification and synthesis of available research studies on a specific topic. The purpose of this article is to provide an overview of methodological issues pertaining to systematic reviews and meta-analyses to be used by investigators with the purpose of conducting CER. A systematic review or meta-analysis is guided by a research protocol, which includes (a) the research question, (b) inclusion and exclusion criteria with respect to the target population and studies, (c) guidelines for obtaining relevant studies, (d) methods for data extraction and coding, (e) methods for data synthesis, and (f) guidelines for reporting results and assessing for bias. This article presents an algorithm for generating evidence-based knowledge by systematically identifying, retrieving, and synthesizing large bodies of research studies. Recommendations for evaluating the strength of evidence, interpreting findings, and discussing clinical applicability are offered.

  6. Comparative analyses of semen and endocrine characteristics of free-living versus captive jaguars (Panthera onca).

    Science.gov (United States)

    Morato, R G; Conforti, V A; Azevedo, F C; Jacomo, A T; Silveira, L; Sana, D; Nunes, A L; Guimarães, M A; Barnabe, R C

    2001-11-01

    Semen and blood samples were obtained from free-living (n = 6) and captive (n = 8) jaguars (Panthera onca) to compare reproductive characteristics between the two populations. Semen samples were analysed for volume (ml), percentage of motile spermatozoa, rate of forward progression (0-5), concentration (10(6) ml(-1)), total sperm count (10(6)) and sperm morphology. Serum testosterone concentration was determined by radioimmunoassay. Although ejaculate volume was greater in captive jaguars (n = 47 samples) than in free-living jaguars (n = 7 samples) (P < 0.05), the free-living jaguars produced more total spermatozoa (59.3 +/- 12.8 versus 152.0 +/- 88.0 x 10(6), respectively; not significant) with better viability and forward progression (2.8 +/- 0.1 versus 3.5 +/- 0.2, respectively; P < 0.05) and more spermatozoa with normal morphology (73.5 +/- 3.9 versus 5.0 +/- 1.1%, respectively; P < 0.05). Serum testosterone concentrations were similar for captive and free-living male jaguars (3.1 +/- 0.7 and 2.1 +/- 0.8 ng ml(-1), respectively). In summary, the data showed that semen may be collected successfully from free-living jaguars and evaluated under field conditions to establish normative reproductive values in this species. The results also indicate that jaguars maintained in zoos show inferior seminal characteristics compared with free-living animals.

  7. Engineering concepts for inflatable Mars surface greenhouses.

    Science.gov (United States)

    Hublitz, I; Henninger, D L; Drake, B G; Eckart, P

    2004-01-01

    A major challenge of designing a bioregenerative life support system for Mars is the reduction of the mass, volume, power, thermal and crew-time requirements. Structural mass of the greenhouse could be saved by operating the greenhouse at low atmospheric pressure. This paper investigates the feasibility of this concept. The method of equivalent system mass is used to compare greenhouses operated at high atmospheric pressure to greenhouses operated at low pressure for three different lighting methods: natural, artificial and hybrid lighting.

  8. Correlation of Klebsiella pneumoniae comparative genetic analyses with virulence profiles in a murine respiratory disease model.

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    Ramy A Fodah

    Full Text Available Klebsiella pneumoniae is a bacterial pathogen of worldwide importance and a significant contributor to multiple disease presentations associated with both nosocomial and community acquired disease. ATCC 43816 is a well-studied K. pneumoniae strain which is capable of causing an acute respiratory disease in surrogate animal models. In this study, we performed sequencing of the ATCC 43816 genome to support future efforts characterizing genetic elements required for disease. Furthermore, we performed comparative genetic analyses to the previously sequenced genomes from NTUH-K2044 and MGH 78578 to gain an understanding of the conservation of known virulence determinants amongst the three strains. We found that ATCC 43816 and NTUH-K2044 both possess the known virulence determinant for yersiniabactin, as well as a Type 4 secretion system (T4SS, CRISPR system, and an acetonin catabolism locus, all absent from MGH 78578. While both NTUH-K2044 and MGH 78578 are clinical isolates, little is known about the disease potential of these strains in cell culture and animal models. Thus, we also performed functional analyses in the murine macrophage cell lines RAW264.7 and J774A.1 and found that MGH 78578 (K52 serotype was internalized at higher levels than ATCC 43816 (K2 and NTUH-K2044 (K1, consistent with previous characterization of the antiphagocytic properties of K1 and K2 serotype capsules. We also examined the three K. pneumoniae strains in a novel BALB/c respiratory disease model and found that ATCC 43816 and NTUH-K2044 are highly virulent (LD50<100 CFU while MGH 78578 is relatively avirulent.

  9. Comparative genomic analyses of nickel, cobalt and vitamin B12 utilization

    Directory of Open Access Journals (Sweden)

    Gelfand Mikhail S

    2009-02-01

    Full Text Available Abstract Background Nickel (Ni and cobalt (Co are trace elements required for a variety of biological processes. Ni is directly coordinated by proteins, whereas Co is mainly used as a component of vitamin B12. Although a number of Ni and Co-dependent enzymes have been characterized, systematic evolutionary analyses of utilization of these metals are limited. Results We carried out comparative genomic analyses to examine occurrence and evolutionary dynamics of the use of Ni and Co at the level of (i transport systems, and (ii metalloproteomes. Our data show that both metals are widely used in bacteria and archaea. Cbi/NikMNQO is the most common prokaryotic Ni/Co transporter, while Ni-dependent urease and Ni-Fe hydrogenase, and B12-dependent methionine synthase (MetH, ribonucleotide reductase and methylmalonyl-CoA mutase are the most widespread metalloproteins for Ni and Co, respectively. Occurrence of other metalloenzymes showed a mosaic distribution and a new B12-dependent protein family was predicted. Deltaproteobacteria and Methanosarcina generally have larger Ni- and Co-dependent proteomes. On the other hand, utilization of these two metals is limited in eukaryotes, and very few of these organisms utilize both of them. The Ni-utilizing eukaryotes are mostly fungi (except saccharomycotina and plants, whereas most B12-utilizing organisms are animals. The NiCoT transporter family is the most widespread eukaryotic Ni transporter, and eukaryotic urease and MetH are the most common Ni- and B12-dependent enzymes, respectively. Finally, investigation of environmental and other conditions and identity of organisms that show dependence on Ni or Co revealed that host-associated organisms (particularly obligate intracellular parasites and endosymbionts have a tendency for loss of Ni/Co utilization. Conclusion Our data provide information on the evolutionary dynamics of Ni and Co utilization and highlight widespread use of these metals in the three

  10. Comparative Genomic and Phylogenomic Analyses Reveal a Conserved Core Genome Shared by Estuarine and Oceanic Cyanopodoviruses

    Science.gov (United States)

    Huang, Sijun; Zhang, Si; Jiao, Nianzhi; Chen, Feng

    2015-01-01

    Podoviruses are among the major viral groups that infect marine picocyanobacteria Prochlorococcus and Synechococcus. Here, we reported the genome sequences of five Synechococcus podoviruses isolated from the estuarine environment, and performed comparative genomic and phylogenomic analyses based on a total of 20 cyanopodovirus genomes. The genomes of all the known marine cyanopodoviruses are highly syntenic. A pan-genome of 349 clustered orthologous groups was determined, among which 15 were core genes. These core genes make up nearly half of each genome in length, reflecting the high level of genome conservation among this cyanophage type. The whole genome phylogenies based on concatenated core genes and gene content were highly consistent and confirmed the separation of two discrete marine cyanopodovirus clusters MPP-A and MPP-B. The genomes within cluster MPP-B grouped into subclusters mainly corresponding to Prochlorococcus or Synechococcus host types. Auxiliary metabolic genes tend to occur in a specific phylogenetic group of these cyanopodoviruses. All the MPP-B phages analyzed here encode the photosynthesis gene psbA, which are absent in all the MPP-A genomes thus far. Interestingly, all the MPP-B and two MPP-A Synechococcus podoviruses encode the thymidylate synthase gene thyX, while at the same genome locus all the MPP-B Prochlorococcus podoviruses encode the transaldolase gene talC. Both genes are hypothesized to have the potential to facilitate the biosynthesis of deoxynucleotide for phage replication. Inheritance of specific functional genes could be important to the evolution and ecological fitness of certain cyanophage genotypes. Our analyses demonstrate that cyanopodoviruses of estuarine and oceanic origins share a conserved core genome and suggest that accessory genes may be related to environmental adaptation. PMID:26569403

  11. Comparative Genomic and Phylogenomic Analyses Reveal a Conserved Core Genome Shared by Estuarine and Oceanic Cyanopodoviruses.

    Directory of Open Access Journals (Sweden)

    Sijun Huang

    Full Text Available Podoviruses are among the major viral groups that infect marine picocyanobacteria Prochlorococcus and Synechococcus. Here, we reported the genome sequences of five Synechococcus podoviruses isolated from the estuarine environment, and performed comparative genomic and phylogenomic analyses based on a total of 20 cyanopodovirus genomes. The genomes of all the known marine cyanopodoviruses are highly syntenic. A pan-genome of 349 clustered orthologous groups was determined, among which 15 were core genes. These core genes make up nearly half of each genome in length, reflecting the high level of genome conservation among this cyanophage type. The whole genome phylogenies based on concatenated core genes and gene content were highly consistent and confirmed the separation of two discrete marine cyanopodovirus clusters MPP-A and MPP-B. The genomes within cluster MPP-B grouped into subclusters mainly corresponding to Prochlorococcus or Synechococcus host types. Auxiliary metabolic genes tend to occur in a specific phylogenetic group of these cyanopodoviruses. All the MPP-B phages analyzed here encode the photosynthesis gene psbA, which are absent in all the MPP-A genomes thus far. Interestingly, all the MPP-B and two MPP-A Synechococcus podoviruses encode the thymidylate synthase gene thyX, while at the same genome locus all the MPP-B Prochlorococcus podoviruses encode the transaldolase gene talC. Both genes are hypothesized to have the potential to facilitate the biosynthesis of deoxynucleotide for phage replication. Inheritance of specific functional genes could be important to the evolution and ecological fitness of certain cyanophage genotypes. Our analyses demonstrate that cyanopodoviruses of estuarine and oceanic origins share a conserved core genome and suggest that accessory genes may be related to environmental adaptation.

  12. Comparative Analyses of QTLs Influencing Obesity and Metabolic Phenotypes in Pigs and Humans.

    Directory of Open Access Journals (Sweden)

    Sameer D Pant

    Full Text Available The pig is a well-known animal model used to investigate genetic and mechanistic aspects of human disease biology. They are particularly useful in the context of obesity and metabolic diseases because other widely used models (e.g. mice do not completely recapitulate key pathophysiological features associated with these diseases in humans. Therefore, we established a F2 pig resource population (n = 564 designed to elucidate the genetics underlying obesity and metabolic phenotypes. Segregation of obesity traits was ensured by using breeds highly divergent with respect to obesity traits in the parental generation. Several obesity and metabolic phenotypes were recorded (n = 35 from birth to slaughter (242 ± 48 days, including body composition determined at about two months of age (63 ± 10 days via dual-energy x-ray absorptiometry (DXA scanning. All pigs were genotyped using Illumina Porcine 60k SNP Beadchip and a combined linkage disequilibrium-linkage analysis was used to identify genome-wide significant associations for collected phenotypes. We identified 229 QTLs which associated with adiposity- and metabolic phenotypes at genome-wide significant levels. Subsequently comparative analyses were performed to identify the extent of overlap between previously identified QTLs in both humans and pigs. The combined analysis of a large number of obesity phenotypes has provided insight in the genetic architecture of the molecular mechanisms underlying these traits indicating that QTLs underlying similar phenotypes are clustered in the genome. Our analyses have further confirmed that genetic heterogeneity is an inherent characteristic of obesity traits most likely caused by segregation or fixation of different variants of the individual components belonging to cellular pathways in different populations. Several important genes previously associated to obesity in human studies, along with novel genes were identified. Altogether, this study provides novel

  13. Comparative genomic analyses of nickel, cobalt and vitamin B12 utilization

    Science.gov (United States)

    Zhang, Yan; Rodionov, Dmitry A; Gelfand, Mikhail S; Gladyshev, Vadim N

    2009-01-01

    Background Nickel (Ni) and cobalt (Co) are trace elements required for a variety of biological processes. Ni is directly coordinated by proteins, whereas Co is mainly used as a component of vitamin B12. Although a number of Ni and Co-dependent enzymes have been characterized, systematic evolutionary analyses of utilization of these metals are limited. Results We carried out comparative genomic analyses to examine occurrence and evolutionary dynamics of the use of Ni and Co at the level of (i) transport systems, and (ii) metalloproteomes. Our data show that both metals are widely used in bacteria and archaea. Cbi/NikMNQO is the most common prokaryotic Ni/Co transporter, while Ni-dependent urease and Ni-Fe hydrogenase, and B12-dependent methionine synthase (MetH), ribonucleotide reductase and methylmalonyl-CoA mutase are the most widespread metalloproteins for Ni and Co, respectively. Occurrence of other metalloenzymes showed a mosaic distribution and a new B12-dependent protein family was predicted. Deltaproteobacteria and Methanosarcina generally have larger Ni- and Co-dependent proteomes. On the other hand, utilization of these two metals is limited in eukaryotes, and very few of these organisms utilize both of them. The Ni-utilizing eukaryotes are mostly fungi (except saccharomycotina) and plants, whereas most B12-utilizing organisms are animals. The NiCoT transporter family is the most widespread eukaryotic Ni transporter, and eukaryotic urease and MetH are the most common Ni- and B12-dependent enzymes, respectively. Finally, investigation of environmental and other conditions and identity of organisms that show dependence on Ni or Co revealed that host-associated organisms (particularly obligate intracellular parasites and endosymbionts) have a tendency for loss of Ni/Co utilization. Conclusion Our data provide information on the evolutionary dynamics of Ni and Co utilization and highlight widespread use of these metals in the three domains of life, yet only a

  14. Comparative Genome Analyses of Vibrio anguillarum Strains Reveal a Link with Pathogenicity Traits

    Science.gov (United States)

    Castillo, Daniel; Alvise, Paul D.; Xu, Ruiqi; Zhang, Faxing; Middelboe, Mathias

    2017-01-01

    ABSTRACT Vibrio anguillarum is a marine bacterium that can cause vibriosis in many fish and shellfish species, leading to high mortalities and economic losses in aquaculture. Although putative virulence factors have been identified, the mechanism of pathogenesis of V. anguillarum is not fully understood. Here, we analyzed whole-genome sequences of a collection of V. anguillarum strains and compared them to virulence of the strains as determined in larval challenge assays. Previously identified virulence factors were globally distributed among the strains, with some genetic diversity. However, the pan-genome revealed that six out of nine high-virulence strains possessed a unique accessory genome that was attributed to pathogenic genomic islands, prophage-like elements, virulence factors, and a new set of gene clusters involved in biosynthesis, modification, and transport of polysaccharides. In contrast, V. anguillarum strains that were medium to nonvirulent had a high degree of genomic homogeneity. Finally, we found that a phylogeny based on the core genomes clustered the strains with moderate to no virulence, while six out of nine high-virulence strains represented phylogenetically separate clusters. Hence, we suggest a link between genotype and virulence characteristics of Vibrio anguillarum, which can be used to unravel the molecular evolution of V. anguillarum and can also be important from survey and diagnostic perspectives. IMPORTANCE Comparative genome analysis of strains of a pathogenic bacterial species can be a powerful tool to discover acquisition of mobile genetic elements related to virulence. Here, we compared 28 V. anguillarum strains that differed in virulence in fish larval models. By pan-genome analyses, we found that six of nine highly virulent strains had a unique core and accessory genome. In contrast, V. anguillarum strains that were medium to nonvirulent had low genomic diversity. Integration of genomic and phenotypic features provides

  15. Creating global comparative analyses of tectonic rifts, monogenetic volcanism and inverted relief

    Science.gov (United States)

    van Wyk de Vries, Benjamin

    2016-04-01

    I have been all around the world, and to other planets and have travelled from the present to the Archaean and back to seek out the most significant tectonic rifts, monogenetic volcanoes and examples of inverted relief. I have done this to provide a broad foundation of the comparative analysis for the Chaîne des Puys - Limagne fault nomination to UNESCO world Heritage. This would have been an impossible task, if not for the cooperation of the scientific community and for Google Earth, Google Maps and academic search engines. In preparing global comparisons of geological features, these quite recently developed tools provide a powerful way to find and describe geological features. The ability to do scientific crowd sourcing, rapidly discussing with colleagues about features, allows large numbers of areas to be checked and the open GIS tools (such as Google Earth) allow a standardised description. Search engines also allow the literature on areas to be checked and compared. I will present a comparative study of rifts of the world, monogenetic volcanic field and inverted relief, integrated to analyse the full geological system represented by the Chaîne des Puys - Limagne fault. The analysis confirms that the site is an exceptional example of the first steps of continental drift in a mountain rift setting, and that this is necessarily seen through the combined landscape of tectonic, volcanic and geomorphic features. The analysis goes further to deepen the understanding of geological systems and stresses the need for more study on geological heritage using such a global and broad systems approach.

  16. Comparative Genome Analyses of Vibrio anguillarum Strains Reveal a Link with Pathogenicity Traits.

    Science.gov (United States)

    Castillo, Daniel; Alvise, Paul D; Xu, Ruiqi; Zhang, Faxing; Middelboe, Mathias; Gram, Lone

    2017-01-01

    Vibrio anguillarum is a marine bacterium that can cause vibriosis in many fish and shellfish species, leading to high mortalities and economic losses in aquaculture. Although putative virulence factors have been identified, the mechanism of pathogenesis of V. anguillarum is not fully understood. Here, we analyzed whole-genome sequences of a collection of V. anguillarum strains and compared them to virulence of the strains as determined in larval challenge assays. Previously identified virulence factors were globally distributed among the strains, with some genetic diversity. However, the pan-genome revealed that six out of nine high-virulence strains possessed a unique accessory genome that was attributed to pathogenic genomic islands, prophage-like elements, virulence factors, and a new set of gene clusters involved in biosynthesis, modification, and transport of polysaccharides. In contrast, V. anguillarum strains that were medium to nonvirulent had a high degree of genomic homogeneity. Finally, we found that a phylogeny based on the core genomes clustered the strains with moderate to no virulence, while six out of nine high-virulence strains represented phylogenetically separate clusters. Hence, we suggest a link between genotype and virulence characteristics of Vibrio anguillarum, which can be used to unravel the molecular evolution of V. anguillarum and can also be important from survey and diagnostic perspectives. IMPORTANCE Comparative genome analysis of strains of a pathogenic bacterial species can be a powerful tool to discover acquisition of mobile genetic elements related to virulence. Here, we compared 28 V. anguillarum strains that differed in virulence in fish larval models. By pan-genome analyses, we found that six of nine highly virulent strains had a unique core and accessory genome. In contrast, V. anguillarum strains that were medium to nonvirulent had low genomic diversity. Integration of genomic and phenotypic features provides insights

  17. Comparative genome analyses reveal distinct structure in the saltwater crocodile MHC.

    Science.gov (United States)

    Jaratlerdsiri, Weerachai; Deakin, Janine; Godinez, Ricardo M; Shan, Xueyan; Peterson, Daniel G; Marthey, Sylvain; Lyons, Eric; McCarthy, Fiona M; Isberg, Sally R; Higgins, Damien P; Chong, Amanda Y; John, John St; Glenn, Travis C; Ray, David A; Gongora, Jaime

    2014-01-01

    The major histocompatibility complex (MHC) is a dynamic genome region with an essential role in the adaptive immunity of vertebrates, especially antigen presentation. The MHC is generally divided into subregions (classes I, II and III) containing genes of similar function across species, but with different gene number and organisation. Crocodylia (crocodilians) are widely distributed and represent an evolutionary distinct group among higher vertebrates, but the genomic organisation of MHC within this lineage has been largely unexplored. Here, we studied the MHC region of the saltwater crocodile (Crocodylus porosus) and compared it with that of other taxa. We characterised genomic clusters encompassing MHC class I and class II genes in the saltwater crocodile based on sequencing of bacterial artificial chromosomes. Six gene clusters spanning ∼452 kb were identified to contain nine MHC class I genes, six MHC class II genes, three TAP genes, and a TRIM gene. These MHC class I and class II genes were in separate scaffold regions and were greater in length (2-6 times longer) than their counterparts in well-studied fowl B loci, suggesting that the compaction of avian MHC occurred after the crocodilian-avian split. Comparative analyses between the saltwater crocodile MHC and that from the alligator and gharial showed large syntenic areas (>80% identity) with similar gene order. Comparisons with other vertebrates showed that the saltwater crocodile had MHC class I genes located along with TAP, consistent with birds studied. Linkage between MHC class I and TRIM39 observed in the saltwater crocodile resembled MHC in eutherians compared, but absent in avian MHC, suggesting that the saltwater crocodile MHC appears to have gene organisation intermediate between these two lineages. These observations suggest that the structure of the saltwater crocodile MHC, and other crocodilians, can help determine the MHC that was present in the ancestors of archosaurs.

  18. Comparative genome analyses reveal distinct structure in the saltwater crocodile MHC.

    Directory of Open Access Journals (Sweden)

    Weerachai Jaratlerdsiri

    Full Text Available The major histocompatibility complex (MHC is a dynamic genome region with an essential role in the adaptive immunity of vertebrates, especially antigen presentation. The MHC is generally divided into subregions (classes I, II and III containing genes of similar function across species, but with different gene number and organisation. Crocodylia (crocodilians are widely distributed and represent an evolutionary distinct group among higher vertebrates, but the genomic organisation of MHC within this lineage has been largely unexplored. Here, we studied the MHC region of the saltwater crocodile (Crocodylus porosus and compared it with that of other taxa. We characterised genomic clusters encompassing MHC class I and class II genes in the saltwater crocodile based on sequencing of bacterial artificial chromosomes. Six gene clusters spanning ∼452 kb were identified to contain nine MHC class I genes, six MHC class II genes, three TAP genes, and a TRIM gene. These MHC class I and class II genes were in separate scaffold regions and were greater in length (2-6 times longer than their counterparts in well-studied fowl B loci, suggesting that the compaction of avian MHC occurred after the crocodilian-avian split. Comparative analyses between the saltwater crocodile MHC and that from the alligator and gharial showed large syntenic areas (>80% identity with similar gene order. Comparisons with other vertebrates showed that the saltwater crocodile had MHC class I genes located along with TAP, consistent with birds studied. Linkage between MHC class I and TRIM39 observed in the saltwater crocodile resembled MHC in eutherians compared, but absent in avian MHC, suggesting that the saltwater crocodile MHC appears to have gene organisation intermediate between these two lineages. These observations suggest that the structure of the saltwater crocodile MHC, and other crocodilians, can help determine the MHC that was present in the ancestors of archosaurs.

  19. Une analyse comparative de l'impact sur l'emploi d'une installation de chauffage au bois

    Directory of Open Access Journals (Sweden)

    Schaar C.

    2005-01-01

    Full Text Available A comparative analysis of the impact on employment of a wood-based heating system. The wood-energy potential is important in Wallonia (Belgium. Utilization of fuel wood in heating plants decreases the greenhouse gases emissions, but, more importantly, leads to jobs creation – direct jobs linked to the operation of a heating plant, indirect jobs linked to the implementation of a plant. An evaluation of direct jobs created by a 585 kW wood heating plant has been conducted on the basis of a wood supply with logging residues and short rotation coppices and has been compared to direct jobs created by a fuel oil heating system. Economic secondary effects of new jobs (net employment created by fuel wood supply chains are assessed.

  20. Comparative CFD analyses of liquid metal cooled reactor for lunar surface power

    Energy Technology Data Exchange (ETDEWEB)

    Schriener, Timothy M. [Institute for Space and Nuclear Power Studies, University of New Mexico, Albuquerque, NM (United States); Chemical and Nuclear Engineering Department, University of New Mexico, Albuquerque, NM (United States); El-Genk, Mohamed S., E-mail: mgenk@unm.edu [Institute for Space and Nuclear Power Studies, University of New Mexico, Albuquerque, NM (United States); Chemical and Nuclear Engineering Department, University of New Mexico, Albuquerque, NM (United States); Mechanical Engineering Department, University of New Mexico, Albuquerque, NM (United States)

    2014-12-15

    Highlights: • Performed 3-D thermal-hydraulics analyses of a NaK-56 cooled, sector core reactor for lunar surface power. • Investigated effects mesh refinements and choice of two-layer k–ε and SST k–ω models on results. • Choice of turbulence model slightly affects calculated temperatures and velocities. • Estimates of pressure losses require a finer mesh for convergence than temperature and velocities fields. • SST k–ω model provides more details of mixing eddies, but requires more computation time. - Abstract: This paper presents the results of comparative CFD and thermal-hydraulics analyses of the Solid Core–Sectored Compact Reactor (SC-SCoRe) for lunar surface power. This fast-neutron spectrum, liquid NaK-56 cooled reactor is loaded with highly enriched UN fuel. It nominally generates 1.0 MW{sub th} for ∼21 full-power years at NaK-56 inlet and exit temperatures of 850 K and 900 K. The analyses examine the realizable two-layer k–ε and the Shear Stress Transport (SST) k–ω turbulence models, with different numerical mesh refinements, for simulating the performance of the SC-SCoRe core during nominal operation as well as investigate the effect on the computation time and calculated parameters. In addition, the results calculated for a single tri-lobe flow channel are compared to those obtained using the Detached Eddy Simulation (DES), a hybrid LES and RANS turbulence model. The numerical mesh refinement beyond 2 × 10{sup 7} cells in the flow channels and the choice of turbulence model slightly affect the calculated fuel, core structure, and liquid metal temperatures. They more strongly affect the pressure losses and the intensity of flow mixing and the formation of turbulence eddies in the inlet and exit plenums and exit duct. With the same numerical mesh refinements, the total computation time with the k–ω model is 40–120% longer than with the k-ε model, while the calculated operation parameters are almost identical. The flow

  1. Comparative transcriptomic analyses of vegetable and grain pea (Pisum sativum L. seed development

    Directory of Open Access Journals (Sweden)

    Na eLiu

    2015-11-01

    Full Text Available Understanding the molecular mechanisms regulating pea seed developmental process is extremely important for pea breeding. In this study, we used high-throughput RNA-Seq and bioinformatics analyses to examine the changes in gene expression during seed development in vegetable pea and grain pea, and compare the gene expression profiles of these two pea types. RNA-Seq generated 18.7 G of raw data, which were then de novo assembled into 77,273 unigenes with a mean length of 930 bp. Our results illustrate that transcriptional control during pea seed development is a highly coordinated process. There were 459 and 801 genes differentially expressed at early and late seed maturation stages between vegetable pea and grain pea, respectively. Soluble sugar and starch metabolism related genes were significantly activated during the development of pea seeds coinciding with the onset of accumulation of sugar and starch in the seeds. A comparative analysis of genes involved in sugar and starch biosynthesis in vegetable pea (high seed soluble sugar and low starch and grain pea (high seed starch and low soluble sugar revealed that differential expression of related genes at late development stages results in a negative correlation between soluble sugar and starch biosynthetic flux in vegetable and grain pea seeds. RNA-Seq data was validated by using real-time quantitative RT-PCR analysis for 30 randomly selected genes. To our knowledge, this work represents the first report of seed development transcriptomics in pea. The obtained results provide a foundation to support future efforts to unravel the underlying mechanisms that control the developmental biology of pea seeds, and serve as a valuable resource for improving pea breeding.

  2. Comparative analyses of glass fragments from brittle fracture experiments and volcanic ash particles

    Science.gov (United States)

    Dürig, Tobias; Mele, Daniela; Dellino, Pierfrancesco; Zimanowski, Bernd

    2012-04-01

    Explosive volcanic eruptions are characterized by the rapid fragmentation of a magmatic melt into ash particles. In order to describe the energy dissipation during fragmentation it is important to understand the mechanism of material failure. A quantitative description of fragmentation is only possible under controlled laboratory conditions. Industrial silicate glasses have a high structural affinity with magmatic melts and have the advantage of being transparent, which allows the study of the evolution of fractures by optical methods on a time scale relevant for explosive volcanism. With this aim, a series of low speed edge-on hammer impact experiments on silicate glass targets has been conducted, leading to the generation of fragments in the grain-size spectra of volcanic ash. In order to verify the general transferability of the experimentally generated fragmentation dynamics to volcanic processes, the resulting products were compared, by means of statistical particle-shape analyses, to particles produced by standardized magma fragmentation experiments and to natural ash particles coming from deposits of basaltic and rhyolitic compositions from the 2004 Grimsvötn and the Quaternary Tepexitl tuff-ring eruptions, respectively. Natural ash particles from both Grimsvötn and Tepexitl show significant similarities with experimental fragments of thermally pre-stressed float glasses, indicating a dominant influence of preexisting stresses on particle shape and suggesting analogous fragmentation processes within the studied materials.

  3. The Plant Ontology as a Tool for Comparative Plant Anatomy and Genomic Analyses

    Science.gov (United States)

    Cooper, Laurel; Walls, Ramona L.; Elser, Justin; Gandolfo, Maria A.; Stevenson, Dennis W.; Smith, Barry; Preece, Justin; Athreya, Balaji; Mungall, Christopher J.; Rensing, Stefan; Hiss, Manuel; Lang, Daniel; Reski, Ralf; Berardini, Tanya Z.; Li, Donghui; Huala, Eva; Schaeffer, Mary; Menda, Naama; Arnaud, Elizabeth; Shrestha, Rosemary; Yamazaki, Yukiko; Jaiswal, Pankaj

    2013-01-01

    The Plant Ontology (PO; http://www.plantontology.org/) is a publicly available, collaborative effort to develop and maintain a controlled, structured vocabulary (‘ontology’) of terms to describe plant anatomy, morphology and the stages of plant development. The goals of the PO are to link (annotate) gene expression and phenotype data to plant structures and stages of plant development, using the data model adopted by the Gene Ontology. From its original design covering only rice, maize and Arabidopsis, the scope of the PO has been expanded to include all green plants. The PO was the first multispecies anatomy ontology developed for the annotation of genes and phenotypes. Also, to our knowledge, it was one of the first biological ontologies that provides translations (via synonyms) in non-English languages such as Japanese and Spanish. As of Release #18 (July 2012), there are about 2.2 million annotations linking PO terms to >110,000 unique data objects representing genes or gene models, proteins, RNAs, germplasm and quantitative trait loci (QTLs) from 22 plant species. In this paper, we focus on the plant anatomical entity branch of the PO, describing the organizing principles, resources available to users and examples of how the PO is integrated into other plant genomics databases and web portals. We also provide two examples of comparative analyses, demonstrating how the ontology structure and PO-annotated data can be used to discover the patterns of expression of the LEAFY (LFY) and terpene synthase (TPS) gene homologs. PMID:23220694

  4. The plant ontology as a tool for comparative plant anatomy and genomic analyses.

    Science.gov (United States)

    Cooper, Laurel; Walls, Ramona L; Elser, Justin; Gandolfo, Maria A; Stevenson, Dennis W; Smith, Barry; Preece, Justin; Athreya, Balaji; Mungall, Christopher J; Rensing, Stefan; Hiss, Manuel; Lang, Daniel; Reski, Ralf; Berardini, Tanya Z; Li, Donghui; Huala, Eva; Schaeffer, Mary; Menda, Naama; Arnaud, Elizabeth; Shrestha, Rosemary; Yamazaki, Yukiko; Jaiswal, Pankaj

    2013-02-01

    The Plant Ontology (PO; http://www.plantontology.org/) is a publicly available, collaborative effort to develop and maintain a controlled, structured vocabulary ('ontology') of terms to describe plant anatomy, morphology and the stages of plant development. The goals of the PO are to link (annotate) gene expression and phenotype data to plant structures and stages of plant development, using the data model adopted by the Gene Ontology. From its original design covering only rice, maize and Arabidopsis, the scope of the PO has been expanded to include all green plants. The PO was the first multispecies anatomy ontology developed for the annotation of genes and phenotypes. Also, to our knowledge, it was one of the first biological ontologies that provides translations (via synonyms) in non-English languages such as Japanese and Spanish. As of Release #18 (July 2012), there are about 2.2 million annotations linking PO terms to >110,000 unique data objects representing genes or gene models, proteins, RNAs, germplasm and quantitative trait loci (QTLs) from 22 plant species. In this paper, we focus on the plant anatomical entity branch of the PO, describing the organizing principles, resources available to users and examples of how the PO is integrated into other plant genomics databases and web portals. We also provide two examples of comparative analyses, demonstrating how the ontology structure and PO-annotated data can be used to discover the patterns of expression of the LEAFY (LFY) and terpene synthase (TPS) gene homologs.

  5. Comparative transcriptomics analyses of the different growth states of multidrug-resistant Acinetobacter baumannii.

    Science.gov (United States)

    Li, Shuai; Li, Haitao; Qi, Tianjie; Yan, Xixin; Wang, Boli; Guan, Jitao; Li, Yu

    2017-01-01

    Multidrug-resistant (MDR) Acinetobacter baumannii is an important bacterial pathogen commonly associated with hospital acquired infections. A. baumannii can remain viable and hence virulent in the environment for a long period of time due primarily to its ability to form biofilms. A total of 459 cases of MDR A. baumannii our hospital collected from March 2014 to March 2015 were examined in this study, and a representative isolate selected for high-throughput mRNA sequencing and comparison of gene expression profiles under the biofilm and exponential growth conditions. Our study found that the same bacteria indeed exhibited differential mRNA expression under different conditions. Compared to the rapidly growing bacteria, biofilm bacteria had 106 genes upregulated and 92 genes downregulated. Bioinformatics analyses suggested that many of these genes are involved in the formation and maintenance of biofilms, whose expression also depends on the environment and specific signaling pathways and transcription factors that are absent in the log phase bacteria. These differentially expressed mRNAs might contribute to A. baumannii's unique pathogenicity and ability to inflict chronic and recurrent infections.

  6. Evolutionary trajectories of snake genes and genomes revealed by comparative analyses of five-pacer viper

    Science.gov (United States)

    Yin, Wei; Wang, Zong-ji; Li, Qi-ye; Lian, Jin-ming; Zhou, Yang; Lu, Bing-zheng; Jin, Li-jun; Qiu, Peng-xin; Zhang, Pei; Zhu, Wen-bo; Wen, Bo; Huang, Yi-jun; Lin, Zhi-long; Qiu, Bi-tao; Su, Xing-wen; Yang, Huan-ming; Zhang, Guo-jie; Yan, Guang-mei; Zhou, Qi

    2016-01-01

    Snakes have numerous features distinctive from other tetrapods and a rich history of genome evolution that is still obscure. Here, we report the high-quality genome of the five-pacer viper, Deinagkistrodon acutus, and comparative analyses with other representative snake and lizard genomes. We map the evolutionary trajectories of transposable elements (TEs), developmental genes and sex chromosomes onto the snake phylogeny. TEs exhibit dynamic lineage-specific expansion, and many viper TEs show brain-specific gene expression along with their nearby genes. We detect signatures of adaptive evolution in olfactory, venom and thermal-sensing genes and also functional degeneration of genes associated with vision and hearing. Lineage-specific relaxation of functional constraints on respective Hox and Tbx limb-patterning genes supports fossil evidence for a successive loss of forelimbs then hindlimbs during snake evolution. Finally, we infer that the ZW sex chromosome pair had undergone at least three recombination suppression events in the ancestor of advanced snakes. These results altogether forge a framework for our deep understanding into snakes' history of molecular evolution. PMID:27708285

  7. Comparative Proteomic Analyses of the Hybrid Yellow-Poplar Stigma upon Pollination

    Institute of Scientific and Technical Information of China (English)

    Ming Li; Kun Wang; Pingfang Yang

    2012-01-01

    As basal angiosperm,Liriodendron chinense (Hemsl.) Sarg.and Liriodendron tulipifera Linn.are two species belong to Liriodendron genus.Hybrid yellowpoplar was obtained through crossing between Liriodendron tulipifera Linn.x L.chinense(Hemsl.) Sarg.Although hybrid yellow-poplar was strong in both growth and adaptation,its fruiting rate was as low as its parents.In this study,we profiled the proteome in hybrid yellow-poplar stigma before and after pollination.Comparative analyses of two dimensional gel electrophoresis maps from un-pollinated and pollinated stigmas showed that 30 proteins were increased and 27 proteins decreased after pollination.Functional categorization showed that most of them were metabolism-related,stress response related and protein biosynthesis,degradation and destinationrelated proteins.Also there were some redox-related and cell signaling-related proteins.All these changed proteins might involve in or affect the pollen and stigma interaction in hybrid yellow-poplar.This study will be helpful in understanding the regulation of Liriodendron genus sexual reproduction.

  8. Comparative analyses of the thermodynamic RNA binding signatures of different types of RNA recognition motifs

    Science.gov (United States)

    Cléry, Antoine; Allain, Frédéric H-T

    2017-01-01

    Abstract RNA recognition motifs (RRMs) are structurally versatile domains important in regulation of alternative splicing. Structural mechanisms of sequence-specific recognition of single-stranded RNAs (ssRNAs) by RRMs are well understood. The thermodynamic strategies are however unclear. Therefore, we utilized microcalorimetry and semi-empirical analyses to comparatively analyze the cognate ssRNA binding thermodynamics of four different RRM domains, each with a different RNA binding mode. The different binding modes are: canonical binding to the β-sheet surface; canonical binding with involvement of N- and C-termini; binding to conserved loops; and binding to an α-helix. Our results identify enthalpy as the sole and general force driving association at physiological temperatures. Also, networks of weak interactions are a general feature regulating stability of the different RRM–ssRNA complexes. In agreement, non-polyelectrolyte effects contributed between ∼75 and 90% of the overall free energy of binding in the considered complexes. The various RNA binding modes also displayed enormous heat capacity differences, that upon dissection revealed large differential changes in hydration, conformations and dynamics upon binding RNA. Altogether, different modes employed by RRMs to bind cognate ssRNAs utilize various thermodynamics strategies during the association process. PMID:28334819

  9. Taking a comparative approach: analysing personality as a multivariate behavioural response across species.

    Directory of Open Access Journals (Sweden)

    Alecia J Carter

    Full Text Available Animal personality, repeatable behaviour through time and across contexts, is ecologically and evolutionarily important as it can account for the exhibition of sub-optimal behaviours. Interspecific comparisons have been suggested as important for understanding the evolution of animal personality; however, these are seldom accomplished due, in part, to the lack of statistical tools for quantifying differences and similarities in behaviour between groups of individuals. We used nine species of closely-related coral reef fishes to investigate the usefulness of ecological community analyses for the analysis of between-species behavioural differences and behavioural heterogeneity. We first documented behavioural carryover across species by observing the fishes' behaviour and measuring their response to a threatening stimulus to quantify boldness. Bold fish spent more time away from the reef and fed more than shy fish. We then used ecological community analysis tools (canonical variate analysis, multi-response permutation procedure, and permutational analysis of multivariate dispersion and identified four 'clusters' of behaviourally similar fishes, and found that the species differ in the behavioural variation expressed; some species are more behaviourally heterogeneous than others. We found that ecological community analysis tools are easily and fruitfully applied to comparative studies of personality and encourage their use by future studies.

  10. Cloning and comparative analyses of the zebrafish Ugt repertoire reveal its evolutionary diversity.

    Directory of Open Access Journals (Sweden)

    Haiyan Huang

    Full Text Available UDP-glucuronosyltransferases (Ugts are a supergene family of phase II drug-metabolizing enzymes that catalyze the conjugation of numerous hydrophobic small molecules with the UDP-glucuronic acid, converting them into hydrophilic molecules. Here, we report the identification and cloning of the complete zebrafish Ugt gene repertoire. We found that the zebrafish genome contains 45 Ugt genes that can be divided into three families: Ugt1, Ugt2, and Ugt5. Both Ugt1 and Ugt2 have two unlinked clusters: a and b. The Ugt1a, Ugt1b, Ugt2a, and Ugt2b clusters each contain variable and constant regions, similar to that of the protocadherin (Pcdh, immunoglobulin (Ig, and T-cell receptor (Tcr clusters. Cloning the full-length coding sequences confirmed that each of the variable exons is separately spliced to the set of constant exons within each zebrafish Ugt cluster. Comparative analyses showed that both a and b clusters of the zebrafish Ugt1 and Ugt2 genes have orthologs in other teleosts, suggesting that they may be resulted from the "fish-specific" whole-genome duplication event. The Ugt5 genes are a novel family of Ugt genes that exist in teleosts and amphibians. Their entire open reading frames are encoded by single large exons. The zebrafish Ugt1, Ugt2, and Ugt5 genes can generate additional transcript diversity through alternative splicing. Based on phylogenetic analyses, we propose that the ancestral tetrapod and teleost Ugt1 clusters contained multiple Ugt1 paralogs. After speciation, these ancestral Ugt1 clusters underwent lineage-specific gene loss and duplication. The ancestral vertebrate Ugt2 cluster also underwent lineage-specific duplication. The intronless Ugt5 open reading frames may be derived from retrotransposition followed by gene duplication. They have been expanded dramatically in teleosts and have become the most abundant Ugt family in these lineages. These findings have interesting implications regarding the molecular evolution of

  11. Comparative chloroplast genomics: analyses including new sequences from the angiosperms Nuphar advena and Ranunculus macranthus

    Directory of Open Access Journals (Sweden)

    Boore Jeffrey L

    2007-06-01

    Full Text Available Abstract Background The number of completely sequenced plastid genomes available is growing rapidly. This array of sequences presents new opportunities to perform comparative analyses. In comparative studies, it is often useful to compare across wide phylogenetic spans and, within angiosperms, to include representatives from basally diverging lineages such as the genomes reported here: Nuphar advena (from a basal-most lineage and Ranunculus macranthus (a basal eudicot. We report these two new plastid genome sequences and make comparisons (within angiosperms, seed plants, or all photosynthetic lineages to evaluate features such as the status of ycf15 and ycf68 as protein coding genes, the distribution of simple sequence repeats (SSRs and longer dispersed repeats (SDR, and patterns of nucleotide composition. Results The Nuphar [GenBank:NC_008788] and Ranunculus [GenBank:NC_008796] plastid genomes share characteristics of gene content and organization with many other chloroplast genomes. Like other plastid genomes, these genomes are A+T-rich, except for rRNA and tRNA genes. Detailed comparisons of Nuphar with Nymphaea, another Nymphaeaceae, show that more than two-thirds of these genomes exhibit at least 95% sequence identity and that most SSRs are shared. In broader comparisons, SSRs vary among genomes in terms of abundance and length and most contain repeat motifs based on A and T nucleotides. Conclusion SSR and SDR abundance varies by genome and, for SSRs, is proportional to genome size. Long SDRs are rare in the genomes assessed. SSRs occur less frequently than predicted and, although the majority of the repeat motifs do include A and T nucleotides, the A+T bias in SSRs is less than that predicted from the underlying genomic nucleotide composition. In codon usage third positions show an A+T bias, however variation in codon usage does not correlate with differences in A+T-richness. Thus, although plastome nucleotide composition shows "A

  12. Comparative modeling analyses of Cs-137 fate in the rivers impacted by Chernobyl and Fukushima accidents

    Energy Technology Data Exchange (ETDEWEB)

    Zheleznyak, M.; Kivva, S. [Institute of Environmental Radioactivity, Fukushima University (Japan)

    2014-07-01

    The consequences of two largest nuclear accidents of the last decades - at Chernobyl Nuclear Power Plant (ChNPP) (1986) and at Fukushima Daiichi NPP (FDNPP) (2011) clearly demonstrated that radioactive contamination of water bodies in vicinity of NPP and on the waterways from it, e.g., river- reservoir water after Chernobyl accident and rivers and coastal marine waters after Fukushima accident, in the both cases have been one of the main sources of the public concerns on the accident consequences. The higher weight of water contamination in public perception of the accidents consequences in comparison with the real fraction of doses via aquatic pathways in comparison with other dose components is a specificity of public perception of environmental contamination. This psychological phenomenon that was confirmed after these accidents provides supplementary arguments that the reliable simulation and prediction of the radionuclide dynamics in water and sediments is important part of the post-accidental radioecological research. The purpose of the research is to use the experience of the modeling activities f conducted for the past more than 25 years within the Chernobyl affected Pripyat River and Dnieper River watershed as also data of the new monitoring studies in Japan of Abukuma River (largest in the region - the watershed area is 5400 km{sup 2}), Kuchibuto River, Uta River, Niita River, Natsui River, Same River, as also of the studies on the specific of the 'water-sediment' {sup 137}Cs exchanges in this area to refine the 1-D model RIVTOX and 2-D model COASTOX for the increasing of the predictive power of the modeling technologies. The results of the modeling studies are applied for more accurate prediction of water/sediment radionuclide contamination of rivers and reservoirs in the Fukushima Prefecture and for the comparative analyses of the efficiency of the of the post -accidental measures to diminish the contamination of the water bodies. Document

  13. Functional and comparative genomics analyses of pmp22 in medaka fish

    Directory of Open Access Journals (Sweden)

    Kawarabayasi Yutaka

    2009-06-01

    Full Text Available Abstract Background Pmp22, a member of the junction protein family Claudin/EMP/PMP22, plays an important role in myelin formation. Increase of pmp22 transcription causes peripheral neuropathy, Charcot-Marie-Tooth disease type1A (CMT1A. The pathophysiological phenotype of CMT1A is aberrant axonal myelination which induces a reduction in nerve conduction velocity (NCV. Several CMT1A model rodents have been established by overexpressing pmp22. Thus, it is thought that pmp22 expression must be tightly regulated for correct myelin formation in mammals. Interestingly, the myelin sheath is also present in other jawed vertebrates. The purpose of this study is to analyze the evolutionary conservation of the association between pmp22 transcription level and vertebrate myelin formation, and to find the conserved non-coding sequences for pmp22 regulation by comparative genomics analyses between jawed fishes and mammals. Results A transgenic pmp22 over-expression medaka fish line was established. The transgenic fish had approximately one fifth the peripheral NCV values of controls, and aberrant myelination of transgenic fish in the peripheral nerve system (PNS was observed. We successfully confirmed that medaka fish pmp22 has the same exon-intron structure as mammals, and identified some known conserved regulatory motifs. Furthermore, we found novel conserved sequences in the first intron and 3'UTR. Conclusion Medaka fish undergo abnormalities in the PNS when pmp22 transcription increases. This result indicates that an adequate pmp22 transcription level is necessary for correct myelination of jawed vertebrates. Comparison of pmp22 orthologs between distantly related species identifies evolutionary conserved sequences that contribute to precise regulation of pmp22 expression.

  14. Comparative analyses of forest fuels in a life cycle perspective with a focus on transport systems

    Energy Technology Data Exchange (ETDEWEB)

    Eriksson, Lisa Naeslund [Ecotechnology, Department of Engineering, Physics and Mathematics, Mid Sweden University, SE-831 25 Oestersund (Sweden)

    2008-08-15

    Local, national and international transportation of forest fuels with regard to costs, primary energy use and CO{sub 2} emission was analysed. The main issue was the extent to which both mode and distance of transport affect the monetary cost, CO{sub 2} emission and primary energy use arising from the use of various types of forest residues for energy purpose. Local applications proved the most efficient options of those studied. Chipping of bundles at a terminal, for transport by rail and sea to national or international end-users, has low costs and produces only modest CO{sub 2} emissions. For the pellet options, the cost is about the same as for chipping, but require more primary energy and emit more CO{sub 2}. The traditional chipping system is more expensive than the other options. The costs of the international options over a transport distance of 1100 km vary between 21 and 28 EUR{sub 2007}/MWh, whereas pellet options cost between 22 and 25 EUR{sub 2007}/MWh. The primary energy required for transport of logging residues vis-a-vis pellets falls in the range 4-7% and 2-4%, respectively, of the bio-energy delivered. The primary energy needed to produce pellets gives them a lower fossil fuel substitution rate per hectare, compared with bundle systems. Similarly, for chip systems vis-a-vis bundle systems, the biomass delivered to the conversion plant is reduced by the greater physical dry-matter losses entailed by chipping systems in the forest-fuel chain. (author)

  15. Comparative sequence and genetic analyses of asparagus BACs reveal no microsynteny with onion or rice.

    Science.gov (United States)

    Jakse, Jernej; Telgmann, Alexa; Jung, Christian; Khar, Anil; Melgar, Sergio; Cheung, Foo; Town, Christopher D; Havey, Michael J

    2006-12-01

    The Poales (includes the grasses) and Asparagales [includes onion (Allium cepa L.) and asparagus (Asparagus officinalis L.)] are the two most economically important monocot orders. The Poales are a member of the commelinoid monocots, a group of orders sister to the Asparagales. Comparative genomic analyses have revealed a high degree of synteny among the grasses; however, it is not known if this synteny extends to other major monocot groups such as the Asparagales. Although we previously reported no evidence for synteny at the recombinational level between onion and rice, microsynteny may exist across shorter genomic regions in the grasses and Asparagales. We sequenced nine asparagus BACs to reveal physically linked genic-like sequences and determined their most similar positions in the onion and rice genomes. Four of the asparagus BACs were selected using molecular markers tightly linked to the sex-determining M locus on chromosome 5 of asparagus. These BACs possessed only two putative coding regions and had long tracts of degenerated retroviral elements and transposons. Five asparagus BACs were selected after hybridization of three onion cDNAs that mapped to three different onion chromosomes. Genic-like sequences that were physically linked on the cDNA-selected BACs or genetically linked on the M-linked BACs showed significant similarities (e < -20) to expressed sequences on different rice chromosomes, revealing no evidence for microsynteny between asparagus and rice across these regions. Genic-like sequences that were linked in asparagus were used to identify highly similar (e < -20) expressed sequence tags (ESTs) of onion. These onion ESTs mapped to different onion chromosomes and no relationship was observed between physical or genetic linkages in asparagus and genetic linkages in onion. These results further indicate that synteny among grass genomes does not extend to a sister order in the monocots and that asparagus may not be an appropriate smaller genome

  16. 中欧温室规范中风荷载取值的对比%Comparative study on calculation of wind loads on greenhouse structures between codes of China and Europe

    Institute of Scientific and Technical Information of China (English)

    童乐为; 金健; 周锋

    2013-01-01

    Among all the bearing loads for greenhouse structures, wind load plays a leading role and this is especially true for a modern greenhouse structure due to its large-span and lightweight characteristics. As a result, to ensure reliability and a reasonable cost for the design work of greenhouses, wind load becomes a key factor. Since the modern greenhouse started late in China, there was no domestic load specifications for greenhouse structures until 2002 when the national code“Greenhouse Structure Design Load”was published. This code filled in the blanks of this area in China, but its shortcomings are still obvious, as it cannot fully take into consideration all the particularities of a greenhouse structure. Therefore, it is necessary to take advantage of the experiences of advanced countries in greenhouse design and have some research on greenhouse design load codes. In combination with the Chinese Load Code and Eurocode1:Part1-4, this paper conducted a comparative study on the calculation of wind loads on greenhouse structures between the codes of China and Europe. In the first part of this paper, the definitions and calculation methods of wind load were compared briefly between Chinese and European Codes for Greenhouse Structures. Then, more specific discussions were carried out on three main factors:basic wind pressure, wind profile, and wind pressure coefficient. The comparison results showed that the calculation methods of wind load for a greenhouse structure are similar between Chinese and European Codes, but the definition and selection of some parameters are too simplified to be reasonable in the Chinese Codes. Specifically, the comparison study on basic wind pressure shows that the definition of this variable is almost the same in these two codes except that when under certain circumstance, the European greenhouse code takes into consideration its importance and the design working life of the greenhouse. As a result, the basic wind pressure return

  17. Tissue microarrays compared with whole sections and biochemical analyses. A subgroup analysis of DBCG 82 b

    DEFF Research Database (Denmark)

    Kyndi, Marianne; Sørensen, Flemming Brandt; Knudsen, H;

    2008-01-01

    &c trials, were IHC stained for ER, PgR and HER2. In addition, ER and PgR were measured in the DBCG82 b&c trials by a biochemical analysis. Statistical analyses included Kappa statistics, Kaplan-Meier survival curves, Log-rank tests, and Cox regression hazards analyses. RESULTS AND CONCLUSION: IHC stainings...... stainings of TMA cores and biochemical analyses. Divergence between IHC and biochemical analyses was predominantly due to the chosen thresholds. IHC staining of one 1mm core from each tumor revealed a significant independent prognostic value of PgR and HER2 on overall survival. In conclusion, IHC stainings...... cores and biochemical analyses. PATIENTS AND METHODS: A central and a peripheral 1mm core and a whole section from each of 54 paraffin blocks from 27 breast cancers included in a one-institution cohort, and a single 1mm central TMA core, from each breast tumor from 1000 patients included in the DBCG82 b...

  18. Comparative analyses of seven technologies to facilitate the integration of fluctuating renewable energy sources

    DEFF Research Database (Denmark)

    Mathiesen, Brian Vad; Lund, Henrik

    2009-01-01

    An analysis of seven different technologies is presented. The technologies integrate fluctuating renewable energy sources (RES) such as wind power production into the electricity supply, and the Danish energy system is used as a case. Comprehensive hour-by-hour energy system analyses are conducted...... and feasibility analyses. Large-scale heat pumps prove to be especially promising as they efficiently reduce the production of excess electricity. Flexible electricity demand and electric boilers are low-cost solutions, but their improvement of fuel efficiency is rather limited. Battery electric vehicles...

  19. Greenhouse climate control affects postharvest tomato quality

    NARCIS (Netherlands)

    Farneti, B.; Schouten, R.E.; Qian, T.; Dieleman, J.A.; Tijskens, L.M.M.; Woltering, E.J.

    2013-01-01

    In this study, important quality properties such as firmness, sugar and acid levels were measured and analysed in tomatoes harvested from three greenhouses during a five month period and stored at 16 degrees C for over 20 days. Tomatoes were harvested from three identical, neighbouring, greenhouses

  20. Comparative analyses of prophage-like elements present in two Lactococcus lactis strains

    NARCIS (Netherlands)

    Ventura, Marco; Zomer, Aldert; Canchaya, Carlos; O'Connell-Motherway, Mary; Kuipers, Oscar; Turroni, Francesca; Ribbera, Angela; Foroni, Elena; Buist, Girbe; Wegmann, Udo; Shearman, Claire; Gasson, Michael J.; Fitzgerald, Gerald F.; Kok, Jan; van Sinderen, Douwe; O’Connell-Motherway, Mary

    2007-01-01

    In this study, we describe the genetic organizations of six and five apparent prophage-like elements present in the genomes of the Lactococcus lactis subsp. cremoris strains MG1363 and SK11, respectively. Phylogenetic investigation as well bioinformatic analyses indicates that all 11 prophages belon

  1. Comparative transcriptome analyses and genome assembly of Fusarium oxysporum f. sp. cubense

    NARCIS (Netherlands)

    Dita, M.A.; Herai, R.; Waalwijk, C.; Yamagishi, M.; Giachetto, P.; Ferreira, G.; Souza, de M.; Kema, G.H.J.

    2013-01-01

    Fusarium oxysporum f. sp. cubense (Foc), the causal agent of Fusarium wilt of banana, is a highly destructive and genetically diverse pathogen. Despite its economic importance, genomic information about Foc is limited and no transcriptomic analyses have been reported so far. By using 454 sequencing

  2. Gardening with Greenhouses

    Science.gov (United States)

    Keeler, Rusty

    2010-01-01

    Greenhouses come in all shapes, sizes, and price ranges: from simple hand-built plastic-covered frames to dazzling geodesic domes. Some child care centers install greenhouses as a part of their outdoor garden space. Other centers have incorporated a greenhouse into the building itself. Greenhouses provide a great opportunity for children to grow…

  3. Comparative Exergoeconomic Analyses of Gas Turbine Steam Injection Cycles with and without Fogging Inlet Cooling

    OpenAIRE

    Hassan Athari; Saeed Soltani; Marc A. Rosen; Seyed Mohammad Seyed Mahmoudi; Tatiana Morosuk

    2015-01-01

    The results are reported of exergoeconomic analyses of a simple gas turbine cycle without a fogging system (SGT), a simple steam injection gas turbine cycle (STIG), and a steam injection gas turbine cycle with inlet fogging cooler (FSTIG). The results show that (1) a gas-turbine cycle with steam injection and simultaneous cooling has a higher power output than the other considered cycle; (2) at maximum energy efficiency conditions the gas turbine has the highest exergy efficiency of the cycle...

  4. Comparative Analysis of Upper Ocean Heat Content Variability from Ensemble Operational Ocean Analyses

    Science.gov (United States)

    Xue, Yan; Balmaseda, Magdalena A.; Boyer, Tim; Ferry, Nicolas; Good, Simon; Ishikawa, Ichiro; Rienecker, Michele; Rosati, Tony; Yin, Yonghong; Kumar, Arun

    2012-01-01

    Upper ocean heat content (HC) is one of the key indicators of climate variability on many time-scales extending from seasonal to interannual to long-term climate trends. For example, HC in the tropical Pacific provides information on thermocline anomalies that is critical for the longlead forecast skill of ENSO. Since HC variability is also associated with SST variability, a better understanding and monitoring of HC variability can help us understand and forecast SST variability associated with ENSO and other modes such as Indian Ocean Dipole (IOD), Pacific Decadal Oscillation (PDO), Tropical Atlantic Variability (TAV) and Atlantic Multidecadal Oscillation (AMO). An accurate ocean initialization of HC anomalies in coupled climate models could also contribute to skill in decadal climate prediction. Errors, and/or uncertainties, in the estimation of HC variability can be affected by many factors including uncertainties in surface forcings, ocean model biases, and deficiencies in data assimilation schemes. Changes in observing systems can also leave an imprint on the estimated variability. The availability of multiple operational ocean analyses (ORA) that are routinely produced by operational and research centers around the world provides an opportunity to assess uncertainties in HC analyses, to help identify gaps in observing systems as they impact the quality of ORAs and therefore climate model forecasts. A comparison of ORAs also gives an opportunity to identify deficiencies in data assimilation schemes, and can be used as a basis for development of real-time multi-model ensemble HC monitoring products. The OceanObs09 Conference called for an intercomparison of ORAs and use of ORAs for global ocean monitoring. As a follow up, we intercompared HC variations from ten ORAs -- two objective analyses based on in-situ data only and eight model analyses based on ocean data assimilation systems. The mean, annual cycle, interannual variability and longterm trend of HC have

  5. Greenhouse Gases

    Science.gov (United States)

    ... does the hole in the ozone layer affect global warming? — http://www.eia.gov/tools/faqs/faq.cfm?id=84&t=11 Learn more Environment data and analyses — http://www.eia.gov/environment.html Carbon dioxide emissions from U.S. energy consumption — http://www.eia.gov/totalenergy/data/monthly/index. ...

  6. GREENHOUSE BRITAIN

    Directory of Open Access Journals (Sweden)

    David Haley

    2008-10-01

    Full Text Available We believe that the cultural landscape is largely formed by the dominant cultures of a place. “It is formed by a sometimes conflicted, sometimes consensual discourse or narrative from an array of stories, observations and intentions, first spoken by people of these dominant cultures and thereafter enacted on the ground. To our view, such a story has certain fluidity about it, and may change directions for any number of reasons. This work, Greenhouse Britain, is designed literally to express what the risingof waters would mean to the landscape of the island. It takes the 3 positions of defense, withdrawal and then defense, withdrawal to the high grounds. We suggest that the existing plans for greenhouse emissions control will be insufficient to keep temperature rise at 2° or less. In fact, we believe that the tipping point is past. In this context, the rising ocean becomes a form determinant. By “form determinant”, we mean, the rising ocean will determine many of the new forms that culture, industry and many other elements of civilization will have to take. There is another piece of this picture that we wish to give Voice to. That is up until this present rising of the world oceans, the creators of Western civilization have held and enacted the belief that all limitations in the physical world, particularly in the ecological world are there to be used and overcome. We think that the rising ocean is an opportunity for transformation, but it is exactly the reverse of a new frontier to overcome from civilization’s perspective. Now, from the ocean’s perspective, its boundary is perhaps a continuing, evolving transforming new frontier. Therefore, assuming a rapid rise of waters, even for a modest 5 meters in 100 years, there are apparently no models of precedence, no information, design, nor planning on the table, with the exception of ocean defenses and typical development models, albeit more energy efficient ones. It is the intention of

  7. Comparative genomic and functional analyses: unearthing the diversity and specificity of nematicidal factors in Pseudomonas putida strain 1A00316

    Science.gov (United States)

    Guo, Jing; Jing, Xueping; Peng, Wen-Lei; Nie, Qiyu; Zhai, Yile; Shao, Zongze; Zheng, Longyu; Cai, Minmin; Li, Guangyu; Zuo, Huaiyu; Zhang, Zhitao; Wang, Rui-Ru; Huang, Dian; Cheng, Wanli; Yu, Ziniu; Chen, Ling-Ling; Zhang, Jibin

    2016-01-01

    We isolated Pseudomonas putida (P. putida) strain 1A00316 from Antarctica. This bacterium has a high efficiency against Meloidogyne incognita (M. incognita) in vitro and under greenhouse conditions. The complete genome of P. putida 1A00316 was sequenced using PacBio single molecule real-time (SMRT) technology. A comparative genomic analysis of 16 Pseudomonas strains revealed that although P. putida 1A00316 belonged to P. putida, it was phenotypically more similar to nematicidal Pseudomonas fluorescens (P. fluorescens) strains. We characterized the diversity and specificity of nematicidal factors in P. putida 1A00316 with comparative genomics and functional analysis, and found that P. putida 1A00316 has diverse nematicidal factors including protein alkaline metalloproteinase AprA and two secondary metabolites, hydrogen cyanide and cyclo-(l-isoleucyl-l-proline). We show for the first time that cyclo-(l-isoleucyl-l-proline) exhibit nematicidal activity in P. putida. Interestingly, our study had not detected common nematicidal factors such as 2,4-diacetylphloroglucinol (2,4-DAPG) and pyrrolnitrin in P. putida 1A00316. The results of the present study reveal the diversity and specificity of nematicidal factors in P. putida strain 1A00316. PMID:27384076

  8. A Note on Fourier and the Greenhouse Effect

    CERN Document Server

    Postma, Joseph E

    2015-01-01

    Joseph Fourier's discovery of the greenhouse effect is discussed and is compared to the modern conception of the greenhouse effect. It is confirmed that what Fourier discovered is analogous to the modern concept of the greenhouse effect. However, the modern concept of the greenhouse effect is found to be based on a paradoxical analogy to Fourier's greenhouse work and so either Fourier's greenhouse work, the modern conception of the greenhouse effect, or the modern definition of heat is incorrect. The solution to this problem is not feigned to be given here.

  9. The Essential Role of Curricular Analyses in Comparative Studies of Mathematics Achievement: Developing "Fair" Tests

    Science.gov (United States)

    Chavez, Oscar; Papick, Ira; Ross, Dan J.; Grouws, Douglas A.

    2010-01-01

    The purpose of this paper was to describe the process of development of assessment instruments for the Comparing Options in Secondary Mathematics: Investigating Curriculum (COSMIC) project. The COSMIC project was a three-year longitudinal comparative study focusing on evaluating high school students' mathematics learning from two distinct…

  10. Signes de ponctuation : indices de traduction (Analyse comparée français / espagnol)

    OpenAIRE

    Ponge, Myriam

    2010-01-01

    International audience; La ponctuation, par la segmentation qu’elle opère au sein d’un texte, en facilite l’analyse et donc la compréhension. Dans le cadre de cette communication, il s’agira d’interroger plus précisément le rôle que ces signes particuliers peuvent jouer dans le processus de traduction ; dans quelle mesure orientent-ils de manière significative le décryptage des unités qui les entourent ? L’autonomie sémantique dont ils disposent en tant que signes quasi-universels les rend pa...

  11. Geothermal heating systems for greenhouses

    Energy Technology Data Exchange (ETDEWEB)

    Silva, J.F.; Johnson, W.C.

    1980-08-12

    Ways to utilize low-temperature geothermally heated water for a flow-through system are presented. The geothermal energy used for this system is the waste heat discharged from space heating 500,000 square feet of floor space at Oregon Institute of Technology with geothermal water pumped directly from the campus wells. The information collected and analyzed is from data developed from operating a greenhouse on the Oregon Institute of Technology campus from December 1979 to April 1980. Methods for calculating heating requirements of greenhouses using geothermal energy were developed from the analyses of the data obtained. (MHR)

  12. Sexual Dimorphism of the First Rib: A Comparative Approach Using Metric and Geometric Morphometric Analyses.

    Science.gov (United States)

    Lynch, Jeffrey James; Cross, Peter; Heaton, Vivienne

    2017-09-01

    This research investigated the sexual dimorphism of the first human rib using geometric morphometric and metric approaches on a sample of 285 specimens containing European Americans and African Americans from the Hamann-Todd collection. Metric measurements were investigated for sexual dimorphism and ancestral differences using univariate statistics. Four type II landmarks and 40 sliding semi-landmarks were placed outlining the dorsal and ventral curvatures of the ribs. Landmark data were processed using Generalized Procrustes Analyses with Procrustes distance sliding, and the subsequent coordinates were investigated for sexual dimorphism and ancestral differences using Procrustes ANOVAs. Both geometric morphometric and metric data were analyzed using cross-validated discriminant function analyses to test the hypothesis that variables from both approaches can be combined to increase sex classification rate. European Americans had sex correctly classified as high as 88.05% and African Americans as high as 70.86% using a combination of metric and geometric morphometric variables. © 2017 American Academy of Forensic Sciences.

  13. Comparative analyses of fundamental differences in membrane transport capabilities in prokaryotes and eukaryotes.

    Directory of Open Access Journals (Sweden)

    Qinghu Ren

    2005-08-01

    Full Text Available Whole-genome transporter analyses have been conducted on 141 organisms whose complete genome sequences are available. For each organism, the complete set of membrane transport systems was identified with predicted functions, and classified into protein families based on the transporter classification system. Organisms with larger genome sizes generally possessed a relatively greater number of transport systems. In prokaryotes and unicellular eukaryotes, the significant factor in the increase in transporter content with genome size was a greater diversity of transporter types. In contrast, in multicellular eukaryotes, greater number of paralogs in specific transporter families was the more important factor in the increase in transporter content with genome size. Both eukaryotic and prokaryotic intracellular pathogens and endosymbionts exhibited markedly limited transport capabilities. Hierarchical clustering of phylogenetic profiles of transporter families, derived from the presence or absence of a certain transporter family, showed that clustering patterns of organisms were correlated to both their evolutionary history and their overall physiology and lifestyles.

  14. Comparative Analyses of Fundamental Differences in Membrane Transport Capabilities in Prokaryotes and Eukaryotes.

    Directory of Open Access Journals (Sweden)

    2005-08-01

    Full Text Available Whole-genome transporter analyses have been conducted on 141 organisms whose complete genome sequences are available. For each organism, the complete set of membrane transport systems was identified with predicted functions, and classified into protein families based on the transporter classification system. Organisms with larger genome sizes generally possessed a relatively greater number of transport systems. In prokaryotes and unicellular eukaryotes, the significant factor in the increase in transporter content with genome size was a greater diversity of transporter types. In contrast, in multicellular eukaryotes, greater number of paralogs in specific transporter families was the more important factor in the increase in transporter content with genome size. Both eukaryotic and prokaryotic intracellular pathogens and endosymbionts exhibited markedly limited transport capabilities. Hierarchical clustering of phylogenetic profiles of transporter families, derived from the presence or absence of a certain transporter family, showed that clustering patterns of organisms were correlated to both their evolutionary history and their overall physiology and lifestyles.

  15. Comparative transcriptome analyses of flower development in four species of Achimenes (Gesneriaceae).

    Science.gov (United States)

    Roberts, Wade R; Roalson, Eric H

    2017-03-20

    Flowers have an amazingly diverse display of colors and shapes, and these characteristics often vary significantly among closely related species. The evolution of diverse floral form can be thought of as an adaptive response to pollination and reproduction, but it can also be seen through the lens of morphological and developmental constraints. To explore these interactions, we use RNA-seq across species and development to investigate gene expression and sequence evolution as they relate to the evolution of the diverse flowers in a group of Neotropical plants native to Mexico-magic flowers (Achimenes, Gesneriaceae). The assembled transcriptomes contain between 29,000 and 42,000 genes expressed during development. We combine sequence orthology and coexpression clustering with analyses of protein evolution to identify candidate genes for roles in floral form evolution. Over 25% of transcripts captured were distinctive to Achimenes and overrepresented by genes involved in transcription factor activity. Using a model-based clustering approach we find dynamic, temporal patterns of gene expression among species. Selection tests provide evidence of positive selection in several genes with roles in pigment production, flowering time, and morphology. Combining these approaches to explore genes related to flower color and flower shape, we find distinct patterns that correspond to transitions of floral form among Achimenes species. The floral transcriptomes developed from four species of Achimenes provide insight into the mechanisms involved in the evolution of diverse floral form among closely related species with different pollinators. We identified several candidate genes that will serve as an important and useful resource for future research. High conservation of sequence structure, patterns of gene coexpression, and detection of positive selection acting on few genes suggests that large phenotypic differences in floral form may be caused by genetic differences in a small

  16. Error Types and Error Positions in Neglect Dyslexia: Comparative Analyses in Neglect Patients and Healthy Controls

    Science.gov (United States)

    Weinzierl, Christiane; Kerkhoff, Georg; van Eimeren, Lucia; Keller, Ingo; Stenneken, Prisca

    2012-01-01

    Unilateral spatial neglect frequently involves a lateralised reading disorder, neglect dyslexia (ND). Reading of single words in ND is characterised by left-sided omissions and substitutions of letters. However, it is unclear whether the distribution of error types and positions within a word shows a unique pattern of ND when directly compared to…

  17. Comparing trophic position of stream fishes using stable isotope and gut contents analyses

    Science.gov (United States)

    Stable isotope analysis (SIA) and gut content analysis (GCA) are commonly used in food web studies, but few studies analyze these data in concert. We used SIA and GCA to identify diets and trophic position (TP) of six stream fishes and to compare TP estimates between methods. Ord...

  18. Comparative Factor Analyses of the Personal Attributes Questionnaire and the Bem Sex-Role Inventory.

    Science.gov (United States)

    Antill, John K.; Cunningham, John D.

    1982-01-01

    Compared the Personal Attributes Questionnaire (PAQ) and the Bem Sex Role Inventory (BSRI) as measures of androgyny. Results showed that femininty (Concern for Others) and masculinity (Dominance) accounted for most of the variance, but for PAQ, clusters of male- and female-valued items (i.e., Extroversion and Insecurity) formed subsidiary factors.…

  19. Identifying public health policymakers' sources of information: comparing survey and network analyses.

    Science.gov (United States)

    Oliver, Kathryn A; de Vocht, Frank; Money, Annemarie; Everett, Martin

    2017-05-01

    Research suggests that policymakers often use personal contacts to find information and advice. However, the main sources of information for public health policymakers are not known. This study aims to describe policymakers' sources of information. A questionnaire survey of public health policymakers across Greater Manchester (GM) was carried out (response rate 48%). All policy actors above Director level involved in public health policy (finding, analyzing or producing information, producing or implementing policy) in GM were included in the sampling frame. Respondents were provided with a list of sources of information and asked which they used (categorical data) and to name specific individuals who acted as sources of information (network data). Data were analyzed using frequencies and network analysis. The most frequently chosen sources of information from the categorical data were NICE, government websites and Directors of Public Health. However, the network data showed that the main sources of information in the network were actually mid-level managers in the NHS, who had no direct expertise in public health. Academics and researchers did not feature in the network. Both survey and network analyses provide useful insights into how policymakers access information. Network analysis offers practical and theoretical contributions to the evidence-based policy debate. Identifying individuals who act as key users and producers of evidence allows academics to target actors likely to use and disseminate their work.

  20. Comparative analyses of different genetic markers for the detection of Acanthamoeba spp. isolates.

    Science.gov (United States)

    Derda, Monika; Wojtkowiak-Giera, Agnieszka; Hadaś, Edward

    2014-09-01

    Acanthamoeba are widespread free-living amoebae which may cause granulomatous amoebic encephalitis (GAE), keratitis, skin ulcerations and disseminated tissue infection. An important diagnostic and prognostic factor for the treatment of infection is a quick and correct diagnosis of amoebae strains. The aim of our study was to develop a rapid method for detection and identification of pathogenic Acanthamoeba spp. strains from diagnostic material collected from water. In this study we analysed five amplification-based genetic markers (Aca 16S, Ac6/210, GP, JDP, Nelson) used for identification of pathogenic Acanthamoeba spp. strains isolated in water sources in Poland, Iceland and Sweden. Our results demonstrated the presence of pathogenic Acanthamoeba strains in tap water. PCR assay appeared to be a more rapid and sensitive method to detect the presence of amoebae than the limited conventional techniques. Based on our observations, we can confirm that the use of four out of five genetic markers (Aca 16S, Ac 6/210, JDP, GP, Nelson) may be helpful in identification of Acanthamoeba spp. strains, but only one Aca 16S primer pair is a highly specific marker that distinguishes between pathogenic strains of Acanthamoeba and other free-living amoeba families.

  1. Analyses of pedestrian behavior on mid-block unsignalized crosswalk comparing Chinese and German cases

    Directory of Open Access Journals (Sweden)

    Xiaobei Jiang

    2015-11-01

    Full Text Available A large number of pedestrian fatalities are caused by the vehicle-pedestrian accidents. The application of new theory and technological approaches may hold great potential to reduce the accident frequency and severity for pedestrians. Considered the different driving cultures between China and Germany, the adaptation of such application in new market triggers an “intercultural comparison” related to the road user behavior and traffic safety. Field traffic data have been collected by video recording and image processing at unsignalized mid-block crosswalks both in Beijing, China and Munich, Germany. Centered Vehicle-Pedestrian conflict situation, pedestrian speed performance in different pedestrian categories and walking phases, pedestrian waiting behavior related to waiting decision choice and waiting time, pedestrian gap acceptance were statistically analyzed for understanding the pedestrian behavior in the conflict process. Intercultural comparisons were made between China and Germany. The research results addressed how the conflict participants (pedestrians only behave differently and would hopefully be the impetus for further intercultural analyses from urban traffic side.

  2. Comparative analyses of glycerotoxin expression unveil a novel structural organization of the bloodworm venom system.

    Science.gov (United States)

    Richter, Sandy; Helm, Conrad; Meunier, Frederic A; Hering, Lars; Campbell, Lahcen I; Drukewitz, Stephan H; Undheim, Eivind A B; Jenner, Ronald A; Schiavo, Giampietro; Bleidorn, Christoph

    2017-03-04

    We present the first molecular characterization of glycerotoxin (GLTx), a potent neurotoxin found in the venom of the bloodworm Glycera tridactyla (Glyceridae, Annelida). Within the animal kingdom, GLTx shows a unique mode of action as it can specifically up-regulate the activity of Cav2.2 channels (N-type) in a reversible manner. The lack of sequence information has so far hampered a detailed understanding of its mode of action. Our analyses reveal three ~3.8 kb GLTx full-length transcripts, show that GLTx represents a multigene family, and suggest it functions as a dimer. An integrative approach using transcriptomics, quantitative real-time PCR, in situ hybridization, and immunocytochemistry shows that GLTx is highly expressed exclusively in four pharyngeal lobes, a previously unrecognized part of the venom apparatus. Our results overturn a century old textbook view on the glycerid venom system, suggesting that it is anatomically and functionally much more complex than previously thought. The herein presented GLTx sequence information constitutes an important step towards the establishment of GLTx as a versatile tool to understand the mechanism of synaptic function, as well as the mode of action of this novel neurotoxin.

  3. Comparative Exergoeconomic Analyses of Gas Turbine Steam Injection Cycles with and without Fogging Inlet Cooling

    Directory of Open Access Journals (Sweden)

    Hassan Athari

    2015-09-01

    Full Text Available The results are reported of exergoeconomic analyses of a simple gas turbine cycle without a fogging system (SGT, a simple steam injection gas turbine cycle (STIG, and a steam injection gas turbine cycle with inlet fogging cooler (FSTIG. The results show that (1 a gas-turbine cycle with steam injection and simultaneous cooling has a higher power output than the other considered cycle; (2 at maximum energy efficiency conditions the gas turbine has the highest exergy efficiency of the cycle components and the lowest value of exergy efficiency is calculated for the fog cooler, where the mixing of air and water at greatly different temperatures causes the high exergy destruction; and (3 utilization of the fogging cooler in the steam injection cycle increases the exergy destruction in the combustion chamber. Furthermore, the simple gas turbine cycle is found to be more economic as its relative cost difference, total unit product cost, and exergoeconomic factors are less than those for the two other configurations. However, its efficiency and net power output are notably lower than for the gas turbine with steam injection and/or fog cooling. The total unit product cost is highest for the simple gas turbine with steam injection.

  4. Comparative Analyses of Cuticular Waxes on Various Organs of Potato (Solanum tuberosum L.).

    Science.gov (United States)

    Guo, Yanjun; Jetter, Reinhard

    2017-05-17

    Complex mixtures of cuticular waxes coat plant surfaces to seal them against environmental stresses, with compositions greatly varying between species and possibly organs. This paper reports comprehensive analyses of the waxes on both above- and below-ground organs of potato, where total wax coverages varied between petals (2.6 μg/cm(2)), leaves, stems, and tubers (1.8-1.9 μg/cm(2)), and rhizomes (1.1 μg/cm(2)). The wax mixtures on above-ground organs were dominated by alkanes, occurring in homologous series of isomeric C25-C35 n-alkanes, C25-C35 2-methylalkanes, and C26-C34 3-methylalkanes. In contrast, below-ground organs had waxes rich in monoacylglycerols (C22-C28 acyls) and C18-C30 alkyl ferulates, together with fatty acids (rhizomes) or primary alcohols (tubers). The organ-specific wax coverages, compound class distribution, and chain length profiles suggest highly regulated activities of wax biosynthesis enzymes, likely related to organ-specific ecophysiological functions.

  5. Variable salinity responses of 12 alfalfa genotypes and comparative expression analyses of salt-response genes

    Science.gov (United States)

    Sandhu, Devinder; Cornacchione, Monica V.; Ferreira, Jorge F. S.; Suarez, Donald L.

    2017-01-01

    Twelve alfalfa genotypes that were selected for biomass under salinity, differences in Na and Cl concentrations in shoots and K/Na ratio were evaluated in this long-term salinity experiment. The selected plants were cloned to reduce genetic variability within each genotype. Salt tolerance (ST) index of the genotypes ranged from 0.39 to 1. The most salt-tolerant genotypes SISA14-1 (G03) and AZ-90ST (G10), the top performers for biomass, exhibited the least effect on shoot number and height. SISA14-1 (G03) accumulated low Na and Cl under salinity. Most genotypes exhibited a net reduction in shoot Ca, Mg, P, Fe, and Cu, while Mn and Zn increased under salinity. Salinity reduced foliar area and stomatal conductance; while net photosynthetic rate and transpiration were not affected. Interestingly, salinity increased chlorophyll and antioxidant capacity in most genotypes; however neither parameter correlated well to ST index. Salt-tolerant genotypes showed upregulation of the SOS1, SOS2, SOS3, HKT1, AKT1, NHX1, P5CS1, HSP90.7, HSP81.2, HSP71.1, HSPC025, OTS1, SGF29 and SAL1 genes. Gene expression analyses allowed us to classify genotypes based on their ability to regulate different components of the salt tolerance mechanism. Pyramiding different components of the salt tolerance mechanism may lead to superior salt-tolerant alfalfa genotypes. PMID:28225027

  6. Evaluation of mixed dentition analyses in north Indian population: A comparative study

    Directory of Open Access Journals (Sweden)

    Ravi Kumar Goyal

    2014-01-01

    Full Text Available Introduction: Mixed dentition regression equations analyses (Moyers, Tanaka-Johnston are based on European population , reliability of these methods is questionable over other population. Materials and Methods: The present study was conducted on total 260 study models. This study was done in two phases. In the first phase, linear regression equations were made. In the second phase, comparison of actual values of sum of mesiodistal width of canine, first and second premolars with the predicted values proposed by Moyers, Tanaka-Johnston, and the new proposed mixed dentition analysis for North Indian population were made. Results: Set of four linear regression equations for predicting sum of mesiodistal width of permanent canine, first premolar and second premolar in North Indian population from sum of mesiodistal width of mandibular incisors and mandibular first molars, were proposed as ; (a for males, maxillary arch, Y = 2.9 + 0.40X, (b mandibular arch Y = 3.91 + 0.37X (c for females, maxillary arch Y = 0.56 + 0.45X (d mandibular arch Y = 1.14 + 0.42X. Moyers and Tanaka-Johnston, mixed dentition analysis , is found to be overestimating the mesiodistal width of unerupted canine and premolars in North Indian population.

  7. The greenhouse effect

    DEFF Research Database (Denmark)

    Laut, Peter; Gundermann, Jesper

    1992-01-01

    a convincing basis for decision making in order to counter climatic change will become evere more acute. Even though most governments may agree that something should be done, many disagree over the extent, the pace, and the acceptable costs of action. Is it, for example, sufficient to follow the recommendation...... of the 1988 conference in Toronto on "The Changing Atmosphere" and reduce global CO2 emissions by 20% until year 2005, or is it vital for the future of the World to reduce emissions at a much quicker pace? And how do we compare reductions of different greenhouse gases by different amounts, implemented over...

  8. Analyses comparing the antimicrobial activity and safety of current antiseptic agents: a review.

    Science.gov (United States)

    Hibbard, John S

    2005-01-01

    This article reviews the results and conclusions from four pivotal and two comparative clinical trials. The six randomized, controlled, single-blinded, parallel-group clinical trials were conducted to determine which antiseptic is best for use as a patient preoperative skin preparation. The objective of these studies was to compare the immediate, persistent (residual), and cumulative antimicrobial efficacy and safety of 2% chlorhexidine gluconate (CHG) combined with 70% isopropyl alcohol (IPA) (ChloraPrep); another combination CHG and IPA antiseptic (CHG+IPA) and 2% aqueous CHG alone; 4% CHG (Hibiclens) alone; 70% isopropyl alcohol (IPA) alone; and an iodine-containing solution, 10% povidone-iodine (Betadine) alone as preoperative skin topical antiseptics for potential prevention of nosocomial infections.

  9. Comparative analyses of regional politics of the European Union and Serbia

    Directory of Open Access Journals (Sweden)

    Živanović Zora

    2007-01-01

    Full Text Available The aim of this article is to show through the comparative analysis, the basic characteristics of regional policy, or the policy of support to the development of less developed areas in our country compared to the regional policy of European Union, with an accent on the instruments for implementation of that policy. Without putting accent on different starting positions for those two development policies, what is for sure the main reason of differences in realized results, the experiences of European Union can be in any case useful and instructive for Serbia as a country with a task of rationalization and establishment of an effective regional policy being a necessity in the forthcoming period.

  10. Comparative and functional genomic analyses of the pathogenicity of phytopathogen Xanthomonas campestris pv. campestris

    OpenAIRE

    Qian, Wei; Jia, Yantao; Ren, Shuang-Xi; He, Yong-Qiang; Feng, Jia-Xun; Lu, Ling-Feng; Sun, Qihong; Ying, Ge; Tang, Dong-Jie; Tang, Hua; Wu, Wei; Hao, Pei; Wang, Lifeng; Jiang, Bo-Le; Zeng, Shenyan

    2005-01-01

    Xanthomonas campestris pathovar campestris (Xcc) is the causative agent of crucifer black rot disease, which causes severe losses in agricultural yield world-wide. This bacterium is a model organism for studying plant-bacteria interactions. We sequenced the complete genome of Xcc 8004 (5,148,708 bp), which is highly conserved relative to that of Xcc ATCC 33913. Comparative genomics analysis indicated that, in addition to a significant genomic-scale rearrangement cross the replication axis bet...

  11. Comparative Proteomics Analyses of Two Races of Fusarium oxysporum f. sp. conglutinans that Differ in Pathogenicity.

    Science.gov (United States)

    Li, Erfeng; Ling, Jian; Wang, Gang; Xiao, Jiling; Yang, Yuhong; Mao, Zhenchuan; Wang, Xuchu; Xie, Bingyan

    2015-09-03

    Fusarium oxysporum is a soil-inhabiting fungus that induces vascular wilt and root rot in a variety of plants. F. oxysporum f. sp. conglutinans (Foc), which comprises two races, can cause wilt disease in cabbage. Compared with race 1 (52557(-TM), R1), race 2 (58385(-TM), R2) exhibits much stronger pathogenicity. Here, we provide the first proteome reference maps for Foc mycelium and conidia and identify 145 proteins with different abundances among the two races. Of these proteins, most of the high-abundance proteins in the R2 mycelium and conidia are involved in carbohydrate, amino acid and ion metabolism, which indicates that these proteins may play important roles in isolate R2's stronger pathogenicity. The expression levels of 20 typical genes demonstrate similarly altered patterns compared to the proteomic analysis. The protein glucanosyltransferase, which is involved in carbohydrate metabolism, was selected for research. We knocked out the corresponding gene (gas1) and found that Foc-∆gas1 significantly reduced growth rate and virulence compared with wild type isolates. These results deepened our understanding of the proteins related to F. oxysporum pathogenicity in cabbage Fusarium wilt and provided new opportunities to control this disease.

  12. Comparative analyses of universal extraction buffers for assay of stress related biochemical and physiological parameters.

    Science.gov (United States)

    Han, Chunyu; Chan, Zhulong; Yang, Fan

    2015-01-01

    Comparative efficiency of three extraction solutions, including the universal sodium phosphate buffer (USPB), the Tris-HCl buffer (UTHB), and the specific buffers, were compared for assays of soluble protein, free proline, superoxide radical (O2∙-), hydrogen peroxide (H2O2), and the antioxidant enzymes such as superoxide dismutase (SOD), catalase (CAT), guaiacol peroxidase (POD), ascorbate peroxidase (APX), glutathione peroxidase (GPX), and glutathione reductase (GR) in Populus deltoide. Significant differences for protein extraction were detected via sodium dodecyl sulfate polyacrylamide gel electrophoresis (SDS-PAGE) and two-dimensional electrophoresis (2-DE). Between the two universal extraction buffers, the USPB showed higher efficiency for extraction of soluble protein, CAT, GR, O2∙-, GPX, SOD, and free proline, while the UTHB had higher efficiency for extraction of APX, POD, and H2O2. When compared with the specific buffers, the USPB showed higher extraction efficiency for measurement of soluble protein, CAT, GR, and O2∙-, parallel extraction efficiency for GPX, SOD, free proline, and H2O2, and lower extraction efficiency for APX and POD, whereas the UTHB had higher extraction efficiency for measurement of POD and H2O2. Further comparisons proved that 100 mM USPB buffer showed the highest extraction efficiencies. These results indicated that USPB would be suitable and efficient for extraction of soluble protein, CAT, GR, GPX, SOD, H2O2, O2∙-, and free proline.

  13. Comparative analyses of diffusion coefficients for different extraction processes from thyme

    Directory of Open Access Journals (Sweden)

    Petrovic Slobodan S.

    2012-01-01

    Full Text Available This work was aimed to analyze kinetics and mass transfer phenomena for different extraction processes from thyme (Thymus vulgaris L. leaves. Different extraction processes with ethanol were studied: Soxhlet extraction and ultrasound-assisted batch extraction on the laboratory scale as well as pilot plant batch extraction with mixing. The extraction processes with ethanol were compared to the process of supercritical carbon dioxide extraction performed at 10 MPa and 40°C. Experimental data were analyzed by mathematical model derived from the Fick’s second law to determine and compare diffusion coefficients in the periods of constant and decreasing extraction rate. In the fast extraction period, values of diffusion coefficients were one to three orders of magnitude higher compared to those determined for the period of slow extraction. The highest diffusion coefficient was reported for the fast extraction period of supercritical fluid extraction. In the case of extraction processes with ethanol, ultrasound, stirring and extraction temperature increase enhanced mass transfer rate in the washing phase. On the other hand, ultrasound contributed the most to the increase of mass transfer rate in the period of slow extraction.

  14. UniPrimer: A Web-Based Primer Design Tool for Comparative Analyses of Primate Genomes

    Directory of Open Access Journals (Sweden)

    Nomin Batnyam

    2012-01-01

    Full Text Available Whole genome sequences of various primates have been released due to advanced DNA-sequencing technology. A combination of computational data mining and the polymerase chain reaction (PCR assay to validate the data is an excellent method for conducting comparative genomics. Thus, designing primers for PCR is an essential procedure for a comparative analysis of primate genomes. Here, we developed and introduced UniPrimer for use in those studies. UniPrimer is a web-based tool that designs PCR- and DNA-sequencing primers. It compares the sequences from six different primates (human, chimpanzee, gorilla, orangutan, gibbon, and rhesus macaque and designs primers on the conserved region across species. UniPrimer is linked to RepeatMasker, Primer3Plus, and OligoCalc softwares to produce primers with high accuracy and UCSC In-Silico PCR to confirm whether the designed primers work. To test the performance of UniPrimer, we designed primers on sample sequences using UniPrimer and manually designed primers for the same sequences. The comparison of the two processes showed that UniPrimer was more effective than manual work in terms of saving time and reducing errors.

  15. Comparative analyses of developmental transcription factor repertoires in sponges reveal unexpected complexity of the earliest animals.

    Science.gov (United States)

    Fortunato, Sofia A V; Adamski, Marcin; Adamska, Maja

    2015-12-01

    Developmental transcription factors (DTFs) control development of animals by affecting expression of target genes, some of which are transcription factors themselves. In bilaterians and cnidarians, conserved DTFs are involved in homologous processes such as gastrulation or specification of neurons. The genome of Amphimedon queenslandica, the first sponge to be sequenced, revealed that only a fraction of these conserved DTF families are present in demosponges. This finding was in line with the view that morphological complexity in the animal lineage correlates with developmental toolkit complexity. However, as the phylum Porifera is very diverse, Amphimedon's genome may not be representative of all sponges. The recently sequenced genomes of calcareous sponges Sycon ciliatum and Leucosolenia complicata allowed investigations of DTFs in a sponge lineage evolutionarily distant from demosponges. Surprisingly, the phylogenetic analyses of identified DTFs revealed striking differences between the calcareous sponges and Amphimedon. As these differences appear to be a result of independent gene loss events in the two sponge lineages, the last common ancestor of sponges had to possess a much more diverse repertoire of DTFs than extant sponges. Developmental expression of sponge homologs of genes involved in specification of the Bilaterian endomesoderm and the neurosensory cells suggests that roles of many DTFs date back to the last common ancestor of all animals. Strikingly, even DTFs displaying apparent pan-metazoan conservation of sequence and function are not immune to being lost from individual species genomes. The quest for a comprehensive picture of the developmental toolkit in the last common metazoan ancestor is thus greatly benefitting from the increasing accessibility of sequencing, allowing comparisons of multiple genomes within each phylum.

  16. Comparative analyses of reproductive structures in harvestmen (opiliones) reveal multiple transitions from courtship to precopulatory antagonism.

    Science.gov (United States)

    Burns, Mercedes M; Hedin, Marshal; Shultz, Jeffrey W

    2013-01-01

    Explaining the rapid, species-specific diversification of reproductive structures and behaviors is a long-standing goal of evolutionary biology, with recent research tending to attribute reproductive phenotypes to the evolutionary mechanisms of female mate choice or intersexual conflict. Progress in understanding these and other possible mechanisms depends, in part, on reconstructing the direction, frequency and relative timing of phenotypic evolution of male and female structures in species-rich clades. Here we examine evolution of reproductive structures in the leiobunine harvestmen or "daddy long-legs" of eastern North America, a monophyletic group that includes species in which males court females using nuptial gifts and other species that are equipped for apparent precopulatory antagonism (i.e., males with long, hardened penes and females with sclerotized pregenital barriers). We used parsimony- and Bayesian likelihood-based analyses to reconstruct character evolution in categorical reproductive traits and found that losses of ancestral gift-bearing penile sacs are strongly associated with gains of female pregenital barriers. In most cases, both events occur on the same internal branch of the phylogeny. These coevolutionary changes occurred at least four times, resulting in clade-specific designs in the penis and pregenital barrier. The discovery of convergent origins and/or enhancements of apparent precopulatory antagonism among closely related species offers an unusual opportunity to investigate how major changes in reproductive morphology have occurred. We propose new hypotheses that attribute these enhancements to changes in ecology or life history that reduce the duration of breeding seasons, an association that is consistent with female choice, sexual conflict, and/or an alternative evolutionary mechanism.

  17. Comparative analyses of reproductive structures in harvestmen (opiliones reveal multiple transitions from courtship to precopulatory antagonism.

    Directory of Open Access Journals (Sweden)

    Mercedes M Burns

    Full Text Available Explaining the rapid, species-specific diversification of reproductive structures and behaviors is a long-standing goal of evolutionary biology, with recent research tending to attribute reproductive phenotypes to the evolutionary mechanisms of female mate choice or intersexual conflict. Progress in understanding these and other possible mechanisms depends, in part, on reconstructing the direction, frequency and relative timing of phenotypic evolution of male and female structures in species-rich clades. Here we examine evolution of reproductive structures in the leiobunine harvestmen or "daddy long-legs" of eastern North America, a monophyletic group that includes species in which males court females using nuptial gifts and other species that are equipped for apparent precopulatory antagonism (i.e., males with long, hardened penes and females with sclerotized pregenital barriers. We used parsimony- and Bayesian likelihood-based analyses to reconstruct character evolution in categorical reproductive traits and found that losses of ancestral gift-bearing penile sacs are strongly associated with gains of female pregenital barriers. In most cases, both events occur on the same internal branch of the phylogeny. These coevolutionary changes occurred at least four times, resulting in clade-specific designs in the penis and pregenital barrier. The discovery of convergent origins and/or enhancements of apparent precopulatory antagonism among closely related species offers an unusual opportunity to investigate how major changes in reproductive morphology have occurred. We propose new hypotheses that attribute these enhancements to changes in ecology or life history that reduce the duration of breeding seasons, an association that is consistent with female choice, sexual conflict, and/or an alternative evolutionary mechanism.

  18. Comparative transcriptome analyses reveal a special glucosinolate metabolism mechanism in Brassica alboglabra sprouts

    Directory of Open Access Journals (Sweden)

    Rongfang Guo

    2016-10-01

    Full Text Available Brassica sprouts contain abundant phytochemicals, especially glucosinolates (GSs. Various methods have been used to enhance GS content in sprouts. However, the molecular basis of GS metabolism in sprouts remains an open question. Here we employed RNA-seq analysis to compare the transcriptomes of high-GS (JL-08 and low-GS (JL-09 Brassica alboglabra sprouts. Paired-end Illumina RNA-seq reads were generated and mapped to the B. oleracea reference genome. The differentially expressed genes were analyzed between JL-08 and JL-09. Among these, 1,477 genes were up-regulated and 1,239 down-regulated in JL-09 compared with JL-08. Enrichment analysis of these differentially expressed genes showed that the GS biosynthesis had the smallest enrichment factor and the highest Q value of all metabolic pathways in Kyoto Encyclopedia of Genes and Genomes database, indicating the main metabolic difference between JL-08 and JL-09 is the GS biosynthetic pathway. Thirty-seven genes of the sequenced data were annotated as putatively involved in GS biosynthesis, degradation and regulation, of which 11 were differentially expressed in JL-08 and JL-09. The expression level of GS degradation enzyme myrosinase in high-GS JL-08 was lower compared with low-GS JL-09. Surprisingly, in high-GS JL-08, the expression levels of GS biosynthesis genes were also lower than those in low-GS JL-09. As the GS contents in sprouts are determined by dynamic equilibrium of seed stored GS mobilization, de novo synthesis, degradation, and extra transport, the result of this study leads us to suggest that efforts to increase GS content should focus on either raising GS content in seeds or decreasing myrosinase activity, rather than improving the expression level of GS biosynthesis genes in sprouts.

  19. Agriculture: Nurseries and Greenhouses

    Science.gov (United States)

    Nurseries and Greenhouses. Information about environmental requirements specifically relating to the production of many types of agricultural crops grown in nurseries and greenhouses, such as ornamental plants and specialty fruits and vegetables.

  20. Comparative Methylome Analyses Identify Epigenetic Regulatory Loci of Human Brain Evolution.

    Science.gov (United States)

    Mendizabal, Isabel; Shi, Lei; Keller, Thomas E; Konopka, Genevieve; Preuss, Todd M; Hsieh, Tzung-Fu; Hu, Enzhi; Zhang, Zhe; Su, Bing; Yi, Soojin V

    2016-11-01

    How do epigenetic modifications change across species and how do these modifications affect evolution? These are fundamental questions at the forefront of our evolutionary epigenomic understanding. Our previous work investigated human and chimpanzee brain methylomes, but it was limited by the lack of outgroup data which is critical for comparative (epi)genomic studies. Here, we compared whole genome DNA methylation maps from brains of humans, chimpanzees and also rhesus macaques (outgroup) to elucidate DNA methylation changes during human brain evolution. Moreover, we validated that our approach is highly robust by further examining 38 human-specific DMRs using targeted deep genomic and bisulfite sequencing in an independent panel of 37 individuals from five primate species. Our unbiased genome-scan identified human brain differentially methylated regions (DMRs), irrespective of their associations with annotated genes. Remarkably, over half of the newly identified DMRs locate in intergenic regions or gene bodies. Nevertheless, their regulatory potential is on par with those of promoter DMRs. An intriguing observation is that DMRs are enriched in active chromatin loops, suggesting human-specific evolutionary remodeling at a higher-order chromatin structure. These findings indicate that there is substantial reprogramming of epigenomic landscapes during human brain evolution involving noncoding regions. © The Author 2016. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution.

  1. Comparative physiological and transcriptional analyses of two contrasting drought tolerant alfalfa varieties

    Directory of Open Access Journals (Sweden)

    Wenli eQuan

    2016-01-01

    Full Text Available Drought is one of major environmental determinants of plant growth and productivity. Alfalfa (Medicago sativa is a legume perennial forage crop native to the arid and semi-arid environment, which is an ideal candidate to study the biochemical and molecular mechanisms conferring drought resistance in plants. In this study, drought stress responses of two alfalfa varieties, Longdong and Algonquin, were comparatively assayed at the physiological, morphological and transcriptional levels. Under control condition, the drought-tolerant Longdong with smaller leaf size and lower stomata density showed less water loss than the drought-sensitive Algonquin. After exposing to drought stress, Longdong showed less severe cell membrane damage, more proline and ascorbate (ASC contents and less accumulation of H2O2 than Algonquin. Moreover, significantly higher antioxidant enzymes activities after drought treatment were found in Longdong when compared with Algonquin. In addition, transcriptional expression analysis showed that Longdong exhibited significantly higher transcripts of drought-responsive genes in leaf and root under drought stress condition. Taken together, these results indicated that Longdong variety was more drought-tolerant than Algonquin variety as evidenced by less leaf firing, more lateral root number, higher relative aboveground/underground biomass per plant and survival rate.

  2. Comparing Postural Stability Entropy Analyses to Differentiate Fallers and Non-fallers.

    Science.gov (United States)

    Fino, Peter C; Mojdehi, Ahmad R; Adjerid, Khaled; Habibi, Mohammad; Lockhart, Thurmon E; Ross, Shane D

    2016-05-01

    The health and financial cost of falls has spurred research to differentiate the characteristics of fallers and non-fallers. Postural stability has received much of the attention with recent studies exploring various measures of entropy. This study compared the discriminatory ability of several entropy methods at differentiating two paradigms in the center-of-pressure of elderly individuals: (1) eyes open (EO) vs. eyes closed (EC) and (2) fallers (F) vs. non-fallers (NF). Methods were compared using the area under the curve (AUC) of the receiver-operating characteristic curves developed from logistic regression models. Overall, multiscale entropy (MSE) and composite multiscale entropy (CompMSE) performed the best with AUCs of 0.71 for EO/EC and 0.77 for F/NF. When methods were combined together to maximize the AUC, the entropy classifier had an AUC of for 0.91 the F/NF comparison. These results suggest researchers and clinicians attempting to create clinical tests to identify fallers should consider a combination of every entropy method when creating a classifying test. Additionally, MSE and CompMSE classifiers using polar coordinate data outperformed rectangular coordinate data, encouraging more research into the most appropriate time series for postural stability entropy analysis.

  3. EDGAR 2.0: an enhanced software platform for comparative gene content analyses.

    Science.gov (United States)

    Blom, Jochen; Kreis, Julian; Spänig, Sebastian; Juhre, Tobias; Bertelli, Claire; Ernst, Corinna; Goesmann, Alexander

    2016-07-01

    The rapidly increasing availability of microbial genome sequences has led to a growing demand for bioinformatics software tools that support the functional analysis based on the comparison of closely related genomes. By utilizing comparative approaches on gene level it is possible to gain insights into the core genes which represent the set of shared features for a set of organisms under study. Vice versa singleton genes can be identified to elucidate the specific properties of an individual genome. Since initial publication, the EDGAR platform has become one of the most established software tools in the field of comparative genomics. Over the last years, the software has been continuously improved and a large number of new analysis features have been added. For the new version, EDGAR 2.0, the gene orthology estimation approach was newly designed and completely re-implemented. Among other new features, EDGAR 2.0 provides extended phylogenetic analysis features like AAI (Average Amino Acid Identity) and ANI (Average Nucleotide Identity) matrices, genome set size statistics and modernized visualizations like interactive synteny plots or Venn diagrams. Thereby, the software supports a quick and user-friendly survey of evolutionary relationships between microbial genomes and simplifies the process of obtaining new biological insights into their differential gene content. All features are offered to the scientific community via a web-based and therefore platform-independent user interface, which allows easy browsing of precomputed datasets. The web server is accessible at http://edgar.computational.bio.

  4. Comparative iTRAQ proteome and transcriptome analyses of sweet orange infected by "Candidatus Liberibacter asiaticus".

    Science.gov (United States)

    Fan, Jing; Chen, Chunxian; Yu, Qibin; Brlansky, Ronald H; Li, Zheng-Guo; Gmitter, Frederick G

    2011-11-01

    Citrus Huanglongbing (HLB) has been threatening citrus production worldwide. In this study, a comparative proteomic approach was applied to understand the pathogenic process of HLB in affected sweet orange leaves. Using the isobaric tags for relative and absolute quantification (iTRAQ) technique, we identified 686 unique proteins in the mature leaves of both mock-inoculated and diseased 'Madam Vinous' sweet orange plants. Of the identified proteins, 20 and 10 were differentially expressed in leaves with and without symptoms of HLB (fold change > 2.5), respectively, compared with mock-inoculated controls. Most significantly, upregulated proteins were involved in stress/defense response, such as four miraculin-like proteins, chitinase, Cu/Zn superoxide dismutase and lipoxygenase. Microarray analysis also showed that stress-related genes were significantly upregulated at the transcriptional level. For example, remarkable upregulations of miraculin-like proteins and Cu/Zn superoxide dismutase transcripts were observed. Moreover, the transcriptional patterns of miraculin-like protein 1 and Cu/Zn superoxide dismutase were examined at different stages of HLB disease development. Combined with the transcriptomic data, the proteomic data can provide an enhanced understanding of citrus stress/defense responses to HLB.

  5. Global biogeography of the ectomycorrhizal /sebacina lineage (Fungi, Sebacinales) as revealed from comparative phylogenetic analyses.

    Science.gov (United States)

    Tedersoo, Leho; Bahram, Mohammad; Ryberg, Martin; Otsing, Eveli; Kõljalg, Urmas; Abarenkov, Kessy

    2014-08-01

    Compared with plants and animals, large-scale biogeographic patterns of microbes including fungi are poorly understood. By the use of a comparative phylogenetic approach and ancestral state reconstructions, we addressed the global biogeography, rate of evolution and evolutionary origin of the widely distributed ectomycorrhizal (EcM) /sebacina lineage that forms a large proportion of the Sebacinales order. We downloaded all publicly available internal transcribed spacer (ITS) sequences and metadata and supplemented sequence information from three genes to construct dated phylogenies and test biogeographic hypotheses. The /sebacina lineage evolved 45-57 Myr ago that groups it with relatively young EcM taxa in other studies. The most parsimonious origin for /sebacina is inferred to be North American temperate coniferous forests. Among biogeographic traits, region and biome exhibited stronger phylogenetic signal than host family. Consistent with the resource availability (environmental energy) hypothesis, the ITS region is evolving at a faster rate in tropical than nontropical regions. Most biogeographic regions exhibited substantial phylogenetic clustering suggesting a strong impact of dispersal limitation over a large geographic scale. In northern Holarctic regions, however, phylogenetic distances and phylogenetic grouping of isolates indicate multiple recent dispersal events. © 2014 John Wiley & Sons Ltd.

  6. Comparative Analyses of the Lipooligosaccharides from Nontypeable Haemophilus influenzae and Haemophilus haemolyticus Show Differences in Sialic Acid and Phosphorylcholine Modifications.

    Science.gov (United States)

    Post, Deborah M B; Ketterer, Margaret R; Coffin, Jeremy E; Reinders, Lorri M; Munson, Robert S; Bair, Thomas; Murphy, Timothy F; Foster, Eric D; Gibson, Bradford W; Apicella, Michael A

    2016-01-04

    Haemophilus haemolyticus and nontypeable Haemophilus influenzae (NTHi) are closely related upper airway commensal bacteria that are difficult to distinguish phenotypically. NTHi causes upper and lower airway tract infections in individuals with compromised airways, while H. haemolyticus rarely causes such infections. The lipooligosaccharide (LOS) is an outer membrane component of both species and plays a role in NTHi pathogenesis. In this study, comparative analyses of the LOS structures and corresponding biosynthesis genes were performed. Mass spectrometric and immunochemical analyses showed that NTHi LOS contained terminal sialic acid more frequently and to a higher extent than H. haemolyticus LOS did. Genomic analyses of 10 strains demonstrated that H. haemolyticus lacked the sialyltransferase genes lic3A and lic3B (9/10) and siaA (10/10), but all strains contained the sialic acid uptake genes siaP and siaT (10/10). However, isothermal titration calorimetry analyses of SiaP from two H. haemolyticus strains showed a 3.4- to 7.3-fold lower affinity for sialic acid compared to that of NTHi SiaP. Additionally, mass spectrometric and immunochemical analyses showed that the LOS from H. haemolyticus contained phosphorylcholine (ChoP) less frequently than the LOS from NTHi strains. These differences observed in the levels of sialic acid and ChoP incorporation in the LOS structures from H. haemolyticus and NTHi may explain some of the differences in their propensities to cause disease.

  7. Comparative Analyses of the Lipooligosaccharides from Nontypeable Haemophilus influenzae and Haemophilus haemolyticus Show Differences in Sialic Acid and Phosphorylcholine Modifications

    Science.gov (United States)

    Post, Deborah M. B.; Ketterer, Margaret R.; Coffin, Jeremy E.; Reinders, Lorri M.; Munson, Robert S.; Bair, Thomas; Murphy, Timothy F.; Foster, Eric D.; Gibson, Bradford W.

    2016-01-01

    Haemophilus haemolyticus and nontypeable Haemophilus influenzae (NTHi) are closely related upper airway commensal bacteria that are difficult to distinguish phenotypically. NTHi causes upper and lower airway tract infections in individuals with compromised airways, while H. haemolyticus rarely causes such infections. The lipooligosaccharide (LOS) is an outer membrane component of both species and plays a role in NTHi pathogenesis. In this study, comparative analyses of the LOS structures and corresponding biosynthesis genes were performed. Mass spectrometric and immunochemical analyses showed that NTHi LOS contained terminal sialic acid more frequently and to a higher extent than H. haemolyticus LOS did. Genomic analyses of 10 strains demonstrated that H. haemolyticus lacked the sialyltransferase genes lic3A and lic3B (9/10) and siaA (10/10), but all strains contained the sialic acid uptake genes siaP and siaT (10/10). However, isothermal titration calorimetry analyses of SiaP from two H. haemolyticus strains showed a 3.4- to 7.3-fold lower affinity for sialic acid compared to that of NTHi SiaP. Additionally, mass spectrometric and immunochemical analyses showed that the LOS from H. haemolyticus contained phosphorylcholine (ChoP) less frequently than the LOS from NTHi strains. These differences observed in the levels of sialic acid and ChoP incorporation in the LOS structures from H. haemolyticus and NTHi may explain some of the differences in their propensities to cause disease. PMID:26729761

  8. Comparative Omics and Trait Analyses of Marine Pseudoalteromonas Phages Advance the Phage OTU Concept

    Directory of Open Access Journals (Sweden)

    Melissa B. Duhaime

    2017-07-01

    considered viral niches, while host ranges and infection efficiencies are tracked as viral traits. Quantitative host range assays revealed conserved traits within virus OTUs that break down between OTUs, suggesting the defined units capture niche and fitness differentiation. Together these analyses provide a foundation for model system-based hypothesis testing that will improve our understanding of marine copiotrophs, as well as phage–host interactions on the ocean particles and aggregates where Pseudoalteromonas thrive.

  9. Stream Tracer Integrity: Comparative Analyses of Rhodamine-WT and Sodium Chloride through Transient Storage Modeling

    Science.gov (United States)

    Smull, E. M.; Wlostowski, A. N.; Gooseff, M. N.; Bowden, W. B.; Wollheim, W. M.

    2013-12-01

    Solute transport in natural channels describes the transport of water and dissolved matter through a river reach of interest. Conservative tracers allow us to label a parcel of stream water, such that we can track its movement downstream through space and time. A transient storage model (TSM) can be fit to the breakthrough curve (BTC) following a stream tracer experiment, as a way to quantify advection, dispersion, and transient storage processes. Arctic streams and rivers, in particular, are continuously underlain by permafrost, which provides for a simplified surface water-groundwater exchange. Sodium chloride (NaCl) and Rhodamine-WT (RWT) are widely used tracers, and differences between the two in conservative behavior and detection limits have been noted in small-scale field and laboratory studies. This study seeks to further this understanding by applying the OTIS model to NaCl and RWT BTC data from a field study on the Kuparuk River, Alaska, at varying flow rates. There are two main questions to be answered: 1) Do differences in NaCl and RWT manifest in OTIS parameter values? 2) Are the OTIS model results reliable for NaCl, RWT, or both? Fieldwork was performed in the summer of 2012 on the Kuparuk River, and modeling was performed using a modified OTIS framework, which provided for parameter optimization and further global sensitivity analyses. The results of this study will contribute to the greater body of literature surrounding Arctic stream hydrology, and it will assist in methodology for future tracer field studies. Additionally, the modeling work will provide an analysis for OTIS parameter identifiability, and assess stream tracer integrity (i.e. how well the BTC data represents the system) and its relation to TSM performance (i.e. how well the TSM can find a unique fit to the BTC data). The quantitative tools used can be applied to other solute transport studies, to better understand potential deviations in model outcome due to stream tracer choice and

  10. Statistical analyses for the purpose of an early detection of global and regional climate change due to the anthropogenic greenhouse effect; Statistische Analysen zur Frueherkennung globaler und regionaler Klimaaenderungen aufgrund des anthropogenen Treibhauseffektes

    Energy Technology Data Exchange (ETDEWEB)

    Grieser, J.; Staeger, T.; Schoenwiese, C.D.

    2000-03-01

    The report answers the question where, why and how different climate variables have changed within the last 100 years. The analyzed variables are observed time series of temperature (mean, maximum, minimum), precipitation, air pressure, and water vapour pressure in a monthly resolution. The time series are given as station data and grid box data as well. Two kinds of time-series analysis are performed. The first is applied to find significant changes concerning mean and variance of the time series. Thereby also changes in the annual cycle and frequency of extreme events arise. The second approach is used to detect significant spatio-temporal patterns in the variations of climate variables, which are most likely driven by known natural and anthropogenic climate forcings. Furtheron, an estimation of climate noise allows to indicate regions where certain climate variables have changed significantly due to the enhanced anthropogenic greenhouse effect. (orig.) [German] Der Bericht gibt Antwort auf die Frage, wo sich welche Klimavariable wie und warum veraendert hat. Ausgangspunkt der Analyse sind huntertjaehrige Zeitreihen der Temperatur (Mittel, Maximum, Minimum), des Niederschlags, Luftdrucks und Wasserdampfpartialdrucks in monatlicher Aufloesung. Es wurden sowohl Stationsdaten als auch Gitterpunktdaten verwendet. Mit Hilfe der strukturorientierten Zeitreihenzerlegung wurden signifikankte Aenderungen im Mittel und in der Varianz der Zeitreihen gefunden. Diese betreffen auch Aenderungen im Jahresgang und in der Haeufigkeit extremer Ereignisse. Die ursachenorientierte Zeitreihenzerlegung selektiert signifikante raumzeitliche Variationen der Klimavariablen, die natuerlichen bzw. anthropogenen Klimaantrieben zugeordnet werden koennen. Eine Abschaetzung des Klimarauschens erlaubt darueber hinaus anzugeben, wo und wie signifikant der anthropogene Treibhauseffekt welche Klimavariablen veraendert hat. (orig.)

  11. Comparative analyses of laccase-catalyzed amination reactions for production of novel β-lactam antibiotics.

    Science.gov (United States)

    Mikolasch, Annett; Manda, Katrin; Schlüter, Rabea; Lalk, Michael; Witt, Sabine; Seefeldt, Simone; Hammer, Elke; Schauer, Frieder; Jülich, Wolf-Dieter; Lindequist, Ulrike

    2012-01-01

    Seven novel β-lactam antibiotics with activities against Gram-positive bacterial strains, among them methicillin-resistant Staphylococcus aureus and vancomycin-resistant enterococci, were synthesized by amination of 2,5-dihydroxyphenylacetic acid in usable yields (30-60%). These products protected mice against an infection with S. aureus lethal to the control animals. The results show the usefulness of laccase for the synthesis of potential new antibiotics, in addition to the interdependence of the laccase substrates, the amino coupling partners, and the product formation, yield, and activity. The syntheses of β-lactam antibiotics with 2,5-dihydroxyaromatic acid substructures (para-substituted) are then compared with those of 3,4-dihydroxyaromatic acid substructures (ortho-substituted). Para-substituted laccase substrates were better reaction partners in these syntheses than ortho-substituted compounds.

  12. COMPARATIVE ANALYSES CONCERNING PARASITIC DIVERSITY OF COMMON CARP AND KOI CARP

    Directory of Open Access Journals (Sweden)

    DANIELA RADU

    2013-12-01

    Full Text Available The experiments carried on ponds of CCDP Nucet, researches being axled on comparative and comprehensive analysis of pathologic incidences on common and Japanese carp. This researches present theoretical and empirical convenience, because allow to elaborate of prophylaxis and disease control on. The ichthyo-pathologic exam was carried on for 271 exemplars of common carp, subspecies Cyprinus carpio carpio and 31 exemplars of ornamental carp (koi carp. There were identified 30 species of allogenic parasites, 9 species of parasites characteristic for carp as well as some common species of parasites with broad dissemination on cultured fish. All analyzed exemplars of showed parasitic infestation, but with a different extent of extensively and intensively. The most important epidemiologic factors from the analyzed ponds that increase the parasitic invasions were represented by the presence of infested fish, rearing in policulture of species and ages, as well as by the high density, water quality, thermic and flow fluctuations.

  13. THE ECONOMIC STRUCTURES IN THE ROMANIAN REGIONS AND COUNTIES AND THE EU MEMBER STATES. COMPARATIVE ANALYSES.

    Directory of Open Access Journals (Sweden)

    Marioara, IORDAN

    2014-03-01

    Full Text Available Bridging the gap between countries, and thus decresing poverty, is the greatest challenge of European countries in the context of the European social cohesion. The risk of future economic difficulties caused by the size of budget deficits is beared by the funds to be allocated to social inclusion in the EU and the EU member countries. They will be concerned in the post-crisis period with aligning the requirements of progress, of poverty reduction, but also of ensuring the sustainability of public finances. For Romania, cohesion is particularly important as most regions show significant differences as compared to the EU average and the national average. This group also includes the South Muntenia Region, which has many advantages for faster progress and to be able to exploit the opportunities offered by the implementation of the Europe 2020 strategy.

  14. Entreprise d'insertion: analyse comparative des projets de décret et conclusions

    OpenAIRE

    Defourny, Jacques

    1997-01-01

    Sur base de l'expérience des 7 projets-pilotes d'entreprise d'insertion en Wallonie, soutenus par la Région Wallonne, Le Fonds Social Européen et la Fondation Roi Baudouin (1994-1997) et après deux recherches du Centre d'Economie Sociale qui ont évalué et tiré les leçons de ces projets-pilotes, plusieurs projets de décrets et d'ordonnance ont vu le jour en vue d'officialiser et de soutenir les entreprises d'insertion en Belgique. Ce sont ces projets de politiques publiques qui sont comparés ...

  15. Comparative Analyses of Signature Genes in Acute Rejection and Operational Tolerance.

    Science.gov (United States)

    Choi, Jeong-Woo; Kim, Yong-Hee; Oh, Ji Won

    2017-08-01

    Using biomarkers as prediction tools or therapeutic targets can be a valuable strategy in transplantation. Recent studies identified biomarkers of acute rejection (AR) and operational tolerance (TOL) through the application of meta-analysis. In this study, we comparatively analyzed the signature genes in acute rejection and operational tolerance seen in human allogeneic transplantations using massive bioinformatical meta-analysis. To identify the signature genes in opposite immunological conditions, AR and TOL, we first collected the 1,252 gene expression data specifically intended for those circumstances. Then we excluded based on biological cut-values, Principal Component Analysis (PCA) as well as Multi-Dimensional Scaling (MDS). Using differentially expressed genes (DEGs) from meta-analysis, we then applied a ranked scoring system to identify the signature genes of AR and TOL. We identified 53 up-regulated and 32 down-regulated signature genes in acute rejection condition. Among them, ISG20, CXCL9, CXCL10, CCL19, FCER1G, PMSE1, UBD are highly expressed in AR condition. In operational tolerance, we identified 110 up-regulated and 48 down-regulated signature genes. TCL1A, BLNK, MS4A1, EBF1, IGHM are up-regulated in TOL condition. These genes are highly representative of AR or TOL across the different organs such as liver, kidney and heart. Since immune response is the sum of complex biological and molecular dynamics, these signature genes as well as pathway analysis using a systems biology approach could be used to catch the insights of the certain pathways that would be overlooked with the conventional gene-level comparative analysis.

  16. Genomic and comparative genomic analyses of Rickettsia heilongjiangensis provide insight into its evolution and pathogenesis.

    Science.gov (United States)

    Duan, Changsong; Xiong, Xiaolu; Qi, Yong; Gong, Wenping; Jiao, Jun; Wen, Bohai

    2014-08-01

    Rickettsia heilongjiangensis, the causative agent of far eastern spotted fever, is an obligate intracellular gram-negative bacterium that belongs to the spotted fever group rickettsiae. To understand the evolution and pathogenesis of R. heilongjiangensis, we analyzed its genome and compared it with other rickettsial genomes available in GenBank. The R. heilongjiangensis chromosome contains 1333 genes, including 1297 protein coding genes and 36 RNA coding genes. The genome also contains 121 pseudogenes, 54 insertion sequences, and 39 tandem repeats. Sixteen genes encoding the major components of the type IV secretion systems were identified in the R. heilongjiangensis genome. In total, 37 β-barrel outer membrane proteins were predicted in the genome, eight of which have been previously confirmed to be outer membrane proteins. In addition, 266 potential virulence factor genes, seven partially deleted antibiotic resistance genes, and a genomic island were identified in the genome. The codon usage in the genome is compatible with its low GC content, and the amino acid usage shows apparent bias. A comparative genomic analysis showed that R. heilongjiangensis and R. japonica share one unique fragment that may be a target sequence for a diagnostic assay. The orthologs of 37 genes of R. heilongjiangensis were found in pathogenic R. rickettsii str. Sheila Smith but not in non-pathogenic R. rickettsii str. Iowa, which may explain why R. heilongjiangensis is pathogenic. Pan-genome analysis showed that R. heilongjiangensis and 42 other rickettsiae strains share 693 core genes with a pan-genome size of 4837 genes. The pan-genome-based phylogeny showed that R. heilongjiangensis was closely related to R. japonica.

  17. Comparative secretome analyses of two Trichoderma reesei RUT-C30 and CL847 hypersecretory strains

    Directory of Open Access Journals (Sweden)

    Lignon Sabrina

    2008-12-01

    Full Text Available Abstract Background Due to its capacity to produce large amounts of cellulases, Trichoderma reesei is increasingly been researched in various fields of white biotechnology, especially in biofuel production from lignocellulosic biomass. The commercial enzyme mixtures produced at industrial scales are not well characterized, and their proteinaceous components are poorly identified and quantified. The development of proteomic methods has made it possible to comprehensively overview the enzymes involved in lignocellulosic biomass degradation which are secreted under various environmental conditions. Results The protein composition of the secretome produced by industrial T. reesei (strain CL847 grown on a medium promoting the production of both cellulases and hemicellulases was explored using two-dimensional electrophoresis and MALDI-TOF or LC-MS/MS protein identification. A total of 22 protein species were identified. As expected, most of them are potentially involved in biomass degradation. The 2D map obtained was then used to compare the secretomes produced by CL847 and another efficient cellulolytic T. reesei strain, Rut-C30, the reference cellulase-overproducing strain using lactose as carbon source and inducer of cellulases. Conclusion This study provides the most complete mapping of the proteins secreted by T. reesei to date. We report on the first use of proteomics to compare secretome composition between two cellulase-overproducing strains Rut-C30 and CL847 grown under similar conditions. Comparison of protein patterns in both strains highlighted many unexpected differences between cellulase cocktails. The results demonstrate that 2D electrophoresis is a promising tool for studying cellulase production profiles, whether for industrial characterization of an entire secretome or for a more fundamental study on cellulase expression at genome-wide scale.

  18. U.S. regional greenhouse gas emissions analysis comparing highly resolved vehicle miles traveled and CO2 emissions: mitigation implications and their effect on atmospheric measurements

    Science.gov (United States)

    Mendoza, D. L.; Gurney, K. R.

    2010-12-01

    Carbon dioxide (CO2) is the most abundant anthropogenic greenhouse gas and projections of fossil fuel energy demand show CO2 concentrations increasing indefinitely into the future. After electricity production, the transportation sector is the second largest CO2 emitting economic sector in the United States, accounting for 32.3% of the total U.S. emissions in 2002. Over 80% of the transport sector is composed of onroad emissions, with the remainder shared by the nonroad, aircraft, railroad, and commercial marine vessel transportation. In order to construct effective mitigation policy for the onroad transportation sector and more accurately predict CO2 emissions for use in transport models and atmospheric measurements, analysis must incorporate the three components that determine the CO2 onroad transport emissions: vehicle fleet composition, average speed of travel, and emissions regulation strategies. Studies to date, however, have either focused on one of these three components, have been only completed at the national scale, or have not explicitly represented CO2 emissions instead relying on the use of vehicle miles traveled (VMT) as an emissions proxy. National-level projections of VMT growth is not sufficient to highlight regional differences in CO2 emissions growth due to the heterogeneity of vehicle fleet and each state’s road network which determines the speed of travel of vehicles. We examine how an analysis based on direct CO2 emissions and an analysis based on VMT differ in terms of their emissions and mitigation implications highlighting potential biases introduced by the VMT-based approach. This analysis is performed at the US state level and results are disaggregated by road and vehicle classification. We utilize the results of the Vulcan fossil fuel CO2 emissions inventory which quantified emissions for the year 2002 across all economic sectors in the US at high resolution. We perform this comparison by fuel type,12 road types, and 12 vehicle types

  19. The Dynamic Greenhouse Challenge

    Science.gov (United States)

    Roman, Harry T.

    2010-01-01

    Greenhouses are marvelous devices, allowing one to enjoy the flower spectacle of summer all year round. At night, greenhouses use supplemental heat to keep the fragile plants warm. Over the last 30 years, greenhouse technology has undergone many changes, with the structures being automated and monitored and low-cost plastic structures emerging as…

  20. Engineering concepts for inflatable Mars surface greenhouses

    Science.gov (United States)

    Hublitz, I.; Henninger, D. L.; Drake, B. G.; Eckart, P.

    2004-01-01

    A major challenge of designing a bioregenerative life support system for Mars is the reduction of the mass, volume, power, thermal and crew-time requirements. Structural mass of the greenhouse could be saved by operating the greenhouse at low atmospheric pressure. This paper investigates the feasibility of this concept. The method of equivalent system mass is used to compare greenhouses operated at high atmospheric pressure to greenhouses operated at low pressure for three different lighting methods: natural, artificial and hybrid lighting. c2004 COSPAR. Published by Elsevier Ltd. All rights reserved.

  1. Comparative analyses of animal-tracking data reveal ecological significance of endothermy in fishes

    Science.gov (United States)

    Watanabe, Yuuki Y.; Goldman, Kenneth J.; Caselle, Jennifer E.; Chapman, Demian D.; Papastamatiou, Yannis P.

    2015-01-01

    Despite long evolutionary separations, several sharks and tunas share the ability to maintain slow-twitch, aerobic red muscle (RM) warmer than ambient water. Proximate causes of RM endothermy are well understood, but ultimate causes are unclear. Two advantages often proposed are thermal niche expansion and elevated cruising speeds. The thermal niche hypothesis is generally supported, because fishes with RM endothermy often exhibit greater tolerance to broad temperature ranges. In contrast, whether fishes with RM endothermy cruise faster, and achieve any ecological benefits from doing so, remains unclear. Here, we compiled data recorded by modern animal-tracking tools for a variety of free-swimming marine vertebrates. Using phylogenetically informed allometry, we show that both cruising speeds and maximum annual migration ranges of fishes with RM endothermy are 2–3 times greater than fishes without it, and comparable to nonfish endotherms (i.e., penguins and marine mammals). The estimated cost of transport of fishes with RM endothermy is twice that of fishes without it. We suggest that the high energetic cost of RM endothermy in fishes is offset by the benefit of elevated cruising speeds, which not only increase prey encounter rates, but also enable larger-scale annual migrations and potentially greater access to seasonally available resources. PMID:25902489

  2. Comparative Systems Analyses Reveal Molecular Signatures of Clinically tested Vaccine Adjuvants.

    Science.gov (United States)

    Olafsdottir, Thorunn A; Lindqvist, Madelene; Nookaew, Intawat; Andersen, Peter; Maertzdorf, Jeroen; Persson, Josefine; Christensen, Dennis; Zhang, Yuan; Anderson, Jenna; Khoomrung, Sakda; Sen, Partho; Agger, Else Marie; Coler, Rhea; Carter, Darrick; Meinke, Andreas; Rappuoli, Rino; Kaufmann, Stefan H E; Reed, Steven G; Harandi, Ali M

    2016-12-13

    A better understanding of the mechanisms of action of human adjuvants could inform a rational development of next generation vaccines for human use. Here, we exploited a genome wide transcriptomics analysis combined with a systems biology approach to determine the molecular signatures induced by four clinically tested vaccine adjuvants, namely CAF01, IC31, GLA-SE and Alum in mice. We report signature molecules, pathways, gene modules and networks, which are shared by or otherwise exclusive to these clinical-grade adjuvants in whole blood and draining lymph nodes of mice. Intriguingly, co-expression analysis revealed blood gene modules highly enriched for molecules with documented roles in T follicular helper (TFH) and germinal center (GC) responses. We could show that all adjuvants enhanced, although with different magnitude and kinetics, TFH and GC B cell responses in draining lymph nodes. These results represent, to our knowledge, the first comparative systems analysis of clinically tested vaccine adjuvants that may provide new insights into the mechanisms of action of human adjuvants.

  3. Comparative Systems Analyses Reveal Molecular Signatures of Clinically tested Vaccine Adjuvants

    Science.gov (United States)

    Olafsdottir, Thorunn A.; Lindqvist, Madelene; Nookaew, Intawat; Andersen, Peter; Maertzdorf, Jeroen; Persson, Josefine; Christensen, Dennis; Zhang, Yuan; Anderson, Jenna; Khoomrung, Sakda; Sen, Partho; Agger, Else Marie; Coler, Rhea; Carter, Darrick; Meinke, Andreas; Rappuoli, Rino; Kaufmann, Stefan H. E.; Reed, Steven G.; Harandi, Ali M.

    2016-12-01

    A better understanding of the mechanisms of action of human adjuvants could inform a rational development of next generation vaccines for human use. Here, we exploited a genome wide transcriptomics analysis combined with a systems biology approach to determine the molecular signatures induced by four clinically tested vaccine adjuvants, namely CAF01, IC31, GLA-SE and Alum in mice. We report signature molecules, pathways, gene modules and networks, which are shared by or otherwise exclusive to these clinical-grade adjuvants in whole blood and draining lymph nodes of mice. Intriguingly, co-expression analysis revealed blood gene modules highly enriched for molecules with documented roles in T follicular helper (TFH) and germinal center (GC) responses. We could show that all adjuvants enhanced, although with different magnitude and kinetics, TFH and GC B cell responses in draining lymph nodes. These results represent, to our knowledge, the first comparative systems analysis of clinically tested vaccine adjuvants that may provide new insights into the mechanisms of action of human adjuvants.

  4. Comparative analyses among the Trichomonas vaginalis, Trichomonas tenax, and Tritrichomonas foetus 5S ribosomal RNA genes.

    Science.gov (United States)

    Torres-Machorro, Ana Lilia; Hernández, Roberto; Alderete, John F; López-Villaseñor, Imelda

    2009-04-01

    The 5S ribosomal RNA (5S rRNA) is an essential component of ribosomes. Throughout evolution, variation is found among 5S rRNA genes regarding their chromosomal localization, copy number, and intergenic regions. In this report, we describe and compare the gene sequences, motifs, genomic copy number, and chromosomal localization of the Trichomonas vaginalis, Trichomonas tenax, and Tritrichomonas foetus 5S rRNA genes. T. vaginalis and T. foetus have a single type of 5S rRNA-coding region, whereas two types were found in T. tenax. The sequence identities among the three organisms are between 94 and 97%. The intergenic regions are more divergent in sequence and size with characteristic species-specific motifs. The T. foetus 5S rRNA gene has larger and more complex intergenic regions, which contain either an ubiquitin gene or repeated sequences. The 5S rRNA genes were located in Trichomonads chromosomes by fluorescent in situ hybridization.

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

    Science.gov (United States)

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

    2016-01-01

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

  6. Comparative analyses of longevity and senescence reveal variable survival benefits of living in zoos across mammals.

    Science.gov (United States)

    Tidière, Morgane; Gaillard, Jean-Michel; Berger, Vérane; Müller, Dennis W H; Bingaman Lackey, Laurie; Gimenez, Olivier; Clauss, Marcus; Lemaître, Jean-François

    2016-11-07

    While it is commonly believed that animals live longer in zoos than in the wild, this assumption has rarely been tested. We compared four survival metrics (longevity, baseline mortality, onset of senescence and rate of senescence) between both sexes of free-ranging and zoo populations of more than 50 mammal species. We found that mammals from zoo populations generally lived longer than their wild counterparts (84% of species). The effect was most notable in species with a faster pace of life (i.e. a short life span, high reproductive rate and high mortality in the wild) because zoos evidently offer protection against a number of relevant conditions like predation, intraspecific competition and diseases. Species with a slower pace of life (i.e. a long life span, low reproduction rate and low mortality in the wild) benefit less from captivity in terms of longevity; in such species, there is probably less potential for a reduction in mortality. These findings provide a first general explanation about the different magnitude of zoo environment benefits among mammalian species, and thereby highlight the effort that is needed to improve captive conditions for slow-living species that are particularly susceptible to extinction in the wild.

  7. Agriproteomics of Bread Wheat: Comparative Proteomics and Network Analyses of Grain Size Variation.

    Science.gov (United States)

    Dawkar, Vishal V; Dholakia, Bhushan B; Gupta, Vidya S

    2015-07-01

    Agriproteomics signifies the merging of agriculture research and proteomics systems science and is impacting plant research and societal development. Wheat is a frequently consumed foodstuff, has highly variable grain size that in effect contributes to wheat grain yield and the end-product quality. Very limited information is available on molecular basis of grain size due to complex multifactorial nature of this trait. Here, using liquid chromatography-mass spectrometry, we investigated the proteomics profiles from grains of wheat genotypes, Rye selection 111 (RS111) and Chinese spring (CS), which differ in their size. Significant differences in protein expression were found, including 33 proteins uniquely present in RS111 and 32 only in CS, while 54 proteins were expressed from both genotypes. Among differentially expressed proteins, 22 were upregulated, while 21 proteins were downregulated in RS111 compared to CS. Functional classification revealed their role in energy metabolism, seed storage, stress tolerance and transcription. Further, protein interactive network analysis was performed to predict the targets of identified proteins. Significantly different interactions patterns were observed between these genotypes with detection of proteins such as Cyp450, Sus2, and WRKY that could potentially affect seed size. The present study illustrates the potentials of agriproteomics as a veritable new frontier of plant omics research.

  8. The chloroplast genome of the hexaploid Spartina maritima (Poaceae, Chloridoideae): Comparative analyses and molecular dating.

    Science.gov (United States)

    Rousseau-Gueutin, M; Bellot, S; Martin, G E; Boutte, J; Chelaifa, H; Lima, O; Michon-Coudouel, S; Naquin, D; Salmon, A; Ainouche, K; Ainouche, M

    2015-12-01

    The history of many plant lineages is complicated by reticulate evolution with cases of hybridization often followed by genome duplication (allopolyploidy). In such a context, the inference of phylogenetic relationships and biogeographic scenarios based on molecular data is easier using haploid markers like chloroplast genome sequences. Hybridization and polyploidization occurred recurrently in the genus Spartina (Poaceae, Chloridoideae), as illustrated by the recent formation of the invasive allododecaploid S. anglica during the 19th century in Europe. Until now, only a few plastid markers were available to explore the history of this genus and their low variability limited the resolution of species relationships. We sequenced the complete chloroplast genome (plastome) of S. maritima, the native European parent of S. anglica, and compared it to the plastomes of other Poaceae. Our analysis revealed the presence of fast-evolving regions of potential taxonomic, phylogeographic and phylogenetic utility at various levels within the Poaceae family. Using secondary calibrations, we show that the tetraploid and hexaploid lineages of Spartina diverged 6-10 my ago, and that the two parents of the invasive allopolyploid S. anglica separated 2-4 my ago via long distance dispersal of the ancestor of S. maritima over the Atlantic Ocean. Finally, we discuss the meaning of divergence times between chloroplast genomes in the context of reticulate evolution. Copyright © 2015 Elsevier Inc. All rights reserved.

  9. Comparative analyses of rider position according to skill levels during walk and trot in Jeju horse.

    Science.gov (United States)

    Kang, Ok-Deuk; Ryu, Youn-Chul; Ryew, Che-Cheong; Oh, Woon-Yong; Lee, Chong-Eon; Kang, Min-Soo

    2010-12-01

    The purpose of this study was to evaluate the rider position at walk and trot as a function of rider skill level by analyzing joint angles. Participants included three advanced riders and six beginners, and training was conducted for one hour, twice a week for 24 weeks. In the walk stage of the beginners' group, the elbows and shoulders sustained postures comparable to those of the advanced riders group; the trunk tilted forwards at first, but later it tilted slightly behind the vertical. The knee, ankle, and left-right angle kept stable postures after 12 weeks of training (priders group after 24 weeks of training (priders, the ankle joint sustained a forward point posture. The ankle joint maintained dorsiflexion posture with 83.9°±5.3 in the advanced riders group, while the beginners group had plantar flexion posture with 98.7°±6.0. This study suggested that the correlation between the joint and body segment angles could be an important indicator in the evaluation of rider proficiency.

  10. New Perspectives on Host-Parasite Interplay by Comparative Transcriptomic and Proteomic Analyses of Schistosoma japonicum.

    Directory of Open Access Journals (Sweden)

    2006-04-01

    Full Text Available Schistosomiasis remains a serious public health problem with an estimated 200 million people infected in 76 countries. Here we isolated ~ 8,400 potential protein-encoding cDNA contigs from Schistosoma japonicum after sequencing circa 84,000 expressed sequence tags. In tandem, we undertook a high-throughput proteomics approach to characterize the protein expression profiles of a number of developmental stages (cercariae, hepatic schistosomula, female and male adults, eggs, and miracidia and tissues at the host-parasite interface (eggshell and tegument by interrogating the protein database deduced from the contigs. Comparative analysis of these transcriptomic and proteomic data, the latter including 3,260 proteins with putative identities, revealed differential expression of genes among the various developmental stages and sexes of S. japonicum and localization of putative secretory and membrane antigens, enzymes, and other gene products on the adult tegument and eggshell, many of which displayed genetic polymorphisms. Numerous S. japonicum genes exhibited high levels of identity with those of their mammalian hosts, whereas many others appeared to be conserved only across the genus Schistosoma or Phylum Platyhelminthes. These findings are expected to provide new insights into the pathophysiology of schistosomiasis and for the development of improved interventions for disease control and will facilitate a more fundamental understanding of schistosome biology, evolution, and the host-parasite interplay.

  11. COMPARATIVE ANALYSES OF MORPHOLOGICAL CHARACTERS IN SPHAERODORIDAE AND ALLIES (ANNELIDA REVEALED BY AN INTEGRATIVE MICROSCOPICAL APPROACH

    Directory of Open Access Journals (Sweden)

    Conrad eHelm

    2015-01-01

    Full Text Available Sphaerodoridae is a group of benthic marine worms (Annelida characterized by the presence of spherical tubercles covering their whole surface. They are commonly considered as belonging to Phyllodocida although sistergroup relationships are still far from being understood. Primary homology assessment of their morphological features are lacking, hindering the appraisal of evolutionary relationships between taxa. Therefore, our detailed morphological investigation focuses on different Sphaerodoridae as well as on other members of Phyllodocida using an integrative approach combining scanning electron microscopy (SEM as well as immunohistochemistry with standard neuronal (anti-5-HT and muscular (phalloidin-rhodamine markers and subsequent CLSM analysis of whole mounts and sections. Furthermore, we provide histological (HES and light microscopical data to shed light on the structures and hypothetical function of sphaerodorid key morphological features. We provide fundamental details into the sphaerodorid morphology supporting a Phyllodocida ancestry of these enigmatic worms. However, the muscular arrangement and the presence of an axial muscular pharynx is similar to conditions observed in other members of the Errantia too. Furthermore, nervous system and muscle staining as well as SEM and histological observations of different types of tubercles indicate a homology of the so called microtubercles, present in the long-bodied sphaerodorids, to the dorsal cirri of other Errantia. The macrotubercles seem to represent a sphaerodorid autapomorphy based on our investigations. Therefore, our results allow comparisons concerning morphological patterns between Sphaerodoridae and other Phyllodocida and constitute a starting point for further comparative investigations to reveal the evolution of the remarkable Sphaerodoridae.

  12. Comparative assessment of air quality in two health resorts using carbon isotopes and palynological analyses

    Energy Technology Data Exchange (ETDEWEB)

    Gorka, M.; Jedrysek, M.O.; Maj, J.; Worobiec, A.; Buczynska, A.; Stefaniak, E.; Krata, A.; Van Grieken, R.; Zwozdziak, A.; Sowka, I.; Zwozdziak, J.; Lewicka-Szczebak, D. [University of Wroclaw, Wroclaw (Poland). Inst. of Geological Science

    2009-01-15

    This paper describes results of applying the palynological and carbon isotopic analysis of the organic fraction of Total Suspended Particles (TSP) to discriminate distinct pollution sources and assess the anthropogenic impact for the investigated areas. The samples of atmospheric particles were collected in Czerniawa and Cieplice (two health resorts in Lower Silesia, SW Poland) twice a year in summer and winter season (from July 2006 to February 2008). The palynological spectra represent in the vast majority local plant communities without a noticeable contribution of long-transported plant particles. Palynological analysis revealed also differences in the specificity of the two sampling areas, i.e. the higher contribution of identified organic material in Czerniawa stands for more natural character of this site, but is also responsible for the higher allergic pressure when compared to Cieplice. The carbon isotopic composition of TSP varied seasonally ({delta}{sup 13}C value from -27.09 parts per thousand in summer to -25.47 parts per thousand in winter). The increased {delta} {sup 13}C value in winter (heating period) is most probably caused by uncontrolled contribution of coal soot. On the basis of isotopic mass balance the calculated contribution of anthropogenic organic particles in the atmosphere reached in winter season 72% in Czerniawa and 79% in Cieplice.

  13. ESTs analyses of Lampetra japonica liver and comparation transcriptome with the jawed vertebrates

    Institute of Scientific and Technical Information of China (English)

    2008-01-01

    A cDNA library was constructed from the liver of Lampetra japonica. 10077 ESTs were obtained by random selecting clones for sequencing. The results demonstrated that 8515 ESTs were assembled into 648 consensus sequences, represented 2210 unique transcripts, 47.06% of which were predicted as full length cDNAs. In addition, 1562 ESTs were singlets. Using the BLAST to align the assembled ESTs, we found that 93.9% (2053) transcripts shared similarity to sequences published in GenBank databases. The functional annotations to assembled ESTs showed that the genes, involved in immunology, blood coagulation and metabolism of jawed vertebrates, were highly expressed in the liver of L. japonica. Furthermore, 8 potential novel genes were identified. Further comparing liver transcriptome of L. japonica with Fundulus heteroclitus, Mus musculus, Bos Taurus, and Homo sapiens revealed that the genes of Chitinase and Polysaccharides metabolism were more highly expressed in L. japonica than the others, which implied that they may play an important role in immunity of L. japonica. In addition, using the TargetScan, we marked microRNA target within 3′ UTR of L. japonica liver transcriptome. The data indicated that some microRNA targets were homology with the targets embeded in human cancer genes. The result seems to provide a useful clue to the treatment of human cancer. Therefore, the present work will be an important resource for investigating the functional genomics and proteomics of L. japonica as well as evolution of vertebrates.

  14. ESTs analyses of Lampetra japonica liver and comparation transcriptome with the jawed vertebrates

    Institute of Scientific and Technical Information of China (English)

    2008-01-01

    A cDNA library was constructed from the liver of Lampetra japonica. 10077 ESTs were obtained by random selecting clones for sequencing. The results demonstrated that 8515 ESTs were assembled into 648 consensus sequences, represented 2210 unique transcripts, 47.06% of which were predicted as full length cDNAs. In addition, 1562 ESTs were singlets. Using the BLAST to align the assembled ESTs, we found that 93.9% (2053) transcripts shared similarity to sequences published in GenBank databases. The functional annotations to assembled ESTs showed that the genes, involved in immu-nology, blood coagulation and metabolism of jawed vertebrates, were highly expressed in the liver of L. japonica. Furthermore, 8 potential novel genes were identified. Further comparing liver transcriptome of L. japonica with Fundulus heteroclitus, Mus musculus, Bos Taurus, and Homo sapiens revealed that the genes of Chitinase and Polysaccharides metabolism were more highly expressed in L. japonica than the others, which implied that they may play an important role in immunity of L. japonica. In addi-tion, using the TargetScan, we marked microRNA target within 3′ UTR of L. japonica liver transcriptome. The data indicated that some microRNA targets were homology with the targets embeded in human cancer genes. The result seems to provide a useful clue to the treatment of human cancer. Therefore, the present work will be an important resource for investigating the functional genomics and pro-teomics of L. japonica as well as evolution of vertebrates.

  15. The complete mitochondrial genome of Gastrothylax crumenifer (Gastrothylacidae, Trematoda) and comparative analyses with selected trematodes.

    Science.gov (United States)

    Yang, Xin; Wang, Lixia; Chen, Hongmei; Feng, Hanli; Shen, Bang; Hu, Min; Fang, Rui

    2016-06-01

    In the present study, we sequenced and analyzed the mitochondrial (mt) genome of Gastrothylax crumenifer and compared it with other selected trematodes. The full mt genome of G. crumenifer was amplified, sequenced, assembled, analyzed and then subjected to phylogenetic analysis. The complete mt genome of G. crumenifer is 14,801 bp in length and contains two rRNA genes, two non-coding regions (LNR and SNR), 12 protein-coding genes, and 22 transfer RNA genes. The gene organization of the G. crumenifer mt genome is the same as that of other trematodes, except for Schistosoma haematobium and Schistosoma spindale. All the genes are transcribed in the same direction and rich in "A + T", which is in accordance with other trematodes, such as Fasciola hepatica, Paramphistomum cervi, and Fischoederius elongatus. Phylogenetic analysis using concatenated amino acid sequences of the 12 protein-coding genes showed that G. crumenifer is closely related to F. elongatus. The availability of mt genome sequence of G. crumenifer can provide useful DNA markers for studying the molecular epidemiology and population genetics of this parasite and other paramphistomes.

  16. Comparative proteomic analyses provide new insights into low phosphorus stress responses in maize leaves.

    Directory of Open Access Journals (Sweden)

    Kewei Zhang

    Full Text Available Phosphorus deficiency limits plant growth and development. To better understand the mechanisms behind how maize responds to phosphate stress, we compared the proteome analysis results of two groups of maize leaves that were treated separately with 1,000 µM (control, +P and 5 µM of KH2PO4 (intervention group, -P for 25 days. In total, 1,342 protein spots were detected on 2-DE maps and 15.43% had changed (P<0.05; ≥1.5-fold significantly in quantity between the +P and -P groups. These proteins are involved in several major metabolic pathways, including photosynthesis, carbohydrate metabolism, energy metabolism, secondary metabolism, signal transduction, protein synthesis, cell rescue and cell defense and virulence. The results showed that the reduction in photosynthesis under low phosphorus treatment was due to the down-regulation of the proteins involved in CO2 enrichment, the Calvin cycle and the electron transport system. Electron transport and photosynthesis restrictions resulted in a large accumulation of peroxides. Maize has developed many different reactive oxygen species (ROS scavenging mechanisms to cope with low phosphorus stress, including up-regulating its antioxidant content and antioxidase activity. After being subjected to phosphorus stress over a long period, maize may increase its internal phosphorus utilization efficiency by altering photorespiration, starch synthesis and lipid composition. These results provide important information about how maize responds to low phosphorus stress.

  17. Comparative transcriptomic analyses of differentially expressed genes in transgenic melatonin biosynthesis ovine HIOMT gene in switchgrass

    Directory of Open Access Journals (Sweden)

    Shan Yuan

    2016-11-01

    Full Text Available Melatonin serves pleiotropic functions in prompting plant growth and resistance to various stresses. The accurate biosynthetic pathway of melatonin remains elusive in plant species, while the N-acetyltransferase and O-methyltransferase were considered to be the last two key enzymes during its biosynthesis. To investigate the biosynthesis and metabolic pathway of melatonin in plants, the RNA-seq profile of overexpression of the ovine HIOMT was analyzed and compared with the previous transcriptome of transgenic oAANAT gene in switchgrass, a model plant for cellulosic ethanol production. A total of 946, 405 and 807 differentially expressed unigenes were observed in AANAT vs. control, HIOMT vs. control, and AANAT vs. HIOMT, respectively. The significantly upregulated (F-box/kelch-repeat protein, zinc finger BED domain-containing protein-3 genes were consistent with enhanced phenotypes of shoot, stem and root growth in transgenic oHIOMT switchgrass. Early flowering in overexpression of oHIOMT switchgrass involved in the regulation of flowering-time genes (APETALA2. Several stress resistant related genes (SPX domain-containing membrane protein, copper transporter 1, late blight resistance protein homolog R1A-6 OS etc. were specifically and significantly upregulated in transgenic oHIOMT only, while metabolism-related genes (phenylalanine-4-hydroxylase, tyrosine decarboxylase 1, protein disulfide-isomerase and galactinol synthase 2 etc. were significantly upregulated in transgenic oAANAT only. These results provide new sights into the biosynthetic and physiological functional networks of melatonin in plants.

  18. Comparative analyses of animal-tracking data reveal ecological significance of endothermy in fishes.

    Science.gov (United States)

    Watanabe, Yuuki Y; Goldman, Kenneth J; Caselle, Jennifer E; Chapman, Demian D; Papastamatiou, Yannis P

    2015-05-12

    Despite long evolutionary separations, several sharks and tunas share the ability to maintain slow-twitch, aerobic red muscle (RM) warmer than ambient water. Proximate causes of RM endothermy are well understood, but ultimate causes are unclear. Two advantages often proposed are thermal niche expansion and elevated cruising speeds. The thermal niche hypothesis is generally supported, because fishes with RM endothermy often exhibit greater tolerance to broad temperature ranges. In contrast, whether fishes with RM endothermy cruise faster, and achieve any ecological benefits from doing so, remains unclear. Here, we compiled data recorded by modern animal-tracking tools for a variety of free-swimming marine vertebrates. Using phylogenetically informed allometry, we show that both cruising speeds and maximum annual migration ranges of fishes with RM endothermy are 2-3 times greater than fishes without it, and comparable to nonfish endotherms (i.e., penguins and marine mammals). The estimated cost of transport of fishes with RM endothermy is twice that of fishes without it. We suggest that the high energetic cost of RM endothermy in fishes is offset by the benefit of elevated cruising speeds, which not only increase prey encounter rates, but also enable larger-scale annual migrations and potentially greater access to seasonally available resources.

  19. New perspectives on host-parasite interplay by comparative transcriptomic and proteomic analyses of Schistosoma japonicum.

    Directory of Open Access Journals (Sweden)

    Feng Liu

    2006-04-01

    Full Text Available Schistosomiasis remains a serious public health problem with an estimated 200 million people infected in 76 countries. Here we isolated ~ 8,400 potential protein-encoding cDNA contigs from Schistosoma japonicum after sequencing circa 84,000 expressed sequence tags. In tandem, we undertook a high-throughput proteomics approach to characterize the protein expression profiles of a number of developmental stages (cercariae, hepatic schistosomula, female and male adults, eggs, and miracidia and tissues at the host-parasite interface (eggshell and tegument by interrogating the protein database deduced from the contigs. Comparative analysis of these transcriptomic and proteomic data, the latter including 3,260 proteins with putative identities, revealed differential expression of genes among the various developmental stages and sexes of S. japonicum and localization of putative secretory and membrane antigens, enzymes, and other gene products on the adult tegument and eggshell, many of which displayed genetic polymorphisms. Numerous S. japonicum genes exhibited high levels of identity with those of their mammalian hosts, whereas many others appeared to be conserved only across the genus Schistosoma or Phylum Platyhelminthes. These findings are expected to provide new insights into the pathophysiology of schistosomiasis and for the development of improved interventions for disease control and will facilitate a more fundamental understanding of schistosome biology, evolution, and the host-parasite interplay.

  20. Comprehensive analysis of alternative splicing in rice and comparative analyses with Arabidopsis

    Directory of Open Access Journals (Sweden)

    Mount Stephen M

    2006-12-01

    Full Text Available Abstract Background Recently, genomic sequencing efforts were finished for Oryza sativa (cultivated rice and Arabidopsis thaliana (Arabidopsis. Additionally, these two plant species have extensive cDNA and expressed sequence tag (EST libraries. We employed the Program to Assemble Spliced Alignments (PASA to identify and analyze alternatively spliced isoforms in both species. Results A comprehensive analysis of alternative splicing was performed in rice that started with >1.1 million publicly available spliced ESTs and over 30,000 full length cDNAs in conjunction with the newly enhanced PASA software. A parallel analysis was performed with Arabidopsis to compare and ascertain potential differences between monocots and dicots. Alternative splicing is a widespread phenomenon (observed in greater than 30% of the loci with transcript support and we have described nine alternative splicing variations. While alternative splicing has the potential to create many RNA isoforms from a single locus, the majority of loci generate only two or three isoforms and transcript support indicates that these isoforms are generally not rare events. For the alternate donor (AD and acceptor (AA classes, the distance between the splice sites for the majority of events was found to be less than 50 basepairs (bp. In both species, the most frequent distance between AA is 3 bp, consistent with reports in mammalian systems. Conversely, the most frequent distance between AD is 4 bp in both plant species, as previously observed in mouse. Most alternative splicing variations are localized to the protein coding sequence and are predicted to significantly alter the coding sequence. Conclusion Alternative splicing is widespread in both rice and Arabidopsis and these species share many common features. Interestingly, alternative splicing may play a role beyond creating novel combinations of transcripts that expand the proteome. Many isoforms will presumably have negative

  1. Comparative analyses of linac and Gamma Knife radiosurgery for trigeminal neuralgia treatments

    Science.gov (United States)

    Ma, L.; Kwok, Y.; Chin, L. S.; Yu, C.; Regine, W. F.

    2005-11-01

    Dedicated linac-based radiosurgery has been reported for trigeminal neuralgia treatments. In this study, we investigated the dose fall-off characteristics and setup error tolerance of linac-based radiosurgery as compared with standard Gamma Knife radiosurgery. In order to minimize the errors from different treatment planning calculations, consistent imaging registration, dose calculation and dose volume analysis methods were developed and implemented for both Gamma Knife and linac-based treatments. Intra-arc setup errors were incorporated into the treatment planning process of linac-based deliveries. The effects of intra-arc setup errors with increasing number of arcs were studied and benchmarked against Gamma Knife deliveries with and without plugging patterns. Our studies found equivalent dose fall-off properties between Gamma Knife and linac-based radiosurgery given a sufficient number of arcs (>7) and small intra-arc errors (<0.5 mm) were satisfied for linac-based deliveries. Increasing the number of arcs significantly decreased the variations in the dose fall-off curve at the low isodose region (e.g. from 40% to 10%) and also improved dose uniformity at the high isodose region (e.g. from 70% to 90%). As the number of arcs increased, the effects of intra-arc setup errors on the dose fall-off curves decreased. Increasing the number of arcs also reduced the integral dose to the distal normal brain tissues. In conclusion, linac-based radiosurgery produces equivalent dose fall-off characteristics to Gamma Knife radiosurgery with a high number of arcs. However, one must note the increased treatment time for a large number of arcs and isocentre accuracies.

  2. Lineage-specific evolution of the vertebrate Otopetrin gene family revealed by comparative genomic analyses

    Directory of Open Access Journals (Sweden)

    Ryan Joseph F

    2011-01-01

    Full Text Available Abstract Background Mutations in the Otopetrin 1 gene (Otop1 in mice and fish produce an unusual bilateral vestibular pathology that involves the absence of otoconia without hearing impairment. The encoded protein, Otop1, is the only functionally characterized member of the Otopetrin Domain Protein (ODP family; the extended sequence and structural preservation of ODP proteins in metazoans suggest a conserved functional role. Here, we use the tools of sequence- and cytogenetic-based comparative genomics to study the Otop1 and the Otop2-Otop3 genes and to establish their genomic context in 25 vertebrates. We extend our evolutionary study to include the gene mutated in Usher syndrome (USH subtype 1G (Ush1g, both because of the head-to-tail clustering of Ush1g with Otop2 and because Otop1 and Ush1g mutations result in inner ear phenotypes. Results We established that OTOP1 is the boundary gene of an inversion polymorphism on human chromosome 4p16 that originated in the common human-chimpanzee lineage more than 6 million years ago. Other lineage-specific evolutionary events included a three-fold expansion of the Otop genes in Xenopus tropicalis and of Ush1g in teleostei fish. The tight physical linkage between Otop2 and Ush1g is conserved in all vertebrates. To further understand the functional organization of the Ushg1-Otop2 locus, we deduced a putative map of binding sites for CCCTC-binding factor (CTCF, a mammalian insulator transcription factor, from genome-wide chromatin immunoprecipitation-sequencing (ChIP-seq data in mouse and human embryonic stem (ES cells combined with detection of CTCF-binding motifs. Conclusions The results presented here clarify the evolutionary history of the vertebrate Otop and Ush1g families, and establish a framework for studying the possible interaction(s of Ush1g and Otop in developmental pathways.

  3. Comparative transcriptomic and proteomic analyses of Trichomonas vaginalis following adherence to fibronectin.

    Science.gov (United States)

    Huang, Kuo-Yang; Huang, Po-Jung; Ku, Fu-Man; Lin, Rose; Alderete, John F; Tang, Petrus

    2012-11-01

    The morphological transformation of Trichomonas vaginalis from an ellipsoid form in batch culture to an adherent amoeboid form results from the contact of parasites with vaginal epithelial cells and with immobilized fibronectin (FN), a basement membrane component. This suggests host signaling of the parasite. We applied integrated transcriptomic and proteomic approaches to investigate the molecular responses of T. vaginalis upon binding to FN. A transcriptome analysis was performed by using large-scale expressed-sequence-tag (EST) sequencing. A total of 20,704 ESTs generated from batch culture (trophozoite-EST) versus FN-amoeboid trichomonad (FN-EST) cDNA libraries were analyzed. The FN-EST library revealed decreased amounts of transcripts that were of lower abundance in the trophozoite-EST library. There was a shift by FN-bound organisms to the expression of transcripts encoding essential proteins, possibly indicating the expression of genes for adaptation to the morphological changes needed for the FN-adhesive processes. In addition, we identified 43 differentially expressed proteins in the proteomes of FN-bound and unbound trichomonads. Among these proteins, cysteine peptidase, glyceraldehyde-3-phosphate dehydrogenase (an FN-binding protein), and stress-related proteins were upregulated in the FN-adherent cells. Stress-related genes and proteins were highly expressed in both the transcriptome and proteome of FN-bound organisms, implying that these genes and proteins may play critical roles in the response to adherence. This is the first report of a comparative proteomic and transcriptomic analysis after the binding of T. vaginalis to FN. This approach may lead to the discovery of novel virulence genes and affirm the role of genes involved in disease pathogenesis. This knowledge will permit a greater understanding of the complex host-parasite interplay.

  4. Comparative analyses identify molecular signature of MRI-classified SVZ-associated glioblastoma.

    Science.gov (United States)

    Lin, Chin-Hsing Annie; Rhodes, Christopher T; Lin, ChenWei; Phillips, Joanna J; Berger, Mitchel S

    2017-04-18

    Glioblastoma (GBM) is a highly aggressive brain cancer with limited therapeutic options. While efforts to identify genes responsible for GBM have revealed mutations and aberrant gene expression associated with distinct types of GBM, patients with GBM are often diagnosed and classified based on MRI features. Therefore, we seek to identify molecular representatives in parallel with MRI classification for group I and group II primary GBM associated with the subventricular zone (SVZ). As group I and II GBM contain stem-like signature, we compared gene expression profiles between these 2 groups of primary GBM and endogenous neural stem progenitor cells to reveal dysregulation of cell cycle, chromatin status, cellular morphogenesis, and signaling pathways in these 2 types of MRI-classified GBM. In the absence of IDH mutation, several genes associated with metabolism are differentially expressed in these subtypes of primary GBM, implicating metabolic reprogramming occurs in tumor microenvironment. Furthermore, histone lysine methyltransferase EZH2 was upregulated while histone lysine demethylases KDM2 and KDM4 were downregulated in both group I and II primary GBM. Lastly, we identified 9 common genes across large data sets of gene expression profiles among MRI-classified group I/II GBM, a large cohort of GBM subtypes from TCGA, and glioma stem cells by unsupervised clustering comparison. These commonly upregulated genes have known functions in cell cycle, centromere assembly, chromosome segregation, and mitotic progression. Our findings highlight altered expression of genes important in chromosome integrity across all GBM, suggesting a common mechanism of disrupted fidelity of chromosome structure in GBM.

  5. Comparative genomic analyses of the cyanobacterium, Lyngbya aestuarii BL J, a powerful hydrogen producer.

    Directory of Open Access Journals (Sweden)

    Ankita eKothari

    2013-12-01

    Full Text Available The filamentous, non-heterocystous cyanobacterium Lyngbya aestuarii is an important contributor to marine intertidal microbial mats system worldwide. The recent isolate L. aestuarii BL J, is an unusually powerful hydrogen producer. Here we report a morphological, ultrastructural and genomic characterization of this strain to set the basis for future systems studies and applications of this organism. The filaments contain circa 17 μm wide trichomes, composed of stacked disk-like short cells (2 μm long, encased in a prominent, laminated exopolysaccharide sheath. Cellular division occurs by transversal centripetal growth of cross-walls, where several rounds of division proceed simultaneously. Filament division occurs by cell self-immolation of one or groups of cells (necridial cells at the breakage point. Short, sheath-less, motile filaments (hormogonia are also formed. Morphologically and phylogenetically L. aestuarii belongs to a clade of important cyanobacteria that include members of the marine Trichodesmiun and Hydrocoleum genera, as well as terrestrial Microcoleus vaginatus strains, and alkalyphilic strains of Arthrospira. A draft genome of strain BL J was compared to those of other cyanobacteria in order to ascertain some of its ecological constraints and biotechnological potential. The genome had an average GC content of 41.1 %. Of the 6.87 Mb sequenced, 6.44 Mb was present as large contigs (>10,000 bp. It contained 6515 putative protein-encoding genes, of which, 43 % encode proteins of known functional role, 26 % corresponded to proteins with domain or family assignments, 19.6 % encode conserved hypothetical proteins, and 11.3 % encode apparently unique hypothetical proteins. The strain’s genome reveals its adaptations to a life of exposure to intense solar radiation and desiccation. It likely employs the storage compounds, glycogen and cyanophycin but no polyhydroxyalkanoates, and can produce the osmolytes, trehalose and glycine

  6. Comparative energy consumption analyses of an ultra high frequency induction heating system for material processing applications

    Energy Technology Data Exchange (ETDEWEB)

    Tastan, M.; Gokozan, H.; Taskin, S.; Cavdar, U.

    2015-07-01

    This study compares an energy consumption results of the TI-6Al-4V based material processing under the 900 kHz induction heating for different cases. By this means, total power consumption and energy consumptions per sample and amount have been analyzed. Experiments have been conducted with 900 kHz, 2.8 kW ultra-high frequency induction system. Two cases are considered in the study. In the first case, TI-6Al-4V samples have been heated up to 900 degree centigrade with classical heating method, which is used in industrial applications, and then they have been cooled down by water. Afterwards, the samples have been heated up to 600 degree centigrade, 650 degree centigrade and 700 degree centigrade respectively and stress relieving process has been applied through natural cooling. During these processes, energy consumptions for each defined process have been measured. In the second case, unlike the first study, can be used five different samples have been heated up to the various temperatures between 600 degree centigrade and 1120 degree centigrade and energy consumptions have been measured for these processes. Thereby, the effect of temperature increase on each sample on energy cost has been analyzed. It has been seen that as a result of heating the titanium bulk materials, which have been used in the experiment, with ultra high frequency induction, temperature increase also increases the energy consumption. But it has been revealed that the increase rate in the energy consumption is more than the increase rate of the temperature. (Author)

  7. Comparative analyses of linac and Gamma Knife radiosurgery for trigeminal neuralgia treatments

    Energy Technology Data Exchange (ETDEWEB)

    Ma, L; Kwok, Y; Chin, L S; Yu, C; Regine, W F [University of Maryland School of Medicine, Baltimore, MD 21201 (United States)

    2005-11-21

    Dedicated linac-based radiosurgery has been reported for trigeminal neuralgia treatments. In this study, we investigated the dose fall-off characteristics and setup error tolerance of linac-based radiosurgery as compared with standard Gamma Knife radiosurgery. In order to minimize the errors from different treatment planning calculations, consistent imaging registration, dose calculation and dose volume analysis methods were developed and implemented for both Gamma Knife and linac-based treatments. Intra-arc setup errors were incorporated into the treatment planning process of linac-based deliveries. The effects of intra-arc setup errors with increasing number of arcs were studied and benchmarked against Gamma Knife deliveries with and without plugging patterns. Our studies found equivalent dose fall-off properties between Gamma Knife and linac-based radiosurgery given a sufficient number of arcs (>7) and small intra-arc errors (<0.5 mm) were satisfied for linac-based deliveries. Increasing the number of arcs significantly decreased the variations in the dose fall-off curve at the low isodose region (e.g. from 40% to 10%) and also improved dose uniformity at the high isodose region (e.g. from 70% to 90%). As the number of arcs increased, the effects of intra-arc setup errors on the dose fall-off curves decreased. Increasing the number of arcs also reduced the integral dose to the distal normal brain tissues. In conclusion, linac-based radiosurgery produces equivalent dose fall-off characteristics to Gamma Knife radiosurgery with a high number of arcs. However, one must note the increased treatment time for a large number of arcs and isocentre accuracies.

  8. Comparative genomic analyses of Streptococcus mutans provide insights into chromosomal shuffling and species-specific content

    Directory of Open Access Journals (Sweden)

    Nakai Kenta

    2009-08-01

    Full Text Available Abstract Background Streptococcus mutans is the major pathogen of dental caries, and it occasionally causes infective endocarditis. While the pathogenicity of this species is distinct from other human pathogenic streptococci, the species-specific evolution of the genus Streptococcus and its genomic diversity are poorly understood. Results We have sequenced the complete genome of S. mutans serotype c strain NN2025, and compared it with the genome of UA159. The NN2025 genome is composed of 2,013,587 bp, and the two strains show highly conserved core-genome. However, comparison of the two S. mutans strains showed a large genomic inversion across the replication axis producing an X-shaped symmetrical DNA dot plot. This phenomenon was also observed between other streptococcal species, indicating that streptococcal genetic rearrangements across the replication axis play an important role in Streptococcus genetic shuffling. We further confirmed the genomic diversity among 95 clinical isolates using long-PCR analysis. Genomic diversity in S. mutans appears to occur frequently between insertion sequence (IS elements and transposons, and these diversity regions consist of restriction/modification systems, antimicrobial peptide synthesis systems, and transporters. S. mutans may preferentially reject the phage infection by clustered regularly interspaced short palindromic repeats (CRISPRs. In particular, the CRISPR-2 region, which is highly divergent between strains, in NN2025 has long repeated spacer sequences corresponding to the streptococcal phage genome. Conclusion These observations suggest that S. mutans strains evolve through chromosomal shuffling and that phage infection is not needed for gene acquisition. In contrast, S. pyogenes tolerates phage infection for acquisition of virulence determinants for niche adaptation.

  9. Comparative analyses of olfactory systems in terrestrial crabs (Brachyura: evidence for aerial olfaction?

    Directory of Open Access Journals (Sweden)

    Jakob Krieger

    2015-12-01

    Full Text Available Adaptations to a terrestrial lifestyle occurred convergently multiple times during the evolution of the arthropods. This holds also true for the “true crabs” (Brachyura, a taxon that includes several lineages that invaded land independently. During an evolutionary transition from sea to land, animals have to develop a variety of physiological and anatomical adaptations to a terrestrial life style related to respiration, reproduction, development, circulation, ion and water balance. In addition, sensory systems that function in air instead of in water are essential for an animal’s life on land. Besides vision and mechanosensory systems, on land, the chemical senses have to be modified substantially in comparison to their function in water. Among arthropods, insects are the most successful ones to evolve aerial olfaction. Various aspects of terrestrial adaptation have also been analyzed in those crustacean lineages that evolved terrestrial representatives including the taxa Anomala, Brachyura, Amphipoda, and Isopoda. We are interested in how the chemical senses of terrestrial crustaceans are modified to function in air. Therefore, in this study, we analyzed the brains and more specifically the structure of the olfactory system of representatives of brachyuran crabs that display different degrees of terrestriality, from exclusively marine to mainly terrestrial. The methods we used included immunohistochemistry, detection of autofluorescence- and confocal microscopy, as well as three-dimensional reconstruction and morphometry. Our comparative approach shows that both the peripheral and central olfactory pathways are reduced in terrestrial members in comparison to their marine relatives, suggesting a limited function of their olfactory system on land. We conclude that for arthropod lineages that invaded land, evolving aerial olfaction is no trivial task.

  10. Comparative analyses of olfactory systems in terrestrial crabs (Brachyura): evidence for aerial olfaction?

    Science.gov (United States)

    Krieger, Jakob; Braun, Philipp; Rivera, Nicole T; Schubart, Christoph D; Müller, Carsten H G; Harzsch, Steffen

    2015-01-01

    Adaptations to a terrestrial lifestyle occurred convergently multiple times during the evolution of the arthropods. This holds also true for the "true crabs" (Brachyura), a taxon that includes several lineages that invaded land independently. During an evolutionary transition from sea to land, animals have to develop a variety of physiological and anatomical adaptations to a terrestrial life style related to respiration, reproduction, development, circulation, ion and water balance. In addition, sensory systems that function in air instead of in water are essential for an animal's life on land. Besides vision and mechanosensory systems, on land, the chemical senses have to be modified substantially in comparison to their function in water. Among arthropods, insects are the most successful ones to evolve aerial olfaction. Various aspects of terrestrial adaptation have also been analyzed in those crustacean lineages that evolved terrestrial representatives including the taxa Anomala, Brachyura, Amphipoda, and Isopoda. We are interested in how the chemical senses of terrestrial crustaceans are modified to function in air. Therefore, in this study, we analyzed the brains and more specifically the structure of the olfactory system of representatives of brachyuran crabs that display different degrees of terrestriality, from exclusively marine to mainly terrestrial. The methods we used included immunohistochemistry, detection of autofluorescence- and confocal microscopy, as well as three-dimensional reconstruction and morphometry. Our comparative approach shows that both the peripheral and central olfactory pathways are reduced in terrestrial members in comparison to their marine relatives, suggesting a limited function of their olfactory system on land. We conclude that for arthropod lineages that invaded land, evolving aerial olfaction is no trivial task.

  11. Comparative analyses reveal discrepancies among results of commonly used methods for Anopheles gambiaemolecular form identification

    Directory of Open Access Journals (Sweden)

    Pinto João

    2011-08-01

    Full Text Available Abstract Background Anopheles gambiae M and S molecular forms, the major malaria vectors in the Afro-tropical region, are ongoing a process of ecological diversification and adaptive lineage splitting, which is affecting malaria transmission and vector control strategies in West Africa. These two incipient species are defined on the basis of single nucleotide differences in the IGS and ITS regions of multicopy rDNA located on the X-chromosome. A number of PCR and PCR-RFLP approaches based on form-specific SNPs in the IGS region are used for M and S identification. Moreover, a PCR-method to detect the M-specific insertion of a short interspersed transposable element (SINE200 has recently been introduced as an alternative identification approach. However, a large-scale comparative analysis of four widely used PCR or PCR-RFLP genotyping methods for M and S identification was never carried out to evaluate whether they could be used interchangeably, as commonly assumed. Results The genotyping of more than 400 A. gambiae specimens from nine African countries, and the sequencing of the IGS-amplicon of 115 of them, highlighted discrepancies among results obtained by the different approaches due to different kinds of biases, which may result in an overestimation of MS putative hybrids, as follows: i incorrect match of M and S specific primers used in the allele specific-PCR approach; ii presence of polymorphisms in the recognition sequence of restriction enzymes used in the PCR-RFLP approaches; iii incomplete cleavage during the restriction reactions; iv presence of different copy numbers of M and S-specific IGS-arrays in single individuals in areas of secondary contact between the two forms. Conclusions The results reveal that the PCR and PCR-RFLP approaches most commonly utilized to identify A. gambiae M and S forms are not fully interchangeable as usually assumed, and highlight limits of the actual definition of the two molecular forms, which might

  12. Inventory of atmospheric pollutant and greenhouse gas emissions in France. Sectoral series and extended analyses - SECTEN Format, April 2011; Inventaire des emissions de polluants atmospheriques et de gaz a effet de serre en France. Series sectorielles et analyses etendues - Format SECTEN, avril 2011

    Energy Technology Data Exchange (ETDEWEB)

    Chang, Jean-Pierre; Fontelle, Jean-Pierre; Serveau, Laetitia; Allemand, Nadine; Jeannot, Coralie; Andre, Jean-Marc; Joya, Romain; Deflorenne, Emmanuel; Martinet, Yann; Druart, Ariane; Mathias, Etienne; Gavel, Antoine; Nicco, Laetitia; Gueguen, Celine; Prouteau, Emilie; Jabot, Julien; Tuddenham, Mark; Jacquier, Guillaume; Vincent, Julien

    2011-04-15

    rather favorable as far as the estimated level is below than observed in 2009. Regarding the greenhouse gases, the trend is rather directed in a light increase (2, 2 % between 2009 and 2010 for the CO{sub 2} and 1, 4 % in terms of PRG) because of the year 2009 is very marked by a context of economic crisis and a resumption begun in 2010. The preliminary estimations for year 2010 should therefore be considered with caution because they need to be consolidated. The results are presented at national level for each of the main sectors defined in the SECTEN format. A more detailed breakdown of each main sector is provided for the period 1990-2009. Results also focus on the different energy products and several analyses provide additional information on NMVOCs, PAHs HFCs, PFCs, global warming potential and particular sources, such as transport and off-road mobile sources (generators, machinery and vehicles used in construction, industry, agriculture and forestry, as well as household and gardening machinery). The report contains indications regarding the targets to which France has committed itself under international conventions and EU directives, in particular for climate change and for transboundary air pollution and air quality. These results show that on the whole emission trends observed are encouraging and especially reflect the reduction actions implemented. The table below summarises total emissions over the period 1990-2010 for all the above mentioned substances, as well as indicators concerning acidification and the greenhouse effect

  13. Comparative sequence analyses of genome and transcriptome reveal novel transcripts and variants in the Asian elephant Elephas maximus

    Indian Academy of Sciences (India)

    Puli Chandramouli Reddy; Ishani Sinha; Ashwin Kelkar; Farhat Habib; Saurabh J Pradhan; Raman Sukumar; Sanjeev Galande

    2015-12-01

    The Asian elephant Elephas maximus and the African elephant Loxodonta africana that diverged 5-7 million years ago exhibit differences in their physiology, behaviour and morphology. A comparative genomics approach would be useful and necessary for evolutionary and functional genetic studies of elephants. We performed sequencing of E. maximus and map to L. africana at ∼ 15X coverage. Through comparative sequence analyses, we have identified Asian elephant specific homozygous, non-synonymous single nucleotide variants (SNVs) that map to 1514 protein coding genes, many of which are involved in olfaction. We also present the first report of a high-coverage transcriptome sequence in E. maximus from peripheral blood lymphocytes. We have identified 103 novel protein coding transcripts and 66-long non-coding (Inc)RNAs. We also report the presence of 181 protein domains unique to elephants when compared to other Afrotheria species. Each of these findings can be further investigated to gain a better understanding of functional differences unique to elephant species, as well as those unique to elephantids in comparison with other mammals. This work therefore provides a valuable resource to explore the immense research potential of comparative analyses of transcriptome and genome sequences in the Asian elephant.

  14. Comparative sequence analyses of genome and transcriptome reveal novel transcripts and variants in the Asian elephant Elephas maximus.

    Science.gov (United States)

    Reddy, Puli Chandramouli; Sinha, Ishani; Kelkar, Ashwin; Habib, Farhat; Pradhan, Saurabh J; Sukumar, Raman; Galande, Sanjeev

    2015-12-01

    The Asian elephant Elephas maximus and the African elephant Loxodonta africana that diverged 5-7 million years ago exhibit differences in their physiology, behaviour and morphology. A comparative genomics approach would be useful and necessary for evolutionary and functional genetic studies of elephants. We performed sequencing of E. maximus and map to L. africana at ~15X coverage. Through comparative sequence analyses, we have identified Asian elephant specific homozygous, non-synonymous single nucleotide variants (SNVs) that map to 1514 protein coding genes, many of which are involved in olfaction. We also present the first report of a high-coverage transcriptome sequence in E. maximus from peripheral blood lymphocytes. We have identified 103 novel protein coding transcripts and 66-long non-coding (lnc)RNAs. We also report the presence of 181 protein domains unique to elephants when compared to other Afrotheria species. Each of these findings can be further investigated to gain a better understanding of functional differences unique to elephant species, as well as those unique to elephantids in comparison with other mammals. This work therefore provides a valuable resource to explore the immense research potential of comparative analyses of transcriptome and genome sequences in the Asian elephant.

  15. Thermodynamics of greenhouse systems for the northern latitudes: analysis, evaluation and prospects for primary energy saving.

    Science.gov (United States)

    Bronchart, Filip; De Paepe, Michel; Dewulf, Jo; Schrevens, Eddie; Demeyer, Peter

    2013-04-15

    In Flanders and the Netherlands greenhouse production systems produce economically important quantities of vegetables, fruit and ornamentals. Indoor environmental control has resulted in high primary energy use. Until now, the research on saving primary energy in greenhouse systems has been mainly based on analysis of energy balances. However, according to the thermodynamic theory, an analysis based on the concept of exergy (free energy) and energy can result in new insights and primary energy savings. Therefore in this paper, we analyse the exergy and energy of various processes, inputs and outputs of a general greenhouse system. Also a total system analysis is then performed by linking the exergy analysis with a dynamic greenhouse climate growth simulation model. The exergy analysis indicates that some processes ("Sources") lie at the origin of several other processes, both destroying the exergy of primary energy inputs. The exergy destruction of these Sources is caused primarily by heat and vapour loss. Their impact can be compensated by exergy input from heating, solar radiation, or both. If the exergy destruction of these Sources is reduced, the necessary compensation can also be reduced. This can be accomplished through insulating the greenhouse and making the building more airtight. Other necessary Sources, namely transpiration and loss of CO2, have a low exergy destruction compared to the other Sources. They are therefore the best candidate for "pump" technologies ("vapour heat pump" and "CO2 pump") designed to have a low primary energy use. The combination of these proposed technologies results in an exergy efficient greenhouse with the highest primary energy savings. It can be concluded that exergy analyses add additional information compared to only energy analyses and it supports the development of primary energy efficient greenhouse systems.

  16. Fossil-based comparative analyses reveal ancient marine ancestry erased by extinction in ray-finned fishes.

    Science.gov (United States)

    Betancur-R, Ricardo; Ortí, Guillermo; Pyron, Robert Alexander

    2015-05-01

    The marine-freshwater boundary is a major biodiversity gradient and few groups have colonised both systems successfully. Fishes have transitioned between habitats repeatedly, diversifying in rivers, lakes and oceans over evolutionary time. However, their history of habitat colonisation and diversification is unclear based on available fossil and phylogenetic data. We estimate ancestral habitats and diversification and transition rates using a large-scale phylogeny of extant fish taxa and one containing a massive number of extinct species. Extant-only phylogenetic analyses indicate freshwater ancestry, but inclusion of fossils reveal strong evidence of marine ancestry in lineages now restricted to freshwaters. Diversification and colonisation dynamics vary asymmetrically between habitats, as marine lineages colonise and flourish in rivers more frequently than the reverse. Our study highlights the importance of including fossils in comparative analyses, showing that freshwaters have played a role as refuges for ancient fish lineages, a signal erased by extinction in extant-only phylogenies.

  17. Mitigating yield-scaled greenhouse gas emissions through combined application of soil amendments: A comparative study between temperate and subtropical rice paddy soils

    Energy Technology Data Exchange (ETDEWEB)

    Ali, Muhammad Aslam, E-mail: litonaslam@yahoo.com [Dept. of Environmental Science, Bangladesh Agricultural University, Mymensingh 2202 (Bangladesh); Dept. of Agricultural Chemistry, Gyeongsang National University, Jinju (Korea, Republic of); Division of Environmental Horticulture, Chiba University, Matsudo, Chiba 271-8510 (Japan); Kim, P.J., E-mail: pjkim@nongae.gsnu.ac.kr [Dept. of Agricultural Chemistry, Gyeongsang National University, Jinju (Korea, Republic of); Inubushi, K. [Division of Environmental Horticulture, Chiba University, Matsudo, Chiba 271-8510 (Japan)

    2015-10-01

    Effects of different soil amendments were investigated on methane (CH{sub 4}) and nitrous oxide (N{sub 2}O) emissions, global warming potential (GWP) and yield scaled GWPs in paddy soils of Republic of Korea, Japan and Bangladesh. The experimental treatments were NPK only, NPK + fly ash, NPK + silicate slag, NPK + phosphogypsum(PG), NPK + blast furnace slag (BFS), NPK + revolving furnace slag (RFS), NPK + silicate slag (50%) + RFS (50%), NPK + biochar, NPK + biochar + Azolla-cyanobacteria, NPK + silicate slag + Azolla-cyanobacteria, NPK + phosphogypsum (PG) + Azolla-cyanobacteria. The maximum decrease in cumulative seasonal CH{sub 4} emissions was recorded 29.7% and 32.6% with Azolla-cyanobacteria plus phospho-gypsum amendments in paddy soils of Japan and Bangladesh respectively, followed by 22.4% and 26.8% reduction with silicate slag plus Azolla-cyanobacteria application. Biochar amendments in paddy soils of Japan and Bangladesh decreased seasonal cumulative N{sub 2}O emissions by 31.8% and 20.0% respectively, followed by 26.3% and 25.0% reduction with biochar plus Azolla-cyanobacteria amendments. Although seasonal cumulative CH{sub 4} emissions were significantly increased by 9.5–14.0% with biochar amendments, however, global warming potentials were decreased by 8.0–12.0% with cyanobacterial inoculation plus biochar amendments. The maximum decrease in GWP was calculated 22.0–30.0% with Azolla-cyanobacteria plus silicate slag amendments. The evolution of greenhouse gases per unit grain yield (yield scaled GWP) was highest in the NPK treatment, which was decreased by 43–50% from the silicate slag and phosphogypsum amendments along with Azolla-cyanobacteria inoculated rice planted soils. Conclusively, it is recommended to incorporate Azolla-cyanobacteria with inorganic and organic amendments for reducing GWP and yield scaled GWP from the rice planted paddy soils of temperate and subtropical countries. - Highlights: • Azolla-cyanobacteria with organic and

  18. Comparative physiological and transcriptomic analyses provide integrated insight into osmotic, cold, and salt stress tolerance mechanisms in banana

    Science.gov (United States)

    Hu, Wei; Ding, Zehong; Tie, Weiwei; Yan, Yan; Liu, Yang; Wu, Chunlai; Liu, Juhua; Wang, Jiashui; Peng, Ming; Xu, Biyu; Jin, Zhiqiang

    2017-01-01

    The growth, development, and production of banana plants are constrained by multiple abiotic stressors. However, it remains elusive for the tolerance mechanisms of banana responding to multiple abiotic stresses. In this study, we found that Fen Jiao (FJ) was more tolerant to osmotic, cold, and salt stresses than BaXi Jiao (BX) by phenotypic and physiological analyses. Comparative transcriptomic analyses highlighted stress tolerance genes that either specifically regulated in FJ or changed more than twofold in FJ relative to BX after treatments. In total, 933, 1644, and 133 stress tolerance genes were identified after osmotic, cold, and salt treatments, respectively. Further integrated analyses found that 30 tolerance genes, including transcription factor, heat shock protein, and E3 ubiquitin protein ligase, could be commonly regulated by osmotic, cold, and salt stresses. Finally, ABA and ROS signaling networks were found to be more active in FJ than in BX under osmotic, cold, and salt treatments, which may contribute to the strong stress tolerances of FJ. Together, this study provides new insights into the tolerance mechanism of banana responding to multiple stresses, thus leading to potential applications in the genetic improvement of multiple abiotic stress tolerances in banana. PMID:28223714

  19. Agriculture and greenhouse effect: economic regulation of cross impacts and combination of agricultural and environmental policies - analysis for the France and extension to the european union. Economic analysis of the interactions agriculture- greenhouse effect; Agriculture et effet de serre: regulation economique des impacts croises et combinaison des politiques agricole et environnementale - Analyse pour la France et extension pour l'Union Europeenne. Analyse economique des interactions agriculture - effet de serre

    Energy Technology Data Exchange (ETDEWEB)

    Jayet, P.A

    2002-09-15

    The objectives of the research program are: the impacts evaluation of a double relation climate - agriculture on the agricultural production and the greenhouse gases emission; the compatibility of agricultural policies and environmental policies of the sector. Simulations are realized at a regional scale with a coupling of economical and biophysical models (manure spreading, cultivation yield). (A.L.B.)

  20. Comparative sequence analyses of the neurotoxin complex genes in Clostridium botulinum serotypes A, B, E, and F

    Directory of Open Access Journals (Sweden)

    Ajay K. Singh

    2012-09-01

    Full Text Available Neurotoxin complex (NTC genes are arranged in two known hemagglutinin (HA and open reading frame X (ORFX clusters. NTC genes have been analyzed in four serotypes A, B, E and F of Clostridium botulinum causing human botulism. Analysis of amino acid sequences of NT genes demonstrated significant differences among subtypes and four serotypes. Phylogram tree of NT genes reveals that serotypes A1 and B1 are much closer compared to serotype E1 and F1. However, non-toxic non-hemagglutinin (NTNH gene is highly conserved among four serotypes. Analysis of phylogram tree of NTNH gene reveals that serotypes A and F are more closely related compared to serotype B and E. Additionally, sequences of HAs and ORFX genes are very divergent but these genes are specific in subtypes and serotypes of Clostridium botulinum. Information derived from sequence analyses of NTC has direct implication in development of detection tools and therapeutic countermeasures for botulism.

  1. Danish greenhouse gas reduction scenarios for 2020 and 2050

    Energy Technology Data Exchange (ETDEWEB)

    Karlsson, K.; Joergensen, Kaj. (Risoe DTU, Roskilde (DK)); Werling, J.; OErsted Pedersen, H.; Kofoed-Wiuff, A. (Ea energy Analysis, Copenhagen (DK))

    2008-02-15

    The aim of the project presented in this report was to develop scenarios for reducing Danish greenhouse gas emissions in 2020 and 2050. The scenarius provide a basis for estimating which technologies should be combined in order to obtain future reductions in greenhouse gas emissions in a cost-effective way. The scenarios include all emissions of greenhouse gases from agriculture, industry and oil extraction activities in the North Sea as well as the transport and energy sectors. Foreign air and sea carriage is not included because emissions related to such activities are not yet subject to international climate change agreements. The scenarios focus particularly on the technological possibilities and the necessary system changes in the Danish energy system and transport sector. Parallel to this, COWI has carried out analyses for the Danish Environmental Protection Agency focussing primarily on the reduction potentials in the transport sector and other emissions. COWI's results regarding agriculture and other emissions have been included in this analysis. Two timeframes are applied in the scenarios: the medium term, 2020, and the long term, 2050. For each timeframe, we have set up indicative targets that the scenarios must reach: 1) 2020: 30 and 40 % reduction in greenhouse gas emissions compared to 1990 2) 2050: 60 and 80 % reduction in greenhouse gas emissions compared to 1990. The scenarios for 2020 focus primarily on technologies that are already commercially available, whereas the scenarios for 2050 also examine technological options at the experimental or developmental stage. This includes hydrogen technologies and fuel cells as well as CO{sub 2} capture and sequestration (CCS) technologies. The scenarios should be seen in connection with the EU objectives of a 20-30 % reduction in greenhouse gas emissions in 2020 and 60-80 % in 2050 compared to 1990. The EU's 30 % objective is contingent upon global efforts to reduce the world's greenhouse gas

  2. Genomics and Comparative Genomic Analyses Provide Insight into the Taxonomy and Pathogenic Potential of Novel Emmonsia Pathogens

    Science.gov (United States)

    Yang, Ying; Ye, Qiang; Li, Kang; Li, Zongwei; Bo, Xiaochen; Li, Zhen; Xu, Yingchun; Wang, Shengqi; Wang, Peng; Chen, Huipeng; Wang, Junzhi

    2017-01-01

    Over the last 50 years, newly described species of Emmonsia-like fungi have been implicated globally as sources of systemic human mycosis (emmonsiosis). Their ability to convert into yeast-like cells capable of replication and extra-pulmonary dissemination during the course of infection differentiates them from classical Emmonsia species. Immunocompromised patients are at highest risk of emmonsiosis and exhibit high mortality rates. In order to investigate the molecular basis for pathogenicity of the newly described Emmonsia species, genomic sequencing and comparative genomic analyses of Emmonsia sp. 5z489, which was isolated from a non-deliberately immunosuppressed diabetic patient in China and represents a novel seventh isolate of Emmonsia-like fungi, was performed. The genome size of 5z489 was 35.5 Mbp in length, which is ~5 Mbp larger than other Emmonsia strains. Further, 9,188 protein genes were predicted in the 5z489 genome and 16% of the assembly was identified as repetitive elements, which is the largest abundance in Emmonsia species. Phylogenetic analyses based on whole genome data classified 5z489 and CAC-2015a, another novel isolate, as members of the genus Emmonsia. Our analyses showed that divergences among Emmonsia occurred much earlier than other genera within the family Ajellomycetaceae, suggesting relatively distant evolutionary relationships among the genus. Through comparisons of Emmonsia species, we discovered significant pathogenicity characteristics within the genus as well as putative virulence factors that may play a role in the infection and pathogenicity of the novel Emmonsia strains. Moreover, our analyses revealed a novel distribution mode of DNA methylation patterns across the genome of 5z489, with >50% of methylated bases located in intergenic regions. These methylation patterns differ considerably from other reported fungi, where most methylation occurs in repetitive loci. It is unclear if this difference is related to physiological

  3. Geothermal Greenhouse Information Package

    Energy Technology Data Exchange (ETDEWEB)

    Rafferty, K. [P.E.; Boyd, T. [ed.

    1997-01-01

    This package of information is intended to provide a foundation of background information for developers of geothermal greenhouses. The material is divided into seven sections covering such issues as crop culture and prices, operating costs for greenhouses, heating system design, vendors and a list of other sources of information.

  4. Comparative Genomic Analyses of the Human NPHP1 Locus Reveal Complex Genomic Architecture and Its Regional Evolution in Primates.

    Directory of Open Access Journals (Sweden)

    Bo Yuan

    2015-12-01

    Full Text Available Many loci in the human genome harbor complex genomic structures that can result in susceptibility to genomic rearrangements leading to various genomic disorders. Nephronophthisis 1 (NPHP1, MIM# 256100 is an autosomal recessive disorder that can be caused by defects of NPHP1; the gene maps within the human 2q13 region where low copy repeats (LCRs are abundant. Loss of function of NPHP1 is responsible for approximately 85% of the NPHP1 cases-about 80% of such individuals carry a large recurrent homozygous NPHP1 deletion that occurs via nonallelic homologous recombination (NAHR between two flanking directly oriented ~45 kb LCRs. Published data revealed a non-pathogenic inversion polymorphism involving the NPHP1 gene flanked by two inverted ~358 kb LCRs. Using optical mapping and array-comparative genomic hybridization, we identified three potential novel structural variant (SV haplotypes at the NPHP1 locus that may protect a haploid genome from the NPHP1 deletion. Inter-species comparative genomic analyses among primate genomes revealed massive genomic changes during evolution. The aggregated data suggest that dynamic genomic rearrangements occurred historically within the NPHP1 locus and generated SV haplotypes observed in the human population today, which may confer differential susceptibility to genomic instability and the NPHP1 deletion within a personal genome. Our study documents diverse SV haplotypes at a complex LCR-laden human genomic region. Comparative analyses provide a model for how this complex region arose during primate evolution, and studies among humans suggest that intra-species polymorphism may potentially modulate an individual's susceptibility to acquiring disease-associated alleles.

  5. Greenhouse gas accounting and waste management

    DEFF Research Database (Denmark)

    Gentil, Emmanuel; Christensen, Thomas Højlund; Aoustin, E.

    2009-01-01

    for reporting basic technology-related data regarding GHG issues including a clear distinction between direct emissions from waste management technologies, indirect upstream (use of energy and materials) and indirect downstream (production of energy, delivery of secondary materials) activities.......Accounting of emissions of greenhouse gas (GHG) is a major focus within waste management. This paper analyses and compares the four main types of GHG accounting in waste management including their special features and approaches: the national accounting, with reference to the Intergovernmental...... Panel on Climate Change (IPCC), the corporate level, as part of the annual reporting on environmental issues and social responsibility, life-cycle assessment (LCA), as an environmental basis for assessing waste management systems and technologies, and finally, the carbon trading methodology, and more...

  6. National Greenhouse Gas Emission Inventory

    Data.gov (United States)

    U.S. Environmental Protection Agency — The National Greenhouse Gas Emission Inventory contains information on direct emissions of greenhouse gases as well as indirect or potential emissions of greenhouse...

  7. A comparative study of cold- and warm-adapted Endonucleases A using sequence analyses and molecular dynamics simulations

    Science.gov (United States)

    Michetti, Davide; Brandsdal, Bjørn Olav; Bon, Davide; Isaksen, Geir Villy; Tiberti, Matteo; Papaleo, Elena

    2017-01-01

    The psychrophilic and mesophilic endonucleases A (EndA) from Aliivibrio salmonicida (VsEndA) and Vibrio cholera (VcEndA) have been studied experimentally in terms of the biophysical properties related to thermal adaptation. The analyses of their static X-ray structures was no sufficient to rationalize the determinants of their adaptive traits at the molecular level. Thus, we used Molecular Dynamics (MD) simulations to compare the two proteins and unveil their structural and dynamical differences. Our simulations did not show a substantial increase in flexibility in the cold-adapted variant on the nanosecond time scale. The only exception is a more rigid C-terminal region in VcEndA, which is ascribable to a cluster of electrostatic interactions and hydrogen bonds, as also supported by MD simulations of the VsEndA mutant variant where the cluster of interactions was introduced. Moreover, we identified three additional amino acidic substitutions through multiple sequence alignment and the analyses of MD-based protein structure networks. In particular, T120V occurs in the proximity of the catalytic residue H80 and alters the interaction with the residue Y43, which belongs to the second coordination sphere of the Mg2+ ion. This makes T120V an amenable candidate for future experimental mutagenesis. PMID:28192428

  8. Comparative phylogenomics and multi-gene cluster analyses of the Citrus Huanglongbing (HLB-associated bacterium Candidatus Liberibacter

    Directory of Open Access Journals (Sweden)

    Civerolo Edwin L

    2008-08-01

    Full Text Available Abstract Background Huanglongbing (HLB, previously known as citrus greening, is associated with Candidatus Liberibacter species and is a serious threat to citrus production world-wide. The pathogen is a Gram negative, unculturable, phloem-limited bacterium with limited known genomic information. Expanding the genetic knowledge of this organism may provide better understanding of the pathogen and possibly develop effective strategies for control and management of HLB. Results Here, we report cloning and characterization of an additional 14.7 Kb of new genomic sequences from three different genomic regions of the Candidatus Liberibacter asiaticus (Las. Sequence variation analyses among the available Ca. Liberibacter species sequences as well as the newly cloned 1.5 Kb of rpoB gene from different Ca. Liberibacter strains have identified INDELs and SNPs. Phylogenetic analysis of the deduced protein sequences from the cloned regions characterizes the HLB-associated Candidatus Liberibacter as a new clade in the sub-division of the α-proteobacteria. Conclusion Comparative analyses of the cloned gene regions of Candidatus Liberibacter with members of the order Rhizobiales suggest overall gene structure and order conservation, albeit with minor variations including gene decay due to the identified pseudogenes. The newly cloned gene regions contribute to our understanding of the molecular aspects of genomic evolution of Ca. Liberibacter.

  9. A comparative study between xerographic, computer-assisted overlay generation and animated-superimposition methods in bite mark analyses.

    Science.gov (United States)

    Tai, Meng Wei; Chong, Zhen Feng; Asif, Muhammad Khan; Rahmat, Rabiah A; Nambiar, Phrabhakaran

    2016-09-01

    This study was to compare the suitability and precision of xerographic and computer-assisted methods for bite mark investigations. Eleven subjects were asked to bite on their forearm and the bite marks were photographically recorded. Alginate impressions of the subjects' dentition were taken and their casts were made using dental stone. The overlays generated by xerographic method were obtained by photocopying the subjects' casts and the incisal edge outlines were then transferred on a transparent sheet. The bite mark images were imported into Adobe Photoshop® software and printed to life-size. The bite mark analyses using xerographically generated overlays were done by comparing an overlay to the corresponding printed bite mark images manually. In computer-assisted method, the subjects' casts were scanned into Adobe Photoshop®. The bite mark analyses using computer-assisted overlay generation were done by matching an overlay and the corresponding bite mark images digitally using Adobe Photoshop®. Another comparison method was superimposing the cast images with corresponding bite mark images employing the Adobe Photoshop® CS6 and GIF-Animator©. A score with a range of 0-3 was given during analysis to each precision-determining criterion and the score was increased with better matching. The Kruskal Wallis H test showed significant difference between the three sets of data (H=18.761, poverlay generation and lastly the xerographic method. The superior precision contributed by digital method is discernible despite the human skin being a poor recording medium of bite marks. Copyright © 2016 Elsevier Ireland Ltd. All rights reserved.

  10. Comparative analyses of lipidomes and transcriptomes reveal a concerted action of multiple defensive systems against photooxidative stress in Haematococcus pluvialis.

    Science.gov (United States)

    Gwak, Yunho; Hwang, Yong-sic; Wang, Baobei; Kim, Minju; Jeong, Jooyeon; Lee, Choul-Gyun; Hu, Qiang; Han, Danxiang; Jin, EonSeon

    2014-08-01

    Haematococcus pluvialis cells predominantly remain in the macrozooid stage under favourable environmental conditions but are rapidly differentiated into haematocysts upon exposure to various environmental stresses. Haematocysts are characterized by massive accumulations of astaxanthin sequestered in cytosolic oil globules. Lipidomic analyses revealed that synthesis of the storage lipid triacylglycerol (TAG) was substantially stimulated under high irradiance. Simultaneously, remodelling of membrane glycerolipids occurred as a result of dramatic reductions in chloroplast membrane glycolipids but remained unchanged or declined slightly in extraplastidic membrane glycerolipids. De novo assembly of transcriptomes revealed the genomic and metabolic features of this unsequenced microalga. Comparative transcriptomic analysis showed that so-called resting cells (haematocysts) may be more active than fast-growing vegetative cells (macrozooids) regarding metabolic pathways and functions. Comparative transcriptomic analyses of astaxanthin biosynthesis suggested that the non-mevalonate pathway mediated the synthesis of isopentenyl diphosphate, as the majority of genes involved in subsequent astaxanthin biosynthesis were substantially up-regulated under high irradiance, with the genes encoding phytoene synthase, phytoene desaturase, and β-carotene hydroxylase identified as the most prominent regulatory components. Accumulation of TAG under high irradiance was attributed to moderate up-regulation of de novo fatty acid biosynthesis at the gene level as well as to moderate elevation of the TAG assembly pathways. Additionally, inferred from transcriptomic differentiation, an increase in reactive oxygen species (ROS) scavenging activity, a decrease in ROS production, and the relaxation of over-reduction of the photosynthetic electron transport chain will work together to protect against photooxidative stress in H. pluvialis under high irradiance. © The Author 2014. Published by

  11. ENERGY SUPPLY OF COMMERCIAL GREENHOUSE WITH THE GAS DRIVEN HEAT PUMP

    Directory of Open Access Journals (Sweden)

    Sit M.L.

    2013-08-01

    Full Text Available Abstract: The aim of the work is to develop energy efficient schemes of industrial greenhouse designed for year-round production of plants that requires year-round maintenance of strongly prescribed temperature and humidity inside the greenhouse. The complex "gas driven “water-air” heat pump – electric generator" (for use during the heating season as well as the "gas driven heat pump “water-air” – electric generator – desiccant - evaporative chiller" which work in the off-season. The developed system produces heat and electricity (during the heating season as well as cold and electricity (the rest of the year. Comparative analyses of greenhouse cooling by water and air cooling systems have been performed. Proposed structures have a high efficiency as compared with conventional circuits (boiler - chiller.

  12. Comparative analyses reveal potential uses of Brachypodium distachyon as a model for cold stress responses in temperate grasses

    Directory of Open Access Journals (Sweden)

    Li Chuan

    2012-05-01

    Full Text Available Abstract Background Little is known about the potential of Brachypodium distachyon as a model for low temperature stress responses in Pooideae. The ice recrystallization inhibition protein (IRIP genes, fructosyltransferase (FST genes, and many C-repeat binding factor (CBF genes are Pooideae specific and important in low temperature responses. Here we used comparative analyses to study conservation and evolution of these gene families in B. distachyon to better understand its potential as a model species for agriculturally important temperate grasses. Results Brachypodium distachyon contains cold responsive IRIP genes which have evolved through Brachypodium specific gene family expansions. A large cold responsive CBF3 subfamily was identified in B. distachyon, while CBF4 homologs are absent from the genome. No B. distachyon FST gene homologs encode typical core Pooideae FST-motifs and low temperature induced fructan accumulation was dramatically different in B. distachyon compared to core Pooideae species. Conclusions We conclude that B. distachyon can serve as an interesting model for specific molecular mechanisms involved in low temperature responses in core Pooideae species. However, the evolutionary history of key genes involved in low temperature responses has been different in Brachypodium and core Pooideae species. These differences limit the use of B. distachyon as a model for holistic studies relevant for agricultural core Pooideae species.

  13. Comparative proteomic and physiological analyses reveal the protective effect of exogenous calcium on the germinating soybean response to salt stress.

    Science.gov (United States)

    Yin, Yongqi; Yang, Runqiang; Han, Yongbin; Gu, Zhenxin

    2015-01-15

    suppressed under salt stress condition. According to previous studies, exogenous calcium counters the harmful effect of salt stress and increases the biomass and GABA content of germinating soybeans. Nevertheless, the precise molecular mechanism underlying the role of calcium in resistance to salt stress is still unknown. This paper is the first study employing comparative proteomic and physiological analyses to reveal the protective effect of exogenous calcium in the germinating soybean response to salt stress. Our study links the biological events with proteomic information and provides detailed peptide information on all identified proteins. The functions of those significantly changed proteins are also analyzed. The physiological and comparative proteomic analyses revealed the putative molecular mechanism of exogenous calcium treatment induced salt stress responses. The findings from this paper are beneficial to high GABA-rich germinating soybean biomass. Additionally, these findings also might be applicable to the genetic engineering of soybean plants to improve stress tolerance.

  14. Comparative analyses imply that the enigmatic sigma factor 54 is a central controller of the bacterial exterior

    Directory of Open Access Journals (Sweden)

    Groot Kormelink Tom

    2011-08-01

    Full Text Available Abstract Background Sigma-54 is a central regulator in many pathogenic bacteria and has been linked to a multitude of cellular processes like nitrogen assimilation and important functional traits such as motility, virulence, and biofilm formation. Until now it has remained obscure whether these phenomena and the control by Sigma-54 share an underlying theme. Results We have uncovered the commonality by performing a range of comparative genome analyses. A The presence of Sigma-54 and its associated activators was determined for all sequenced prokaryotes. We observed a phylum-dependent distribution that is suggestive of an evolutionary relationship between Sigma-54 and lipopolysaccharide and flagellar biosynthesis. B All Sigma-54 activators were identified and annotated. The relation with phosphotransfer-mediated signaling (TCS and PTS and the transport and assimilation of carboxylates and nitrogen containing metabolites was substantiated. C The function annotations, that were represented within the genomic context of all genes encoding Sigma-54, its activators and its promoters, were analyzed for intra-phylum representation and inter-phylum conservation. Promoters were localized using a straightforward scoring strategy that was formulated to identify similar motifs. We found clear highly-represented and conserved genetic associations with genes that concern the transport and biosynthesis of the metabolic intermediates of exopolysaccharides, flagella, lipids, lipopolysaccharides, lipoproteins and peptidoglycan. Conclusion Our analyses directly implicate Sigma-54 as a central player in the control over the processes that involve the physical interaction of an organism with its environment like in the colonization of a host (virulence or the formation of biofilm.

  15. Meta-analyses of comparative efficacy of antidepressant medications on peripheral BDNF concentration in patients with depression

    Science.gov (United States)

    Chen, Jianjun; Deng, Xiao; Zhang, Lin; Zhao, Xiang; Qu, Zehui; Lei, Yang; Lei, Ting

    2017-01-01

    Background Brain derived neurotrophic factor (BDNF) is one of the most important regulatory proteins in the pathophysiology of major depressive disorder (MDD). Increasing numbers of studies have reported the relationship between serum/plasma BDNF and antidepressants (ADs). However, the potential effects of several classes of antidepressants on BDNF concentrations are not well known. Hence, our meta-analyses aims to review the effects of differential antidepressant drugs on peripheral BDNF levels in MDD and make some recommendations for future research. Methods Electronic databases including PubMed, EMBASE, the Cochrane Library, Web of Science, and PsycINFO were searched from 1980 to June 2016. The change in BDNF levels were compared between baseline and post-antidepressants treatment by use of the standardized mean difference (SMD) with 95% confidence intervals (CIs). All statistical tests were two-sided. Results We identified 20 eligible trials of antidepressants treatments for BDNF in MDD. The overall effect size for all drug classes showed that BDNF levels were elevated following a course of antidepressants use. For between-study heterogeneity by stratification analyses, we detect that length of treatment and blood samples are significant effect modifiers for BDNF levels during antidepressants treatment. While both SSRIs and SNRIs could increase the BDNF levels after a period of antidepressant medication treatment, sertraline was superior to other three drugs (venlafaxine, paroxetine or escitalopram) in the early increase of BDNF concentrations with SMD 0.53(95% CI = 0.13–0.93; P = 0.009). Conclusions There is some evidence that treatment of antidepressants appears to be effective in the increase of peripheral BDNF levels. More robust evidence indicates that different types of antidepressants appear to induce differential effects on the BDNF levels. Since sertraline makes a particular effect on BDNF concentration within a short amount of time, there is

  16. Impact of vaccine herd-protection effects in cost-effectiveness analyses of childhood vaccinations. A quantitative comparative analysis

    Science.gov (United States)

    Maldonado, Yvonne; Ioannidis, John P. A.; Contopoulos-Ioannidis, Despina

    2017-01-01

    Background Inclusion of vaccine herd-protection effects in cost-effectiveness analyses (CEAs) can impact the CEAs-conclusions. However, empirical epidemiologic data on the size of herd-protection effects from original studies are limited. Methods We performed a quantitative comparative analysis of the impact of herd-protection effects in CEAs for four childhood vaccinations (pneumococcal, meningococcal, rotavirus and influenza). We considered CEAs reporting incremental-cost-effectiveness-ratios (ICERs) (per quality-adjusted-life-years [QALY] gained; per life-years [LY] gained or per disability-adjusted-life-years [DALY] avoided), both with and without herd protection, while keeping all other model parameters stable. We calculated the size of the ICER-differences without vs with-herd-protection and estimated how often inclusion of herd-protection led to crossing of the cost-effectiveness threshold (of an assumed societal-willingness-to-pay) of $50,000 for more-developed countries or X3GDP/capita (WHO-threshold) for less-developed countries. Results We identified 35 CEA studies (20 pneumococcal, 4 meningococcal, 8 rotavirus and 3 influenza vaccines) with 99 ICER-analyses (55 per-QALY, 27 per-LY and 17 per-DALY). The median ICER-absolute differences per QALY, LY and DALY (without minus with herd-protection) were $15,620 (IQR: $877 to $48,376); $54,871 (IQR: $787 to $115,026) and $49 (IQR: $15 to $1,636) respectively. When the target-vaccination strategy was not cost-saving without herd-protection, inclusion of herd-protection always resulted in more favorable results. In CEAs that had ICERs above the cost-effectiveness threshold without herd-protection, inclusion of herd-protection led to crossing of that threshold in 45% of the cases. This impacted only CEAs for more developed countries, as all but one CEAs for less developed countries had ICERs below the WHO-cost-effectiveness threshold even without herd-protection. In several analyses, recommendation for the

  17. Prevalence and Characteristics of Central Compared to Obstructive Sleep Apnea: Analyses from the Sleep Heart Health Study Cohort

    Science.gov (United States)

    Donovan, Lucas M.; Kapur, Vishesh K.

    2016-01-01

    Study Objectives: Determine the prevalence of central sleep apnea (CSA) in a large community-based cohort using current definitions and contrast the clinical characteristics of subjects with CSA to those with obstructive sleep apnea (OSA) and no sleep apnea. Methods: A cross sectional analysis of baseline data from 5,804 participants of the Sleep Heart Health study was performed. Subjects meeting contemporary diagnostic criteria for CSA and Cheyne Stokes respiration (CSR) were compared to those without sleep apnea and those with OSA. Demographic data, medical comorbidities, medication use, and sleep related symptoms were compared between the groups Results: The prevalences of CSA and Cheyne Stokes respiration (CSR) in this sample were 0.9 (95% confidence intervals [CI]: 0.7–1.2)% and 0.4 (95% CI: 0.3–0.6)%, respectively. Individuals with CSA were older, had lower body mass indexes (BMI), lower Epworth Sleepiness Scale scores, and were more likely to be male than individuals with obstructive sleep apnea OSA. Among those with self-reported heart failure (HF), OSA was much more common at 55.1% (95% CI: 45.6–64.6) than CSA 4.1% (95% CI: 0.3–7.9). Conclusions: This is the largest community-based study of the prevalence and characteristics of CSA to date and demonstrates a prevalence of CSA that is intermediate to those previously noted. Contrary to prior data from clinic based samples, individuals with heart failure were much more likely to have OSA than CSA. Citation: Donovan LM, Kapur VK. Prevalence and characteristics of central compared to obstructive sleep apnea: analyses from the sleep heart health study cohort. SLEEP 2016;39(7):1353–1359. PMID:27166235

  18. The greenhouse gases

    Energy Technology Data Exchange (ETDEWEB)

    Clarke, R.

    1987-01-01

    The main greenhouse gases are carbon dioxide, methane, nitrous oxide, CFCs and ozone. They are greenhouse gases as they absorb radiation from the Earth and thus impede its emission back to space. CO{sub 2} is responsible for about half the enhanced greenhouse effect. A global warming of only a few degrees would have a profound effect on climate. Increased levels of CO{sub 2} promote plant growth, but may not benefit agriculture overall. Sea levels may rise. It is difficult to predict the effects of global warming in society. It would be possible to reduce the scale of the greenhouse effect by energy conservation, using alternative energy sources, and possibly by capturing CO{sub 2} from fossil fuel power stations and disposing of it on the ocean floor. 13 refs., 19 figs., 1 tab.

  19. GEOTHERMAL GREENHOUSING IN TURKEY

    Directory of Open Access Journals (Sweden)

    Sedat Karaman

    2016-07-01

    Full Text Available Use of renewable energy resources should be brought forward to reduce heating costs of greenhouses and to minimize the use of ever-depleting fossil fuels. Geothermal energy not only provides the heat required throughout plant growth, but also allow a year-long production. Geothermal resources with several other benefits therefore play significant role in agricultural activities. With regard to geothermal potential and implementation, Turkey has the 7th place in the world and the 1st place in Europe. Majority of country geothermal resources is used in greenhouse heating. The size of geothermal greenhouses increased 5 folds during the last decade and reached to 2500 decare. In this study, current status of geothermal greenhousing of Turkey was presented; problems and possible solutions were discussed.

  20. Solar greenhouses in Minnesota

    Energy Technology Data Exchange (ETDEWEB)

    Polich, M.

    1981-12-01

    After a discussion of solar greenhouse phenomena and the potential for heat collection and food production, design recommendations are provided for attached heat collecting solar sunspaces and for attached food producing solar greenhouses. Also, design of a single solar structure to maximize heat collection and food production is considered. A method of predicting the performance for attached heat collecting solar sunspaces is given in which the solar savings fraction is calculated. (LEW)

  1. Thyroid function in Danish greenhouse workers

    Directory of Open Access Journals (Sweden)

    Bonde Jens

    2006-12-01

    Full Text Available Abstract Background From animal studies it is known that currently used pesticides can disturb thyroid function. Methods In the present study we investigated the thyroid function in 122 Danish greenhouse workers, to evaluate if greenhouse workers classified as highly exposed to pesticides experiences altered thyroid levels compared to greenhouse workers with lower exposure. Serum samples from the greenhouse workers were sampled both in the spring and the fall to evaluate if differences in pesticide use between seasons resulted in altered thyroid hormone levels. Results We found a moderate reduction of free thyroxine (FT4 (10–16% among the persons working in greenhouses with a high spraying load both in samples collected in the spring and the fall, but none of the other measured thyroid hormones differed significantly between exposure groups in the cross-sectional comparisons. However, in longitudinal analysis of the individual thyroid hormone level between the spring and the fall, more pronounced differences where found with on average 32% higher thyroid stimulating hormone (TSH level in the spring compared to the fall and at the same time a 5–9% lower total triiodthyroxin (TT3, free triiodthyroxine (FT3 and FT4. The difference between seasons was not consistently more pronounced in the group classified as high exposure compared to the low exposure groups. Conclusion The present study indicates that pesticide exposure among Danish greenhouse workers results in only minor disturbances of thyroid hormone levels.

  2. Comparative molecular cytogenetic analyses of a major tandemly repeated DNA family and retrotransposon sequences in cultivated jute Corchorus species (Malvaceae).

    Science.gov (United States)

    Begum, Rabeya; Zakrzewski, Falk; Menzel, Gerhard; Weber, Beatrice; Alam, Sheikh Shamimul; Schmidt, Thomas

    2013-07-01

    The cultivated jute species Corchorus olitorius and Corchorus capsularis are important fibre crops. The analysis of repetitive DNA sequences, comprising a major part of plant genomes, has not been carried out in jute but is useful to investigate the long-range organization of chromosomes. The aim of this study was the identification of repetitive DNA sequences to facilitate comparative molecular and cytogenetic studies of two jute cultivars and to develop a fluorescent in situ hybridization (FISH) karyotype for chromosome identification. A plasmid library was generated from C. olitorius and C. capsularis with genomic restriction fragments of 100-500 bp, which was complemented by targeted cloning of satellite DNA by PCR. The diversity of the repetitive DNA families was analysed comparatively. The genomic abundance and chromosomal localization of different repeat classes were investigated by Southern analysis and FISH, respectively. The cytosine methylation of satellite arrays was studied by immunolabelling. Major satellite repeats and retrotransposons have been identified from C. olitorius and C. capsularis. The satellite family CoSat I forms two undermethylated species-specific subfamilies, while the long terminal repeat (LTR) retrotransposons CoRetro I and CoRetro II show similarity to the Metaviridea of plant retroelements. FISH karyotypes were developed by multicolour FISH using these repetitive DNA sequences in combination with 5S and 18S-5·8S-25S rRNA genes which enable the unequivocal chromosome discrimination in both jute species. The analysis of the structure and diversity of the repeated DNA is crucial for genome sequence annotation. The reference karyotypes will be useful for breeding of jute and provide the basis for karyotyping homeologous chromosomes of wild jute species to reveal the genetic and evolutionary relationship between cultivated and wild Corchorus species.

  3. Comparative analyses of plastid sequences between native and introduced populations of aquatic weeds Elodea canadensis and E. nuttallii.

    Science.gov (United States)

    Huotari, Tea; Korpelainen, Helena

    2013-01-01

    Non-indigenous species (NIS) are species living outside their historic or native range. Invasive NIS often cause severe environmental impacts, and may have large economical and social consequences. Elodea (Hydrocharitaceae) is a New World genus with at least five submerged aquatic angiosperm species living in fresh water environments. Our aim was to survey the geographical distribution of cpDNA haplotypes within the native and introduced ranges of invasive aquatic weeds Elodea canadensis and E. nuttallii and to reconstruct the spreading histories of these invasive species. In order to reveal informative chloroplast (cp) genome regions for phylogeographic analyses, we compared the plastid sequences of native and introduced individuals of E. canadensis. In total, we found 235 variable sites (186 SNPs, 47 indels and two inversions) between the two plastid sequences consisting of 112,193 bp and developed primers flanking the most variable genomic areas. These 29 primer pairs were used to compare the level and pattern of intraspecific variation within E. canadensis to interspecific variation between E. canadensis and E. nuttallii. Nine potentially informative primer pairs were used to analyze the phylogeographic structure of both Elodea species, based on 70 E. canadensis and 25 E. nuttallii individuals covering native and introduced distributions. On the whole, the level of variation between the two Elodea species was 53% higher than that within E. canadensis. In our phylogeographic analysis, only a single haplotype was found in the introduced range in both species. These haplotypes H1 (E. canadensis) and A (E. nuttallii) were also widespread in the native range, covering the majority of native populations analyzed. Therefore, we were not able to identify either the geographic origin of the introduced populations or test the hypothesis of single versus multiple introductions. The divergence between E. canadensis haplotypes was surprisingly high, and future research may

  4. Comparative analyses of light-induced anthocyanin accumulation and gene expression between the ray florets and leaves in chrysanthemum.

    Science.gov (United States)

    Hong, Yan; Yang, Li-Wen; Li, Meng-Ling; Dai, Si-Lan

    2016-06-01

    Light is one of the key environmental factors that affect anthocyanin biosynthesis. However, the underlying molecular mechanism remains unclear, and many problems regarding phenotypic change and corresponding gene regulation have not been solved. In the present study, comparative analyses of light-induced anthocyanin accumulation and gene expression between the ray florets and leaves were performed in Chrysanthemum × morifolium 'Purple Reagan'. After contrasting the variations in the flower color phenotype and relative pigment content, as well as expression patterns of structural and regulator genes responsible for anthocyanin biosynthesis and photoreceptor between different plant organs under light and dark conditions, we concluded that (1) both the capitulum and foliage are key organs responding to light for chrysanthemum coloration; (2) compared with flavones, shading makes a greater decrease on the anthocyanins accumulation; (3) most of the structural and regulatory genes in the light-induced anthocyanin pathway specifically express in the ray florets; and (4) CmCHS, CmF3H, CmF3'H, CmANS, CmDFR, Cm3GT, CmMYB5-1, CmMYB6, CmMYB7-1, CmbHLH24, CmCOP1 and CmHY5 are key genes for light-induced anthocyanin biosynthesis in chrysanthemum ray florets, while on the transcriptional level, the expressions of CmPHYA, CmPHYB, CmCRY1a, CmCRY1b and CmCRY2 are insignificantly changed. Moreover, the inferred comprehensive effect of multiple signals on the accumulation of anthocyanins and transmission channel of light signal that exist between the leaves and ray florets were further discussed. These results further our understanding of the relationship between the gene expression and light-induced anthocyanin biosynthesis, and lay foundations for the promotion of the molecular breeding of novel flower colors in chrysanthemums.

  5. Comparative analyses of fungicide sensitivity and SSR marker variations indicate a low risk of developing azoxystrobin resistance in Phytophthora infestans.

    Science.gov (United States)

    Qin, Chun-Fang; He, Meng-Han; Chen, Feng-Ping; Zhu, Wen; Yang, Li-Na; Wu, E-Jiao; Guo, Zheng-Liang; Shang, Li-Ping; Zhan, Jiasui

    2016-02-08

    Knowledge of the evolution of fungicide resistance is important in securing sustainable disease management in agricultural systems. In this study, we analyzed and compared the spatial distribution of genetic variation in azoxystrobin sensitivity and SSR markers in 140 Phytophthora infestans isolates sampled from seven geographic locations in China. Sensitivity to azoxystrobin and its genetic variation in the pathogen populations was measured by the relative growth rate (RGR) at four fungicide concentrations and determination of the effective concentration for 50% inhibition (EC50). We found that all isolates in the current study were sensitive to azoxystrobin and their EC50 was similar to that detected from a European population about 20 years ago, suggesting the risk of developing azoxystrobin resistance in P. infestans populations is low. Further analyses indicate that reduced genetic variation and high fitness cost in resistant mutations are the likely causes for the low evolutionary likelihood of developing azoxystrobin resistance in the pathogen. We also found a negative correlation between azoxystrobin tolerance in P. infestans populations and the mean annual temperature of collection sites, suggesting that global warming may increase the efficiency of using the fungicide to control the late blight.

  6. Sources of variability and comparability between salmonid stomach contents and isotopic analyses: study design lessons and recommendations

    Science.gov (United States)

    Vinson, M.R.; Budy, P.

    2011-01-01

    We compared sources of variability and cost in paired stomach content and stable isotope samples from three salmonid species collected in September 2001–2005 and describe the relative information provided by each method in terms of measuring diet overlap and food web study design. Based on diet analyses, diet overlap among brown trout, rainbow trout, and mountain whitefish was high, and we observed little variation in diets among years. In contrast, for sample sizes n ≥ 25, 95% confidence interval (CI) around mean δ15Ν and δ13C for the three target species did not overlap, and species, year, and fish size effects were significantly different, implying that these species likely consumed similar prey but in different proportions. Stable isotope processing costs were US$12 per sample, while stomach content analysis costs averaged US$25.49 ± $2.91 (95% CI) and ranged from US$1.50 for an empty stomach to US$291.50 for a sample with 2330 items. Precision in both δ15Ν and δ13C and mean diet overlap values based on stomach contents increased considerably up to a sample size of n = 10 and plateaued around n = 25, with little further increase in precision.

  7. Comparative analysis of air quality in cities and forests; Vergleichende Analyse der Luftqualitaet in Stadt und Wald

    Energy Technology Data Exchange (ETDEWEB)

    Matzarakis, A.; Mayer, H.; Sczepanski, P. [Freiburg Univ. (Germany). Meteorologisches Inst.

    1999-07-01

    The present study was dedicated to a comparative analysis of air quality in cities and nearby forests. The study was based on half-hour mean values of the ''classical'' air pollutants nitrogen monoxide (NO), nitrogen dioxide (NO{sub 2}) and ozone (O{sub 3}) measured in the time from 1992 to 1996 at the official air quality measuring stations of Stuttgart Centre, Stuttgart Bad Cannstadt and Welzheimer Forest on the one hand and Freiburg Centre, Northern Freiburg and South Black Forest on the other. The results obtained show substance-specific differences that are associated with distances to certain anthropogenic emitters and modulated by the pollutants' average baseline concentrations at the individual monitoring stations. [German] Auf der Grundlage von Halbstundenmittelwerten der 'klassischen' Luftschadstoffe Stickstoffmonoxid (NO), Stickstoffdioxid (NO{sub 2}) und Ozon (O{sub 3}) aus dem Zeitraum 1992 bis 1996, die an den amtlichen Luftqualitaetsmessstellen Stuttgart-Mitte, Stuttgart-Bad Cannstatt und Welzheimer Wald einerseits sowie Freiburg-Mitte, Freiburg-Nord und Schwarzwald-Sued andererseits erhoben wurden, erfolgt eine vergleichende Analyse der Luftqualitaet in der Stadt und einem nahen Wald. Die Ergebnisse spiegeln substanzspezifische Unterschiede wider, die durch die raeumliche Entfernung zu anthropogenen Emittenten gepraegt sind und durch das mittlere Niveau der untersuchten Luftschadstoffe an den einzelnen Messstellen modifiziert werden. (orig.)

  8. Soil microbial community structure in diverse land use systems:A comparative study using Biolog,DGGE,and PLFA analyses

    Institute of Scientific and Technical Information of China (English)

    XUE Dong; YAO Huai-Ying; GE De-Yong; HUANG Chang-Yong

    2008-01-01

    Biolog,16S rRNA gene denaturing gradient gel electrophoresis (DGGE),and phospholipid fatty acid (PLFA) analyses were used to assess soil microbial community characteristics in a chronosequence of tea garden systems (8-,50-,and 90year-old tea gardens),an adjacent wasteland,and a 90-year-old forest.Biolog analysis showed that the average well color development (AWCD) of all carbon sources and the functional diversity based on the Shannon index decreased (P<0.05)in the following order:wasteland>forest>tea garden.For the DGGE analysis,the genetic diversity based on the Shannon index was significantly lower in the tea garden soils than in the wasteland.However,compared to the 90-year-old forest,the tea garden soils showed significantly higher genetic diversity.PLFA analysis showed that the ratio of Gram positive bacteria to Gram negative bacteria was significantly higher in the tea garden soils than in the wasteland,and the highest value was found in the 90-year-old forest.Both the fungal PLFA and the ratio of fungi to bacteria were significantly higher in the three tea garden soils than in the wasteland and forest,indicating that fungal PLFA was significantly affected by land-use change.Based on cluster analysis of the soil microbial community structure,all three analytical methods showed that land-use change had a greater effect on soil microbial community structure than tea garden age.

  9. Identification of decisive factors for greenhouse gas emissions in comparative life cycle assessments of food waste management – an analytical review

    DEFF Research Database (Denmark)

    Bernstad, Anna; Wenzel, Henrik; Jansen, Jes la Cour

    2016-01-01

    A review of existing life cycle assessments on food waste management was made with two main aims. Firstly, to make an overview of the assessments of the global warming potential from the treatment alternatives incineration, landfill, anaerobic digestion and compost in studies reported in literatu...... of sensitivity analyses related to assumptions made in background system modeling, in order to reveal under which set of assumptions results gained in the assessment are valid....

  10. Working regime identification for natural circulation loops by comparative thermalhydraulic analyses with three fluids under identical operating conditions

    Energy Technology Data Exchange (ETDEWEB)

    Sarkar, Milan K.S.; Basu, Dipankar N., E-mail: dipankar.n.basu@gmail.com

    2015-11-15

    Highlights: • Thermalhydraulic analyses of NCL to justify the use of supercritical condition. • Mass flow rate of supercritical loop increases with heater power till a maxima. • Supercritical loop suffer from HTD beyond the maxima with jump in fluid temperature. • HTD is pronounced at higher sink temperatures and pressures just above critical. • Supercritical CO{sub 2} is preferred fluid till the HTD and single-phase water afterwards. - Abstract: Computational investigation for comparative thermalhydraulic analyses of rectangular natural circulation loops is performed to propose a guideline for selecting the working fluid and nature of the loop, subcritical or supercritical, under identical levels of operating parameters like pressure, heating power and coolant temperature. A 3-d uniform-diameter loop geometry is developed with horizontal heating and cooling. Heating is provided in constant heat flux mode, whereas cooling is through a constant temperature sink. Due to favourable thermophysical properties and environmental conformity, water, CO{sub 2} and R134a are selected as possible working fluids. Operational parameters are set so as to have sub- to supercritical condition for CO{sub 2}, supercritical for R134a and single-phase liquid for water. Mass flow rate for supercritical fluid rapidly increases with heater power, when the fluid is allowed to cross the pseudocritical point during its passage through the heater, and exhibits a maxima. Drastic fall in mass flow rate can be observed beyond the maxima, accompanied by a jump in maximum fluid temperature and a rapid decline in sink-side heat transfer coefficient. That can be identified as heat transfer deterioration in supercritical natural circulation loops, a highly undesirable situation from loop safety point of view. Allowable working range of heater power can be enhanced by increasing system pressure and decreasing sink temperature. For any specified set of operating conditions, CO{sub 2}-based

  11. Modern, sustainable, protected greenhouse cultivation in Algeria

    NARCIS (Netherlands)

    Os, van E.A.; Speetjens, S.L.; Ruijs, M.N.A.; Bruins, M.A.; Sapounas, A.

    2012-01-01

    The goal of the project was to analyse the structure and technology level of protected cultivation in Algeria, which were followed by recommendations for improvements (technical, cultivation and economic aspects) of existing and newly built greenhouses. Further, in discussion with Dutch and Algerian

  12. Modern, sustainable, protected greenhouse cultivation in Algeria

    NARCIS (Netherlands)

    Os, van E.A.; Speetjens, S.L.; Ruijs, M.N.A.; Bruins, M.A.; Sapounas, A.

    2012-01-01

    The goal of the project was to analyse the structure and technology level of protected cultivation in Algeria, which were followed by recommendations for improvements (technical, cultivation and economic aspects) of existing and newly built greenhouses. Further, in discussion with Dutch and Algerian

  13. Comparative Chloroplast Genome Analyses of Streptophyte Green Algae Uncover Major Structural Alterations in the Klebsormidiophyceae, Coleochaetophyceae and Zygnematophyceae.

    Science.gov (United States)

    Lemieux, Claude; Otis, Christian; Turmel, Monique

    2016-01-01

    The Streptophyta comprises all land plants and six main lineages of freshwater green algae: Mesostigmatophyceae, Chlorokybophyceae, Klebsormidiophyceae, Charophyceae, Coleochaetophyceae and Zygnematophyceae. Previous comparisons of the chloroplast genome from nine streptophyte algae (including four zygnematophyceans) revealed that, although land plant chloroplast DNAs (cpDNAs) inherited most of their highly conserved structural features from green algal ancestors, considerable cpDNA changes took place during the evolution of the Zygnematophyceae, the sister group of land plants. To gain deeper insights into the evolutionary dynamics of the chloroplast genome in streptophyte algae, we sequenced the cpDNAs of nine additional taxa: two klebsormidiophyceans (Entransia fimbriata and Klebsormidium sp. SAG 51.86), one coleocheatophycean (Coleochaete scutata) and six zygnematophyceans (Cylindrocystis brebissonii, Netrium digitus, Roya obtusa, Spirogyra maxima, Cosmarium botrytis and Closterium baillyanum). Our comparative analyses of these genomes with their streptophyte algal counterparts indicate that the large inverted repeat (IR) encoding the rDNA operon experienced loss or expansion/contraction in all three sampled classes and that genes were extensively shuffled in both the Klebsormidiophyceae and Zygnematophyceae. The klebsormidiophycean genomes boast greatly expanded IRs, with the Entransia 60,590-bp IR being the largest known among green algae. The 206,025-bp Entransia cpDNA, which is one of the largest genome among streptophytes, encodes 118 standard genes, i.e., four additional genes compared to its Klebsormidium flaccidum homolog. We inferred that seven of the 21 group II introns usually found in land plants were already present in the common ancestor of the Klebsormidiophyceae and its sister lineages. At 107,236 bp and with 117 standard genes, the Coleochaete IR-less genome is both the smallest and most compact among the streptophyte algal cpDNAs analyzed thus

  14. Comparative analyses of vertebrate posterior HoxD clusters reveal atypical cluster architecture in the caecilian Typhlonectes natans

    Directory of Open Access Journals (Sweden)

    Amemiya Chris T

    2010-11-01

    Full Text Available Abstract Background The posterior genes of the HoxD cluster play a crucial role in the patterning of the tetrapod limb. This region is under the control of a global, long-range enhancer that is present in all vertebrates. Variation in limb types, as is the case in amphibians, can probably not only be attributed to variation in Hox genes, but is likely to be the product of differences in gene regulation. With a collection of vertebrate genome sequences available today, we used a comparative genomics approach to study the posterior HoxD cluster of amphibians. A frog and a caecilian were included in the study to compare coding sequences as well as to determine the gain and loss of putative regulatory sequences. Results We sequenced the posterior end of the HoxD cluster of a caecilian and performed comparative analyses of this region using HoxD clusters of other vertebrates. We determined the presence of conserved non-coding sequences and traced gains and losses of these footprints during vertebrate evolution, with particular focus on amphibians. We found that the caecilian HoxD cluster is almost three times larger than its mammalian counterpart. This enlargement is accompanied with the loss of one gene and the accumulation of repeats in that area. A similar phenomenon was observed in the coelacanth, where a different gene was lost and expansion of the area where the gene was lost has occurred. At least one phylogenetic footprint present in all vertebrates was lost in amphibians. This conserved region is a known regulatory element and functions as a boundary element in neural tissue to prevent expression of Hoxd genes. Conclusion The posterior part of the HoxD cluster of Typhlonectes natans is among the largest known today. The loss of Hoxd-12 and the expansion of the intergenic region may exert an influence on the limb enhancer, by having to bypass a distance seven times that of regular HoxD clusters. Whether or not there is a correlation with the

  15. The Global/Local Nexus in Comparative Policy Studies: Analysing the Triple Bonus System in Mongolia over Time

    Science.gov (United States)

    Steiner-Khamsi, Gita

    2012-01-01

    The article analyses a phenomenon that has accompanied teacher salary reform in Mongolia: the import of two global education policies that were nearly identical to the already existing local bonus system ("olympiads"). To make sense of an import that appears superfluous, the author analyses the reception and translation of the triple…

  16. Comparative Proteomics Analyses of Kobresia pygmaea Adaptation to Environment along an Elevational Gradient on the Central Tibetan Plateau

    Science.gov (United States)

    Li, Xiong; Yang, Yunqiang; Ma, Lan; Sun, Xudong; Yang, Shihai; Kong, Xiangxiang; Hu, Xiangyang; Yang, Yongping

    2014-01-01

    Variations in elevation limit the growth and distribution of alpine plants because multiple environmental stresses impact plant growth, including sharp temperature shifts, strong ultraviolet radiation exposure, low oxygen content, etc. Alpine plants have developed special strategies to help survive the harsh environments of high mountains, but the internal mechanisms remain undefined. Kobresia pygmaea, the dominant species of alpine meadows, is widely distributed in the Southeastern Tibet Plateau, Tibet Autonomous Region, China. In this study, we mainly used comparative proteomics analyses to investigate the dynamic protein patterns for K. pygmaea located at four different elevations (4600, 4800, 4950 and 5100 m). A total of 58 differentially expressed proteins were successfully detected and functionally characterized. The proteins were divided into various functional categories, including material and energy metabolism, protein synthesis and degradation, redox process, defense response, photosynthesis, and protein kinase. Our study confirmed that increasing levels of antioxidant and heat shock proteins and the accumulation of primary metabolites, such as proline and abscisic acid, conferred K. pygmaea with tolerance to the alpine environment. In addition, the various methods K. pygmaea used to regulate material and energy metabolism played important roles in the development of tolerance to environmental stress. Our results also showed that the way in which K. pygmaea mediated stomatal characteristics and photosynthetic pigments constitutes an enhanced adaptation to alpine environmental stress. According to these findings, we concluded that K. pygmaea adapted to the high-elevation environment on the Tibetan Plateau by aggressively accumulating abiotic stress-related metabolites and proteins and by the various life events mediated by proteins. Based on the species'lexible physiological and biochemical processes, we surmised that environment change has only a slight

  17. Construction of an Ultrahigh Pressure Liquid Chromatography-Tandem Mass Spectral Library of Plant Natural Products and Comparative Spectral Analyses.

    Science.gov (United States)

    Lei, Zhentian; Jing, Li; Qiu, Feng; Zhang, Hua; Huhman, David; Zhou, Zhiqin; Sumner, Lloyd W

    2015-07-21

    A plant natural product tandem mass spectral library has been constructed using authentic standards and purified compounds. Currently, the library contains 1734 tandem mass spectra for 289 compounds, with the majority (76%) of the compounds being plant phenolics such as flavonoids, isoflavonoids, and phenylpropanoids. Tandem mass spectra and chromatographic retention data were acquired on a triple quadrupole mass spectrometer coupled to an ultrahigh pressure liquid chromatograph using six different collision energies (CEs) (10-60 eV). Comparative analyses of the tandem mass spectral data revealed that the loss of ring substituents preceded the C-ring opening during the fragmentation of flavonoids and isoflavonoids. At lower CE (i.e., 10 and 20 eV), the flavonoids and isoflavonoid central ring structures typically remained intact, and fragmentation was characterized by the loss of the substituents (i.e., methyl and glycosyl groups). At higher CE, the flavonoid and isoflavonoid core ring systems underwent C-ring cleavage and/or rearrangement depending on the structure, particularly hydroxylation patterns. In-source electrochemical oxidation was observed for phenolics that had ortho-diphenol moieties (i.e., vicinal hydroxyl groups on the aromatic rings). The ortho-diphenols were oxidized to ortho-quinones, yielding an intensive and, in most cases, a base ion peak corresponding to a [(M - 2H) - H](-) ion in their mass spectra. The library also contains reverse-phase retention times, allowing for the construction, validation, and testing of an artificial neural network retention prediction of other flavonoids and isoflavonoids not contained within the library. The library is freely available for nonprofit, academic use and it can be downloaded at http://www.noble.org/apps/Scientific/WebDownloadManager/DownloadArea.aspx.

  18. Construction and comparative analyses of highly dense linkage maps of two sweet cherry intra-specific progenies of commercial cultivars.

    Directory of Open Access Journals (Sweden)

    Carolina Klagges

    Full Text Available Despite the agronomical importance and high synteny with other Prunus species, breeding improvements for cherry have been slow compared to other temperate fruits, such as apple or peach. However, the recent release of the peach genome v1.0 by the International Peach Genome Initiative and the sequencing of cherry accessions to identify Single Nucleotide Polymorphisms (SNPs provide an excellent basis for the advancement of cherry genetic and genomic studies. The availability of dense genetic linkage maps in phenotyped segregating progenies would be a valuable tool for breeders and geneticists. Using two sweet cherry (Prunus avium L. intra-specific progenies derived from crosses between 'Black Tartarian' × 'Kordia' (BT×K and 'Regina' × 'Lapins'(R×L, high-density genetic maps of the four parental lines and the two segregating populations were constructed. For BT×K and R×L, 89 and 121 F(1 plants were used for linkage mapping, respectively. A total of 5,696 SNP markers were tested in each progeny. As a result of these analyses, 723 and 687 markers were mapped into eight linkage groups (LGs in BT×K and R×L, respectively. The resulting maps spanned 752.9 and 639.9 cM with an average distance of 1.1 and 0.9 cM between adjacent markers in BT×K and R×L, respectively. The maps displayed high synteny and co-linearity between each other, with the Prunus bin map, and with the peach genome v1.0 for all eight LGs (LG1-LG8. These maps provide a useful tool for investigating traits of interest in sweet cherry and represent a qualitative advance in the understanding of the cherry genome and its synteny with other members of the Rosaceae family.

  19. Construction and Comparative Analyses of Highly Dense Linkage Maps of Two Sweet Cherry Intra-Specific Progenies of Commercial Cultivars

    Science.gov (United States)

    Quero-García, José; Guzmán, Alejandra; Mansur, Levi; Gratacós, Eduardo; Silva, Herman; Rosyara, Umesh R.; Iezzoni, Amy; Meisel, Lee A.; Dirlewanger, Elisabeth

    2013-01-01

    Despite the agronomical importance and high synteny with other Prunus species, breeding improvements for cherry have been slow compared to other temperate fruits, such as apple or peach. However, the recent release of the peach genome v1.0 by the International Peach Genome Initiative and the sequencing of cherry accessions to identify Single Nucleotide Polymorphisms (SNPs) provide an excellent basis for the advancement of cherry genetic and genomic studies. The availability of dense genetic linkage maps in phenotyped segregating progenies would be a valuable tool for breeders and geneticists. Using two sweet cherry (Prunus avium L.) intra-specific progenies derived from crosses between ‘Black Tartarian’ × ‘Kordia’ (BT×K) and ‘Regina’ × ‘Lapins’(R×L), high-density genetic maps of the four parental lines and the two segregating populations were constructed. For BT×K and R×L, 89 and 121 F1 plants were used for linkage mapping, respectively. A total of 5,696 SNP markers were tested in each progeny. As a result of these analyses, 723 and 687 markers were mapped into eight linkage groups (LGs) in BT×K and R×L, respectively. The resulting maps spanned 752.9 and 639.9 cM with an average distance of 1.1 and 0.9 cM between adjacent markers in BT×K and R×L, respectively. The maps displayed high synteny and co-linearity between each other, with the Prunus bin map, and with the peach genome v1.0 for all eight LGs (LG1–LG8). These maps provide a useful tool for investigating traits of interest in sweet cherry and represent a qualitative advance in the understanding of the cherry genome and its synteny with other members of the Rosaceae family. PMID:23382953

  20. Effects of cover properties, ventilation rate and crop leaf area on tropical greenhouse climate

    NARCIS (Netherlands)

    Impron, I.; Hemming, S.; Bot, G.P.A.

    2008-01-01

    Experimental results and validation of a simple greenhouse climate model are analysed according to data sets from six prototype greenhouses with three different plastics (reference N0, and two levels of near-infrared reflecting pigments N1 and N2); two ratios of ventilation openings to greenhouse

  1. Effects of cover properties, ventilation rate and crop leaf area on tropical greenhouse climate

    NARCIS (Netherlands)

    Impron, I.; Hemming, S.; Bot, G.P.A.

    2008-01-01

    Experimental results and validation of a simple greenhouse climate model are analysed according to data sets from six prototype greenhouses with three different plastics (reference N0, and two levels of near-infrared reflecting pigments N1 and N2); two ratios of ventilation openings to greenhouse co

  2. Comparative Genomic, MicroRNA, and Tissue Analyses Reveal Subtle Differences between Non-Diabetic and Diabetic Foot Skin.

    Science.gov (United States)

    Ramirez, Horacio A; Liang, Liang; Pastar, Irena; Rosa, Ashley M; Stojadinovic, Olivera; Zwick, Thomas G; Kirsner, Robert S; Maione, Anna G; Garlick, Jonathan A; Tomic-Canic, Marjana

    2015-01-01

    Diabetes Mellitus (DM) is a chronic, severe disease rapidly increasing in incidence and prevalence and is associated with numerous complications. Patients with DM are at high risk of developing diabetic foot ulcers (DFU) that often lead to lower limb amputations, long term disability, and a shortened lifespan. Despite this, the effects of DM on human foot skin biology are largely unknown. Thus, the focus of this study was to determine whether DM changes foot skin biology predisposing it for healing impairment and development of DFU. Foot skin samples were collected from 20 patients receiving corrective foot surgery and, using a combination of multiple molecular and cellular approaches, we performed comparative analyses of non-ulcerated non-neuropathic diabetic foot skin (DFS) and healthy non-diabetic foot skin (NFS). MicroRNA (miR) profiling of laser captured epidermis and primary dermal fibroblasts from both DFS and NFS samples identified 5 miRs de-regulated in the epidermis of DFS though none reached statistical significance. MiR-31-5p and miR-31-3p were most profoundly induced. Although none were significantly regulated in diabetic fibroblasts, miR-29c-3p showed a trend of up-regulation, which was confirmed by qPCR in a prospective set of 20 skin samples. Gene expression profiling of full thickness biopsies identified 36 de-regulated genes in DFS (>2 fold-change, unadjusted p-value ≤ 0.05). Of this group, three out of seven tested genes were confirmed by qPCR: SERPINB3 was up-regulated whereas OR2A4 and LGR5 were down-regulated in DFS. However no morphological differences in histology, collagen deposition, and number of blood vessels or lymphocytes were found. No difference in proliferative capacity was observed by quantification of Ki67 positive cells in epidermis. These findings suggest DM causes only subtle changes to foot skin. Since morphology, mRNA and miR levels were not affected in a major way, additional factors, such as neuropathy, vascular

  3. Comparative Genomic, MicroRNA, and Tissue Analyses Reveal Subtle Differences between Non-Diabetic and Diabetic Foot Skin.

    Directory of Open Access Journals (Sweden)

    Horacio A Ramirez

    Full Text Available Diabetes Mellitus (DM is a chronic, severe disease rapidly increasing in incidence and prevalence and is associated with numerous complications. Patients with DM are at high risk of developing diabetic foot ulcers (DFU that often lead to lower limb amputations, long term disability, and a shortened lifespan. Despite this, the effects of DM on human foot skin biology are largely unknown. Thus, the focus of this study was to determine whether DM changes foot skin biology predisposing it for healing impairment and development of DFU. Foot skin samples were collected from 20 patients receiving corrective foot surgery and, using a combination of multiple molecular and cellular approaches, we performed comparative analyses of non-ulcerated non-neuropathic diabetic foot skin (DFS and healthy non-diabetic foot skin (NFS. MicroRNA (miR profiling of laser captured epidermis and primary dermal fibroblasts from both DFS and NFS samples identified 5 miRs de-regulated in the epidermis of DFS though none reached statistical significance. MiR-31-5p and miR-31-3p were most profoundly induced. Although none were significantly regulated in diabetic fibroblasts, miR-29c-3p showed a trend of up-regulation, which was confirmed by qPCR in a prospective set of 20 skin samples. Gene expression profiling of full thickness biopsies identified 36 de-regulated genes in DFS (>2 fold-change, unadjusted p-value ≤ 0.05. Of this group, three out of seven tested genes were confirmed by qPCR: SERPINB3 was up-regulated whereas OR2A4 and LGR5 were down-regulated in DFS. However no morphological differences in histology, collagen deposition, and number of blood vessels or lymphocytes were found. No difference in proliferative capacity was observed by quantification of Ki67 positive cells in epidermis. These findings suggest DM causes only subtle changes to foot skin. Since morphology, mRNA and miR levels were not affected in a major way, additional factors, such as neuropathy

  4. Monitoring dithiocarbamate fungicide residues in greenhouse and non-greenhouse tomatoes in Iran by HPLC-UV.

    Science.gov (United States)

    Jafari, A; Shoeibi, S; Amini, M; Amirahmadi, M; Rastegar, H; Ghaffarian, A; Ghazi-Khansari, M

    2012-01-01

    The simultaneous analysis of dithiocarbamate fungicide residues on greenhouse and non-greenhouse tomatoes was performed by high-performance liquid chromatography with UV detection. A calibration curve with spiked samples was plotted to determine dithiocarbamate residues in tomato samples. Limits of detection and quantification were approximately 0.05 and 0.2 µg g(-1), respectively. The ranges of mean recoveries at five spiking levels for all dithiocarbamates of interest were between 88.2%-95.7% and 99.5%-100.8% in standards and spiked samples, respectively. In this study, 40 greenhouse and 40 non-greenhouse tomato samples were analysed. None of the samples analysed contained dithiocarbamates in excess of the maximum residue levels established by the Codex Committee on Pesticide Residues, except for one greenhouse sample, with ethylenebisdithiocarbamates at 3.2 µg g(-1).

  5. Comparative Analyses of Phase Noise in 28 nm CMOS LC Oscillator Circuit Topologies: Hartley, Colpitts, and Common-Source Cross-Coupled Differential Pair

    Directory of Open Access Journals (Sweden)

    Ilias Chlis

    2014-01-01

    Full Text Available This paper reports comparative analyses of phase noise in Hartley, Colpitts, and common-source cross-coupled differential pair LC oscillator topologies in 28 nm CMOS technology. The impulse sensitivity function is used to carry out both qualitative and quantitative analyses of the phase noise exhibited by each circuit component in each circuit topology with oscillation frequency ranging from 1 to 100 GHz. The comparative analyses show the existence of four distinct frequency regions in which the three oscillator topologies rank unevenly in terms of best phase noise performance, due to the combined effects of device noise and circuit node sensitivity.

  6. Comparative analyses of phase noise in 28 nm CMOS LC oscillator circuit topologies: Hartley, Colpitts, and common-source cross-coupled differential pair.

    Science.gov (United States)

    Chlis, Ilias; Pepe, Domenico; Zito, Domenico

    2014-01-01

    This paper reports comparative analyses of phase noise in Hartley, Colpitts, and common-source cross-coupled differential pair LC oscillator topologies in 28 nm CMOS technology. The impulse sensitivity function is used to carry out both qualitative and quantitative analyses of the phase noise exhibited by each circuit component in each circuit topology with oscillation frequency ranging from 1 to 100 GHz. The comparative analyses show the existence of four distinct frequency regions in which the three oscillator topologies rank unevenly in terms of best phase noise performance, due to the combined effects of device noise and circuit node sensitivity.

  7. Hortisim: a model for greenhouse crops and greenhouse climate

    NARCIS (Netherlands)

    Gijzen, H.; Heuvelink, E.; Challa, H.; Dayan, E.; Marcelis, L.F.M.; Cohen, S.; Fuchs, M.

    1998-01-01

    A combined model for crop production and climate in greenhouses, HORTISIM, was developed. Existing models, developed by several research groups, of various aspects of crop growth and greenhouse climate have been integrated. HORTISIM contains 7 submodels (Weather, Greenhouse Climate, Soil, Crop, Gree

  8. LEDs for greenhouse lighting

    NARCIS (Netherlands)

    Nederhoff, E.M.

    2010-01-01

    Light Emitting Diodes (LED's) are a promising technology for greenhouse lighting with their efficiency to activate plant photosynthesis potentially higher in red LEDs than in HPS lamps. Due to their particular light colour, LEDs can initiate special effects in plants or steer plant processes and

  9. Innovation in greenhouse engineering

    NARCIS (Netherlands)

    Giacomelli, G.A.; Castilla, N.; Henten, van E.J.; Mears, D.R.; Sase, S.

    2008-01-01

    Innovations in greenhouse engineering are technical developments which help evolve the state-of-the-art in CEA (Controlled Environment Agriculture). They occur in response to the operational demands on the system, and to strategic changes in expectations of the production system. Influential

  10. Innovation in greenhouse engineering

    NARCIS (Netherlands)

    Giacomelli, G.A.; Castilla, N.; Henten, van E.J.; Mears, D.R.; Sase, S.

    2008-01-01

    Innovations in greenhouse engineering are technical developments which help evolve the state-of-the-art in CEA (Controlled Environment Agriculture). They occur in response to the operational demands on the system, and to strategic changes in expectations of the production system. Influential operati

  11. Smarter greenhouse climate control

    NARCIS (Netherlands)

    Nederhoff, E.M.; Houter, G.

    2011-01-01

    Greenhouse operators strive to be as economic as possible with energy. However, investing in fancy energy-saving equipment is often not cost-effective for smaller operations and in climate zones with mild winters. It is possible, though, for many growers to save energy without buying special equipme

  12. Greenhouse Gas Data Publication Tool

    Data.gov (United States)

    U.S. Environmental Protection Agency — This tool to gives you access to greenhouse gas data reported to EPA by large facilities and suppliers in the United States through EPA's Greenhouse Gas Reporting...

  13. Greenhouse production systems for people

    NARCIS (Netherlands)

    Giacomelli, G.A.; Sase, S.; Cramer, R.; Hoogeboom, J.; McKenzie, A.; Parbst, K.; Sacrascia-Mugnozza, G.; Selina, P.; Sharp, D.A.; Voogt, J.O.; Weel, van P.A.; Mears, D.

    2012-01-01

    Environmentally sound greenhouse production requires that: demand for market products is understood; greenhouse design addresses the climate circum-stances; input resources are available and consumed efficiently, and; there must be a reasonable balance of production products to the environmental

  14. A comparative analysis of well-to-wheel primary energy demand and greenhouse gas emissions for the operation of alternative and conventional vehicles in Switzerland, considering various energy carrier production pathways

    Science.gov (United States)

    Yazdanie, Mashael; Noembrini, Fabrizio; Dossetto, Lionel; Boulouchos, Konstantinos

    2014-03-01

    This study provides a comprehensive analysis of well-to-wheel (WTW) primary energy demand and greenhouse gas (GHG) emissions for the operation of conventional and alternative passenger vehicle drivetrains. Results are determined based on a reference vehicle, drivetrain/production process efficiencies, and lifecycle inventory data specific to Switzerland. WTW performance is compared to a gasoline internal combustion engine vehicle (ICEV). Both industrialized and novel hydrogen and electricity production pathways are evaluated. A strong case is presented for pluggable electric vehicles (PEVs) due to their high drivetrain efficiency. However, WTW performance strongly depends on the electricity source. A critical electricity mix can be identified which divides optimal drivetrain performance between the EV, ICEV, and plug-in hybrid vehicle. Alternative drivetrain and energy carrier production pathways are also compared by natural resource. Fuel cell vehicle (FCV) performance proves to be on par with PEVs for energy carrier (EC) production via biomass and natural gas resources. However, PEVs outperform FCVs via solar energy EC production pathways. ICE drivetrains using alternative fuels, particularly biogas and CNG, yield remarkable WTW energy and emission reductions as well, indicating that alternative fuels, and not only alternative drivetrains, play an important role in the transition towards low-emission vehicles in Switzerland.

  15. Comparative analyses of different variants of standard ground for automatic control systems of technical processes of oil and gas production

    Science.gov (United States)

    Gromakov, E. I.; Gazizov, A. T.; Lukin, V. P.; Chimrov, A. V.

    2017-01-01

    The paper analyses efficiency (interference resistance) of standard TT, TN, IT networks in control links of automatic control systems (ACS) of technical processes (TP) of oil and gas production. Electromagnetic compatibility (EMC) is a standard term used to describe the interference in grounding circuits. Improved EMC of ACS TP can significantly reduce risks and costs of malfunction of equipment that could have serious consequences. It has been proved that an IT network is the best type of grounds for protection of ACS TP in real life conditions. It allows reducing the interference down to the level that is stated in standards of oil and gas companies.

  16. The Greenhouse Gas Climate Change Initiative (GHG-CCI: comparative validation of GHG-CCI SCIAMACHY/ENVISAT and TANSO-FTS/GOSAT CO2 and CH4 retrieval algorithm products with measurements from the TCCON network

    Directory of Open Access Journals (Sweden)

    B. Dils

    2013-10-01

    Full Text Available Column-averaged dry-air mole fractions of carbon dioxide and methane have been retrieved from spectra acquired by the TANSO-FTS and SCIAMACHY instruments on board GOSAT and ENVISAT using a range of European retrieval algorithms. These retrievals have been compared with data from ground-based high-resolution Fourier Transform Spectrometers (FTS from the Total Carbon Column Observing Network (TCCON. The participating algorithms are the Weighting Function Modified Differential Optical Absorption Spectroscopy (DOAS algorithm (WFMD, University of Bremen, the Bremen Optimal Estimation DOAS algorithm (BESD, University of Bremen, the Iterative Maximum A Posteriori DOAS (IMAP, Jet Propulsion Laboratory (JPL and Netherlands Institute for Space Research algorithm (SRON, the proxy and full-physics versions of SRON's RemoTeC algorithm (SRPR and SRFP respectively and the proxy and full-physics versions of the University of Leicester's adaptation of the OCO (Orbiting Carbon Observatory algorithm (OCPR and OCFP respectively. The goal of this algorithm inter-comparison was to identify strengths and weaknesses of the various so-called Round Robin data sets generated with the various algorithms so as to determine which of the competing algorithms would proceed to the next round of the European Space Agency's (ESA Greenhouse Gas Climate Change Initiative (GHG-CCI project, which is the generation of the so-called Climate Research Data Package (CRDP, which is the first version of the Essential Climate Variable (ECV "Greenhouse Gases" (GHG. For CO2, all algorithms reach the precision requirements for inverse modelling ( For CH4, the precision for both SCIAMACHY products (50.2 ppb for IMAP and 76.4 ppb for WFMD fail to meet the XCH4 precision ranges between 18.1 and 14.0 ppb. Looking at the SRA, all GOSAT algorithm products reach the < 10 ppm threshold (values ranging between 5.4 and 6.2 ppb. For SCIAMACHY, IMAP and WFMD have a SRA of 17.2 ppb and 10.5 ppb respectively.

  17. An Introduction to Greenhouse Production. Second Edition.

    Science.gov (United States)

    McMahon, Robert W.

    This student manual is presented in its first revision, providing a current, basic text for those preparing for greenhouse and floriculture work. Its fourteen chapters are: Overview of the Greenhouse Industry; Greenhouse Structures; Controlling the Greenhouse Environment; Greenhouse Equipment and Lighting; Greenhouse Irrigation Systems; Root Media…

  18. Comparative morphometric and chemical analyses of phenotypes of two invasive ambrosia beetles (Euwallacea spp.) in the United States of America.

    Science.gov (United States)

    Chen, Yigen; Dallara, Paul L; Nelson, Lori J; Coleman, Tom W; Hishinuma, Stacy M; Carrillo, Daniel; Seybold, Steven J

    2016-03-02

    The polyphagous shot hole borer (PSHB), Euwallacea sp., was first detected in 2003 in Los Angeles County, California, USA. Recently, this invasive species has become a major pest of many hardwood trees in urban and wildland forests throughout southern California. PSHB is nearly identical in morphology and life history to the tea shot hole borer (TSHB), Euwallacea fornicatus, an invasive pest of hardwoods in Florida, USA and many other parts of the world. However, molecular studies have suggested that the taxa are different species. We conducted morphometric and chemical analyses of the phenotypes of Euwallacea sp. collected in southern California (Los Angeles Co.) and E. fornicatus collected in Florida (Miami-Dade Co.). Our analyses indicated that PSHB has three larval instars. The third larval instar was separated from the first two instars by head capsule width with zero probability of misclassification. The body length, head width, and pronotal width of PSHB adult males were significantly less than those of females. Head width and pronotal width of female PSHB were significantly less than those of female TSHB. In contrast, body length, and ratio of body length to pronotal width of PSHB females were significantly greater than those of TSHB females. However, females of these two species could not be separated completely by these four measurements because of the overlapping ranges. Cuticular hydrocarbons detected in both species were exclusively alkanes (i.e., n-alkanes, monomethylalkanes, dimethylalkanes, and trimethylalkanes). Cuticular hydrocarbon profiles of PSHB males and females were similar, but they both differed from that of TSHB females. Cuticular hydrocarbons of PSHB were predominantly internally branched dimethylalkanes with backbones of 31 and 33 carbons, whereas cuticular hydrocarbons of TSHB females were dominated by internally branched monomethyl- and dimethylalkanes with backbones of 29 carbons. This article is protected by copyright. All rights

  19. Greenhouse Warming Research

    DEFF Research Database (Denmark)

    Sørensen, Bent Erik

    2016-01-01

    The changing greenhouse effect caused by natural and anthropogenic causes is explained and efforts to model the behavior of the near-surface constituents of the Earth's land, ocean and atmosphere are discussed. Emissions of various substances and other aspects of human activity influence the gree......The changing greenhouse effect caused by natural and anthropogenic causes is explained and efforts to model the behavior of the near-surface constituents of the Earth's land, ocean and atmosphere are discussed. Emissions of various substances and other aspects of human activity influence...... the greenhouse warming, and the impacts of the warming may again impact the wellbeing of human societies. Thus physical modeling of the near-surface ocean-soil-atmosphere system cannot be carried out without an idea of the development of human activities, which is done by scenario analysis. The interactive...... nature of the natural and the human system calls for an extremely complex analysis, in order to predict the outcome of various proposed changes in human behavior. This includes halting activities that most influence the climate and finding workable alternatives to these activities, or adapting to climate...

  20. Voluntary reporting of greenhouse gases 1997

    Energy Technology Data Exchange (ETDEWEB)

    NONE

    1999-05-01

    The Voluntary Reporting of Greenhouse Gases Program, required by Section 1605(b) of the Energy Policy Act of 1992, records the results of voluntary measures to reduce, avoid, or sequester greenhouse gas emissions. In 1998, 156 US companies and other organizations reported to the Energy information Administration that, during 1997, they had achieved greenhouse gas emission reductions and carbon sequestration equivalent to 166 million tons of carbon dioxide, or about 2.5% of total US emissions for the year. For the 1,229 emission reduction projects reported, reductions usually were measured by comparing an estimate of actual emissions with an estimate of what emissions would have been had the project not been implemented.

  1. The Greenhouse Effect and Climate Feedbacks

    Science.gov (United States)

    Covey, C.; Haberle, R. M.; McKay, C. P.; Titov, D. V.

    This chapter reviews the theory of the greenhouse effect and climate feedback. It also compares the theory with observations, using examples taken from all four known terrestrial worlds with substantial atmospheres: Venus, Earth, Mars, and Titan. The greenhouse effect traps infrared radiation in the atmosphere, thereby increasing surface temperature. It is one of many factors that affect a world's climate. (Others include solar luminosity and the atmospheric scattering and absorption of solar radiation.) A change in these factors — defined as climate forcing — may change the climate in a way that brings other processes — defined as feedbacks — into play. For example, when Earth's atmospheric carbon dioxide increases, warming the surface, the water vapor content of the atmosphere increases. This is a positive feedback on global warming because water vapor is itself a potent greenhouse gas. Many positive and negative feedback processes are significant in determining Earth's climate, and probably the climates of our terrestrial neighbors.

  2. Characterizing Design Cognition of High School Students: Initial Analyses Comparing Those with and without Pre-Engineering Experiences

    Science.gov (United States)

    Wells, John; Lammi, Matthew; Gero, John; Grubbs, Michael E.; Paretti, Marie; Williams, Christopher

    2016-01-01

    Reported in this article are initial results from of a longitudinal study to characterize the design cognition and cognitive design styles of high school students with and without pre-engineering course experience over a 2-year period, and to compare them with undergraduate engineering students. The research followed a verbal protocol analysis…

  3. Biofilm-Growing Bacteria Involved in the Corrosion of Concrete Wastewater Pipes: Protocols for Comparative Metagenomic Analyses

    Science.gov (United States)

    Advances in high-throughput next-generation sequencing (NGS) technology for direct sequencing of environmental DNA (i.e. shotgun metagenomics) is transforming the field of microbiology. NGS technologies are now regularly being applied in comparative metagenomic studies, which pr...

  4. Explaining School Science in Book and CD-ROM Formats: Using Semiotic Analyses To Compare the Textual Construction of Knowledge.

    Science.gov (United States)

    Unsworth, Len

    1999-01-01

    Discussion of how the nature and use of visual and verbal meaning-making systems vary across formats. Focuses on a comparative study of CD-ROMs and printed books dealing with scientific concepts in upper primary grades. Topics include linguistic and visual semiosis; the use of images; and meanings in images. (Author/LRW)

  5. Global comparison of three greenhouse climate models

    NARCIS (Netherlands)

    Bavel, van C.H.M.; Takakura, T.; Bot, G.P.A.

    1985-01-01

    Three dynamic simulation models for calculating the greenhouse climate and its energy requirements for both heating and cooling were compared by making detailed computations for each of seven sets of data. The data sets ranged from a cold winter day, requiring heating, to a hot summer day, requiring

  6. Application of IBA in the comparative analyses of fish scales used as biomonitors in the Matola River, Mozambique

    Energy Technology Data Exchange (ETDEWEB)

    Guambe, J.F. [Freshwater Research Unit, Department of Zoology, University of Cape Town, Private Bag, Rondebosch, 7701 (South Africa); Physics Department, Eduardo Mondlane Universily, PO Box 257, Maputo (Mozambique); Materials Research Department, iThemba LABS, PO Box 722, Somerset West, 7129 (South Africa); Mars, J.A. [Faculty of Health and Wellness Sciences, Cape Peninsula University of Technology, PO Box 1906, Bellville, 7535 (South Africa); Day, J. [Freshwater Research Unit, Department of Zoology, University of Cape Town, Private Bag, Rondebosch, 7701 (South Africa)

    2013-07-01

    Full text: Many natural resources are invariably contaminated by industries located on the periphery of the resources. More so, fish found in the resources are used as dietary supplements, especially by individual that reside near the natural resources. The scale offish have been proven to be applicable in monitoring contamination of the natural resources. However, the morphology and chemical composition of the scale of various species differ to a significant degree. Consequently, the incorporation of contaminants into the scale structure will be different. There is a need of pilot for contaminants which can harm the biota. The composition of the fish scales is different. To quantify the degree of incorporation onto the scale matrix we have analysed, using PIXE, RBS and SEM, the scale of four types of fish scales, that is, Pomadasys kaakan the javelin grunter; Luljanus gibbus the humpback red snapper; Pinjalo pinjalo the pinjalo and Uthognathus mormyrus the sand streenbras. In this work we report on the viability of using various fish scales as monitors of natural resource contamination. (author)

  7. Comparing proteins and carbohydrates molecular structures in different sorghum cultivars using fourier transform infrared spectroscopy (FTIR and multivariate analyses

    Directory of Open Access Journals (Sweden)

    Hojat Gholizadeh

    2015-04-01

    Full Text Available This study was carried out to determine the protein and carbohydrate molecular structure of sorghum cultivars using Fourier Transform Infrared Spectroscopy (FTIR with multivariate molecular spectroscopy analyses. Sorghum cultivars included: 1- Kimia, 2- Sepideh, 3- M2 and 4- M8. Protein and carbohydrate molecular functional groups studied included: peak area and height amide I, amide II, α-helix, β-sheet, 860 (non-structure carbohydrate, 928 (non-structure carbohydrate, total carbohydrate (CHO with three major component peaks in this region, cellulosic compounds and different ratio of molecular structure. FTIR results showed that there were significant differences between sorghum cultivars in terms of proteins and carbohydrates molecular structures. Kimia had the greatest peak area and height amide I, II, α-helix, β-sheet, total carbohydrate and cellulosic compounds. Sepideh, M2 and M8 had similar proteins and carbohydrates molecular structures. Differences in protein and carbohydrate molecular structures can influence the availability of proteins and carbohydrates in ruminant and monogastric. Further studies needed to understand the effect of variety on protein and carbohydrate structure of sorghum and the relationship between protein and carbohydrate structure of a feed with nutrient availability in ruminant and monogastric

  8. Biofilm-growing bacteria involved in the corrosion of concrete wastewater pipes: protocols for comparative metagenomic analyses.

    Science.gov (United States)

    Gomez-Alvarez, Vicente

    2014-01-01

    Advances in high-throughput next-generation sequencing (NGS) technology for direct sequencing of environmental DNA (i.e., shotgun metagenomics) are transforming the field of microbiology. NGS technologies are now regularly being applied in comparative metagenomic studies, which provide the data for functional annotations, taxonomic comparisons, community profile, and metabolic reconstructions. For example, comparative metagenomic analysis of corroded pipes unveiled novel insights on the bacterial populations associated with the sulfur and nitrogen cycle, which may be directly or indirectly implicated in concrete wastewater pipe corrosion. The objective of this chapter is to describe the steps involved in the taxonomic and functional analysis of metagenome datasets from biofilm involved in microbial-induced concrete corrosion (MICC).

  9. Semantics bias in cross-national comparative analyses: is it good or bad to have "fair" health?

    Science.gov (United States)

    Schnohr, Christina W; Gobina, Inese; Santos, Teresa; Mazur, Joanna; Alikasifuglu, Mujgan; Välimaa, Raili; Corell, Maria; Hagquist, Curt; Dalmasso, Paola; Movseyan, Yeva; Cavallo, Franco; van Dorsselaer, Saskia; Torsheim, Torbjørn

    2016-05-04

    The Health Behavior in School-aged Children is a cross-national study collecting data on social and health indicators on adolescents in 43 countries. The study provides comparable data on health behaviors and health outcomes through the use of a common protocol, which have been a back bone of the study sine its initiation in 1983. Recent years, researchers within the study have noticed a questionable comparability on the widely used item on self-rated health. One of the four response categories to the item "Would you say your health is….?" showed particular variation, as the response category "Fair" varied from 20 % in Latvia and Moldova to 3-4 % in Bulgaria and Macedonia. A qualitative mini-survey of the back-translations showed that the response category "Fair" had a negative slant in 25 countries, a positive slant in 10 countries and was considered neutral in 9 countries. This finding indicates that there are what may be called semantic issues affecting comparability in international studies, since the same original word (in an English original) is interpreted differently across countries and cultures. The paper test and discuss a few possible explanations to this, however, only leaving to future studies to hold a cautious approach to international comparisons if working with the self-rated health item with four response categories.

  10. Assessing sources of error in comparative analyses of primate behavior: Intraspecific variation in group size and the social brain hypothesis.

    Science.gov (United States)

    Sandel, Aaron A; Miller, Jordan A; Mitani, John C; Nunn, Charles L; Patterson, Samantha K; Garamszegi, László Zsolt

    2016-05-01

    Phylogenetic comparative methods have become standard for investigating evolutionary hypotheses, including in studies of human evolution. While these methods account for the non-independence of trait data due to phylogeny, they often fail to consider intraspecific variation, which may lead to biased or erroneous results. We assessed the degree to which intraspecific variation impacts the results of comparative analyses by investigating the "social brain" hypothesis, which has provided a framework for explaining complex cognition and large brains in humans. This hypothesis suggests that group life imposes a cognitive challenge, with species living in larger social groups having comparably larger neocortex ratios than those living in smaller groups. Primates, however, vary considerably in group size within species, a fact that has been ignored in previous analyses. When within-species variation in group size is high, the common practice of using a mean value to represent the species may be inappropriate. We conducted regression and resampling analyses to ascertain whether the relationship between neocortex ratio and group size across primate species persists after controlling for within-species variation in group size. We found that in a sample of 23 primates, 70% of the variation in group size was due to between-species variation. Controlling for within-species variation in group size did not affect the results of phylogenetic analyses, which continued to show a positive relationship between neocortex ratio and group size. Analyses restricted to non-monogamous primates revealed considerable intraspecific variation in group size, but the positive association between neocortex ratio and group size remained even after controlling for within-species variation in group size. Our findings suggest that the relationship between neocortex size and group size in primates is robust. In addition, our methods and associated computer code provide a way to assess and account for

  11. Gender-enriched transcripts in Haemonchus contortus--predicted functions and genetic interactions based on comparative analyses with Caenorhabditis elegans.

    Science.gov (United States)

    Campbell, Bronwyn E; Nagaraj, Shivashankar H; Hu, Min; Zhong, Weiwei; Sternberg, Paul W; Ong, Eng K; Loukas, Alex; Ranganathan, Shoba; Beveridge, Ian; McInnes, Russell L; Hutchinson, Gareth W; Gasser, Robin B

    2008-01-01

    In the present study, a bioinformatic-microarray approach was employed for the analysis of selected expressed sequence tags (ESTs) from Haemonchus contortus, a key parasitic nematode of small ruminants. Following a bioinformatic analysis of EST data using a semiautomated pipeline, 1885 representative ESTs (rESTs) were selected, to which oligonucleotides (three per EST) were designed and spotted on to a microarray. This microarray was hybridized with cyanine-dye labelled cRNA probes synthesized from RNA from female or male adults of H. contortus. Differential hybridisation was displayed for 301 of the 1885 rESTs ( approximately 16%). Of these, 165 (55%) had significantly greater signal intensities for female cRNA and 136 (45%) for male cRNA. Of these, 113 with increased signals in female or male H. contortus had homologues in Caenorhabditis elegans, predicted to function in metabolism, information storage and processing, cellular processes and signalling, and embryonic and/or larval development. Of the rESTs with no known homologues in C. elegans, 24 ( approximately 40%) had homologues in other nematodes, four had homologues in various other organisms and 30 (52%) had no homology to any sequence in current gene databases. A genetic interaction network was predicted for the C. elegans orthologues of the gender-enriched H. contortus genes, and a focused analysis of a subset revealed a tight network of molecules involved in amino acid, carbohydrate or lipid transport and metabolism, energy production and conversion, translation, ribosomal structure and biogenesis and, importantly, those associated with meiosis and/or mitosis in the germline during oogenesis or spermatogenesis. This study provides a foundation for the molecular, biochemical and functional exploration of selected molecules with differential transcription profiles in H. contortus, for further microarray analyses of transcription in different developmental stages of H. contortus, and for an extended

  12. Comparative analyses of the complete mitochondrial genomes of Ascaris lumbricoides and Ascaris suum from humans and pigs.

    Science.gov (United States)

    Liu, Guo-Hua; Wu, Chang-Yi; Song, Hui-Qun; Wei, Shu-Jun; Xu, Min-Jun; Lin, Rui-Qing; Zhao, Guang-Hui; Huang, Si-Yang; Zhu, Xing-Quan

    2012-01-15

    Ascaris lumbricoides and Ascaris suum are parasitic nematodes living in the small intestine of humans and pigs, and can cause the disease ascariasis. For long, there has been controversy as to whether the two ascaridoid taxa represent the same species due to their significant resemblances in morphology. However, the complete mitochondrial (mt) genome data have been lacking for A. lumbricoides in spite of human and animal health significance and socio-economic impact globally of these parasites. In the present study, we sequenced the complete mt genomes of A. lumbricoides and A. suum (China isolate), which was 14,303 bp and 14,311 bp in size, respectively. The identity of the mt genomes was 98.1% between A. lumbricoides and A. suum (China isolate), and 98.5% between A. suum (China isolate) and A. suum (USA isolate). Both genomes are circular, and consist of 36 genes, including 12 genes for proteins, 2 genes for rRNA and 22 genes for tRNA, which are consistent with that of all other species of ascaridoid studied to date. All genes are transcribed in the same direction and have a nucleotide composition high in A and T (71.7% for A. lumbricoides and 71.8% for A. suum). The AT bias had a significant effect on both the codon usage pattern and amino acid composition of proteins. Phylogenetic analyses of A. lumbricoides and A. suum using concatenated amino acid sequences of 12 protein-coding genes, with three different computational algorithms (Bayesian analysis, maximum likelihood and maximum parsimony) all clustered in a clade with high statistical support, indicating that A. lumbricoides and A. suum was very closely related. These mt genome data and the results provide some additional genetic evidence that A. lumbricoides and A. suum may represent the same species. The mt genome data presented in this study are also useful novel markers for studying the molecular epidemiology and population genetics of Ascaris.

  13. Greenhouse gas accounting and waste management.

    Science.gov (United States)

    Gentil, Emmanuel; Christensen, Thomas H; Aoustin, Emmanuelle

    2009-11-01

    Accounting of emissions of greenhouse gas (GHG) is a major focus within waste management. This paper analyses and compares the four main types of GHG accounting in waste management including their special features and approaches: the national accounting, with reference to the Intergovernmental Panel on Climate Change (IPCC), the corporate level, as part of the annual reporting on environmental issues and social responsibility, life-cycle assessment (LCA), as an environmental basis for assessing waste management systems and technologies, and finally, the carbon trading methodology, and more specifically, the clean development mechanism (CDM) methodology, introduced to support cost-effective reduction in GHG emissions. These types of GHG accounting, in principle, have a common starting point in technical data on GHG emissions from specific waste technologies and plants, but the limited availability of data and, moreover, the different scopes of the accounting lead to many ways of quantifying emissions and producing the accounts. The importance of transparency in GHG accounting is emphasised regarding waste type, waste composition, time period considered, GHGs included, global warming potential (GWP) assigned to the GHGs, counting of biogenic carbon dioxide, choice of system boundaries, interactions with the energy system, and generic emissions factors. In order to enhance transparency and consistency, a format called the upstream-operating-downstream framework (UOD) is proposed for reporting basic technology-related data regarding GHG issues including a clear distinction between direct emissions from waste management technologies, indirect upstream (use of energy and materials) and indirect downstream (production of energy, delivery of secondary materials) activities.

  14. Comparative anatomical analyses of the forearm muscles of Cebus libidinosus (Rylands et al. 2000: manipulatory behavior and tool use.

    Directory of Open Access Journals (Sweden)

    Tales Alexandre Aversi-Ferreira

    Full Text Available The present study describes the flexor and extensor muscles in Cebus libidinosus' forearm and compares them with those from humans, chimpanzees and baboons. The data is presented in quantitative anatomical indices for similarity. The capuchin forearm muscles showed important similarities with chimpanzees and humans, particularly those that act on thumb motion and allow certain degree of independence from other hand structures, even though their configuration does not enable a true opposable thumb. The characteristics of Cebus' forearm muscles corroborate the evolutionary convergence towards an adaptive behavior (tool use between Cebus genus and apes.

  15. Comparative Transcriptomic Analyses by RNA-seq to Elucidate Differentially Expressed Genes in the Muscle of Korean Thoroughbred Horses.

    Science.gov (United States)

    Ghosh, Mrinmoy; Cho, Hyun-Woo; Park, Jeong-Woong; Choi, Jae-Young; Chung, Young-Hwa; Sharma, Neelesh; Singh, Amit Kumar; Kim, Nam Eun; Mongre, Raj Kumar; Huynh, Do; Jiao, Zhang Jiao; Do, Kyoung Tag; Lee, Hak-Kyo; Song, Ki-Duk; Cho, Byung-Wook; Jeong, DongKee

    2016-10-01

    The athletic abilities of the horse serve as a valuable model to understand the physiology and molecular mechanisms of adaptive responses to exercise. We analyzed differentially expressed genes in triceps brachii muscle tissues collected from Eonjena Taeyang and Jigusang Seryeok Thoroughbred horses and their co-expression networks in a large-scale RNA-sequence dataset comparing expression before and after exercise. High-quality horse transcriptome data were generated, with over 22 million 90-bp pair-end reads. By comparing the annotations, we found that MYH3, MPZ, and PDE8B genes in Eonjena Taeyang and PDE8B and KIF18A genes in Jigusang Seryeok were upregulated before exercise. Notably further, we observed that PPP1R27, NDUFA3, TNC, and ANK1 in Eonjena Taeyang and HIF1A, BDNF, ADRB2, OBSCN, and PER3 in Jigusang Seryeok have shown upregulation at the postexercise period. This investigation suggested that genes responsible for metabolism and oxidative phosphorylations associated with endurance and resistance exercise were highly expressed, whereas genes encoding structural proteins were generally suppressed. The expression profile of racehorses at pre- and postexercise will provide credible reference for further studies on biological effects such as responses to stress and adaption of other Thoroughbred horse, which might be useful for selective breeding for improvement of traits in commercial production.

  16. Comparative genomic analyses reveal a lack of a substantial signature of host adaptation in Rhodococcus equi ('Prescottella equi').

    Science.gov (United States)

    Sangal, Vartul; Jones, Amanda L; Goodfellow, Michael; Sutcliffe, Iain C; Hoskisson, Paul A

    2014-08-01

    Rhodococcus equi ('Prescottella equi') is a pathogenic actinomycete primarily infecting horses but has emerged as an opportunistic human pathogen. We have sequenced the genome of the type strain of this species, R. equi strain C7(T) , and compared the genome with that of another foal isolate 103S and of a human isolate ATCC 33707. The R. equi strains are closely related to each other and yet distantly related to other rhodococci and Nocardia brasiliensis. The comparison of gene contents among R. equi strains revealed minor differences that could be associated with host adaptation from foals to humans, including the presence of a paa operon in the human isolate, which is potentially involved in pathogenesis. © 2013 Federation of European Microbiological Societies. Published by John Wiley & Sons Ltd. All rights reserved.

  17. Four pathways in the analysis of adult development and aging: comparing analyses of reasoning about personal-life dilemmas.

    Science.gov (United States)

    Pratt, M W; Diessner, R; Hunsberger, B; Pancer, S M; Savoy, K

    1991-12-01

    Four systems for analyzing thinking about 2 personal-life dilemmas, as discussed by 29 men and 35 women (ages 35-85), were compared. Kohlberg's (1976) moral judgment stages, Kegan's (1982) ego-development stages, Gilligan's (1982) moral orientation system, and Suedfeld and Tetlock's (1977) integrative complexity scoring were used. Subjects completed Kohlberg's (Colby & Kohlberg, 1987) standard moral judgment measure, a self-concept description, and several questionnaires. The Kohlberg, Kegan, and integrative complexity codings of the dilemmas were positively related to each other and to the standard Kohlberg moral stage scores. There were no age-group differences and few gender differences on the measures. However, education, role-taking skills, and greater sensitivity to age changes in the self positively predicted higher stage scores across maturity.

  18. Core Genome Multilocus Sequence Typing Scheme for Stable, Comparative Analyses of Campylobacter jejuni and C. coli Human Disease Isolates

    Science.gov (United States)

    Bray, James E.; Jolley, Keith A.; McCarthy, Noel D.

    2017-01-01

    ABSTRACT Human campylobacteriosis, caused by Campylobacter jejuni and C. coli, remains a leading cause of bacterial gastroenteritis in many countries, but the epidemiology of campylobacteriosis outbreaks remains poorly defined, largely due to limitations in the resolution and comparability of isolate characterization methods. Whole-genome sequencing (WGS) data enable the improvement of sequence-based typing approaches, such as multilocus sequence typing (MLST), by substantially increasing the number of loci examined. A core genome MLST (cgMLST) scheme defines a comprehensive set of those loci present in most members of a bacterial group, balancing very high resolution with comparability across the diversity of the group. Here we propose a set of 1,343 loci as a human campylobacteriosis cgMLST scheme (v1.0), the allelic profiles of which can be assigned to core genome sequence types. The 1,343 loci chosen were a subset of the 1,643 loci identified in the reannotation of the genome sequence of C. jejuni isolate NCTC 11168, chosen as being present in >95% of draft genomes of 2,472 representative United Kingdom campylobacteriosis isolates, comprising 2,207 (89.3%) C. jejuni isolates and 265 (10.7%) C. coli isolates. Validation of the cgMLST scheme was undertaken with 1,478 further high-quality draft genomes, containing 150 or fewer contiguous sequences, from disease isolate collections: 99.5% of these isolates contained ≥95% of the 1,343 cgMLST loci. In addition to the rapid and effective high-resolution analysis of large numbers of diverse isolates, the cgMLST scheme enabled the efficient identification of very closely related isolates from a well-defined single-source campylobacteriosis outbreak. PMID:28446571

  19. Comparative analyses of postoperative complications and prognosis of different surgical procedures in stage II endometrial carcinoma treatment

    Directory of Open Access Journals (Sweden)

    Yin H

    2016-02-01

    Full Text Available Hongmei Yin,1 Ting Gui2 1Department of Obstetrics and Gynecology, Binzhou Medical University Hospital, Binzhou Medical University, Binzhou, Shandong, 2Department of Obstetrics and Gynecology, Peking Union Medical College Hospital, Peking Union Medical College, Chinese Academy of Medical Sciences, Beijing, People’s Republic of China Objective: To investigate the impact of surgical resection extent on the postoperative complications and the prognosis in patients with stage II endometrial cancer. Methods: A total of 54 patients were retrospectively reviewed, 35 patients underwent subradical hysterectomy and 19 patients received radical hysterectomy, both with simultaneous bilateral salpingo-oophorectomy and pelvic and paraaortic lymphadenectomy. Results: Comparing the surgical outcomes in subradical hysterectomy group vs radical hysterectomy group, there were no significant differences in operative time, estimated blood loss, and hospital stay. After surgery, 37.1% vs 36.8% patients received postoperative radiotherapy in the subradical hyster­ectomy group vs radical hysterectomy group, without statistically significant difference. As for postoperative complications, the early postoperative complication rate in patients who underwent subradical hysterectomy was 14.3%, significantly lower than that in patients submitted to radical hysterectomy (14.3% vs 42.1%, with P=0.043. However, there was no significant difference in late postoperative complication rate between the two surgical procedures. Regarding the clinical prognosis, patients receiving the subradical hysterectomy showed similar survival to their counterparts undergoing the radical procedures. The relapse rate was 5.71% vs 5.26%, respectively, without significant difference. There were no deaths in both surgical groups. Conclusion: For stage II endometrial carcinoma, subradical hysterectomy presented with less early postoperative complications and similar survival duration and recurrence

  20. Morphological and comparative genomic analyses of pathogenic and non-pathogenic Fusarium solani isolated from Dalbergia sissoo.

    Science.gov (United States)

    Arif, M; Zaidi, N W; Haq, Q M R; Singh, Y P; Taj, G; Kar, C S; Singh, U S

    2015-06-01

    Sissoo or shisham (Dalbergia sissoo Roxb.) is one of the finest wood of South Asia. Fusarium solani is a causal organism of sissoo wilt, decline, or dieback. It is also a potential causal organism associated with other valuable tree species. Thirty-eight Fusarium isolates including 24 F. solani and 14 Fusarium sp., were obtained in 2005 from different geographical locations in India. All 38 (18 pathogenic and 20 non-pathogenic) isolates were characterized for genomic analysis, growth behaviour, pigmentation and sensitivity to carbendazim. Based on growth pattern, growth rate, pigmentation and sensitivity to carbendazim, all 38 isolates showed a wide range of variability, but no correlation with pathogenicity or geographical distribution. Three techniques were used for comparative genomic analysis: random amplified polymorphic DNA (RAPD); inter simple sequence repeats (ISSR); and simple sequence repeats (SSR). A total of 90 primers targeting different genome regions resulted a total of 1159 loci with an average of 12.88 loci per primer. These primers showed high genomic variability among the isolates. The maximum loci (14.64) per primer were obtained with RAPD. The total variation of the first five principal components for RAPD, ISSR, SSR and combined analysis were estimated as 47.42, 48.21, 46.30 and 46.78 %, respectively. Among the molecular markers, highest Pearson correlation value (r = 0.957) was recorded with combination of RAPD and SSR followed by RAPD and ISSR (r = 0.952), and SSR and ISSR (r = 0.942). The combination of these markers would be similarly effective as single marker system i.e. RAPD, ISSR and SSR. Based on polymorphic information content (PIC = 0.619) and highest coefficient (r = 0.995), RAPD was found to be the most efficient marker system compared to ISSR and SSR. This study will assist in understanding the population biology of wilt causing phytopathogen, F. solani, and in assisting with integrated disease management measures.

  1. Methods and theory in bone modeling drift: comparing spatial analyses of primary bone distributions in the human humerus.

    Science.gov (United States)

    Maggiano, Corey M; Maggiano, Isabel S; Tiesler, Vera G; Chi-Keb, Julio R; Stout, Sam D

    2016-01-01

    This study compares two novel methods quantifying bone shaft tissue distributions, and relates observations on human humeral growth patterns for applications in anthropological and anatomical research. Microstructural variation in compact bone occurs due to developmental and mechanically adaptive circumstances that are 'recorded' by forming bone and are important for interpretations of growth, health, physical activity, adaptation, and identity in the past and present. Those interpretations hinge on a detailed understanding of the modeling process by which bones achieve their diametric shape, diaphyseal curvature, and general position relative to other elements. Bone modeling is a complex aspect of growth, potentially causing the shaft to drift transversely through formation and resorption on opposing cortices. Unfortunately, the specifics of modeling drift are largely unknown for most skeletal elements. Moreover, bone modeling has seen little quantitative methodological development compared with secondary bone processes, such as intracortical remodeling. The techniques proposed here, starburst point-count and 45° cross-polarization hand-drawn histomorphometry, permit the statistical and populational analysis of human primary tissue distributions and provide similar results despite being suitable for different applications. This analysis of a pooled archaeological and modern skeletal sample confirms the importance of extreme asymmetry in bone modeling as a major determinant of microstructural variation in diaphyses. Specifically, humeral drift is posteromedial in the human humerus, accompanied by a significant rotational trend. In general, results encourage the usage of endocortical primary bone distributions as an indicator and summary of bone modeling drift, enabling quantitative analysis by direction and proportion in other elements and populations.

  2. Energy production, nutrient recovery and greenhouse gas emission Potentials from Integrated Pig Manure Management Systems

    DEFF Research Database (Denmark)

    Prapaspongsa, Trakarn; Poulsen, Tjalfe; Hansen, Jens Aage

    2010-01-01

    of waste materials were considered. Data for the analyses were obtained from existing waste treatment facilities, experimental plants, laboratory measurements and literature. The assessment reveals that incineration combined with liquid/solid separation and drying of the solids is a promising management......Improper management of pig manure has resulted in environmental problems such as surface water eutrophication, ground water pollution, and greenhouse gas emissions. This study develops and compares 14 alternative manure management scenarios aiming at energy and nutrient extraction. The scenarios...... based on combinations of thermal pretreatment, anaerobic digestion, anaerobic co-digestion, liquid/solid separation, drying, incineration, and thermal gasification were compared with respect to their energy, nutrient and greenhouse gas balances. Both sole pig manure and pig manure mixed with other types...

  3. Comparative analyses of the bactericidal activity of snake venoms%蛇毒抗菌的比较性研究

    Institute of Scientific and Technical Information of China (English)

    李妲; 孙明忠; 郭春梅; 彭博雅; 刘淑清

    2013-01-01

    目的 研究蛇毒粗毒的抗菌作用,并比较不同蛇毒对不同细菌的抑制效果.方法 采用抑菌环法测定蛇岛蝮、江浙蝮和短尾蝮蛇毒粗毒对金黄色葡萄球菌、枯草芽孢杆菌、大肠埃希菌、铜绿假单胞菌以及白色念珠菌的抗菌作用,比较不同蛇毒粗毒的抗菌效果;加入过氧化氢酶(catalase),考察蛇毒抗菌作用的变化.结果 (1)3种蛇毒粗毒对5种细菌均呈现不同程度的抑制作用.(2)3种蛇毒粗毒对5种细菌的抑制作用大小依次为:金黄色葡萄球菌>白色念珠菌>大肠埃希菌或铜绿假单胞菌>枯草芽孢杆菌.(3)加入catalase后,蛇毒的抗菌作用明显减弱.结论 (1)3种蛇毒粗毒均具有一定的抗菌作用,并具有明显抑菌选择性.(2)3种蛇毒的抗菌效果不同,蛇岛蝮蛇抗菌作用最强.(3) catalase能显著降低蛇毒的抗菌活性,表明L-氨基酸氧化酶是蛇毒起抗菌作用的主要成分.%Objective To measure and compare the anti-bacterial activity of crude snake venoms against different bacterium strains.Methods The bacteria-inhibiting ring method was applied to measure the anti-bacterial effects of the snake venoms of Gloydius shedaoensis,Agkistrodon halys Pallas and Gloydius brevicaudus on the growths of the bacterium strains of Staphyloccocus aureus,Bacillus subtilis,Escherichia coli,Pseudomonas aeruginosa and Candida albicans.The anti-bacterial activities of different crude snake venoms were then compared.The effect of the addition of catalase was also compared.Results (1) The three crude snake venoms showed varied inhibitory effects on the five types of bacterium tested in current work.(2) Basically,the snake venoms showed the strongest inhibitory effect against Staphyloccocus aureus,followed by Candida albicans,Escherichia coli or Pseudomonas acruginosa and Bacillus subtilis.(3) In the presence of catalase,the anti-bacterial effect of Gloydius shedaoensis vemon was significantly suppressed

  4. Criticality prompt gamma and neutron dose equations validated by Monte Carlo analyses and compared to known criticality accident doses

    Science.gov (United States)

    Hochhalter, Eugene

    The United States (US) Department of Energy [DOE] and the Nuclear Regulatory Commission [NRC] have provided the nuclear industry with requirements, goals, and objectives for the preparation of safety analysis and the finalization of that safety analysis in the form of a documented safety analysis (DSA) and technical safety requirements (TSRs). The deterministic guidance provided by the NRC in Regulatory Guide (RG) 3.33 for calculating the prompt gamma and neutron doses from a criticality has a number of potential issues associated with the semi-empirical equations, which make these equations potentially out dated. The NRC guidance for estimating the prompt gamma and neutron doses to a facility worker due to an accidental criticality was withdrawn without newer deterministic guidance being issued. This research project determined the original basis for the RG prompt gamma and neutron equations, evaluated the potential issues associated with the RG 3.33 prompt gamma and neutron equations, and modified the RG 3.33 point source prompt gamma and neutron equations to calculate the doses for the selected set of criticality accidents. The criticality accidents addressed by this dissertation include: 1. U-235, Pu-239, and Pu-241 point source criticality, 2. U-235, Pu-239, and Pu-241 sphere source criticality, 3. Uranyl nitrate and plutonium nitrate solutions in a cylindrical process vessel and 4. Low level waste in 55-gallon and 30-gallon drums. The prompt gamma and neutron equation doses (RG 3.33/3.34/3.35) are compared to actual nuclear industry criticality accident worker doses to assess the conservatism of the RG equations. Finally, the RG 3.33 prompt gamma and neutron dose equations are compared to MCNP5 results to investigate consistency with respect to the modified prompt gamma and neutron dose equations and the representative dose estimates for each of the criticality configurations (point source, spherical source, and cylindrical source). Knowledge and accurate

  5. Present-day and fossil rhodolith pavements compared: Their potential for analysing shallow-water carbonate deposits

    Science.gov (United States)

    Bassi, Davide; Nebelsick, James H.; Checconi, Alessio; Hohenegger, Johann; Iryu, Yasufumi

    2009-02-01

    Coralline red algae represent the main biogenic components in most shallow-water carbonate successions from the Eocene to the Recent. They contribute significantly to sediment production on open platforms. Carbonate sediments formed by unattached coralline algae include rhodolith pavements (RPs) which represent dense accumulations of rhodoliths, as well as maërl which is composed of rhodoliths, coralline algal branches and their detritus. Recent RPs sampled off Sesoko-jima (Okinawa-jima, southern Japan) occur at depths of 50-70 m on a submarine terrace. The taxonomic coralline composition is dominated by melobesioids associated with minor amounts of mastophoroids and sporolithaceans. The rhodoliths are characterised by various nuclei, an encrusting inner arrangement, encrusting to warty outer growth-forms and sub-spheroidal shapes. Bioerosion, encrustation and abrasion are the most prevalent taphonomic features. Possible fossil counterparts were identified in Chattian and Priabonian RPs from middle-ramp depositional systems from the Venetian area, north-east Italy. A direct comparison between Recent and fossil RPs is possible by contrasting the constituent rhodolith characteristics including taxonomic composition, nature of the nucleus, inner arrangement, outer growth-forms, size and shape as well as taphonomic signatures. This allows factors controlling rhodolith formation and growth in RPs to be compared especially with respect to hydrodynamic regimes and substrate type.

  6. [Prevalence and factors associated with intimate partner abuse in female users of public health services in Mexico: a comparative analyses].

    Science.gov (United States)

    Ávila-Burgos, Leticia; Valdez-Santiagob, Rosario; Barroso-Quiab, Abigail; Híjar, Martha; Rojas, Rosalba; Del Río-Zolezzi, Aurora

    2014-01-01

    To analyze the evolution of the prevalence in intimate partner violence during the years 2003 and 2006 in Mexico, identifying factors associated with its severity, comparing our results with findings from 2003. Data from the Encuesta Nacional de Violencia contra las Mujeres (ENVIM 2006) was used; it has urban-rural national representation of female users of Mexican public health services. A total of 22,318 women above 14 years of age were interviewed. A multinomial logistic regression model was adjusted. The dependent variable was the Index of Intimate Partner Abuse. Intimate partner abuse increased 17% in comparison to the year 2003. Women's personal history of childhood abuse (ORA= 5.12, 95% CI4.15-6.30) and rape (ORA = 3.5, 95% CI = 2.66-4.62) were the most important women's factors that were found associated with severe violence. Male partner's daily alcohol consumption increased eleven fold the possibility of severe violence; higher disagreement with traditional female gender roles and higher education of both partners were protective factors. Factors associated with violence and their severities were consistent with findings reported in 2003. Intimate partner violence is a highly prevalent social problem which requires comprehensive strategies supporting empowerment of women through higher education, early detection and care of those battered, as well as structured interventions to prevent violence in future generations.

  7. Comparative analyses of the vascular flora of the Pčinja river gorges in Serbia and Macedonia

    Directory of Open Access Journals (Sweden)

    Zlatković B.

    2011-01-01

    Full Text Available The study’s aim is the comparative chorologic and ecological analysis of the vascular flora of the two gorges of the Pčinja River in Serbia and Macedonia which are 27 km apart. In the two gorges 1564 taxa have been recorded, 1057 being in the upper gorge in Serbia and 1174 in the lower gorge in Macedonia. Common to both gorges are 666 taxa. Chorological spectra show that in both gorges the most abundant are Mediterranean-submediterranean plants, 32.85% being in the upper and 43.97% in the lower gorge. Differences in the studied vegetation result from a diverse participation of other floristic elements such as Central European ones that are more abundant in the upper gorge (17.05% than in the lower gorge (10.86 %. The life-form spectrum reveals that the flora in both gorges is hemicryptophyte-therophyte in character. Both gorges belong to an enclave of a Mediterranean-submediterranean region, i.e. to its submediterranean Macedonian- Thracian province.

  8. Comparative genomic analyses identify common molecular pathways modulated upon exposure to low doses of arsenic and cadmium

    Directory of Open Access Journals (Sweden)

    Fry Rebecca C

    2011-04-01

    Full Text Available Abstract Background Exposure to the toxic metals arsenic and cadmium is associated with detrimental health effects including cancers of various organs. While arsenic and cadmium are well known to cause adverse health effects at high doses, the molecular impact resulting from exposure to environmentally relevant doses of these metals remains largely unexplored. Results In this study, we examined the effects of in vitro exposure to either arsenic or cadmium in human TK6 lymphoblastoid cells using genomics and systems level pathway mapping approaches. A total of 167 genes with differential expression were identified following exposure to either metal with surprisingly no overlap between the two. Real-time PCR was used to confirm target gene expression changes. The gene sets were overlaid onto protein-protein interaction maps to identify metal-induced transcriptional networks. Interestingly, both metal-induced networks were significantly enriched for proteins involved in common biological processes such as tumorigenesis, inflammation, and cell signaling. These findings were further supported by gene set enrichment analysis. Conclusions This study is the first to compare the transcriptional responses induced by low dose exposure to cadmium and arsenic in human lymphoblastoid cells. These results highlight that even at low levels of exposure both metals can dramatically influence the expression of important cellular pathways.

  9. Life Cycle Assessment of Residential Heating and Cooling Systems in Minnesota A comprehensive analysis on life cycle greenhouse gas (GHG) emissions and cost-effectiveness of ground source heat pump (GSHP) systems compared to the conventional gas furnace and air conditioner system

    Science.gov (United States)

    Li, Mo

    Ground Source Heat Pump (GSHP) technologies for residential heating and cooling are often suggested as an effective means to curb energy consumption, reduce greenhouse gas (GHG) emissions and lower homeowners' heating and cooling costs. As such, numerous federal, state and utility-based incentives, most often in the forms of financial incentives, installation rebates, and loan programs, have been made available for these technologies. While GSHP technology for space heating and cooling is well understood, with widespread implementation across the U.S., research specific to the environmental and economic performance of these systems in cold climates, such as Minnesota, is limited. In this study, a comparative environmental life cycle assessment (LCA) is conducted of typical residential HVAC (Heating, Ventilation, and Air Conditioning) systems in Minnesota to investigate greenhouse gas (GHG) emissions for delivering 20 years of residential heating and cooling—maintaining indoor temperatures of 68°F (20°C) and 75°F (24°C) in Minnesota-specific heating and cooling seasons, respectively. Eight residential GSHP design scenarios (i.e. horizontal loop field, vertical loop field, high coefficient of performance, low coefficient of performance, hybrid natural gas heat back-up) and one conventional natural gas furnace and air conditioner system are assessed for GHG and life cycle economic costs. Life cycle GHG emissions were found to range between 1.09 × 105 kg CO2 eq. and 1.86 × 10 5 kg CO2 eq. Six of the eight GSHP technology scenarios had fewer carbon impacts than the conventional system. Only in cases of horizontal low-efficiency GSHP and hybrid, do results suggest increased GHGs. Life cycle costs and present value analyses suggest GSHP technologies can be cost competitive over their 20-year life, but that policy incentives may be required to reduce the high up-front capital costs of GSHPs and relatively long payback periods of more than 20 years. In addition

  10. Comparative analyses of gene copy number and mRNA expression in GBM tumors and GBM xenografts

    Energy Technology Data Exchange (ETDEWEB)

    Hodgson, J. Graeme; Yeh, Ru-Fang; Ray, Amrita; Wang, Nicholas J.; Smirnov, Ivan; Yu, Mamie; Hariono, Sujatmi; Silber, Joachim; Feiler, Heidi S.; Gray, Joe W.; Spellman, Paul T.; Vandenberg, Scott R.; Berger, Mitchel S.; James, C. David

    2009-04-03

    Development of model systems that recapitulate the molecular heterogeneity observed among glioblastoma multiforme (GBM) tumors will expedite the testing of targeted molecular therapeutic strategies for GBM treatment. In this study, we profiled DNA copy number and mRNA expression in 21 independent GBM tumor lines maintained as subcutaneous xenografts (GBMX), and compared GBMX molecular signatures to those observed in GBM clinical specimens derived from the Cancer Genome Atlas (TCGA). The predominant copy number signature in both tumor groups was defined by chromosome-7 gain/chromosome-10 loss, a poor-prognosis genetic signature. We also observed, at frequencies similar to that detected in TCGA GBM tumors, genomic amplification and overexpression of known GBM oncogenes, such as EGFR, MDM2, CDK6, and MYCN, and novel genes, including NUP107, SLC35E3, MMP1, MMP13, and DDX1. The transcriptional signature of GBMX tumors, which was stable over multiple subcutaneous passages, was defined by overexpression of genes involved in M phase, DNA replication, and chromosome organization (MRC) and was highly similar to the poor-prognosis mitosis and cell-cycle module (MCM) in GBM. Assessment of gene expression in TCGA-derived GBMs revealed overexpression of MRC cancer genes AURKB, BIRC5, CCNB1, CCNB2, CDC2, CDK2, and FOXM1, which form a transcriptional network important for G2/M progression and/or checkpoint activation. Our study supports propagation of GBM tumors as subcutaneous xenografts as a useful approach for sustaining key molecular characteristics of patient tumors, and highlights therapeutic opportunities conferred by this GBMX tumor panel for testing targeted therapeutic strategies for GBM treatment.

  11. De Novo Assembly and Comparative Transcriptome Analyses of Red and Green Morphs of Sweet Basil Grown in Full Sunlight

    Science.gov (United States)

    Torre, Sara; Tattini, Massimiliano; Brunetti, Cecilia; Guidi, Lucia; Gori, Antonella; Marzano, Cristina; Landi, Marco; Sebastiani, Federico

    2016-01-01

    Sweet basil (Ocimum basilicum), one of the most popular cultivated herbs worldwide, displays a number of varieties differing in several characteristics, such as the color of the leaves. The development of a reference transcriptome for sweet basil, and the analysis of differentially expressed genes in acyanic and cyanic cultivars exposed to natural sunlight irradiance, has interest from horticultural and biological point of views. There is still great uncertainty about the significance of anthocyanins in photoprotection, and how green and red morphs may perform when exposed to photo-inhibitory light, a condition plants face on daily and seasonal basis. We sequenced the leaf transcriptome of the green-leaved Tigullio (TIG) and the purple-leaved Red Rubin (RR) exposed to full sunlight over a four-week experimental period. We assembled and annotated 111,007 transcripts. A total of 5,468 and 5,969 potential SSRs were identified in TIG and RR, respectively, out of which 66 were polymorphic in silico. Comparative analysis of the two transcriptomes showed 2,372 differentially expressed genes (DEGs) clustered in 222 enriched Gene ontology terms. Green and red basil mostly differed for transcripts abundance of genes involved in secondary metabolism. While the biosynthesis of waxes was up-regulated in red basil, the biosynthesis of flavonols and carotenoids was up-regulated in green basil. Data from our study provides a comprehensive transcriptome survey, gene sequence resources and microsatellites that can be used for further investigations in sweet basil. The analysis of DEGs and their functional classification also offers new insights on the functional role of anthocyanins in photoprotection. PMID:27483170

  12. A Comparative Analyses of Granulometry, Mineral Composition and Major and Trace Element Concentrations in Soils Commonly Ingested by Humans

    Directory of Open Access Journals (Sweden)

    Veronica M. Ngole-Jeme

    2015-07-01

    Full Text Available This study compared the granulometric properties, mineralogical composition and concentrations of major and trace element oxides of commonly ingested soils (geophagic soil collected from different countries with a view of understanding how varied they may be in these properties and to understand the possible health implications of ingesting them. Soil samples were collected from three different countries (South Africa, Swaziland and Democratic Republic of Congo (DRC and their granulometric properties, concentrations of major and trace element oxides as well as mineralogical composition determined. Differences were observed in the granulometric properties of geophagic soil from the three different countries with most of them having <20% clay content. The soils also showed varied degrees of weathering with values of Chemical Index of Alteration (CIA and Chemical Index of Weathering (CIW being between 60% and 99.9% respectively. The mineral assemblages of the soils from South Africa and Swaziland were dominated by the primary minerals quartz and feldspar whereas soils from DRC had more of kaolinite, a secondary mineral than primary minerals. Soils from DRC were associated with silt, clay, Al2O3, and CIA unlike most samples from South Africa which were associated with SiO2, sand, K2O, CaO, and MgO. The soils from Swaziland were closely associated with silt, H2O and Fe2O3(t. These associations reflect the mineralogy of the samples. These soils are not likely to serve as nutrient supplements because of the low concentrations of the nutrient elements contained. The coarse texture of the samples may also result in dental destruction during mastication. Sieving of the soils before ingestion to remove coarse particles is recommended to reduce the potential health threat associated with the ingestion of coarse-textured soils.

  13. De Novo Assembly and Comparative Transcriptome Analyses of Red and Green Morphs of Sweet Basil Grown in Full Sunlight.

    Science.gov (United States)

    Torre, Sara; Tattini, Massimiliano; Brunetti, Cecilia; Guidi, Lucia; Gori, Antonella; Marzano, Cristina; Landi, Marco; Sebastiani, Federico

    2016-01-01

    Sweet basil (Ocimum basilicum), one of the most popular cultivated herbs worldwide, displays a number of varieties differing in several characteristics, such as the color of the leaves. The development of a reference transcriptome for sweet basil, and the analysis of differentially expressed genes in acyanic and cyanic cultivars exposed to natural sunlight irradiance, has interest from horticultural and biological point of views. There is still great uncertainty about the significance of anthocyanins in photoprotection, and how green and red morphs may perform when exposed to photo-inhibitory light, a condition plants face on daily and seasonal basis. We sequenced the leaf transcriptome of the green-leaved Tigullio (TIG) and the purple-leaved Red Rubin (RR) exposed to full sunlight over a four-week experimental period. We assembled and annotated 111,007 transcripts. A total of 5,468 and 5,969 potential SSRs were identified in TIG and RR, respectively, out of which 66 were polymorphic in silico. Comparative analysis of the two transcriptomes showed 2,372 differentially expressed genes (DEGs) clustered in 222 enriched Gene ontology terms. Green and red basil mostly differed for transcripts abundance of genes involved in secondary metabolism. While the biosynthesis of waxes was up-regulated in red basil, the biosynthesis of flavonols and carotenoids was up-regulated in green basil. Data from our study provides a comprehensive transcriptome survey, gene sequence resources and microsatellites that can be used for further investigations in sweet basil. The analysis of DEGs and their functional classification also offers new insights on the functional role of anthocyanins in photoprotection.

  14. Comparative transcriptome analyses of deltamethrin-resistant and -susceptible Anopheles gambiae mosquitoes from Kenya by RNA-Seq.

    Directory of Open Access Journals (Sweden)

    Mariangela Bonizzoni

    Full Text Available Malaria causes more than 300 million clinical cases and 665,000 deaths each year, and the majority of the mortality and morbidity occurs in sub-Saharan Africa. Due to the lack of effective vaccines and wide-spread resistance to antimalarial drugs, mosquito control is the primary method of malaria prevention and control. Currently, malaria vector control relies on the use of insecticides, primarily pyrethroids. The extensive use of insecticides has imposed strong selection pressures for resistance in the mosquito populations. Consequently, resistance to pyrethroids in Anopheles gambiae, the main malaria vector in sub-Saharan Africa, has become a major obstacle for malaria control. A key element of resistance management is the identification of resistance mechanisms and subsequent development of reliable resistance monitoring tools. Field-derived An. gambiae from Western Kenya were phenotyped as deltamethrin-resistant or -susceptible by the standard WHO tube test, and their expression profile compared by RNA-seq. Based on the current annotation of the An. gambiae genome, a total of 1,093 transcripts were detected as significantly differentially accumulated between deltamethrin-resistant and -susceptible mosquitoes. These transcripts are distributed over the entire genome, with a large number mapping in QTLs previously linked to pyrethorid resistance, and correspond to heat-shock proteins, metabolic and transport functions, signal transduction activities, cytoskeleton and others. The detected differences in transcript accumulation levels between resistant and susceptible mosquitoes reflect transcripts directly or indirectly correlated with pyrethroid resistance. RNA-seq data also were used to perform a de-novo Cufflinks assembly of the An. gambiae genome.

  15. Comparative membrane proteomics analyses of breast cancer cell lines to understand the molecular mechanism of breast cancer brain metastasis.

    Science.gov (United States)

    Peng, Wenjing; Zhang, Yu; Zhu, Rui; Mechref, Yehia

    2017-09-01

    Breast cancer is the leading type of cancer in women. Breast cancer brain metastasis is currently considered an issue of concern among breast cancer patients. Membrane proteins play important roles in breast cancer brain metastasis, involving cell adhesion and penetration of blood-brain barrier. To understand the mechanism of breast cancer brain metastasis, liquid chromatography-tandem mass spectrometry (LC-MS/MS) was employed in conjunction with enrichment of membrane proteins to analyze the proteomes from five different breast cancer and a brain cancer cell lines. Quantitative proteomic data of all cell lines were compared with MDA-MB-231BR which is a brain seeking breast cancer cell line, thus representing brain metastasis characteristics. Label-free proteomics of the six cell lines facilitates the identification of 1238 proteins and the quantification of 899 proteins of which more than 70% were membrane proteins. Unsupervised principal component analysis (PCA) of the label-free proteomics data resulted in a distinct clustering of cell lines, suggesting quantitative differences in the expression of several proteins among the different cell lines. Unique protein expressions in 231BR were observed for 28 proteins. The up-regulation of STAU1, AT1B3, NPM1, hnRNP Q, and hnRNP K and the down-regulation of TUBB4B and TUBB5 were noted in 231BR relative to 231 (precursor cell lines from which 231BR is derived). These proteins might contribute to the breast cancer brain metastasis. Ingenuity pathway analysis (IPA) supported the great brain metastatic propensity of 231BR and suggested the importance of the up-regulation of integrin proteins and down-regulation of EPHA2 in brain metastasis. © 2017 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

  16. Comparative analyses by sequencing of transcriptomes during skeletal muscle development between pig breeds differing in muscle growth rate and fatness.

    Directory of Open Access Journals (Sweden)

    Xiao Zhao

    Full Text Available Understanding the dynamics of muscle transcriptome during development and between breeds differing in muscle growth is necessary to uncover the complex mechanism underlying muscle development. Herein, we present the first transcriptome-wide longissimus dorsi muscle development research concerning Lantang (LT, obese and Landrace (LR, lean pig breeds during 10 time-points from 35 days-post-coitus (dpc to 180 days-post-natum (dpn using Solexa/Illumina's Genome Analyzer. The data demonstrated that myogenesis was almost completed before 77 dpc, but the muscle phenotypes were still changed from 77 dpc to 28 dpn. Comparative analysis of the two breeds suggested that myogenesis started earlier but progressed more slowly in LT than in LR, the stages ranging from 49 dpc to 77 dpc are critical for formation of different muscle phenotypes. 595 differentially expressed myogenesis genes were identified, and their roles in myogenesis were discussed. Furthermore, GSK3B, IKBKB, ACVR1, ITGA and STMN1 might contribute to later myogenesis and more muscle fibers in LR than LT. Some myogenesis inhibitors (ID1, ID2, CABIN1, MSTN, SMAD4, CTNNA1, NOTCH2, GPC3 and HMOX1 were higher expressed in LT than in LR, which might contribute to more slow muscle differentiation in LT than in LR. We also identified several genes which might contribute to intramuscular adipose differentiation. Most important, we further proposed a novel model in which MyoD and MEF2A controls the balance between intramuscular adipogenesis and myogenesis by regulating CEBP family; Myf5 and MEF2C are essential during the whole myogenesis process while MEF2D affects muscle growth and maturation. The MRFs and MEF2 families are also critical for the phenotypic differences between the two pig breeds. Overall, this study contributes to elucidating the mechanism underlying muscle development, which could provide valuable information for pig meat quality improvement. The raw data have been submitted to Gene

  17. Benzaldehyde is a precursor of phenylpropylamino alkaloids as revealed by targeted metabolic profiling and comparative biochemical analyses in Ephedra spp.

    Science.gov (United States)

    Krizevski, Raz; Bar, Einat; Shalit, O R; Levy, Asaf; Hagel, Jillian M; Kilpatrick, Korey; Marsolais, Frédéric; Facchini, Peter J; Ben-Shabat, Shimon; Sitrit, Yaron; Lewinsohn, Efraim

    2012-09-01

    Ephedrine and pseudoephedrine are phenylpropylamino alkaloids widely used in modern medicine. Some Ephedra species such as E. sinica Stapf (Ephedraceae), a widely used Chinese medicinal plant (Chinese name: Ma Huang), accumulate ephedrine alkaloids as active constituents. Other Ephedra species, such as E. foeminea Forssk. (syn. E. campylopoda C.A. Mey) lack ephedrine alkaloids and their postulated metabolic precursors 1-phenylpropane-1,2-dione and (S)-cathinone. Solid-phase microextraction analysis of freshly picked young E. sinica and E. foeminea stems revealed the presence of increased benzaldehyde levels in E. foeminea, whereas 1-phenylpropane-1,2-dione was detected only in E. sinica. Soluble protein preparations from E. sinica and E. foeminea stems catalyzed the conversion of benzaldehyde and pyruvate to (R)-phenylacetylcarbinol, (S)-phenylacetylcarbinol, (R)-2-hydroxypropiophenone (S)-2-hydroxypropiophenone and 1-phenylpropane-1,2-dione. The activity, termed benzaldehyde carboxyligase (BCL) required the presence of magnesium and thiamine pyrophosphate and was 40 times higher in E. sinica as compared to E. foeminea. The distribution patterns of BCL activity in E. sinica tissues correlates well with the distribution pattern of the ephedrine alkaloids. (S)-Cathinone reductase enzymatic activities generating (1R,2S)-norephedrine and (1S,1R)-norephedrine were significantly higher in E. sinica relative to the levels displayed by E. foeminea. Surprisingly, (1R,2S)-norephedrine N-methyltransferase activity which is a downstream enzyme in ephedrine biosynthesis was significantly higher in E. foeminea than in E. sinica. Our studies further support that benzaldehyde is the metabolic precursor to phenylpropylamino alkaloids in E. sinica.

  18. Effects of energy saving investment in the greenhouse sector in the Netherlands. An analysis of the evaluation of the Dutch General Accounting Office; Effecten van energiebesparende investeringen in de glastuinbouw. Een analyse van de evaluatie door de Algemene Rekenkamer

    Energy Technology Data Exchange (ETDEWEB)

    Ten Cate, A.; Mulder, M.; Stolwijk, H.

    2003-10-01

    . Given these shortcomings in the research of the AR, it is obvious not a good example of ex post policy analysis. This does not imply that the method as such (micro-econometric research), is unsuitable for policy analysis. Results of that kind of research should, however, always be assessed in the light of theoretical and empirical pieces of evidence from other sources. [Dutch] In de analyse die door het CPB van het AR-onderzoek is gedaan, staat de volgende vraag centraal: zijn de conclusies van de AR (Algemene Rekenkamer) te rechtvaardigen in het licht van de door haar gebruikte methode en data? Hoofdstuk 2 beschrijft op hoofdlijnen het onderzoek van de AR. Hierbij komen de vraagstelling van het onderzoek, de gevolgde methode, de resultaten en de conclusies die de AR getrokken heeft aan de orde. Hoofdstuk 3 vergelijkt de resultaten van het AR-onderzoek met inzichten uit andere bronnen. Het daarop volgende hoofdstuk 4 gaat dieper in op het onderzoek van de AR. Dit hoofdstuk bekijkt hoe de AR op verschillende specifieke onderdelen te werk is gegaan. Ter illustratie van het effect van een aantal veranderingen in de modelspecificatie, met een beperkte herschatting van de effecten van energiebesparende investeringen. De conclusies van onze analyse worden gegeven in hoofdstuk 5.

  19. OPIC Greenhouse Gas Emissions Inventory

    Data.gov (United States)

    Overseas Private Investment Corporation — Independent analysis details quantifying the greenhouse gas ("GHG") emissions directly attributable to projects to which the Overseas Private Investment Corporation...

  20. Proteolytic profiling and comparative analyses of active trypsin-like serine peptidases in preimaginal stages of Culex quinquefasciatus

    Directory of Open Access Journals (Sweden)

    Borges-Veloso Andre

    2012-06-01

    Full Text Available Abstract Background The mosquito Culex quinquefasciatu s, a widespread insect in tropical and sub-tropical regions of the world, is a vector of multiple arboviruses and parasites, and is considered an important risk to human and veterinary health. Proteolytic enzymes play crucial roles in the insect physiology including the modulation of embryonic development and food digestion. Therefore, these enzymes represent important targets for the development of new control strategies. This study presents zymographic characterization and comparative analysis of the proteolytic activity found in eggs, larval instars and pupae of Culex quinquefasciatus. Methods The proteolytic profiles of eggs, larvae and pupa of Cx. quinquefasciatus were characterized by SDS-PAGE co-polymerized with 0.1% gelatin, according to the pH, temperature and peptidase inhibitor sensitivity. In addition, the proteolytic activities were characterized in solution using 100 μM of the fluorogenic substrate Z-Phe-Arg-AMC. Results Comparison of the proteolytic profiles by substrate-SDS-PAGE from all preimaginal stages of the insect revealed qualitative and quantitative differences in the peptidase expression among eggs, larvae and pupae. Use of specific inhibitors revealed that the proteolytic activity from preimaginal stages is mostly due to trypsin-like serine peptidases that display optimal activity at alkaline pH. In-solution, proteolytic assays of the four larval instars using the fluorogenic substrate Z-Phe-Arg-AMC in the presence or absence of a trypsin-like serine peptidase inhibitor confirmed the results obtained by substrate-SDS-PAGE analysis. The trypsin-like serine peptidases of the four larval instars were functional over a wide range of temperatures, showing activities at 25°C and 65°C, with an optimal activity between 37°C and 50°C. Conclusion The combined use of zymography and in-solution assays, as performed in this study, allowed for a more detailed analysis of the

  1. Cost Analyses in the US and Japan: A Cross-Country Comparative Analysis Applied to the PRONOUNCE Trial in Non-Squamous Non-Small Cell Lung Cancer.

    Science.gov (United States)

    Hess, Lisa M; Rajan, Narayan; Winfree, Katherine; Davey, Peter; Ball, Mark; Knox, Hediyyih; Graham, Christopher

    2015-12-01

    Health technology assessment is not required for regulatory submission or approval in either the United States (US) or Japan. This study was designed as a cross-country evaluation of cost analyses conducted in the US and Japan based on the PRONOUNCE phase III lung cancer trial, which compared pemetrexed plus carboplatin followed by pemetrexed (PemC) versus paclitaxel plus carboplatin plus bevacizumab followed by bevacizumab (PCB). Two cost analyses were conducted in accordance with International Society For Pharmacoeconomics and Outcomes Research good research practice standards. Costs were obtained based on local pricing structures; outcomes were considered equivalent based on the PRONOUNCE trial results. Other inputs were included from the trial data (e.g., toxicity rates) or from local practice sources (e.g., toxicity management). The models were compared across key input and transferability factors. Despite differences in local input data, both models demonstrated a similar direction, with the cost of PemC being consistently lower than the cost of PCB. The variation in individual input parameters did affect some of the specific categories, such as toxicity, and impacted sensitivity analyses, with the cost differential between comparators being greater in Japan than in the US. When economic models are based on clinical trial data, many inputs and outcomes are held consistent. The alterable inputs were not in and of themselves large enough to significantly impact the results between countries, which were directionally consistent with greater variation seen in sensitivity analyses. The factors that vary across jurisdictions, even when minor, can have an impact on trial-based economic analyses. Eli Lilly and Company.

  2. Intensity of competition in the market of greenhouse vegetables

    Directory of Open Access Journals (Sweden)

    Oleg Ivanovich Botkin

    2012-03-01

    Full Text Available This paper reviews the competitive environment of the market greenhouse vegetables. Revealed specific features of the industry, determining the level of intensity of competition in the market greenhouse vegetables. Classified factors internal and external environment, identify indicators that affect the state of the market. The factors that determine the intensity of competition in the market greenhouse vegetables.The main competitors on the Russian market of greenhouse production.Identified indicators of the intensity level of competition, in particular: the level of monopolization of the market greenhouse vegetables, the level of concentration of production in the industry, the generalized index of the intensity of the competitive environment.Shows a comparative analysis of competitors’ market greenhouse vegetables in Udmurtia.Revealed competitive advantages which can help local producers to reduce the pressure of competition and intra-industry to occupy a leading position in the Russian market of greenhouse vegetable production.The dynamics of economic performance of Russian producers. Ways of improving the competitiveness of enterprises for the production of greenhouse vegetables

  3. Current Soil Nutrient Status of Intensively Managed Greenhouses

    Institute of Scientific and Technical Information of China (English)

    HU Yun-Cai; SONG Zhi-Wen; LU Wen-Long; C.POSCHENRIEDER; U.SCHMIDHALTER

    2012-01-01

    Nine districts covering the main greenhouse vegetable areas in Tianjin Municipality of the North China Plain were selected for the soil investigation in 2010 to survey the current soil nutrient status (soil available N,P and K),acidification and salinization due to excessive input of fertilizers in greenhouses in Tianjin. The study showed that,in particular,soil available P content increased with the age of greenhouses.In contrast,our results did not reveal higher K accumulation and lowered pH in the greenhouse soils compared with cultivation in open fields.Over-fertilization,causing high NO3- accumulation,most likely resulted in salinity problems in the greenhouses.Ninety percent of the investigated greenhouse soils had electrical conductivity values of saturated paste extracts of 2-10 d S m-1,which might affect the yields of vegetable crops like green bean,pepper,cabbage,carrot,eggplant,lettuce,spinach,celery,cucumber and tomato. The findings of our survey of the current fertility and salinity problems in greenhouse soils suggest that there is an urgent need to improve the farmers' practices and strategies in fertilization management in greenhouses of China.Because education and the agricultural technical extension services may play a more important role in avoiding overuse of fertilizers,we suggest that current nutrient management practices should be improved in the near future through training of local farmers in farmers' schools and through strengthening the agricultural extension services with practical techniques.

  4. Sonic anemometry to measure natural ventilation in greenhouses.

    Science.gov (United States)

    López, Alejandro; Valera, Diego Luis; Molina-Aiz, Francisco

    2011-01-01

    The present work has developed a methodology for studying natural ventilation in Mediterranean greenhouses by means of sonic anemometry. In addition, specific calculation programmes have been designed to enable processing and analysis of the data recorded during the experiments. Sonic anemometry allows us to study the direction of the airflow at all the greenhouse vents. Knowing through which vents the air enters and leaves the greenhouse enables us to establish the airflow pattern of the greenhouse under natural ventilation conditions. In the greenhouse analysed in this work for Poniente wind (from the southwest), a roof vent designed to open towards the North (leeward) could allow a positive interaction between the wind and stack effects, improving the ventilation capacity of the greenhouse. The cooling effect produced by the mass of turbulent air oscillating between inside and outside the greenhouse at the side vents was limited to 2% (for high wind speed, u(o) ≥ 4 m s(-1)) reaching 36.3% when wind speed was lower (u(o) = 2 m s(-1)).

  5. Evaluation of the ratio method compared with graphical analyses for estimating nigrostriatal function in human [sup 18]F-dopa PET studies with or without carbidopa

    Energy Technology Data Exchange (ETDEWEB)

    Otsuka, M.; Ichiya, Y.; Kuwabara, Y.; Fukumura, T.; Sasaki, M.; Masuda, K. (Kyushu Univ., Fukuoka (Japan). Dept. of Radiology)

    1993-10-01

    The striatal to cerebellar (S/C) activity ratio for estimating nigrostriatal function was compared with the Patlak analyses in [sup 18]F-dopa (FD) positron emission tomography (PET) with pretreatment with 100 mg carbidopa (CD). Two different time-activity curves of plasma FD or cerebellar [sup 18]F were used for the Patlak analyses. The S/C ratio increased linearly with time for 120 min and the ratio at 120 min correlated closely with the uptake constants by the two Patlak analyses in six normal volunteers and six Parkinsons disease patients. The S/C ratio and the uptake constant by the cerebellar Patlak analysis without CD also showed a fairly good correlation. Then, the S/C ratios with and without CD were compared. Since CD increased both the striatal and the cerebellar radioactivities proportionally within each subject, CD did not change the S/C ratios. The S/C ratios both with and without CD were simple and comparable to the uptake constants in the FD PET studies. (author).

  6. Comparative Analyses of Operational Flights

    Data.gov (United States)

    National Aeronautics and Space Administration — This report describes a cooperative experiment conducted by ONERA and NASA, with the support of Airbus S.A.S. and easyJet Airline Company, Ltd. The study evaluated...

  7. Has your greenhouse gone virtual?

    Science.gov (United States)

    Virtual Grower is a free decision-support software program available from USDA-ARS that allows growers to build a virtual greenhouse. It was initially designed to help greenhouse growers estimate heating costs and conduct simple simulations to figure out where heat savings could be achieved. Featu...

  8. Turkish tomato greenhouse gets geothermal heating

    NARCIS (Netherlands)

    Sikkema, A.; Maaswinkel, R.H.M.

    2011-01-01

    Wageningen UR Greenhouse Horticulture will set up an ultramodern greenhouse in Turkey, together with Dutch greenhouse builders and contractors. Geothermal energy will be used there to provide heat and carbon dioxide for tomato cultivation.

  9. Comparative physical-chemical characterization of encapsulated lipid-based isotretinoin products assessed by particle size distribution and thermal behavior analyses

    Energy Technology Data Exchange (ETDEWEB)

    Guimaraes, Carla Aiolfi, E-mail: carlaaiolfi@usp.br [Department of Pharmacy, Faculty of Pharmaceutical Sciences, University of Sao Paulo, Sao Paulo, SP 05508-000 (Brazil); Menaa, Farid [Department of Dermatology, School of Medicine Wuerzburg, Wuerzburg 97080 (Germany); Fluorotronics, Inc., 1425 Russ Bvld, San Diego Technology Incubator, San Diego, CA 92101 (United States); Menaa, Bouzid, E-mail: bouzid.menaa@gmail.com [Fluorotronics, Inc., 1425 Russ Bvld, San Diego Technology Incubator, San Diego, CA 92101 (United States); Quenca-Guillen, Joyce S. [Department of Pharmacy, Faculty of Pharmaceutical Sciences, University of Sao Paulo, Sao Paulo, SP 05508-000 (Brazil); Matos, Jivaldo do Rosario [Department of Fundamental Chemistry, Institute of Chemistry, University of Sao Paulo, Sao Paulo, SP 05508-000 (Brazil); Mercuri, Lucildes Pita [Department of Exact and Earth Sciences, Federal University of Sao Paulo, Diadema, SP 09972-270 (Brazil); Braz, Andre Borges [Department of Engineering of Mines and Oil, Polytechnical School, University of Sao Paulo, SP 05508-900 (Brazil); Rossetti, Fabia Cristina [Department of Pharmaceutical Sciences, Faculty of Pharmaceutical Sciences of Ribeirao Preto, University of Sao Paulo, Ribeirao Preto, SP 14015-120 (Brazil); Kedor-Hackmann, Erika Rosa Maria; Santoro, Maria Ines Rocha Miritello [Department of Pharmacy, Faculty of Pharmaceutical Sciences, University of Sao Paulo, Sao Paulo, SP 05508-000 (Brazil)

    2010-06-10

    Isotretinoin is the drug of choice for the management of severe recalcitrant nodular acne. Nevertheless, some of its physical-chemical properties are still poorly known. Hence, the aim of our study consisted to comparatively evaluate the particle size distribution (PSD) and characterize the thermal behavior of the three encapsulated isotretinoin products in oil suspension (one reference and two generics) commercialized in Brazil. Here, we show that the PSD, estimated by laser diffraction and by polarized light microscopy, differed between the generics and the reference product. However, the thermal behavior of the three products, determined by thermogravimetry (TGA), differential thermal (DTA) analyses and differential scanning calorimetry (DSC), displayed no significant changes and were more thermostable than the isotretinoin standard used as internal control. Thus, our study suggests that PSD analyses in isotretinoin lipid-based formulations should be routinely performed in order to improve their quality and bioavailability.

  10. Analyse comparative du traitement de l'exposé oral dans des moyens d'enseignement québécois et suisses romands

    OpenAIRE

    Gagnon, Roxane

    2007-01-01

    A l'aide d'une grille d'analyse inspirée des propositions de la didactique du français langue première, l'auteure compare le traitement didactique d'un genre oral, l'exposé, dans des moyens d'enseignement québécois (des maisons d'édition du CEC et de HRW) et suisses romands (COROME). Les résultats de cette analyse critique montrent que les séquences didactiques de COROME élaborées sous la direction des didacticiens DOlz, Noverraz et Schneuwly répondent davantage aux exigences d'un enseignemen...

  11. Evolving Greenhouses : An Agent-Based Model of Universal Darwinism in Greenhouse Horticulture

    NARCIS (Netherlands)

    Kasmire, J.; Nikolic, Igor; Dijkema, Gerard

    2013-01-01

    To explore the space between the theories of the Diffusion of Innovations and Universal Darwinism, we first examine a case study of the history of the greenhouse horticulture sector of the Netherlands, comparing and contrasting the narrow focus of Diffusion of Innovations and the wider focus of Univ

  12. Energy saving in greenhouses can be obtained by energy balance-controlled screens

    Energy Technology Data Exchange (ETDEWEB)

    Andersson, N. E. (Univ. of Aarhus, Faculty of Agricultural Sciences, Dept. of Horticulture, Aarslev (Denmark)), e-mail: niels.andersson@agrsci.dk

    2011-03-15

    The energy screens in two greenhouses, one clad with double acrylic and one with single glass, were controlled by an energy balance model. The parameters in the model were heat transmission coefficients, air temperature in the greenhouse and outdoors, irradiance and a single constant for the solar energy efficiency. The energy consumption, screen movements and daily light integral were compared with a glass greenhouse in which the energy screens were controlled by irradiance. In the greenhouse with light-controlled screens the set point for opening and closing of the screens was 5 Wm-2. The energy-saving screens controlled by the energy balance model opened later and closed earlier than in the greenhouse with light-controlled screens. When using the energy balance model the energy saving was 14% for the glass greenhouse and 41% for the double acrylic greenhouse compared with the glass greenhouse with light-controlled screens. The air temperature was on average similar in the three greenhouses, but when the screens were controlled by energy balance the daily light integral was approximately 10% lower and the number of hours the screens were closed was prolonged with 35% for the glass-covered greenhouse and 25% for the double acrylic-covered greenhouse compared with the greenhouse with light-controlled screens. Energy peaks in connection with operation of the screens were not reduced. During the experiment Begonia elatior, Dendranthema grandiflora (Chrysanthemum), Hedera helix, Helianthus annuus, Gerbera jamesonii and Kalanchoe blossfeldiana were grown in the greenhouses. There was a trend in prolongation of the production time when the plants were grown in the glass greenhouse with energy balance control of the screens. A lower number of flowers or inflorescences were observed for some of the plant species produced in the greenhouses with energy balance-controlled screens

  13. Genus-Wide Comparative Genome Analyses of Colletotrichum Species Reveal Specific Gene Family Losses and Gains during Adaptation to Specific Infection Lifestyles.

    Science.gov (United States)

    Gan, Pamela; Narusaka, Mari; Kumakura, Naoyoshi; Tsushima, Ayako; Takano, Yoshitaka; Narusaka, Yoshihiro; Shirasu, Ken

    2016-05-22

    Members from Colletotrichum genus adopt a diverse range of lifestyles during infection of plants and represent a group of agriculturally devastating pathogens. In this study, we present the draft genome of Colletotrichum incanum from the spaethianum clade of Colletotrichum and the comparative analyses with five other Colletotrichum species from distinct lineages. We show that the C. incanum strain, originally isolated from Japanese daikon radish, is able to infect both eudicot plants, such as certain ecotypes of the eudicot Arabidopsis, and monocot plants, such as lily. Being closely related to Colletotrichum species both in the graminicola clade, whose members are restricted strictly to monocot hosts, and to the destructivum clade, whose members are mostly associated with dicot infections, C. incanum provides an interesting model system for comparative genomics to study how fungal pathogens adapt to monocot and dicot hosts. Genus-wide comparative genome analyses reveal that Colletotrichum species have tailored profiles of their carbohydrate-degrading enzymes according to their infection lifestyles. In addition, we show evidence that positive selection acting on secreted and nuclear localized proteins that are highly conserved may be important in adaptation to specific hosts or ecological niches. © The Author 2016. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution.

  14. Localisation of nursery areas based on comparative analyses of the horizontal and vertical distribution patterns of juvenile Baltic cod (Gadus morhua)

    DEFF Research Database (Denmark)

    Nielsen, J. Rasmus; Lundgren, Bo; Kristensen, Kasper

    2013-01-01

    Baltic cod are determined, and their nursery areas are localised according to the environmental factors affecting them. Comparative statistical analyses of biological, hydrographic and hydroacoustic data are carried out based on standard ICES demersal trawl surveys and special integrated trawl...... patterns related to the seabed topography, water layer depth, and the presence of hydrographic frontal zones (pycnoclines) as well as intraspecific patterns in relation to the presence of adult cod. The extent of the nursery areas also depends on the cod year class strength. Juvenile cod (≥3 cm...

  15. The state of greenhouse gases in the atmosphere using global observations through 2014

    Science.gov (United States)

    Tarasova, Oksana; Koide, Hiroshi; Dlugokencky, Ed

    2016-04-01

    We present results from the eleventh annual Greenhouse Gas Bulletin (http://www.wmo.int/pages/prog/arep/gaw/ghg/GHGbulletin.html) of the World Meteorological Organization (WMO). The results are based on research and observations performed by laboratories contributing to the WMO Global Atmosphere Watch (GAW) Programme (www.wmo.int/gaw). The Bulletin presents results of global analyses of observational data collected according to GAW recommended practices and submitted to the World Data Center for Greenhouse Gases (WDCGG). Bulletins are prepared by the WMO/GAW Scientific Advisory Group for Greenhouse Gases (http://www.wmo.int/pages/prog/arep/gaw/ScientificAdvisoryGroups.html) in collaboration with WDCGG. Observations used for global analysis are collected at more than 100 marine and terrestrial sites worldwide for CO2 and CH4 and at a smaller number of sites for other greenhouse gases. Globally averaged dry-air mole fractions of CO2, CH4 and N2O derived from this network reached new highs in 2014, at 397.7±0.1 ppm, 1833±1 ppb and 327.1±0.1 ppb respectively. These values constitute 143%, 254% and 121% of pre-industrial (before 1750) levels. The atmospheric increase of CO2 from 2013 to 2014 was 1.9 ppm, which is smaller than the increase from 2012 to 2013 and the average growth rate for the past decade (˜2.06 ppm per year), but larger than the average growth rate for the 1990s (˜1.5 ppm per year). Smaller growth in 2014 compared with other recent years is most likely related to a relatively small net change in large fluxes between the atmosphere and terrestrial biosphere. The rise of atmospheric CO2 has been only about a half of what is expected if all excess CO2 from burning fossil-fuels stayed in the air. The other half has been absorbed by the land biosphere and the oceans, leading to ocean acidification. For both CH4 and N2O the increases from 2013 to 2014 were larger than those observed from 2012 to 2013 and the mean rates over the past 10 years. The National

  16. (Limiting the greenhouse effect)

    Energy Technology Data Exchange (ETDEWEB)

    Rayner, S.

    1991-01-07

    Traveler attended the Dahlem Research Conference organized by the Freien Universitat, Berlin. The subject of the conference was Limiting the Greenhouse Effect: Options for Controlling Atmospheric CO{sub 2} Accumulation. Like all Dahlem workshops, this was a meeting of scientific experts, although the disciplines represented were broader than usual, ranging across anthropology, economics, international relations, forestry, engineering, and atmospheric chemistry. Participation by scientists from developing countries was limited. The conference was divided into four multidisciplinary working groups. Traveler acted as moderator for Group 3 which examined the question What knowledge is required to tackle the principal social and institutional barriers to reducing CO{sub 2} emissions'' The working rapporteur was Jesse Ausubel of Rockefeller University. Other working groups examined the economic costs, benefits, and technical feasibility of options to reduce emissions per unit of energy service; the options for reducing energy use per unit of GNP; and the significant of linkage between strategies to reduce CO{sub 2} emissions and other goals. Draft reports of the working groups are appended. Overall, the conference identified a number of important research needs in all four areas. It may prove particularly important in bringing the social and institutional research needs relevant to climate change closer to the forefront of the scientific and policy communities than hitherto.

  17. Who needs labs and who needs statins? Comparative and cost effectiveness analyses of non-laboratory-based, laboratory-based, and staged primary cardiovascular disease screening guidelines

    Science.gov (United States)

    Pandya, Ankur; Weinstein, Milton C.; Salomon, Joshua A.; Cutler, David; Gaziano, Thomas A.

    2014-01-01

    Background Early detection and treatment of cardiovascular disease (CVD) risk factors produces significant clinical benefits, but no consensus exists on optimal screening algorithms. This study aimed to evaluate the comparative and cost effectiveness of staged laboratory-based and non-laboratory-based total cardiovascular disease risk assessment. Methods and Results We used receiver operating characteristic (ROC) curve and cost-effectiveness modeling methods to compare strategies with and without laboratory components, and using single-stage and multistage algorithms, including approaches based on Framingham risk scores (laboratory-based assessments for all individuals). Analyses were conducted using data from 5,998 adults in the Third National Health and Nutrition Examination Survey without history of CVD, using 10-year CVD death as the main outcome. A micro-simulation model projected lifetime costs, quality-adjusted life years (QALYs), and incremental cost-effectiveness ratios (ICERs) for 60 Framingham-based, non-laboratory-based, and staged screening approaches. Across strategies the area under the ROC curve (AUC) was 0.774–0.780 in men and 0.812–0.834 in women. There were no statistically significant differences in AUC between multistage and Framingham-based approaches. In cost-effectiveness analyses, multistage strategies had ICERs of $52,000/QALY and $83,000/QALY for men and women, respectively. Single-stage/Framingham-based strategies were dominated (higher cost and lower QALYs) or had unattractive ICERs (>$300,000/QALY) compared to single-stage/non-laboratory-based and multistage approaches. Conclusions Non-laboratory-based CVD risk assessment can be useful in primary CVD prevention, as a substitute for laboratory-based assessments or as the initial component of a multistage approach. Cost-effective multistage screening strategies could avoid 25–75% of laboratory testing used in CVD risk screening with predictive power comparable to Framingham risks

  18. Cardiopulmonary Disease Development in Anti-RNA Polymerase III-positive Systemic Sclerosis: Comparative Analyses from an Unselected, Prospective Patient Cohort.

    Science.gov (United States)

    Hoffmann-Vold, Anna-Maria; Midtvedt, Øyvind; Tennøe, Anders H; Garen, Torhild; Lund, May Brit; Aaløkken, Trond M; Andreassen, Arne K; Elhage, Fadi; Brunborg, Cathrine; Taraldsrud, Eli; Molberg, Øyvind

    2017-04-01

    Extensive skin disease and renal crisis are hallmarks of anti-RNA polymerase III (RNAP)-positive systemic sclerosis (SSc), while lung and heart involvement data are conflicting. Here, the aims were to perform time-course analyses of interstitial lung disease (ILD) and pulmonary hypertension (PH) in the RNAP subset of a prospective unselected SSc cohort and to use the other autoantibody subsets as comparators. The study cohort included 279 patients with SSc from the observational Oslo University Hospital cohort with complete data on (1) SSc-related autoantibodies, (2) paired, serial analyses of lung function and fibrosis by computed tomography, and (3) PH verified by right heart catheterization. RNAP was positive in 33 patients (12%), 79% of which had diffuse cutaneous SSc. Pulmonary findings were heterogeneous; 49% had no signs of fibrosis while 18% had > 20% fibrosis at followup. Forced vital capacity at followup was ATA; 47%), but higher than anticentromere (ACA; 13%). Accumulated frequency of PH in the RNAP subset (12%) was lower than in ACA (18%). At 93% and 78%, the 5- and 10-year survival rates in RNAP were comparable to the ATA and ACA subsets. In this cohort, the RNAP subset was marked by cardiopulmonary heterogeneity, ranging from mild ILD to development of severe ILD in 18%, and PH development in 12%. These data indicate that cardiopulmonary risk stratification early in the disease course is particularly important in RNAP-positive SSc.

  19. Greenhouses and their humanizing synergies

    Science.gov (United States)

    Haeuplik-Meusburger, Sandra; Paterson, Carrie; Schubert, Daniel; Zabel, Paul

    2014-03-01

    Greenhouses in space will require advanced technical systems of automatic watering, soil-less cultivation, artificial lighting, and computerized observation of plants. Functions discussed for plants in space habitats include physical/health requirements and human psychology, social cohesion, as well as the complex sensorial benefits of plants for humans. The authors consider the role of plants in long-term space missions historically since 1971 (Salyut 1) and propose a set of priorities to be considered within the design requirements for greenhouses and constructed environments given a range of benefits associated with plant-human relationships. They cite recent research into the use of greenhouses in extreme environments to reveal the relative importance of greenhouses for people living in isolated locations. Additionally, they put forward hypotheses about where greenhouses might factor into several strata of human health. In a recent design-in-use study of astronauts' experiences in space habitats discussed in Architecture for Astronauts (Springer Press 2011) it was found that besides the basic advantages for life support there are clearly additional "side benefits" for habitability and physical wellbeing, and thus long-term mission success. The authors have composed several key theses regarding the need to promote plant-human relationships in space, including areas where synergy and symbiosis occur. They cite new comprehensive research into the early US Space Program to reveal where programmatic requirements could be added to space architecture to increase the less quantifiable benefits to astronauts of art, recreation, and poetic engagement with their existential condition of estrangement from the planet. Specifically in terms of the technological requirements, the authors propose the integration of a new greenhouse subsystem component into space greenhouses—the Mobile Plant Cultivation Subsystem—a portable, personal greenhouse that can be integrated

  20. Comparative Climate Responses of Anthropogenic Greenhouse Gases, All Major Aerosol Components, Black Carbon, and Methane, Accounting for the Evolution of the Aerosol Mixing State and of Clouds/Precipitation from Multiple Aerosol Size Distributions

    Science.gov (United States)

    Jacobson, M. Z.

    2005-12-01

    Several modeling studies to date have simulated the global climate response of anthropogenic greenhouse gases and bulk (non-size-resolved) sulfate or generic aerosol particles together, but no study has examined the climate response of greenhouse gases simultaneously with all major size- and composition resolved aerosol particle components. Such a study is important for improving our understanding of the effects of anthropogenic pollutants on climate. Here, the GATOR-GCMOM model is used to study the global climate response of (a) all major greenhouse gases and size-resolved aerosol components, (b) all major greenhouse gases alone, (c) fossil-fuel soot (black carbon, primary organic matter, sulfuric acid, bisulfate, sulfate), and (d) methane. Aerosol components treated in all simulations included water, black carbon, primary organic carbon, secondary organic carbon, sulfuric acid, bisulfate, sulfate, nitrate, chloride, ammonium, sodium, hydrogen ion, soil dust, and pollen/spores. Fossil-fuel soot (FFS) was emitted into its own size distribution. All other components, including biofuel and biomass soot, sea-spray, soil dust, etc., were emitted into a second distribution (MIX). The FFS distribution grew by condensation of secondary organic matter and sulfuric acid, hydration of water, and dissolution of nitric acid, ammonia, and hydrochloric acid. It self-coagulated and heterocoagulated with the MIX distribution, which also grew by condensation, hydration, and dissolution. Treatment of separate distributions for FFS allowed FFS to evolve from an external mixture to an internal mixture. In both distributions, black carbon was treated as a core component for optical calculations. Both aerosol distributions served as CCN during explicit size-resolved cloud formation. The resulting clouds grew by coagulation and condensation, coagulated with interstitial aerosol particles, and fell to the surface as rain and snow, carrying aerosol constituents with them. Thus, cloud

  1. Greenhouse Earth: A Traveling Exhibition

    Energy Technology Data Exchange (ETDEWEB)

    Booth, W.H.; Caesar, S.

    1992-09-01

    The Franklin Institute Science Museum provided an exhibit entitled the Greenhouse Earth: A Traveling Exhibition. This 3500 square-foot exhibit on global climate change was developed in collaboration with the Association of Science-Technology Centers. The exhibit opened at The Franklin Institute on February 14, 1992, welcoming 291,000 visitors over its three-month stay. During its three-year tour, Greenhouse Earth will travel to ten US cities, reaching two million visitors. Greenhouse Earth aims to deepen public understanding of the scientific issues of global warming and the conservation measures that can be taken to slow its effects. The exhibit features hands-on exhibitry, interactive computer programs and videos, a theater production, a demonstration cart,'' guided tours, and lectures. supplemental educational programs at the Institute included a teachers preview, a symposium on climate change, and a satellite field trip.'' The development of Greenhouse Earth included front-end and formative evaluation procedures. Evaluation includes interviews with visitors, prototypes, and summative surveys for participating museums. During its stay in Philadelphia, Greenhouse Earth was covered by the local and national press, with reviews in print and broadcast media. Greenhouse Earth is the first large-scale museum exhibit to address global climate change.

  2. Advancing agricultural greenhouse gas quantification*

    Science.gov (United States)

    Olander, Lydia; Wollenberg, Eva; Tubiello, Francesco; Herold, Martin

    2013-03-01

    1. Introduction Better information on greenhouse gas (GHG) emissions and mitigation potential in the agricultural sector is necessary to manage these emissions and identify responses that are consistent with the food security and economic development priorities of countries. Critical activity data (what crops or livestock are managed in what way) are poor or lacking for many agricultural systems, especially in developing countries. In addition, the currently available methods for quantifying emissions and mitigation are often too expensive or complex or not sufficiently user friendly for widespread use. The purpose of this focus issue is to capture the state of the art in quantifying greenhouse gases from agricultural systems, with the goal of better understanding our current capabilities and near-term potential for improvement, with particular attention to quantification issues relevant to smallholders in developing countries. This work is timely in light of international discussions and negotiations around how agriculture should be included in efforts to reduce and adapt to climate change impacts, and considering that significant climate financing to developing countries in post-2012 agreements may be linked to their increased ability to identify and report GHG emissions (Murphy et al 2010, CCAFS 2011, FAO 2011). 2. Agriculture and climate change mitigation The main agricultural GHGs—methane and nitrous oxide—account for 10%-12% of anthropogenic emissions globally (Smith et al 2008), or around 50% and 60% of total anthropogenic methane and nitrous oxide emissions, respectively, in 2005. Net carbon dioxide fluxes between agricultural land and the atmosphere linked to food production are relatively small, although significant carbon emissions are associated with degradation of organic soils for plantations in tropical regions (Smith et al 2007, FAO 2012). Population growth and shifts in dietary patterns toward more meat and dairy consumption will lead to

  3. Greenhouse gas emissions in Canada and Japan: sector-specific estimates and managerial and economic implications.

    Science.gov (United States)

    Hayami, Hitoshi; Nakamura, Masao

    2007-10-01

    Many firms generate large amounts of carbon dioxide and other greenhouse gases when they burn fossil fuels in their production processes. In addition, production of raw materials and other inputs the firms procure for their operations also generates greenhouse gases indirectly. These direct and indirect greenhouse gas emissions occur in many sectors of our economies. In this paper, we first present sector-specific estimates for such greenhouse gas emissions. We then show that estimates for such sector-specific greenhouse gas emissions are often required for various types of corporate as well as public policy analyses in both domestic and international contexts. Measuring greenhouse gas emissions resulting from firms' multi-stage production processes in a multi-sector context is relevant for policies related to the Kyoto protocol, an international agreement to limit global greenhouse gas emissions. For example, since the protocol allows firms to engage in trading and offsetting of their greenhouse gas emissions across national borders, provided that emissions are correctly measured, the firms can take advantage of such trading schemes by placing their energy-intensive production facilities globally and strategically. We present several case studies which illustrate the importance of this and other aspects of greenhouse gas emissions in firms' environmental management. We also argue that our modeling and estimation methods based on input-output analyses are suitable for the types of research goals we have in this paper. Our methods are applied to data for Canada and Japan in a variety of environmental management circumstances.

  4. Efficacy and tolerability of naproxen/esomeprazole magnesium tablets compared with non-specific NSAIDs and COX-2 inhibitors: a systematic review and network analyses

    Directory of Open Access Journals (Sweden)

    Datto C

    2013-02-01

    Full Text Available Catherine Datto,1 Richard Hellmund,1 Mohd Kashif Siddiqui21AstraZeneca Pharmaceuticals LP, Wilmington, DE, USA; 2HERON PVT India, Chandigarh, UT, IndiaAbstract: Non-steroidal anti-inflammatory drugs (NSAIDs, such as non-selective NSAIDs (nsNSAIDs or selective cyclooxygenase-2 (COX-2 inhibitors, are commonly prescribed for arthritic pain relief in patients with osteoarthritis (OA, rheumatoid arthritis (RA, or ankylosing spondylitis (AS. Treatment guidelines for chronic NSAID therapy include the consideration for gastroprotection for those at risk of gastric ulcers (GUs associated with the chronic NSAID therapy. The United States Food and Drug Administration has approved naproxen/esomeprazole magnesium tablets for the relief of signs and symptoms of OA, RA, and AS, and to decrease the risk of developing GUs in patients at risk of developing NSAID-associated GUs. The European Medical Association has approved this therapy for the symptomatic treatment of OA, RA, and AS in patients who are at risk of developing NSAID-associated GUs and/or duodenal ulcers, for whom treatment with lower doses of naproxen or other NSAIDs is not considered sufficient. Naproxen/esomeprazole magnesium tablets have been compared with naproxen and celecoxib for these indications in head-to-head trials. This systematic literature review and network meta-analyses of data from randomized controlled trials was performed to compare naproxen/esomeprazole magnesium tablets with a number of additional relevant comparators. For this study, an original review examined MEDLINE®, Embase®, and the Cochrane Controlled Trials Register from database start to April 14, 2009. Using the same methodology, a review update was conducted to December 21, 2009. The systematic review and network analyses showed naproxen/esomeprazole magnesium tablets have an improved upper gastrointestinal tolerability profile (dyspepsia and gastric or gastroduodenal ulcers over several active comparators (naproxen

  5. Comparative Proteomic, Physiological, Morphological, and Biochemical Analyses Reveal the Characteristics of the Diploid Spermatozoa of Allotetraploid Hybrids of Red Crucian Carp (Carassius auratus) and Common Carp (Cyprinus carpio).

    Science.gov (United States)

    Duan, Wei; Xu, Kang; Hu, Fangzhou; Zhang, Yi; Wen, Ming; Wang, Jing; Tao, Min; Luo, Kaikun; Zhao, Rurong; Qin, Qinbo; Zhang, Chun; Liu, Jinhui; Liu, Yun; Liu, Shaojun

    2016-02-01

    The generation of diploid spermatozoa is essential for the continuity of tetraploid lineages. The DNA content of diploid spermatozoa from allotetraploid hybrids of red crucian carp and common carp was nearly twice as great as that of haploid spermatozoa from common carp, and the durations of rapid and slow progressive motility were longer. We performed comparative proteomic analyses to measure variations in protein composition between diploid and haploid spermatozoa. Using two-dimensional electrophoresis followed by liquid chromatography tandem mass spectrometry, 21 protein spots that changed in abundance were analyzed. As the common carp and the allotetraploid hybrids are not fully sequenced organisms, we identified proteins by Mascot searching against the National Center for Biotechnology Information non-redundant (NR) protein database for the zebrafish (Danio rerio), and verified them against predicted homologous proteins derived from transcriptomes of the testis. Twenty protein spots were identified successfully, belonging to four gene ontogeny categories: cytoskeleton, energy metabolism, the ubiquitin-proteasome system, and other functions, indicating that these might be associated with the variation in diploid spermatozoa. This categorization of variations in protein composition in diploid spermatozoa will provide new perspectives on male polyploidy. Moreover, our approach indicates that transcriptome data are useful for proteomic analyses in organisms lacking full protein sequences.

  6. Morphological, physiological and proteomic analyses provide insights into the improvement of castor bean productivity of a dwarf variety in comparing with a high-stalk variety

    Directory of Open Access Journals (Sweden)

    Wenjun Hu

    2016-09-01

    Full Text Available Ricinus communis displays a broad range of phenotypic diversity in size, with dwarf, common, and large-sized varieties. To better understand the differences in plant productivity between a high-stalk variety and a dwarf variety under normal growth conditions, we carried out a comparative proteomic study between Zhebi 100 (a high stalk variety and Zhebi 26 (a dwarf variety combined with agronomic and physiological analyses. Over 1000 proteins were detected, 38 of which differed significantly between the two varieties and were identified by mass spectrometry. Compared with Zhebi 100, we found that photosynthesis, energy, and protein biosynthesis related proteins decreased in abundance in Zhebi 26. The lower yield of the dwarf castor is likely related to its lower photosynthetic rate, therefore we hypothesize that the lower yield of the dwarf castor, in comparing to high stalk castor, could be increased by increasing planting density. Consequently, we demonstrated that at the higher planting density in Zhebi 26 (36,000 seedlings/hm² can achieve a higher yield than that of Zhebi 100 (12,000 seedlings/hm². Proteomic and physiological studies showed that for developing dwarf R. communis cultivar that is suitable for large scale-production (i.e. mechanical harvesting, it is imperative to identify the optimum planting density that will contribute to higher leaf area index, higher photosynthesis, and eventually higher productivity.

  7. Comparative genomic and proteomic analyses of Clostridium acetobutylicum Rh8 and its parent strain DSM 1731 revealed new understandings on butanol tolerance.

    Science.gov (United States)

    Bao, Guanhui; Dong, Hongjun; Zhu, Yan; Mao, Shaoming; Zhang, Tianrui; Zhang, Yanping; Chen, Zugen; Li, Yin

    2014-08-08

    Clostridium acetobutylicum strain Rh8 is a butanol-tolerant mutant which can tolerate up to 19g/L butanol, 46% higher than that of its parent strain DSM 1731. We previously performed comparative cytoplasm- and membrane-proteomic analyses to understand the mechanism underlying the improved butanol tolerance of strain Rh8. In this work, we further extended this comparison to the genomic level. Compared with the genome of the parent strain DSM 1731, two insertion sites, four deletion sites, and 67 single nucleotide variations (SNVs) are distributed throughout the genome of strain Rh8. Among the 67 SNVs, 16 SNVs are located in the predicted promoters and intergenic regions; while 29 SNVs are located in the coding sequence, affecting a total of 21 proteins involved in transport, cell structure, DNA replication, and protein translation. The remaining 22 SNVs are located in the ribosomal genes, affecting a total of 12 rRNA genes in different operons. Analysis of previous comparative proteomic data indicated that none of the differentially expressed proteins have mutations in its corresponding genes. Rchange Algorithms analysis indicated that the mutations occurred in the ribosomal genes might change the ribosome RNA thermodynamic characteristics, thus affect the translation strength of these proteins. Take together, the improved butanol tolerance of C. acetobutylicum strain Rh8 might be acquired through regulating the translational process to achieve different expression strength of genes involved in butanol tolerance. Copyright © 2014 Elsevier Inc. All rights reserved.

  8. Comparative analyses of genetic risk prediction methods reveal extreme diversity of genetic predisposition to nonalcoholic fatty liver disease (NAFLD) among ethnic populations of India.

    Science.gov (United States)

    Chatterjee, Ankita; Basu, Analabha; Chowdhury, Abhijit; Das, Kausik; Sarkar-Roy, Neeta; Majumder, Partha P; Basu, Priyadarshi

    2015-03-01

    Nonalcoholic fatty liver disease (NAFLD) is a distinct pathologic condition characterized by a disease spectrum ranging from simple steatosis to steato-hepatitis, cirrhosis and hepatocellular carcinoma. Prevalence of NAFLD varies in different ethnic groups, ranging from 12% in Chinese to 45% in Hispanics. Among Indian populations, the diversity in prevalence is high, ranging from 9% in rural populations to 32% in urban populations, with geographic differences as well. Here, we wished to find out if this difference is reflected in their genetic makeup. To date, several candidate genes and a few genomewide association studies (GWAS) have been carried out, and many associations between single nucleotide polymorphisms (SNPs) and NAFLD have been observed. In this study, the risk allele frequencies (RAFs) of NAFLD-associated SNPs in 20 Indian ethnic populations (376 individuals) were analysed. We used two different measures for calculating genetic risk scores and compared their performance. The correlation of additive risk scores of NAFLD for three Hapmap populations with their weighted mean prevalence was found to be high (R(2) = 0.93). Later we used this method to compare NAFLD risk among ethnic Indian populations. Based on our observation, the Indian caste populations have high risk scores compared to Caucasians, who are often used as surrogate and similar to Indian caste population in disease gene association studies, and is significantly higher than the Indian tribal populations.

  9. Comparative analyses of genetic risk prediction methods reveal extreme diversity of genetic predisposition to nonalcoholic fatty liver disease (NAFLD) among ethnic populations of India

    Indian Academy of Sciences (India)

    Ankita Chatterjee; Analabha Basu; Abhijit Chowdhury; Kausik Das; Neeta Sarkar-Roy; Partha P. Majumder; Priyadarshi Basu

    2015-03-01

    Nonalcoholic fatty liver disease (NAFLD) is a distinct pathologic condition characterized by a disease spectrum ranging from simple steatosis to steato-hepatitis, cirrhosis and hepatocellular carcinoma. Prevalence of NAFLD varies in different ethnic groups, ranging from 12% in Chinese to 45% in Hispanics. Among Indian populations, the diversity in prevalence is high, ranging from 9% in rural populations to 32% in urban populations, with geographic differences as well. Here, we wished to find out if this difference is reflected in their genetic makeup. To date, several candidate genes and a few genomewide association studies (GWAS) have been carried out, and many associations between single nucleotide polymorphisms (SNPs) and NAFLD have been observed. In this study, the risk allele frequencies (RAFs) of NAFLD-associated SNPs in 20 Indian ethnic populations (376 individuals) were analysed. We used two different measures for calculating genetic risk scores and compared their performance. The correlation of additive risk scores of NAFLD for three Hapmap populations with their weighted mean prevalence was found to be high (2 = 0.93). Later we used this method to compare NAFLD risk among ethnic Indian populations. Based on our observation, the Indian caste populations have high risk scores compared to Caucasians, who are often used as surrogate and similar to Indian caste population in disease gene association studies, and is significantly higher than the Indian tribal populations.

  10. Morphological, Physiological and Proteomic Analyses Provide Insights into the Improvement of Castor Bean Productivity of a Dwarf Variety in Comparing with a High-Stalk Variety

    Science.gov (United States)

    Hu, Wenjun; Chen, Lin; Qiu, Xiaoyun; Lu, Hongling; Wei, Jia; Bai, Yueqing; He, Ningjia; Hu, Rongbin; Sun, Li; Zhang, Hong; Shen, Guoxin

    2016-01-01

    Ricinus communis displays a broad range of phenotypic diversity in size, with dwarf, common, and large-sized varieties. To better understand the differences in plant productivity between a high-stalk variety and a dwarf variety under normal growth conditions, we carried out a comparative proteomic study between Zhebi 100 (a high stalk variety) and Zhebi 26 (a dwarf variety) combined with agronomic and physiological analyses. Over 1000 proteins were detected, 38 of which differed significantly between the two varieties and were identified by mass spectrometry. Compared with Zhebi 100, we found that photosynthesis, energy, and protein biosynthesis related proteins decreased in abundance in Zhebi 26. The lower yield of the dwarf castor is likely related to its lower photosynthetic rate, therefore we hypothesize that the lower yield of the dwarf castor, in comparing to high stalk castor, could be increased by increasing planting density. Consequently, we demonstrated that at the higher planting density in Zhebi 26 (36,000 seedlings/hm2) can achieve a higher yield than that of Zhebi 100 (12,000 seedlings/hm2). Proteomic and physiological studies showed that for developing dwarf R. communis cultivar that is suitable for large scale-production (i.e., mechanical harvesting), it is imperative to identify the optimum planting density that will contribute to higher leaf area index, higher photosynthesis, and eventually higher productivity.

  11. Fédéralisme et droits des LGBT aux États-Unis et au Canada : analyse comparatives des politiques

    OpenAIRE

    Miriam Smith

    2014-01-01

    L’article examine le militantisme LGBT et les résultats des politiques en matière de droit pénal et du mariage entre personnes de même sexe de 1969 à aujourd’hui, dans le cadre d’une analyse comparée du fédéralisme aux États-Unis et au Canada. Nous soutiendrons que le fédéralisme a grandement façonné les politiques publiques relatives aux droits des LGBT. Dans le régime américain, le potentiel d’expansion du fédéralisme a favorisé les changements graduels de politiques dans les États et, para...

  12. Fédéralisme et droits des LGBT aux États-Unis et au Canada : analyse comparatives des politiques

    OpenAIRE

    Miriam Smith

    2014-01-01

    L’article examine le militantisme LGBT et les résultats des politiques en matière de droit pénal et du mariage entre personnes de même sexe de 1969 à aujourd’hui, dans le cadre d’une analyse comparée du fédéralisme aux États-Unis et au Canada. Nous soutiendrons que le fédéralisme a grandement façonné les politiques publiques relatives aux droits des LGBT. Dans le régime américain, le potentiel d’expansion du fédéralisme a favorisé les changements graduels de politiques dans les États et, para...

  13. Should processed or raw image data be used in mammographic image quality analyses? A comparative study of three full-field digital mammography systems.

    Science.gov (United States)

    Borg, Mark; Badr, Ishmail; Royle, Gary

    2015-01-01

    The purpose of this study is to compare a number of measured image quality parameters using processed and unprocessed or raw images in two full-field direct digital units and one computed radiography mammography system. This study shows that the difference between raw and processed image data is system specific. The results have shown that there are no significant differences between raw and processed data in the mean threshold contrast values using the contrast-detail mammography phantom in all the systems investigated; however, these results cannot be generalised to all available systems. Notable differences were noted in contrast-to-noise ratios and in other tests including: response function, modulation transfer function , noise equivalent quanta, normalised noise power spectra and detective quantum efficiency as specified in IEC 62220-1-2. Consequently, the authors strongly recommend the use of raw data for all image quality analyses in digital mammography.

  14. Comparative molecular analyses of Borrelia burgdorferi sensu stricto strains B31 and N40D10/E9 and determination of their pathogenicity

    Directory of Open Access Journals (Sweden)

    Chan Kamfai

    2012-07-01

    Full Text Available Abstract Background Lyme disease in the United States is caused primarily by B. burgdorferi sensu stricto while other species are also prevalent in Europe. Genetic techniques have identified several chromosomal and plasmid-borne regulatory and virulence factors involved in Lyme pathogenesis. B31 and N40 are two widely studied strains of B. burgdorferi, which belong to two different 16 S-23 S rRNA spacer types (RST and outer surface protein C (OspC allelic groups. However, the presence of several known virulence factors in N40 has not been investigated. This is the first comprehensive study that compared these two strains both in vitro and using the mouse model of infection. Results Phylogenetic analyses predict B31 to be more infectious. However, our studies here indicate that N40D10/E9 is more infectious than the B31 strain at lower doses of inoculation in the susceptible C3H mice. Based-upon a careful analyses of known adhesins of these strains, it is predicted that the absence of a known fibronectin-glycosaminoglycan binding adhesin, bbk32, in the N40 strain could at least partially be responsible for reduction in its binding to Vero cells in vitro. Nevertheless, this difference does not affect the infectivity of N40D10/E9 strain. The genes encoding known regulatory and virulence factors critical for pathogenesis were detected in both strains. Differences in the protein profiles of these B. burgdorferi strains in vitro suggest that the novel, differentially expressed molecules may affect infectivity of B. burgdorferi. Further exacerbation of these molecular differences in vivo could affect the pathogenesis of spirochete strains. Conclusion Based upon the studies here, it can be predicted that N40D10/E9 disseminated infection at lower doses may be enhanced by its lower binding to epithelial cells at the site of inoculation due to the absence of BBK32. We suggest that complete molecular analyses of virulence factors followed by their evaluation

  15. Characterization and Comparative Genomic Analyses of Pseudomonas aeruginosa Phage PaoP5: New Members Assigned to PAK_P1-like Viruses

    Science.gov (United States)

    Shen, Mengyu; Le, Shuai; Jin, Xiaolin; Li, Gang; Tan, Yinling; Li, Ming; Zhao, Xia; Shen, Wei; Yang, Yuhui; Wang, Jing; Zhu, Hongbin; Li, Shu; Rao, Xiancai; Hu, Fuquan; Lu, Shuguang

    2016-01-01

    As a potential alternative to antibiotics, phages can be used to treat multi-drug resistant bacteria. As such, the biological characteristics of phages should be investigated to utilize them as effective antimicrobial agents. In this study, phage PaoP5, a lytic virus that infects Pseudomonas aeruginosa PAO1, was isolated and genomically characterized. PaoP5 comprises an icosahedral head with an apex diameter of 69 nm and a contractile tail with a length of 120 nm. The PaoP5 genome is a linear dsDNA molecule containing 93,464 base pairs (bp) with 49.51% G + C content of 11 tRNA genes and a 1,200 bp terminal redundancy. A total of 176 protein-coding genes were predicted in the PaoP5 genome. Nine PaoP5 structural proteins were identified. Three hypothetical proteins were determined as structural. Comparative genomic analyses revealed that seven new Pseudomonas phages, namely, PaoP5, K8, C11, vB_PaeM_C2-10_Ab02, vB_PaeM_C2-10_Ab08, vB_PaeM_C2-10_Ab10, and vB_PaeM_C2-10_Ab15, were similar to PAK_P1-like viruses. Phylogenetic and pan-genome analyses suggested that the new phages should be assigned to PAK_P1-like viruses, which possess approximately 100 core genes and 150 accessory genes. This work presents a detailed and comparative analysis of PaoP5 to enhance our understanding of phage biology. PMID:27659070

  16. Horizontal gene transfer in Histophilus somni and its role in the evolution of pathogenic strain 2336, as determined by comparative genomic analyses

    Directory of Open Access Journals (Sweden)

    Siddaramappa Shivakumara

    2011-11-01

    Full Text Available Abstract Background Pneumonia and myocarditis are the most commonly reported diseases due to Histophilus somni, an opportunistic pathogen of the reproductive and respiratory tracts of cattle. Thus far only a few genes involved in metabolic and virulence functions have been identified and characterized in H. somni using traditional methods. Analyses of the genome sequences of several Pasteurellaceae species have provided insights into their biology and evolution. In view of the economic and ecological importance of H. somni, the genome sequence of pneumonia strain 2336 has been determined and compared to that of commensal strain 129Pt and other members of the Pasteurellaceae. Results The chromosome of strain 2336 (2,263,857 bp contained 1,980 protein coding genes, whereas the chromosome of strain 129Pt (2,007,700 bp contained only 1,792 protein coding genes. Although the chromosomes of the two strains differ in size, their average GC content, gene density (total number of genes predicted on the chromosome, and percentage of sequence (number of genes that encodes proteins were similar. The chromosomes of these strains also contained a number of discrete prophage regions and genomic islands. One of the genomic islands in strain 2336 contained genes putatively involved in copper, zinc, and tetracycline resistance. Using the genome sequence data and comparative analyses with other members of the Pasteurellaceae, several H. somni genes that may encode proteins involved in virulence (e.g., filamentous haemaggutinins, adhesins, and polysaccharide biosynthesis/modification enzymes were identified. The two strains contained a total of 17 ORFs that encode putative glycosyltransferases and some of these ORFs had characteristic simple sequence repeats within them. Most of the genes/loci common to both the strains were located in different regions of the two chromosomes and occurred in opposite orientations, indicating genome rearrangement since their

  17. The Greenhouse and Anti-Greenhouse Effects on Titan

    Science.gov (United States)

    McKay, C. P.; Cuzzi, Jeffrey N. (Technical Monitor)

    1994-01-01

    Titan is the largest moon of Saturn and is the only moon in the solar system with a substantial atmosphere. Its atmosphere is mostly made of nitrogen, with a few percent CH4, 0.1% H2 and an uncertain level of Ar (less than 10%). The surface pressure is 1.5 atms and the surface temperature is 95 K, decreasing to 71 at the tropopause before rising to stratospheric temperatures of 180 K. In pressure and composition Titan's atmosphere is the closest twin to Earth's. The surface of Titan remains unknown, hidden by the thick smog layer, but it may be an ocean of liquid methane and ethane. Titan's atmosphere has a greenhouse effect which is much stronger than the Earth's - 92% of the surface warming is due to greenhouse radiation. However an organic smog layer in the upper atmosphere produces an anti-greenhouse effect that cuts the greenhouse warming in half - removing 35% of the incoming solar radiation. Models suggest that during its formation Titan's atmosphere was heated to high temperatures due to accretional energy. This was followed by a cold Triton-like period which gradually warmed to the present conditions. The coupled greenhouse and haze anti-greenhouse may be relevant to recent suggestions for haze shielding of a CH4 - NH3 early atmosphere on Earth or Mars. When the NASA/ESA mission to the Saturn System, Cassini, launches in a few years it will carry a probe that will be sent to the surface of Titan and show us this world that is strange and yet in many ways similar to our own.

  18. Comparative genomic and proteomic analyses of Clostridium acetobutylicum Rh8 and its parent strain DSM 1731 revealed new understandings on butanol tolerance

    Energy Technology Data Exchange (ETDEWEB)

    Bao, Guanhui [CAS Key Laboratory of Microbial Physiological and Metabolic Engineering, Institute of Microbiology, Chinese Academy of Sciences, Beijing (China); University of Chinese Academy of Sciences, Beijing (China); Dong, Hongjun; Zhu, Yan; Mao, Shaoming [CAS Key Laboratory of Microbial Physiological and Metabolic Engineering, Institute of Microbiology, Chinese Academy of Sciences, Beijing (China); Zhang, Tianrui [CAS Key Laboratory of Microbial Physiological and Metabolic Engineering, Institute of Microbiology, Chinese Academy of Sciences, Beijing (China); Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin (China); Zhang, Yanping [CAS Key Laboratory of Microbial Physiological and Metabolic Engineering, Institute of Microbiology, Chinese Academy of Sciences, Beijing (China); Chen, Zugen [Department of Human Genetics, School of Medicine, University of California, Los Angeles, CA 90095 (United States); Li, Yin, E-mail: yli@im.ac.cn [CAS Key Laboratory of Microbial Physiological and Metabolic Engineering, Institute of Microbiology, Chinese Academy of Sciences, Beijing (China)

    2014-08-08

    Highlights: • Genomes of a butanol tolerant strain and its parent strain were deciphered. • Comparative genomic and proteomic was applied to understand butanol tolerance. • None differentially expressed proteins have mutations in its corresponding genes. • Mutations in ribosome might be responsible for the global difference of proteomics. - Abstract: Clostridium acetobutylicum strain Rh8 is a butanol-tolerant mutant which can tolerate up to 19 g/L butanol, 46% higher than that of its parent strain DSM 1731. We previously performed comparative cytoplasm- and membrane-proteomic analyses to understand the mechanism underlying the improved butanol tolerance of strain Rh8. In this work, we further extended this comparison to the genomic level. Compared with the genome of the parent strain DSM 1731, two insertion sites, four deletion sites, and 67 single nucleotide variations (SNVs) are distributed throughout the genome of strain Rh8. Among the 67 SNVs, 16 SNVs are located in the predicted promoters and intergenic regions; while 29 SNVs are located in the coding sequence, affecting a total of 21 proteins involved in transport, cell structure, DNA replication, and protein translation. The remaining 22 SNVs are located in the ribosomal genes, affecting a total of 12 rRNA genes in different operons. Analysis of previous comparative proteomic data indicated that none of the differentially expressed proteins have mutations in its corresponding genes. Rchange Algorithms analysis indicated that the mutations occurred in the ribosomal genes might change the ribosome RNA thermodynamic characteristics, thus affect the translation strength of these proteins. Take together, the improved butanol tolerance of C. acetobutylicum strain Rh8 might be acquired through regulating the translational process to achieve different expression strength of genes involved in butanol tolerance.

  19. Proximate nutrient analyses of four species of submerged aquatic vegetation consumed by Florida manatee (Trichechus manatus latirostris) compared to romaine lettuce (Lactuca sativa var. longifolia).

    Science.gov (United States)

    Siegal-Willott, Jessica L; Harr, Kendal; Hayek, Lee-Ann C; Scott, Karen C; Gerlach, Trevor; Sirois, Paul; Reuter, Mike; Crewz, David W; Hill, Richard C

    2010-12-01

    Free-ranging Florida manatees (Trichechus manatus latirostris) consume a variety of sea grasses and algae. This study compared the dry matter (DM) content, proximate nutrients (crude protein [CP], ether-extracted crude fat [EE], nonfiber carbohydrate [NFC], and ash), and the calculated digestible energy (DE) of sea grasses (Thalassia testudinum, Halodule wrightii, and Syringodium filiforme) collected in spring, summer, and winter, and an alga (Chara sp.) with those of romaine lettuce (Lactuca sativa var. longifolia). Neutral-detergent fiber (NDF), acid-detergent fiber (ADF), and lignin (L) measured after ash-extraction were also compared. Results of statistical tests (C = 0.01) revealed DM content was higher in aquatic vegetation than in lettuce (P = 0.0001), but NDF and ADF were up to threefold greater, EE (P = 0.00001) and CP (P = 0.00001) were 2-9 times less, and NFC (P = 0.0001) was 2-6 times lower in sea grass than in lettuce, on a DM basis. Chara was lower in NDF, ADF, L, EE, CP, and NFC relative to lettuce on a DM basis. Ash content (DM basis) was higher (P = 0.0001), and DE was 2-6 times lower in aquatic vegetation than in lettuce. Sea grass rhizomes had lower L and higher ash contents (DM basis) than sea grass leaves. Based on the nutrient analyses, romaine lettuce and sea grasses are not equivalent forages, which suggests that the current diet of captive Florida manatees should be reassessed.

  20. Dosimetry analyses comparing high-dose-rate brachytherapy, administered as monotherapy for localized prostate cancer, with stereotactic body radiation therapy simulated using CyberKnife.

    Science.gov (United States)

    Fukuda, Shoichi; Seo, Yuji; Shiomi, Hiroya; Yamada, Yuji; Ogata, Toshiyuki; Morimoto, Masahiro; Konishi, Koji; Yoshioka, Yasuo; Ogawa, Kazuhiko

    2014-11-01

    The purpose of this study was to perform dosimetry analyses comparing high-dose-rate brachytherapy (HDR-BT) with simulated stereotactic body radiotherapy (SBRT). We selected six consecutive patients treated with HDR-BT monotherapy in 2010, and a CyberKnife SBRT plan was simulated for each patient using computed tomography images and the contouring set used in the HDR-BT plan for the actual treatment, but adding appropriate planning target volume (PTV) margins for SBRT. Then, dosimetric profiles for PTVs of the rectum, bladder and urethra were compared between the two modalities. The SBRT plan was more homogenous and provided lower dose concentration but better coverage for the PTV. The maximum doses in the rectum were higher in the HDR-BT plans. However, the HDR-BT plan provided a sharper dose fall-off around the PTV, resulting in a significant and considerable difference in volume sparing of the rectum with the appropriate PTV margins added for SBRT. While the rectum D5cm(3) for HDR-BT and SBRT was 30.7 and 38.3 Gy (P urethra. These results suggest that SBRT as an alternative to HDR-BT in hypofractionated radiotherapy for prostate cancer might have an advantage for bladder and urethra dose sparing, but for the rectum only when proper PTV margins for SBRT are adopted.

  1. Comparative Analyses between Skeletal Muscle miRNAomes from Large White and Min Pigs Revealed MicroRNAs Associated with Postnatal Muscle Hypertrophy.

    Science.gov (United States)

    Sheng, Xihui; Wang, Ligang; Ni, Hemin; Wang, Lixian; Qi, Xiaolong; Xing, Shuhan; Guo, Yong

    2016-01-01

    The molecular mechanism regulated by microRNAs (miRNAs) that underlies postnatal hypertrophy of skeletal muscle is complex and remains unclear. Here, the miRNAomes of longissimus dorsi muscle collected at five postnatal stages (60, 120, 150, 180, and 210 days after birth) from Large White (commercial breed) and Min pigs (indigenous breed of China) were analyzed by Illumina sequencing. We identified 734 miRNAs comprising 308 annotated miRNAs and 426 novel miRNAs, of which 307 could be considered pig-specific. Comparative analysis between two breeds suggested that 60 and 120 days after birth were important stages for skeletal muscle hypertrophy and intramuscular fat accumulation. A total of 263 miRNAs were significantly differentially expressed between two breeds at one or more developmental stages. In addition, the differentially expressed miRNAs between every two adjacent developmental stages in each breed were determined. Notably, ssc-miR-204 was significantly more highly expressed in Min pig skeletal muscle at all postnatal stages compared with its expression in Large White pig skeletal muscle. Based on gene ontology and KEGG pathway analyses of its predicted target genes, we concluded that ssc-miR-204 may exert an impact on postnatal hypertrophy of skeletal muscle by regulating myoblast proliferation. The results of this study will help in elucidating the mechanism underlying postnatal hypertrophy of skeletal muscle modulated by miRNAs, which could provide valuable information for improvement of pork quality and human myopathy.

  2. Global warming description using Daisyworld model with greenhouse gases.

    Science.gov (United States)

    Paiva, Susana L D; Savi, Marcelo A; Viola, Flavio M; Leiroz, Albino J K

    2014-11-01

    Daisyworld is an archetypal model of the earth that is able to describe the global regulation that can emerge from the interaction between life and environment. This article proposes a model based on the original Daisyworld considering greenhouse gases emission and absorption, allowing the description of the global warming phenomenon. Global and local analyses are discussed evaluating the influence of greenhouse gases in the planet dynamics. Numerical simulations are carried out showing the general qualitative behavior of the Daisyworld for different scenarios that includes solar luminosity variations and greenhouse gases effect. Nonlinear dynamics perspective is of concern discussing a way that helps the comprehension of the global warming phenomenon. Copyright © 2014 Elsevier Ireland Ltd. All rights reserved.

  3. Comparative mitogenomic analyses of three scallops (Bivalvia: Pectinidae reveal high level variation of genomic organization and a diversity of transfer RNA gene sets

    Directory of Open Access Journals (Sweden)

    Kong Xiaoyu

    2009-05-01

    Full Text Available Abstract Background It can be seen from the available mollusk mitogenomes that the family Pectinidae exhibits the most variation in genome organization. In this study, comparative mitogenomic analyses were performed for three scallops from the subfamily Chlamydinae (Pectinidae, with the goal of characterizing the degree of variability of mitogenome organization and other characteristics among species from the same subfamily and exploring their possible evolution route. Findings The complete or nearly complete mtDNA sequences of scallop Mimachlamys nobilis (17 935 bp, Mizuhopecten yessoensis (20 964 bp and Chlamys farreri (17 035 bp were determined using long PCR amplification and primer walking sequencing strategy. Highly variable size difference of the three genomes resulted primarily from length and number variations of non-coding regions, and the major difference in gene content of the three scallop species are due to varying tRNA gene sets. Only 21, 16, and 17 tRNA genes were detected in the mitogenomes of M. nobilis, M. yessoensis and C. farreri, respectively. Remarkably, no trnS gene could be identified in any of the three scallops. A newly-detected trnA-like sequence within the mitogenome of M. yessoensis seems to exemplify the functional loss of a tRNA gene, and the duplication of trnD in M. yessoensis raises a fundamental question of whether the retention of the tRNA gene copy of 2-tRNAs is easier than that of 4-tRNAs. Analysis of putative evolutionary pathways of gene rearrangement indicates that transposition of neighboring gene blocks may play an important role in the evolution of mitogenomes in scallops. Parsimonious analysis of the genomic variations implies that the mitogenomes of M. yessoensis and C. farreri are likely to derive independently from a common ancestor that was closely related to M. nobilis. Conclusion Comparative mitogenomic analyses among three species from the subfamily Chlamydinae show that the three genomes

  4. A Combined Comparative Transcriptomic, Metabolomic, and Anatomical Analyses of Two Key Domestication Traits: Pod Dehiscence and Seed Dormancy in Pea (Pisum sp.

    Directory of Open Access Journals (Sweden)

    Petr Smýkal

    2017-04-01

    Full Text Available The origin of the agriculture was one of the turning points in human history, and a central part of this was the evolution of new plant forms, domesticated crops. Seed dispersal and germination are two key traits which have been selected to facilitate cultivation and harvesting of crops. The objective of this study was to analyze anatomical structure of seed coat and pod, identify metabolic compounds associated with water-impermeable seed coat and differentially expressed genes involved in pea seed dormancy and pod dehiscence. Comparative anatomical, metabolomics, and transcriptomic analyses were carried out on wild dormant, dehiscent Pisum elatius (JI64, VIR320 and cultivated, indehiscent Pisum sativum non-dormant (JI92, Cameor and recombinant inbred lines (RILs. Considerable differences were found in texture of testa surface, length of macrosclereids, and seed coat thickness. Histochemical and biochemical analyses indicated genotype related variation in composition and heterogeneity of seed coat cell walls within macrosclereids. Liquid chromatography–electrospray ionization/mass spectrometry and Laser desorption/ionization–mass spectrometry of separated seed coats revealed significantly higher contents of proanthocyanidins (dimer and trimer of gallocatechin, quercetin, and myricetin rhamnosides and hydroxylated fatty acids in dormant compared to non-dormant genotypes. Bulk Segregant Analysis coupled to high throughput RNA sequencing resulted in identification of 770 and 148 differentially expressed genes between dormant and non-dormant seeds or dehiscent and indehiscent pods, respectively. The expression of 14 selected dormancy-related genes was studied by qRT-PCR. Of these, expression pattern of four genes: porin (MACE-S082, peroxisomal membrane PEX14-like protein (MACE-S108, 4-coumarate CoA ligase (MACE-S131, and UDP-glucosyl transferase (MACE-S139 was in agreement in all four genotypes with Massive analysis of cDNA Ends (MACE data. In

  5. Performance evaluation of three different types of local evaporative cooling pads in greenhouses in Sudan.

    Science.gov (United States)

    Ahmed, Egbal Mohammed; Abaas, Osama; Ahmed, Mohammed; Ismail, Mohd Rodzi

    2011-01-01

    This study was conducted in Date Palm Technology Company Limited, Shambat, Khartoum State. To evaluate performance of three types of evaporative cooling pads for greenhouses (celdek pads, straw pads and sliced wood pads), as compared to the conditions outside the greenhouses (control), for pads. Performance evaluation includes environmental parameters (temperature and relative humidity at 8 am, 1 pm and 6 pm) and crop parameters (length and stem diameter, leaves number and width, fruit length and diameter, fruit weight and dry matter and yield). The results obtained for the temperature at 8 am showed that there was no significant difference (0.05) inside the greenhouses, while a high significant difference between the conditions inside and outside of the greenhouses was found. Significant differences were found at 1 pm and 6 pm between all treatments as compared to the conditions outside the greenhouses, and the results obtained for relative humidity showed high significant differences at 8 am and 1 pm inside the greenhouses and between inside and outside the greenhouse, respectively, while there was no significant difference at 6 pm inside the greenhouses and between inside and outside the greenhouses. On the other hand, the results obtained for crop parameters showed that there were significant differences between all parameters inside the greenhouses and outside the greenhouses; however, the greenhouses with sliced wood pads gave the highest yield and the greenhouses with straw pads gave the least and conditions outside gave the lowest. This study indicated that the sliced wood pads are better than the other evaporative cooling pads.

  6. Genetic diversity within the genus Francisella as revealed by comparative analyses of the genomes of two North American isolates from environmental sources

    Directory of Open Access Journals (Sweden)

    Siddaramappa Shivakumara

    2012-08-01

    Full Text Available Abstract Background Francisella tularensis is an intracellular pathogen that causes tularemia in humans and the public health importance of this bacterium has been well documented in recent history. Francisella philomiragia, a distant relative of F. tularensis, is thought to constitute an environmental lineage along with Francisella novicida. Nevertheless, both F. philomiragia and F. novicida have been associated with human disease, primarily in immune-compromised individuals. To understand the genetic relationships and evolutionary contexts among different lineages within the genus Francisella, the genome of Francisella spp. strain TX07-7308 was sequenced and compared to the genomes of F. philomiragia strains ATCC 25017 and 25015, F. novicida strain U112, and F. tularensis strain Schu S4. Results The size of strain ATCC 25017 chromosome was 2,045,775 bp and contained 1,983 protein-coding genes. The size of strain TX07-7308 chromosome was 2,035,931 bp and contained 1,980 protein-coding genes. Pairwise BLAST comparisons indicated that strains TX07-7308 and ATCC 25017 contained 1,700 protein coding genes in common. NUCmer analyses revealed that the chromosomes of strains TX07-7308 and ATCC 25017 were mostly collinear except for a few gaps, translocations, and/or inversions. Using the genome sequence data and comparative analyses with other members of the genus Francisella (e.g., F. novicida strain U112 and F. tularensis strain Schu S4, several strain-specific genes were identified. Strains TX07-7308 and ATCC 25017 contained an operon with six open reading frames encoding proteins related to enzymes involved in thiamine biosynthesis that was absent in F. novicida strain U112 and F. tularensis strain Schu S4. Strain ATCC 25017 contained an operon putatively involved in lactose metabolism that was absent in strain TX07-7308, F. novicida strain U112, and F. tularensis strain Schu S4. In contrast, strain TX07-7308 contained an operon putatively

  7. Physiological and proteomics analyses reveal the mechanism of Eichhornia crassipes tolerance to high-concentration cadmium stress compared with Pistia stratiotes.

    Directory of Open Access Journals (Sweden)

    Xiong Li

    Full Text Available Cadmium (Cd pollution is an environmental problem worldwide. Phytoremediation is a convenient method of removing Cd from both soil and water, but its efficiency is still low, especially in aquatic environments. Scientists have been trying to improve the ability of plants to absorb and accumulate Cd based on interactions between plants and Cd, especially the mechanism by which plants resist Cd. Eichhornia crassipes and Pistia stratiotes are aquatic plants commonly used in the phytoremediation of heavy metals. In the present study, we conducted physiological and biochemical analyses to compare the resistance of these two species to Cd stress at 100 mg/L. E. crassipes showed stronger resistance and was therefore used for subsequent comparative proteomics to explore the potential mechanism of E. crassipes tolerance to Cd stress at the protein level. The expression patterns of proteins in different functional categories revealed that the physiological activities and metabolic processes of E. crassipes were affected by exposure to Cd stress. However, when some proteins related to these processes were negatively inhibited, some analogous proteins were induced to compensate for the corresponding functions. As a result, E. crassipes could maintain more stable physiological parameters than P. stratiotes. Many stress-resistance substances and proteins, such as proline and heat shock proteins (HSPs and post translational modifications, were found to be involved in the protection and repair of functional proteins. In addition, antioxidant enzymes played important roles in ROS detoxification. These findings will facilitate further understanding of the potential mechanism of plant response to Cd stress at the protein level.

  8. Genome Sequence of Azospirillum brasilense CBG497 and Comparative Analyses of Azospirillum Core and Accessory Genomes provide Insight into Niche Adaptation

    Directory of Open Access Journals (Sweden)

    Victor González

    2012-09-01

    Full Text Available Bacteria of the genus Azospirillum colonize roots of important cereals and grasses, and promote plant growth by several mechanisms, notably phytohormone synthesis. The genomes of several Azospirillum strains belonging to different species, isolated from various host plants and locations, were recently sequenced and published. In this study, an additional genome of an A. brasilense strain, isolated from maize grown on an alkaline soil in the northeast of Mexico, strain CBG497, was obtained. Comparative genomic analyses were performed on this new genome and three other genomes (A. brasilense Sp245, A. lipoferum 4B and Azospirillum sp. B510. The Azospirillum core genome was established and consists of 2,328 proteins, representing between 30% to 38% of the total encoded proteins within a genome. It is mainly chromosomally-encoded and contains 74% of genes of ancestral origin shared with some aquatic relatives. The non-ancestral part of the core genome is enriched in genes involved in signal transduction, in transport and in metabolism of carbohydrates and amino-acids, and in surface properties features linked to adaptation in fluctuating environments, such as soil and rhizosphere. Many genes involved in colonization of plant roots, plant-growth promotion (such as those involved in phytohormone biosynthesis, and properties involved in rhizosphere adaptation (such as catabolism of phenolic compounds, uptake of iron are restricted to a particular strain and/or species, strongly suggesting niche-specific adaptation.

  9. Genome Sequence of Azospirillum brasilense CBG497 and Comparative Analyses of Azospirillum Core and Accessory Genomes provide Insight into Niche Adaptation

    Science.gov (United States)

    Wisniewski-Dyé, Florence; Lozano, Luis; Acosta-Cruz, Erika; Borland, Stéphanie; Drogue, Benoît; Prigent-Combaret, Claire; Rouy, Zoé; Barbe, Valérie; Mendoza Herrera, Alberto; González, Victor; Mavingui, Patrick

    2012-01-01

    Bacteria of the genus Azospirillum colonize roots of important cereals and grasses, and promote plant growth by several mechanisms, notably phytohormone synthesis. The genomes of several Azospirillum strains belonging to different species, isolated from various host plants and locations, were recently sequenced and published. In this study, an additional genome of an A. brasilense strain, isolated from maize grown on an alkaline soil in the northeast of Mexico, strain CBG497, was obtained. Comparative genomic analyses were performed on this new genome and three other genomes (A. brasilense Sp245, A. lipoferum 4B and Azospirillum sp. B510). The Azospirillum core genome was established and consists of 2,328 proteins, representing between 30% to 38% of the total encoded proteins within a genome. It is mainly chromosomally-encoded and contains 74% of genes of ancestral origin shared with some aquatic relatives. The non-ancestral part of the core genome is enriched in genes involved in signal transduction, in transport and in metabolism of carbohydrates and amino-acids, and in surface properties features linked to adaptation in fluctuating environments, such as soil and rhizosphere. Many genes involved in colonization of plant roots, plant-growth promotion (such as those involved in phytohormone biosynthesis), and properties involved in rhizosphere adaptation (such as catabolism of phenolic compounds, uptake of iron) are restricted to a particular strain and/or species, strongly suggesting niche-specific adaptation. PMID:24705077

  10. A comparative study among methods used for wheat flour analysis and for measurements of gluten properties using the Wheat Gluten Quality Analyser (WGQA

    Directory of Open Access Journals (Sweden)

    Maria Cristina Ferrari

    2014-06-01

    Full Text Available This study aimed at comparing both the results of wheat flour quality assessed by the new equipment Wheat Gluten Quality Analyser (WGQA and those obtained by the extensigraph and farinograph. Fifty-nine wheat samples were evaluated for protein and gluten contents; the rheological properties of gluten and wheat flour were assessed using the WGQA and the extensigraph/farinograph methods, respectively, in addition to the baking test. Principal component analysis (PCA and linear regression were used to evaluate the results. The parameters of energy and maximum resistance to extension determined by the extensigraph and WGQA showed an acceptable level for the linear correlation within the range from 0.6071 to 0.6511. The PCA results obtained using WGQA and the other rheological apparatus showed values similar to those expected for wheat flours in the baking test. Although all equipment used was effective in assessing the behavior of strong and weak flours, the results of medium strength wheat flour varied. WGQA has shown to use less amount of sample and to be faster and easier to use in relation to the other instruments used.

  11. Comparative proteomic and metabolomic analyses reveal mechanisms of improved cold stress tolerance in bermudagrass (Cynodon dactylon (L.) Pers.) by exogenous calcium

    Institute of Scientific and Technical Information of China (English)

    Haitao Shi; Tiantian Ye; Bao Zhong; Xun Liu; Zhulong Chan

    2014-01-01

    As an important second messenger, calcium is involved in plant cold stress response, including chil ing (<20 °C) and freezing (<0 °C). In this study, exogenous application of calcium chloride (CaCl2) improved both chil ing and freezing stress tolerances, while ethylene glycol‐bis‐(b‐aminoethyl) ether‐N,N,N,N‐tetraacetic acid (EGTA) reversed CaCl2 effects in bermudagrass (Cynodon dactylon (L.) Pers.). Pysiological analyses showed that CaCl2 treatment al eviated the reactive oxygen species (ROS) burst and cel damage triggered by chil ing stress, via activating antioxidant enzymes, non‐enzymatic glutathione antioxidant pool, while EGTA treatment had the opposite effects. Additional y, comparative proteomic analysis identified 51 differential y expressed proteins that were enriched in redox, tricarboxylicacid cycle, glycolysis, photosynthesis, oxidative pentose phosphate pathway, and amino acid metabolisms. Consistently, 42 metabolites including amino acids, organic acids, sugars, and sugar alcohols were regulated by CaCl2 treatment under control and cold stress conditions, further confirming the common modulation of CaCl2 treatment in carbon metabolites and amino acid metabolism. Taken together, this study reported first evidence of the essential and protective roles of endogenous and exogenous calcium in bermudagrass response to cold stress, partial y via activation of the antioxidants and modulation of several differential y expressed proteins and metabolic homeostasis in the process of cold acclimation.

  12. Analysing the Advantages of High Temporal Resolution Geostationary MSG SEVIRI Data Compared to Polar Operational Environmental Satellite Data for Land Surface Monitoring in Africa

    Science.gov (United States)

    Fensholt, R.; Anyamba, A.; Huber, S.; Proud, S. R.; Tucker, C. J.; Small, J.; Pak, E.; Rasmussen, M. O.; Sandholt, I.; Shisanya, C.

    2011-01-01

    Since 1972, satellite remote sensing of the environment has been dominated by polar-orbiting sensors providing useful data for monitoring the earth s natural resources. However their observation and monitoring capacity are inhibited by daily to monthly looks for any given ground surface which often is obscured by frequent and persistent cloud cover creating large gaps in time series measurements. The launch of the Meteosat Second Generation (MSG) satellite into geostationary orbit has opened new opportunities for land surface monitoring. The Spinning Enhanced Visible and Infrared Imager (SEVIRI) instrument on-board MSG with an imaging capability every 15 minutes which is substantially greater than any temporal resolution that can be obtained from existing polar operational environmental satellites (POES) systems currently in use for environmental monitoring. Different areas of the African continent were affected by droughts and floods in 2008 caused by periods of abnormally low and high rainfall, respectively. Based on the effectiveness of monitoring these events from Earth Observation (EO) data the current analyses show that the new generation of geostationary remote sensing data can provide higher temporal resolution cloud-free (less than 5 days) measurements of the environment as compared to existing POES systems. SEVIRI MSG 5-day continental scale composites will enable rapid assessment of environmental conditions and improved early warning of disasters for the African continent such as flooding or droughts. The high temporal resolution geostationary data will complement existing higher spatial resolution polar-orbiting satellite data for various dynamic environmental and natural resource applications of terrestrial ecosystems.

  13. Comparative proteomic analyses demonstrate enhanced Interferon and STAT-1 activation in reovirus T3D-infected HeLa cells

    Directory of Open Access Journals (Sweden)

    Peyman eEzzati

    2015-04-01

    Full Text Available As obligate intracellular parasites, viruses are exclusively and intimately dependent upon their host cells for replication. During replication viruses induce profound changes within cells, including: induction of signaling pathways, morphological changes, and cell death. Many such cellular perturbations have been analyzed at the transcriptomic level by gene arrays and recent efforts have begun to analyze cellular proteomic responses. We recently described comparative stable isotopic (SILAC analyses of reovirus, strain type 3 Dearing (T3D-infected HeLa cells. For the present study we employed the complementary labeling strategy of iTRAQ (isobaric tags for relative and absolute quantitation to examine HeLa cell changes induced by T3D, another reovirus strain, type 1 Lang, and UV-inactivated T3D (UV-T3D. Triplicate replicates of cytosolic and nuclear fractions identified a total of 2375 proteins, of which 50, 57, and 46 were significantly up-regulated, and 37, 26 and 44 were significantly down-regulated by T1L, T3D and UV-T3D, respectively. Several pathways, most notably the Interferon signaling pathway and the EIF2 and ILK signaling pathways, were induced by virus infection. Western blots confirmed that cells were more strongly activated by live T3D as demonstrated by elevated levels of key proteins like STAT-1, ISG-15, IFIT-1, IFIT-3 and Mx1. This study expands our understanding of reovirus-induced host responses.

  14. Comparative research on engagement in social media platforms : Using multiple measurements to analyse the attractiveness of content on social media platforms

    OpenAIRE

    Smura, Minja

    2016-01-01

    The research was conducted in order to analyse the engagement on social media platforms for artist with similar demographic followers. The research is conducted by quantitative research and is analysed by using the suitable marketing theories, such as the marketing mix. The main measurements used to analyse the engagement in social media platforms are the engagement rate, 1: ratio and average new followers/subscribers per posted content.

  15. Comparative research on engagement in social media platforms : Using multiple measurements to analyse the attractiveness of content on social media platforms

    OpenAIRE

    Smura, Minja

    2016-01-01

    The research was conducted in order to analyse the engagement on social media platforms for artist with similar demographic followers. The research is conducted by quantitative research and is analysed by using the suitable marketing theories, such as the marketing mix. The main measurements used to analyse the engagement in social media platforms are the engagement rate, 1: ratio and average new followers/subscribers per posted content.

  16. Greenhouse effect dependence on atmospheric concentrations of greenhouse substances and the nature of climate stability on Earth

    Directory of Open Access Journals (Sweden)

    V. G. Gorshkov

    2002-03-01

    Full Text Available Due to the exponential positive feedback between sea surface temperature and saturated water vapour concentration, dependence of the planetary greenhouse effect on atmospheric water content is critical for stability of a climate with extensive liquid hydrosphere.

    In this paper on the basis of the law of energy conservation we develop a simple physically transparent approach to description of radiative transfer in an atmosphere containing greenhouse substances. It is shown that the analytical solution of the equation thus derived coincides with the exact solution of the well-known radiative transfer equation to the accuracy of 20% for all values of atmospheric optical depth. The derived equation makes it possible to easily take into account the non-radiative thermal fluxes (convection and latent heat and obtain an analytical dependence of the greenhouse effect on atmospheric concentrations of a set of greenhouse substances with arbitrary absorption intervals.

    The established dependence is used to analyse stability of the modern climate of Earth. It is shown that the modern value of global mean surface temperature, which corresponds to the liquid state of the terrestrial hydrosphere, is physically unstable. The observed stability of modern climate over geological timescales is therefore likely to be due to dynamic singularities in the physical temperature-dependent behaviour of the greenhouse effect. We hypothesise that such singularities may appear due to controlling functioning of the natural global biota and discuss major arguments in support of this conclusion.

  17. Irrigation management in organic greenhouse

    NARCIS (Netherlands)

    Voogt, W.; Balendonck, J.; Berkelmans, R.; Enthoven, N.

    2017-01-01

    Irrigation in protected cultivation is essential due to the absence of natural precipitation. High evapotranspiration, due to higher temperature and prolonged cropping period, requires ample an adequate supply of water. The water supply in a greenhouse is solely carried out by irrigation and thus

  18. The Living Rainforest Sustainable Greenhouses

    NARCIS (Netherlands)

    Bot, G.P.A.; Zwart, de H.F.; Hansen, K.; Logan, A.; Witte Groenholland, H.

    2008-01-01

    The Living Rainforest (www.livingrainforest.org) is an educational charity that uses rainforest ecology as a metaphor for communicating general sustainability issues to the public. Its greenhouses and office buildings are to be renovated using the most sustainable methods currently available. This w

  19. Impacts of Urban Water Conservation Strategies on Energy, Greenhouse Gas Emissions, and Health: Southern California as a Case Study.

    Science.gov (United States)

    Sokolow, Sharona; Godwin, Hilary; Cole, Brian L

    2016-05-01

    To determine how urban water conservation strategies in California cities can affect water and energy conservation efforts, reduce greenhouse gas emissions, and benefit public health. We expanded upon our 2014 health impact assessment of California's urban water conservation strategies by comparing the status quo to 2 options with the greatest potential impact on the interrelated issues of water and energy in California: (1) banning landscape irrigation and (2) expanding alternative water sources (e.g., desalination, recycled water). Among the water conservation strategies evaluated, expanded use of recycled water stood out as the water conservation strategy with potential to reduce water use, energy use, and greenhouse gas emissions, with relatively small negative impacts for the public's health. Although the suitability of recycled water for urban uses depends on local climate, geography, current infrastructure, and finances, analyses similar to that presented here can help guide water policy decisions in cities across the globe facing challenges of supplying clean, sustainable water to urban populations.

  20. Comparative analyses of downstream signal transduction targets modulated after activation of the AT1 receptor by two β-arrestin-biased agonists.

    Science.gov (United States)

    Santos, Geisa A; Duarte, Diego A; Parreiras-E-Silva, Lucas T; Teixeira, Felipe R; Silva-Rocha, Rafael; Oliveira, Eduardo B; Bouvier, Michel; Costa-Neto, Claudio M

    2015-01-01

    G protein-coupled receptors (GPCRs) are involved in essentially all physiological processes in mammals. The classical GPCR signal transduction mechanism occurs by coupling to G protein, but it has recently been demonstrated that interaction with β-arrestins leads to activation of pathways that are independent of the G protein pathway. Also, it has been reported that some ligands can preferentially activate one of these signaling pathways; being therefore called biased agonists for G protein or β-arrestin pathways. The angiotensin II (AngII) AT1 receptor is a prototype GPCR in the study of biased agonism due to the existence of well-known β-arrestin-biased agonists, such as [Sar(1), Ile(4), Ile(8)]-AngII (SII), and [Sar(1), D-Ala(8)]-AngII (TRV027). The aim of this study was to comparatively analyze the two above mentioned β-arrestin-biased agonists on downstream phosphorylation events and gene expression profiles. Our data reveal that activation of AT1 receptor by each ligand led to a diversity of activation profiles that is far broader than that expected from a simple dichotomy between "G protein-dependent" and "β-arrestin-dependent" signaling. We observed clusters of activation profiles common to AngII, SII, and TRV027, as well as downstream effector activation that are unique to AngII, SII, or TRV027. Analyses of β-arrestin conformational changes after AT1 receptor stimulation with SII or TRV027 suggests that the observed differences could account, at least partially, for the diversity of modulated targets observed. Our data reveal that, although the categorization "G protein-dependent" vs. "β-arrestin-dependent" signaling can be of pharmacological relevance, broader analyses of signaling pathways and downstream targets are necessary to generate an accurate activation profile for a given ligand. This may bring relevant information for drug development, as it may allow more refined comparison of drugs with similar mechanism of action and effects, but with

  1. Comparative analyses of downstream signal transduction targets modulated after activation of the AT1 receptor by two β-arrestin biased agonists

    Directory of Open Access Journals (Sweden)

    Geisa A Santos

    2015-07-01

    Full Text Available G protein-coupled receptors (GPCRs are involved in essentially all physiological processes in mammals. The classical GPCR signal transduction mechanism occurs by coupling to G protein, but it has recently been demonstrated that interaction with β-arrestins leads to activation of pathways that are independent of the G protein pathway. Also, it has been reported that some ligands can preferentially activate one of these signaling pathways; being therefore called biased agonists for G protein or β-arrestin pathways. The angiotensin II (AngII AT1 receptor is a prototype GPCR in the study of biased agonism due to the existence of well-known β-arrestin biased agonists, such as [Sar1,Ile4,Ile8]-AngII (SII, and [Sar1,D-Ala8]-AngII (TRV027. The aim of this study was to comparatively analyze the two above mentioned β-arrestin biased agonists on downstream phosphorylation events and gene expression profiles. Our data reveal that activation of AT1 receptor by each ligand led to a diversity of activation profiles that is far broader than that expected from a simple dichotomy between G protein-dependent and β-arrestin-dependent signaling. We observed clusters of activation profiles common to AngII, SII and TRV027, as well as downstream effector activation that are unique to AngII, SII, or TRV027. Analyses of β-arrestin conformational changes after AT1 receptor stimulation with SII or TRV027 suggests that the observed differences could account, at least partially, for the diversity of modulated targets observed. Our data reveal that, although the categorization G protein-dependent vs. β-arrestin-dependent signaling can be of pharmacological relevance, broader analyses of signaling pathways and downstream targets are necessary to generate an accurate activation profile for a given ligand. This may bring relevant information for drug development, as it may allow more refined comparison of drugs with similar mechanism of action and effects, but with

  2. Energy consumption for different greenhouses' structures

    Directory of Open Access Journals (Sweden)

    Đević Milan

    2008-01-01

    Full Text Available In this paper influence of greenhouses' structure was estimated for four different double plastic covered greenhouses in winter lettuce production. Plastic coverings are introduced as mean of making this kind of plant production more efficient. Also, as a mean of lowering energy consumption, the tunnel structures are proposed. Four different double plastic covered greenhouses were used for energy analysis. Two tunnel types, 9 x 58m and 8 x 25m covered with double PE folia, and two gutter connected plastic covered greenhouses. One greenhouse is 2 x 7 m wide and 39 m long and the other 20 x 6.4 m wide and 42 m long. Results have shown the lowest energy consumption for gutter connected greenhouses. Energy out/in ratio was also higher in gutter connected greenhouse. Highest energy consumption was obtained in tunnel greenhouse 8 x 25m.

  3. The Greenhouse Effect: Science and Policy.

    Science.gov (United States)

    Schneider, Stephen H.

    1989-01-01

    Discusses many of the scientific questions surrounding the greenhouse effect debate and the issue of plausible responses. Discussion includes topics concerning projecting emissions and greenhouse gas concentrations, estimating global climatic response, economic, social, and political impacts, and policy responses. (RT)

  4. Building and using the solar greenhouse

    Energy Technology Data Exchange (ETDEWEB)

    None

    1983-01-01

    Thorough directions are given for planning, constructing and using a solar greenhouse attached to a house. Included is a method of calculating the savings accruing from the use of the greenhouse. (LEW)

  5. Accounting for Greenhouse Gas Emissions from Reservoirs

    Science.gov (United States)

    Nearly three decades of research has demonstrated that the impoundment of rivers and the flooding of terrestrial ecosystems behind dams can increase rates of greenhouse gas emission, particularly methane. The 2006 IPCC Guidelines for National Greenhouse Gas Inventories includes ...

  6. Accounting for Greenhouse Gas Emissions from Reservoirs

    Science.gov (United States)

    Nearly three decades of research has demonstrated that the impoundment of rivers and the flooding of terrestrial ecosystems behind dams can increase rates of greenhouse gas emission, particularly methane. The 2006 IPCC Guidelines for National Greenhouse Gas Inventories includes ...

  7. Analysis of climate factors for the development of greenhouses in Eastern Blacksea Region

    Energy Technology Data Exchange (ETDEWEB)

    Kendirli, Berna; Cakmak, Belgin [Faculty of Agriculture, Farm Structures and Irrigation Department, Ankara University, Ankara (Turkey); Goekalp, Zeki [Faculty of Agriculture, Farm Structures and Irrigation Department, Gaziosmanpasa University, Tokat (Turkey)

    2007-12-15

    Eastern Blacksea Region is one of the less developed regions of Turkey in agriculture. That is why greenhouses are incited as an alternative income source for the region. In this study, aiming to evaluate the suitability of the climate conditions for greenhouses, heating and ventilation requirements for initially proposed two model greenhouses were calculated based on multi-years climate data. Climate parameters of region provinces were also evaluated and they were compared with climate characteristics of Samsun Province, where there were intensive greenhouse practices. As a result, it was determined that coastal provinces of the region had significant similarities with Samsun Province and they were more suitable than the inner provinces for greenhouse practices. Depending on the evaluations carried out, advantages and disadvantages of the region for greenhouse practices were determined and recommendations were made to regional producers. (author)

  8. Salt Contents in Soils Under Plastic Greenhouse Gardening in China

    Institute of Scientific and Technical Information of China (English)

    2001-01-01

    Field experiments were conducted on three main soils, brown soil, meadow soil and cinnamon soil, of Shandong Province to study the effect of plastic greenhouse gardening on soil salt contents. As compared to the open fields, the soil nutrient contents in the fields under plastic greenhouse gardening all increased significantly. The organic matter, quickly available N and P increases were extremely significant and the quickly available K increase was also significant. Along with the nutrient increases the soil salt contents increased clearly in all the soils investigated not only in the top layer but also in the deeper layers, being extremely significant in the 0~10 cm layer and significant in the 10~40 cm layers. The salt contents in the plastic greenhouses had significant correlations with the soil available nitrogen and phosphorous. Soils with longer plastic greenhouse gardening time tended to have more salt. The plastic greenhouse soils contained less CO32- and much more NO3- than the open soils, which indicated a higher influence of human intervention in plastic greenhouses. Among the constituent ions, Cl-, NO3-, Ca2+ and Mg2+ had positive while HCO3- had negative significant or extremely significant correlations with total salt, with correlation coefficients being 0.66*, 0.80**, 0.92**, 0.80** and -0.64*, respectively. Nitrate decreased from the top to deeper layers both in the plastic greenhouses and in the open fields. The plastic greenhouse soils contained much more nitrate than the open fields in every layer and even the nitrate contents of the 80~100 cm layer were still several times those of the top layer in the open fields. The main reason for the salt increases was considered to be the inappropriate fertilization and selective absorption of nutrients by plants in the plastic greenhouses. The methods recommended to avoid soil salt increase in the plastic greenhouses were to apply fertilizers rationally according to the soils, vegetables and

  9. Using waste oil to heat a greenhouse

    Science.gov (United States)

    Marla Schwartz

    2009-01-01

    During the winter of 1990, Northwoods Nursery (Elk River, ID) purchased a wood-burning system to heat the current greenhouses. This system burned slabs of wood to heat water that was then pumped into the greenhouses. The winter of 1990 was extremely harsh, requiring non-stop operation of the heating system. In order to keep seedlings in the greenhouse from freezing,...

  10. The Greenhouse Effect and Built Environment Education.

    Science.gov (United States)

    Greenall Gough, Annette; Gough, Noel

    The greenhouse effect has always existed. Without the greenhouse effect, Earth could well have the oven-like environment of Venus or the deep-freeze environment of Mars. There is some debate about how much the Earth's surface temperature will rise given a certain amount of increase in the amount of greenhouse gases such as carbon dioxide, nitrous…

  11. Plant nutrition in future greenhouse production

    NARCIS (Netherlands)

    Sonneveld, C.; Voogt, W.

    2009-01-01

    In the introduction chapter it was claimed that greenhouse production has no longer arguments as a supply market. The products of the greenhouse industry became in free competition with those from field production from all over the world. In this competition the greenhouse industry has developed int

  12. Subgroup analyses on return to work in sick-listed employees with low back pain in a randomised trial comparing brief and multidisciplinary intervention

    Directory of Open Access Journals (Sweden)

    Petersen Karin D

    2011-05-01

    Full Text Available Abstract Background Multidisciplinary intervention is recommended for rehabilitation of employees sick-listed for 4-12 weeks due to low back pain (LBP. However, comparison of a brief and a multidisciplinary intervention in a randomised comparative trial of sick-listed employees showed similar return to work (RTW rates in the two groups. The aim of the present study was to identify subgroups, primarily defined by work-related baseline factors that would benefit more from the multidisciplinary intervention than from the brief intervention. Methods A total of 351 employees sick-listed for 3-16 weeks due to LBP were recruited from their general practitioners. They received a brief or a multidisciplinary intervention. Both interventions comprised clinical examination and advice by a rehabilitation doctor and a physiotherapist. The multidisciplinary intervention also comprised assignment of a case manager, who made a rehabilitation plan in collaboration with the patient and a multidisciplinary team. Using data from a national database, we defined RTW as no sickness compensation benefit disbursement for four consecutive weeks within the first year after the intervention. At the first interview in the clinic, it was ensured that sick leave was primarily due to low back problems.Questionnaires were used to obtain data on health, disability, demographic and workplace-related factors. Cox hazard regression analyses were used with RTW as outcome measure and hazard rate ratios (HRR = HRmultidisciplinary/HRbrief were adjusted for demographic and health-related variables. An interaction term consisting of a baseline variable*intervention group was added to the multivariable regression model to analyse whether the effects of the interventions were moderated by the baseline factor. Subsequently, a new study was performed that included 120 patients who followed the same protocol. This group was analyzed in the same way to verify the findings from the original

  13. Characterization of Sinorhizobium sp. LM21 Prophages and Virus-Encoded DNA Methyltransferases in the Light of Comparative Genomic Analyses of the Sinorhizobial Virome.

    Science.gov (United States)

    Decewicz, Przemyslaw; Radlinska, Monika; Dziewit, Lukasz

    2017-06-26

    The genus Sinorhizobium/Ensifer mostly groups nitrogen-fixing bacteria that create root or stem nodules on leguminous plants and transform atmospheric nitrogen into ammonia, which improves the productivity of the plants. Although these biotechnologically-important bacteria are commonly found in various soil environments, little is known about their phages. In this study, the genome of Sinorhizobium sp. LM21 isolated from a heavy-metal-contaminated copper mine in Poland was investigated for the presence of prophages and DNA methyltransferase-encoding genes. In addition to the previously identified temperate phage, ΦLM21, and the phage-plasmid, pLM21S1, the analysis revealed the presence of three prophage regions. Moreover, four novel phage-encoded DNA methyltransferase (MTase) genes were identified and the enzymes were characterized. It was shown that two of the identified viral MTases methylated the same target sequence (GANTC) as cell cycle-regulated methyltransferase (CcrM) of the bacterial host strain, LM21. This discovery was recognized as an example of the evolutionary convergence between enzymes of sinorhizobial viruses and their host, which may play an important role in virus cycle. In the last part of the study, thorough comparative analyses of 31 sinorhizobial (pro)phages (including active sinorhizobial phages and novel putative prophages retrieved and manually re-annotated from Sinorhizobium spp. genomes) were performed. The networking analysis revealed the presence of highly conserved proteins (e.g., holins and endolysins) and a high diversity of viral integrases. The analysis also revealed a large number of viral DNA MTases, whose genes were frequently located within the predicted replication modules of analyzed prophages, which may suggest their important regulatory role. Summarizing, complex analysis of the phage protein similarity network enabled a new insight into overall sinorhizobial virome diversity.

  14. A comparative evaluation of money-based and energy-based cost-benefit analyses of tertiary municipal wastewater treatment using forested wetlands vs. sand filtration in Louisiana

    Energy Technology Data Exchange (ETDEWEB)

    Ko, Jae-Young; Day, John W.; Lane, Robert R.; Day, Jason N. [Coastal Ecology Institute, School of the Coast and Environment, Louisiana State University, Baton Rouge, LA 70803 (United States)

    2004-07-01

    Forested wetlands have been used to provide advanced secondary and tertiary treatment for municipal wastewater for a number of cities in southern Louisiana. Wetland assimilation provides the same services as conventional methods in improving wastewater quality, while having positive impacts on wetlands. Suspended solids and nutrients in wastewater increase net primary productivity (NPP), which leads to increased organic soil formation. This leads to increased elevation that offsets subsidence, a major cause of coastal wetland loss in Louisiana. The City of Breaux Bridge, LA, has discharged secondarily treated municipal wastewater into a forested wetland since 1950, and wetland assimilation was permitted by the Louisiana Department of Environmental Quality and the US Environmental Protection Agency (US EPA) in 1997. We compared benefits and costs of utilizing forested wetlands and conventional sand treatment using money-based and energy-based cost-benefit analyses (CBA). The wetland method had a higher benefit-cost ratio than conventional treatment by 6.0 times based on dollar-based CBA, and by 21.7 times from the energy analysis. Methodologically, dollar-based CBA is a market price-based assessment, liming to an anthropocentric framework, while embodied energy analysis accounts for monetary and nonmonetary values such as carbon sequestration by wetlands, which contributes a more complete assessment of the interaction between the natural environment and the human economy. Wetlands treat more wastewater per unit of energy and with less financial cost than conventional methods, because the wetland method utilizes natural energies such as sunlight, wind and rain, while conventional treatment methods depend on imported nonrenewable energies and materials such as chemicals and electricity and require additional capital investment. Increasing application of natural energies is becoming more important with depleting fossil fuels. Further, wastewater addition increases NPP

  15. Comparative analyses of factors determining soil erosion rates based on network of Mediterranean monitored catchments for the innovative, adaptive and resilient agriculture of the future

    Science.gov (United States)

    Smetanová, Anna; Le Bissonnais, Yves; Raclot, Damien; Perdo Nunes, João; Licciardello, Feliciana; Mathys, Nicolle; Latron, Jérôme; Rodríguez Caballero, Emilio; Le Bouteiller, Caroline; Klotz, Sébastien; Mekki, Insaf; Gallart, Francesc; Solé Benet, Albert; Pérez Gallego, Nuria; Andrieux, Patrick; Jantzi, Hugo; Moussa, Roger; Planchon, Olivier; Marisa Santos, Juliana

    2015-04-01

    In order to project the soil erosion response to climate change in the fragile Mediterranean region it is inevitable to understand its existing patterns. Soil erosion monitoring on a catchment scale enables to analyse temporal and spatial variability of soil erosion and sediment delivery, while the integrating study of different catchments is often undertaken to depicther the general patterns. In this study, eight small catchments (with area up to 1,32 km2), representative for the western part of the Mediterranean region (according to climate, bedrock, soils and main type of land use) were compared. These catchments, grouped in the R-OS Med Network were situated in France (3), Spain (2), Portugal (1), Italy (1) and Tunisia (1). The average precipitation ranged between 236 to 1303 mm·a-1 and mean annual sediment yield varied 7.5 to 6900 Mg·km-2·a-1. The complex databes was based on more than 120 years of hydrological and sediment data, with series between 3 and 29 years long. The variability of sediment data was described on annual and monthly basis. The relationship between the sediment yield and more than 35 factors influencing the sediment yield including the characteristics of climate, topography, rainfall, runoff, land use, vegetation and soil cover, connectivity and dominant geomorphic processes, was studied. The preliminary results confirmed the differences in rainfall, runoff and sediment response, and revealed both the similarities and differences in soil erosion responses of the catchments. They are further dependent on the variability of factors themselves, with important contribution of the state of soil properties, vegetation cover and land use. Anna Smetanová has received the support of the European Union, in the framework of the Marie-Curie FP7 COFUND People Programme, through the award of an AgreenSkills' fellowship (under grant agreement n° 267196)

  16. Comparative Analyses of Tomato yellow leaf curl virus C4 Protein-Interacting Host Proteins in Healthy and Infected Tomato Tissues

    Directory of Open Access Journals (Sweden)

    Namgyu Kim

    2016-10-01

    Full Text Available Tomato yellow leaf curl virus (TYLCV, a member of the genus Begomovirus, is one of the most important viruses of cultivated tomatoes worldwide, mainly causing yellowing and curling of leaves with stunting in plants. TYLCV causes severe problems in sub-tropical and tropical countries, as well as in Korea. However, the mechanism of TYLCV infection remains unclear, although the function of each viral component has been identified. TYLCV C4 codes for a small protein involved in various cellular functions, including symptom determination, gene silencing, viral movement, and induction of the plant defense response. In this study, through yeast-two hybrid screenings, we identified TYLCV C4-interacting host proteins from both healthy and symptom-exhibiting tomato tissues, to determine the role of TYLCV C4 proteins in the infection processes. Comparative analyses of 28 proteins from healthy tissues and 36 from infected tissues showing interactions with TYLCV C4 indicated that TYLCV C4 mainly interacts with host proteins involved in translation, ubiquitination, and plant defense, and most interacting proteins differed between the two tissues but belong to similar molecular functional categories. Four proteins—two ribosomal proteins, S-adenosyl-L-homocysteine hydrolase, and 14-3-3 family protein—were detected in both tissues. Furthermore, the identified proteins in symptom-exhibiting tissues showed greater involvement in plant defenses. Some are key regulators, such as receptor-like kinases and pathogenesis-related proteins, of plant defenses. Thus, TYLCV C4 may contribute to the suppression of host defense during TYLCV infection and be involved in ubiquitination for viral infection.

  17. Comparative live-cell imaging analyses of SPA-2, BUD-6 and BNI-1 in Neurospora crassa reveal novel features of the filamentous fungal polarisome.

    Directory of Open Access Journals (Sweden)

    Alexander Lichius

    Full Text Available A key multiprotein complex involved in regulating the actin cytoskeleton and secretory machinery required for polarized growth in fungi, is the polarisome. Recognized core constituents in budding yeast are the proteins Spa2, Pea2, Aip3/Bud6, and the key effector Bni1. Multicellular fungi display a more complex polarized morphogenesis than yeasts, suggesting that the filamentous fungal polarisome might fulfill additional functions. In this study, we compared the subcellular organization and dynamics of the putative polarisome components BUD-6 and BNI-1 with those of the bona fide polarisome marker SPA-2 at various developmental stages of Neurospora crassa. All three proteins exhibited a yeast-like polarisome configuration during polarized germ tube growth, cell fusion, septal pore plugging and tip repolarization. However, the localization patterns of all three proteins showed spatiotemporally distinct characteristics during the establishment of new polar axes, septum formation and cytokinesis, and maintained hyphal tip growth. Most notably, in vegetative hyphal tips BUD-6 accumulated as a subapical cloud excluded from the Spitzenkörper (Spk, whereas BNI-1 and SPA-2 partially colocalized with the Spk and the tip apex. Novel roles during septal plugging and cytokinesis, connected to the reinitiation of tip growth upon physical injury and conidial maturation, were identified for BUD-6 and BNI-1, respectively. Phenotypic analyses of gene deletion mutants revealed additional functions for BUD-6 and BNI-1 in cell fusion regulation, and the maintenance of Spk integrity. Considered together, our findings reveal novel polarisome-independent functions of BUD-6 and BNI-1 in Neurospora, but also suggest that all three proteins cooperate at plugged septal pores, and their complex arrangement within the apical dome of mature hypha might represent a novel aspect of filamentous fungal polarisome architecture.

  18. Cytological and comparative proteomic analyses on male sterility in Brassica napus L. induced by the chemical hybridization agent monosulphuron ester sodium.

    Directory of Open Access Journals (Sweden)

    Yufeng Cheng

    Full Text Available Male sterility induced by a chemical hybridization agent (CHA is an important tool for utilizing crop heterosis. Monosulphuron ester sodium (MES, a new acetolactate synthase-inhibitor herbicide belonging to the sulphonylurea family, has been developed as an effective CHA to induce male sterility in rapeseed (Brassica napus L.. To understand MES-induced male sterility in rapeseed better, comparative cytological and proteomic analyses were conducted in this study. Cytological analysis indicated that defective tapetal cells and abnormal microspores were gradually generated in the developing anthers of MES-treated plants at various development stages, resulting in unviable microspores and male sterility. A total of 141 differentially expressed proteins between the MES-treated and control plants were revealed, and 131 of them were further identified by MALDI-TOF/TOF MS. Most of these proteins decreased in abundance in tissues of MES-treated rapeseed plants, and only a few increased. Notably, some proteins were absent or induced in developing anthers after MES treatment. These proteins were involved in several processes that may be crucial for tapetum and microspore development. Down-regulation of these proteins may disrupt the coordination of developmental and metabolic processes, resulting in defective tapetum and abnormal microspores that lead to male sterility in MES-treated plants. Accordingly, a simple model of CHA-MES-induced male sterility in rapeseed was established. This study is the first cytological and dynamic proteomic investigation on CHA-MES-induced male sterility in rapeseed, and the results provide new insights into the molecular events of male sterility.

  19. Assessment of alternative disposal methods to reduce greenhouse gas emissions from municipal solid waste in India.

    Science.gov (United States)

    Yedla, Sudhakar; Sindhu, N T

    2016-06-01

    Open dumping, the most commonly practiced method of solid waste disposal in Indian cities, creates serious environment and economic challenges, and also contributes significantly to greenhouse gas emissions. The present article attempts to analyse and identify economically effective ways to reduce greenhouse gas emissions from municipal solid waste. The article looks at the selection of appropriate methods for the control of methane emissions. Multivariate functional models are presented, based on theoretical considerations as well as the field measurements to forecast the greenhouse gas mitigation potential for all the methodologies under consideration. Economic feasibility is tested by calculating the unit cost of waste disposal for the respective disposal process. The purpose-built landfill system proposed by Yedla and Parikh has shown promise in controlling greenhouse gas and saving land. However, these studies show that aerobic composting offers the optimal method, both in terms of controlling greenhouse gas emissions and reducing costs, mainly by requiring less land than other methods.

  20. Potent new greenhouse gas discovered

    Energy Technology Data Exchange (ETDEWEB)

    Anon

    2001-02-01

    Discovery of a new greenhouse gas by scientists of the Max Planck Institute for Chemistry in Mainz, Germany, is reported. The newly detected compound --trifluoromethyl sulfur pentafluoride -- is of industrial origin and is considered to be the most potent greenhouse gas identified to date. Its source remains a mystery, but is believed to be related to SF{sub 6}, a compound used in in high voltage electrical equipment to suppress sparks, in protecting metals during a melting process, in tennis balls, car tires and running shoes. In the past it has also been used as a noise barrier in double glazed window panes. The molecule is extremely resistant to the natural self-cleaning property of the atmosphere, has a long lifetime -- somewhere between several hundred and several thousand years. The gas was discovered during expeditions to Antarctica while extracting air samples from a thick firm layer of snow.

  1. Feasibility study for combining cooling and high grade energy production in a solar greenhouse

    NARCIS (Netherlands)

    Sonneveld, P.J.; Swinkels, G.L.A.M.; Bot, G.P.A.; Flamand, G.

    2010-01-01

    Throughout the world greenhouse horticulture is expanding and intensifying. The expansion is driven by the much higher production levels that are achieved in greenhouses compared to open fields. This provides increased income for farmers and a positive effect on rural development. Intensification is

  2. Photosynthesis driven crop growth models for greenhouse cultivation; advances and bottlenecks.

    NARCIS (Netherlands)

    Challa, H.; Heuvelink, E.

    1996-01-01

    In recent years considerable progress has been made in modelling growth of green-house crops. Nevertheless, the share of research in this field compared to crop modelling in general is only a few percent. Yet, crop growth models have a great potential for greenhouse production systems, because they

  3. [Greenhouse gardeners and sickness absence. A questionnaire study among greenhouse gardeners in Aarhus region].

    Science.gov (United States)

    Pallesen, Ellen; Nielsen, Claus Vinther; Drews, Birgit Mammen

    2007-02-26

    The aim of the study was to examine sickness absence and risk factors for sickness absence in a population of greenhouse gardeners in the county of Arhus. The study was cross sectional and based on data from questionnaires sent to all employees and greenhouse gardens in the county. Greenhouse gardeners had an average of four days of sickness absence a year. Self-rated health was poorer than average of the Danish population in general. Female gender, age below 40 years, troublesome relationships to family and friends, "poor" physical working environment and job insecurity were all predictors for increased risk of sickness absence lasting more than two weeks a year. Sickness absence was low compared to the average of the Danish labour market. Considering poorer self-rated health and frequent occurrence of some of the above-mentioned predictors for increased risk of sickness absence--female gender, age below 40 years and for women, high exposure to "poor" physical working environment--an average sickness absence of only four days was a puzzle. The data from the study were not sufficient to explain this paradox. It might be due to compensating factors at work or at a personal level. It might be due to information bias, as sickness absence could be underestimated, but agreement between reported sickness absence from employees and greenhouse gardens diminished that probability. It might have been a consequence of selection bias, the "healthy workers'" effect. Employees with considerable sickness absence might have been dismissed for long-term absence or might have quit the job because they were not able to cope with it.

  4. Functional analyses of nanoparticle toxicity: a comparative study of the effects of TiO2 and Ag on tomatoes (Lycopersicon esculentum).

    Science.gov (United States)

    Song, Uhram; Jun, Heeju; Waldman, Bruce; Roh, Jinkyu; Kim, Younghun; Yi, Jongheop; Lee, Eun Ju

    2013-07-01

    Engineered nanoparticles (NPs), increasingly used in industry, enter and migrate through biological ecosystems. NPs may create some acute toxicity, but their overall effects on living organisms remain largely unknown. In particular, the behavior of NPs in natural conditions and their consequent ecological effects are still poorly understood. In this study, we developed methods to test the phytotoxicity of two distinctly different NPs, one aerosol (nano-TiO2), and the other colloidal silver (AgNP), by specifically considering their tendencies to agglomerate and form precipitates. First we examined effects of these NPs on germination and root elongation. While exposure to neither of these NPs resulted in acute toxicity on germination, silver NPs caused significantly decreased root elongation at every concentration we tested. We found that the hydrodynamic diameters of AgNPs were much smaller than those of nano-TiO2, which induced higher uptake and phytotoxicity. Based on the agglomeration behavior of the NPs, greenhouse trials were run using commercial soil, for nano-TiO2, and Hoagland's solution, for AgNP. Phytotoxicity of silver NPs in the mature plants was demonstrated by lower chlorophyll contents, higher superoxide dismutase activity and less fruit productivity, while nano-TiO2 resulted in higher superoxide dismutase activity at the highest concentration (5000mg/kg). Both nano-TiO2 and AgNPs were taken up into plant stems, leaves and fruits. Our results suggest that further studies of the ecological effects of nanoparticles and steps to mitigate appropriate management strategies are required.

  5. Genome sequencing of Sulfolobus sp. A20 from Costa Rica and comparative analyses of the putative pathways of carbon, nitrogen and sulfur metabolism in various Sulfolobus strains

    Directory of Open Access Journals (Sweden)

    Xin Dai

    2016-11-01

    Full Text Available The genome of Sulfolobus sp. A20 isolated from a hot spring in Costa Rica was sequenced. This circular genome of the strain is 2,688,317 bp in size and 34.8% in G+C content, and contains 2,591 open reading frames (ORFs. Strain A20 shares ~95.6% identity at the 16S rRNA gene sequence level and less than 30% DNA-DNA hybridization (DDH values with the most closely related known Sulfolobus species (i.e., S. islandicus and S. solfataricus, suggesting that it represents a novel Sulfolobus species. Comparison of the genome of strain A20 with those of the type strains of S. solfataricus, S. acidocaldarius, S. islandicus and S. tokodaii, which were isolated from geographically separated areas, identified 1,801 genes conserved among all Sulfolobus species analyzed (core genes. Comparative genome analyses show that central carbon metabolism in Sulfolobus is highly conserved, and enzymes involved in the Entner-Doudoroff pathway, the tricarboxylic acid cycle and the CO2 fixation pathways are predominantly encoded by the core genes. All Sulfolobus species encode genes required for the conversion of ammonium into glutamate/glutamine. Some Sulfolobus strains have gained the ability to utilize additional nitrogen source such as nitrate (i.e. S. islandicus strain REY15A, LAL14/1, M14.25 and M16.27 or urea (i.e. S. islandicus HEV10/4, S. tokodaii strain7 and S. metallicus DSM 6482. The strategies for sulfur metabolism are most diverse and least understood. S. tokodaii encodes sulfur oxygenase/reductase (SOR, whereas both S. islandicus and S. solfataricus contain genes for sulfur reductase (SRE. However, neither SOR nor SRE genes exist in the genome of strain A20, raising the possibility that an unknown pathway for the utilization of elemental sulfur may be present in the strain. The ability of Sulfolobus to utilize nitrate or sulfur is encoded by a gene cluster flanked by IS elements or their remnants. These clusters appear to have become fixed at a specific

  6. Genome Sequencing of Sulfolobus sp. A20 from Costa Rica and Comparative Analyses of the Putative Pathways of Carbon, Nitrogen, and Sulfur Metabolism in Various Sulfolobus Strains.

    Science.gov (United States)

    Dai, Xin; Wang, Haina; Zhang, Zhenfeng; Li, Kuan; Zhang, Xiaoling; Mora-López, Marielos; Jiang, Chengying; Liu, Chang; Wang, Li; Zhu, Yaxin; Hernández-Ascencio, Walter; Dong, Zhiyang; Huang, Li

    2016-01-01

    The genome of Sulfolobus sp. A20 isolated from a hot spring in Costa Rica was sequenced. This circular genome of the strain is 2,688,317 bp in size and 34.8% in G+C content, and contains 2591 open reading frames (ORFs). Strain A20 shares ~95.6% identity at the 16S rRNA gene sequence level and Sulfolobus species (i.e., Sulfolobus islandicus and Sulfolobus solfataricus), suggesting that it represents a novel Sulfolobus species. Comparison of the genome of strain A20 with those of the type strains of S. solfataricus, Sulfolobus acidocaldarius, S. islandicus, and Sulfolobus tokodaii, which were isolated from geographically separated areas, identified 1801 genes conserved among all Sulfolobus species analyzed (core genes). Comparative genome analyses show that central carbon metabolism in Sulfolobus is highly conserved, and enzymes involved in the Entner-Doudoroff pathway, the tricarboxylic acid cycle and the CO2 fixation pathways are predominantly encoded by the core genes. All Sulfolobus species encode genes required for the conversion of ammonium into glutamate/glutamine. Some Sulfolobus strains have gained the ability to utilize additional nitrogen source such as nitrate (i.e., S. islandicus strain REY15A, LAL14/1, M14.25, and M16.27) or urea (i.e., S. islandicus HEV10/4, S. tokodaii strain7, and S. metallicus DSM 6482). The strategies for sulfur metabolism are most diverse and least understood. S. tokodaii encodes sulfur oxygenase/reductase (SOR), whereas both S. islandicus and S. solfataricus contain genes for sulfur reductase (SRE). However, neither SOR nor SRE genes exist in the genome of strain A20, raising the possibility that an unknown pathway for the utilization of elemental sulfur may be present in the strain. The ability of Sulfolobus to utilize nitrate or sulfur is encoded by a gene cluster flanked by IS elements or their remnants. These clusters appear to have become fixed at a specific genomic site in some strains and lost in other strains during the

  7. Cloning and characterization of a pectin lyase gene from Colletotrichum lindemuthianum and comparative phylogenetic/structural analyses with genes from phytopathogenic and saprophytic/opportunistic microorganisms.

    Science.gov (United States)

    Lara-Márquez, Alicia; Zavala-Páramo, María G; López-Romero, Everardo; Calderón-Cortés, Nancy; López-Gómez, Rodolfo; Conejo-Saucedo, Ulises; Cano-Camacho, Horacio

    2011-12-09

    Microorganisms produce cell-wall-degrading enzymes as part of their strategies for plant invasion/nutrition. Among these, pectin lyases (PNLs) catalyze the depolymerization of esterified pectin by a β-elimination mechanism. PNLs are grouped together with pectate lyases (PL) in Family 1 of the polysaccharide lyases, as they share a conserved structure in a parallel β-helix. The best-characterized fungal pectin lyases are obtained from saprophytic/opportunistic fungi in the genera Aspergillus and Penicillium and from some pathogens such as Colletotrichum gloeosporioides.The organism used in the present study, Colletotrichum lindemuthianum, is a phytopathogenic fungus that can be subdivided into different physiological races with different capacities to infect its host, Phaseolus vulgaris. These include the non-pathogenic and pathogenic strains known as races 0 and 1472, respectively. Here we report the isolation and sequence analysis of the Clpnl2 gene, which encodes the pectin lyase 2 of C. lindemuthianum, and its expression in pathogenic and non-pathogenic races of C. lindemuthianum grown on different carbon sources. In addition, we performed a phylogenetic analysis of the deduced amino acid sequence of Clpnl2 based on reported sequences of PNLs from other sources and compared the three-dimensional structure of Clpnl2, as predicted by homology modeling, with those of other organisms. Both analyses revealed an early separation of bacterial pectin lyases from those found in fungi and oomycetes. Furthermore, two groups could be distinguished among the enzymes from fungi and oomycetes: one comprising enzymes from mostly saprophytic/opportunistic fungi and the other formed mainly by enzymes from pathogenic fungi and oomycetes. Clpnl2 was found in the latter group and was grouped together with the pectin lyase from C. gloeosporioides. The Clpnl2 gene of C. lindemuthianum shares the characteristic elements of genes coding for pectin lyases. A time-course analysis

  8. Cloning and characterization of a pectin lyase gene from Colletotrichum lindemuthianum and comparative phylogenetic/structural analyses with genes from phytopathogenic and saprophytic/opportunistic microorganisms

    Directory of Open Access Journals (Sweden)

    Lara-Márquez Alicia

    2011-12-01

    Full Text Available Abstract Background Microorganisms produce cell-wall-degrading enzymes as part of their strategies for plant invasion/nutrition. Among these, pectin lyases (PNLs catalyze the depolymerization of esterified pectin by a β-elimination mechanism. PNLs are grouped together with pectate lyases (PL in Family 1 of the polysaccharide lyases, as they share a conserved structure in a parallel β-helix. The best-characterized fungal pectin lyases are obtained from saprophytic/opportunistic fungi in the genera Aspergillus and Penicillium and from some pathogens such as Colletotrichum gloeosporioides. The organism used in the present study, Colletotrichum lindemuthianum, is a phytopathogenic fungus that can be subdivided into different physiological races with different capacities to infect its host, Phaseolus vulgaris. These include the non-pathogenic and pathogenic strains known as races 0 and 1472, respectively. Results Here we report the isolation and sequence analysis of the Clpnl2 gene, which encodes the pectin lyase 2 of C. lindemuthianum, and its expression in pathogenic and non-pathogenic races of C. lindemuthianum grown on different carbon sources. In addition, we performed a phylogenetic analysis of the deduced amino acid sequence of Clpnl2 based on reported sequences of PNLs from other sources and compared the three-dimensional structure of Clpnl2, as predicted by homology modeling, with those of other organisms. Both analyses revealed an early separation of bacterial pectin lyases from those found in fungi and oomycetes. Furthermore, two groups could be distinguished among the enzymes from fungi and oomycetes: one comprising enzymes from mostly saprophytic/opportunistic fungi and the other formed mainly by enzymes from pathogenic fungi and oomycetes. Clpnl2 was found in the latter group and was grouped together with the pectin lyase from C. gloeosporioides. Conclusions The Clpnl2 gene of C. lindemuthianum shares the characteristic elements of

  9. Kvalitative analyser ..

    DEFF Research Database (Denmark)

    Boolsen, Merete Watt

    bogen forklarer de fundamentale trin i forskningsprocessen og applikerer dem på udvalgte kvalitative analyser: indholdsanalyse, Grounded Theory, argumentationsanalyse og diskursanalyse......bogen forklarer de fundamentale trin i forskningsprocessen og applikerer dem på udvalgte kvalitative analyser: indholdsanalyse, Grounded Theory, argumentationsanalyse og diskursanalyse...

  10. Assessing the greenhouse gas emissions from poultry fat biodiesel

    DEFF Research Database (Denmark)

    Jørgensen, Andreas; Bikker, Paul; Herrmann, Ivan Tengbjerg

    2012-01-01

    original use. This implies that even though the use of biodiesel is assumed to displace petrochemical diesel, the ‘original user’ of the poultry fat will have to find a substitute, whose production leads to a greenhouse gas emissions comparable to what is saved through driving on poultry fat biodiesel...... rather than petrochemical diesel. Given that it is the production of the substitute for the poultry fat which mainly eliminates the benefit from using poultry fat for biodiesel, it is argued that whenever assessing the greenhouse gas emissions from biodiesel made from by-products (such as rendered animal...

  11. Geothermal source heat pump performance for a greenhouse heating system: an experimental study

    Directory of Open Access Journals (Sweden)

    Alexandros Sotirios Anifantis

    2016-09-01

    Full Text Available Greenhouses play a significant function in the modern agriculture economy even if require great amount of energy for heating systems. An interesting solution to alleviate the energy costs and environmental problems may be represented by the use of geothermal energy. The aim of this paper, based on measured experimental data, such as the inside greenhouse temperature and the heat pump performance (input and output temperatures of the working fluid, electric consumption, was the evaluation of the suitability of low enthalpy geothermal heat sources for agricultural needs such as greenhouses heating. The study was carried out at the experimental farm of the University of Bari, where a greenhouse was arranged with a heating system connected to a ground-source heat pump (GSHP, which had to cover the thermal energy request. The experimental results of this survey highlight the capability of the geothermal heat source to ensue thermal conditions suitable for cultivation in greenhouses even if the compressor inside the heat pump have operated continuously in a fluctuating state without ever reaching the steady condition. Probably, to increase the performance of the heat pump and then its coefficient of performance within GSHP systems for heating greenhouses, it is important to analyse and maximise the power conductivity of the greenhouse heating system, before to design an expensive borehole ground exchanger. Nevertheless, according to the experimental data obtained, the GSHP systems are effective, efficient and environmental friendly and may be useful to supply the heating energy demand of greenhouses.

  12. Treatment of drainage solution from hydroponic greenhouse production with microalgae.

    Science.gov (United States)

    Hultberg, Malin; Carlsson, Anders S; Gustafsson, Susanne

    2013-05-01

    This study investigated treatment of the drainage solution from greenhouse production with microalgae, through inoculation with Chlorella vulgaris or through growth of the indigenous microalgal community. A significant reduction in nitrogen, between 34.7 and 73.7 mg L(-1), and particularly in phosphorus concentration, between 15.4 and 15.9 mg L(-1), was observed in drainage solution collected from commercial greenhouse production. The large reduction in nutrients was achieved through growth of the indigenous microalgal community i.e., without pre-treatment of the drainage solution or inoculation with the fast growing green microalgae C. vulgaris. Analysis of the fatty acid composition of the algal biomass revealed that compared with a standard growth medium for green algae, the drainage solution was inferior for lipid production. Despite the biorefinery concept being less promising, microalgae-based treatment of drainage solution from greenhouse production is still of interest considering the urgent need for phosphorus recycling.

  13. Chromosome aberrations in pesticide-exposed greenhouse workers

    DEFF Research Database (Denmark)

    Lander, B F; Knudsen, Lisbeth E.; Gamborg, M O

    2000-01-01

    OBJECTIVES: The aim of this study was to investigate the possibility of subtoxic exposure to pesticides causing chromosome aberrations in greenhouse workers. METHODS: In a cross-sectional and prospective study design chromosome aberration frequencies in cultured lymphocytes were examined for 116 ...... pesticide exposure. In general, the findings indicate the importance of personal protection, during high-exposure re-entry activities, in preventing pesticide uptake and genetic damage.......OBJECTIVES: The aim of this study was to investigate the possibility of subtoxic exposure to pesticides causing chromosome aberrations in greenhouse workers. METHODS: In a cross-sectional and prospective study design chromosome aberration frequencies in cultured lymphocytes were examined for 116...... workers when they were compared with the referents. After a summer season of pesticide spraying in the greenhouses, the total frequencies of cells with chromosome aberrations were significantly higher than in the preseason samples (P=0.02) and also higher than for the referents (P=0.05). This finding...

  14. Emission of carbon. A most important component for greenhouse effect in the atmosphere

    Energy Technology Data Exchange (ETDEWEB)

    Milaev, V.B.; Kopp, I.Z.; Yasenski, A.N. [Scientific Research Inst. of Atmospheric Air Protection, St. Petersburg (Russian Federation)

    1995-12-31

    Greenhouse effect is most often defined as the probabilities of atmospheric air quasiequilibrium temperature increase as a result of air pollution due to emission of anthropogenic gaseous substances which are usually called `greenhouse gases`. Among greenhouse gases are primarily considered several gaseous substances which contain carbon atoms: carbon oxide, carbon dioxide and methane (CO, CO{sub 2} and CH{sub 4}), and chlorinated and fluorinated hydrocarbons (freons) spectra of which are transparent to solar radiation, but absorb and reradiate longwave radiation causing disturbance of quasistationary thermal regieme of the atmosphere. Qualitative estimates of the income and relative roles of different substances in occurrence of greenhouse effect differ considerable. At the modern state of knowledge the problem of greenhouse effect and greenhouse gases is considered in several aspects. The most widespread and investigated is climatic or meteorological aspect, it is discussed in a number of international works. Rather pressing is thermal physics aspect of the problem of estimating greenhouse effect, which consists in correct construction of a calculation model and usage of the most representative experimental data, since analytical methods require many assumptions, introduction of which may lead to results which differ very much. Bearing these uncertainties in mind the UNEP/WMO/ICSU conference has included into the number of the most urgent tasks in the study of greenhouse effect, the problem of determining the priority of factors which cause greenhouse effect, which in its turn predetermines the necessity to substantiate the methods of selection and criterion of comparative evaluation of such factors. (author)

  15. The state of greenhouse gases in the atmosphere using global observations through 2015

    Science.gov (United States)

    Tarasova, Oksana; Vermeulen, Alex; Ueno, Mikio

    2017-04-01

    We present results from the twelfth annual Greenhouse Gas Bulletin (http://www.wmo.int/pages/prog/arep/gaw/ghg/GHGbulletin.html) of the World Meteorological Organization (WMO). The results are based on research and observations performed by laboratories contributing to the WMO Global Atmosphere Watch (GAW) Programme (www.wmo.int/gaw). The Bulletin presents results of global analyses of observational data collected according to GAW recommended practices and submitted to the World Data Center for Greenhouse Gases (WDCGG). Bulletins are prepared by the WMO/GAW Scientific Advisory Group for Greenhouse Gases (http://www.wmo.int/pages/prog/arep/gaw/ScientificAdvisoryGroups.html) in collaboration with WDCGG. Observations used for global analysis are collected at more than 100 marine and terrestrial sites worldwide for CO2 and CH4 and at a smaller number of sites for other greenhouse gases. Globally averaged dry-air mole fractions of carbon dioxide, methane and nitrous oxide derived from this network reached new highs in 2015, with CO2 at 400.0±0.1 ppm, CH4 at 1845±2 ppb and N2O at 328.0±0.1 ppb. These values constitute 144%, 256% and 121% of pre-industrial (before 1750) levels, respectively. It is predicted that 2016 will be the first year in which CO2 at the Mauna Loa Observatory remains above 400 ppm all year, and hence for many generations ( Betts et al., 2016). The atmospheric increase of CO2 from 2014 to 2015 was 2.3 ppm, which is larger than the increase from 2013 to 2014 and the average growth rate for the past decade (˜2.08 ppm per year), despite evidence that global anthropogenic emissions remained essentially static between 2014 and 2015. The higher growth rate in 2015 compared with the previous years is due to increased natural emissions of CO2 related to the most recent El Niño event. According to the most recent data, increased growth rates have persisted far into 2016, consistent with the expected lag between CO2 growth and the ENSO index. The average

  16. Knowledge about the 'Greenhouse Effect': Have College Students Improved?

    Science.gov (United States)

    Jeffries, Helen; Stanisstreet, Martin; Boyes, Edward

    2001-01-01

    The ideas of Year I undergraduate biology students about the consequences, causes, and cures of the 'greenhouse effect' was determined using a closed-form questionnaire, and results were compared with a parallel study undertaken nearly 10 years ago. Many of the students in the present survey were unaware of the potential effect of global warming…

  17. Knowledge about the 'Greenhouse Effect': Have College Students Improved?

    Science.gov (United States)

    Jeffries, Helen; Stanisstreet, Martin; Boyes, Edward

    2001-01-01

    The ideas of Year I undergraduate biology students about the consequences, causes, and cures of the 'greenhouse effect' was determined using a closed-form questionnaire, and results were compared with a parallel study undertaken nearly 10 years ago. Many of the students in the present survey were unaware of the potential effect of global warming…

  18. The NOAA Annual Greenhouse Gas Index - 2012 Update

    Science.gov (United States)

    Butler, J. H.; Montzka, S. A.; Conway, T. J.; Dlugokencky, E. J.; Elkins, J. W.; Masari, K. A.; Schnell, R. C.; Tans, P. P.

    2012-04-01

    For the past several decades, the U.S. National Oceanic and Atmospheric Administration (NOAA) has monitored all of the long-lived atmospheric greenhouse gases. These global measurements have provided input to databases, analyses, and various relevant products, including national and international climate assessments. To make these data more useful and available, NOAA several years ago released its Annual Greenhouse Gas Index (AGGI), http://www.esrl.noaa.gov/gmd/aggi. This index, based on the climate forcing properties of long-lived greenhouse gases, was designed to enhance the connection between scientists and society by providing a normalized standard that can be easily understood and followed. The long-lived gases capture most of the radiative forcing, and uncertainty in their measurement is very small. This allows us to provide a robust measure and assessment of the long-term, radiative influence of these gases. Continuous greenhouse gas measurements are made at baseline climate observatories (Pt. Barrow, Alaska; Mauna Loa, Hawaii; American Samoa; and the South Pole) and weekly flask air samples are collected through a global network of over 60 sites, including an international cooperative program for carbon dioxide and other greenhouse gases. The gas samples are analyzed at NOAA's Earth System Research Laboratory (NOAA/ESRL) in Boulder, Colorado, using WMO standard reference gases prepared by NOAA/ESRL. The AGGI is normalized to 1.00 in 1990, the Kyoto Climate Protocol baseline year. In 2010, the AGGI was 1.29, indicating that global radiative forcing by long-lived greenhouse gases had increased 29% since 1990. During the 1980s CO2 accounted for about 50-60% of the annual increase in radiative forcing by long-lived greenhouse gases, whereas, since 2000, it has accounted for 85-90% of this increase each year. After nearly a decade of virtually level concentrations in the atmosphere, methane (CH4) increased measurably over the past 2-3 years, as did its

  19. Greenhouse Module for Space System: A Lunar Greenhouse Design

    Directory of Open Access Journals (Sweden)

    Zeidler Conrad

    2017-02-01

    Full Text Available In the next 10 to 20 years humankind will return to the Moon and/or travel to Mars. It is likely that astronauts will eventually build permanent settlements there, as a base for long-term crew tended research tasks. It is obvious that the crew of such settlements will need food to survive. With current mission architectures the provision of food for longduration missions away from Earth requires a significant number of resupply flights. Furthermore, it would be infeasible to provide the crew with continuous access to fresh produce, specifically crops with high water content such as tomatoes and peppers, on account of their limited shelf life. A greenhouse as an integrated part of a planetary surface base would be one solution to solve this challenge for long-duration missions. Astronauts could grow their own fresh fruit and vegetables in-situ to be more independent from supply from Earth. This paper presents the results of the design project for such a greenhouse, which was carried out by DLR and its partners within the framework of the Micro-Ecological Life Support System Alternative (MELiSSA program. The consortium performed an extensive system analysis followed by a definition of system and subsystem requirements for greenhouse modules. Over 270 requirements were defined in this process. Afterwards the consortium performed an in-depth analysis of illumination strategies, potential growth accommodations and shapes for the external structure. Five different options for the outer shape were investigated, each of them with a set of possible internal configurations. Using the Analytical Hierarchy Process, the different concept options were evaluated and ranked against each other. The design option with the highest ranking was an inflatable outer structure with a rigid inner core, in which the subsystems are mounted. The inflatable shell is wrapped around the core during launch and transit to the lunar surface. The paper provides an overview of the

  20. Avaliação de fontes de cálcio na cultura do melão tipo 'Gália' sob cultivo protegido Comparative analysis of calcium sources in greenhouse 'Galia' muskmelon

    Directory of Open Access Journals (Sweden)

    Eva Cintra D. de Faria

    2004-09-01

    álcio quelatizado.'Galia' muskmelons, Galileo hybrid, were grown at Embrapa Hortaliças in Brasilia, Brazil, in a greenhouse in pots, from September to December 2001. Five calcium treatments were evaluated (liming and liming plus fertigation with calcium nitrate, calcium buffered, calcium chelates and calcium chloride, besides the control without calcium (Ca. The experimental design was of randomized blocks with 6 treatments, 4 replications and 6 plants per plot. Overall calcium application increased marketable yield (kg m-2 by 26% and the number of fruits by 21%. These results indicated the need of Ca fertilization in soils with base saturation lower than 70%. Liming plus calcium fertigation increased yield and the number of marketable fruits by 30% and 27%, respectively. Thus, Ca fertigation was more effective than liming. Fertigation with calcium nitrate and calcium chloride presented the highest profitability. No effect was observed on the average fruit weight. No significant effects on treatments were obtained for pulp thickness, soluble solids content (Brix, total titratable acidity (TTA and Brix/TTA ratio. In conclusion, Ca must be applied to greenhouse muskmelon for soils with base saturation lower than 70%. Liming plus Ca fertigation was more profitable than only liming. Fertigation of Ca-nitrate or Ca-chloride was more profitable than liming plus Ca treatments (liming and liming plus fertigation with Ca-buffered or Ca-chelates.

  1. The role of nuclear energy in mitigating greenhouse warming

    Energy Technology Data Exchange (ETDEWEB)

    Krakowski, R.A.

    1997-12-31

    A behavioral, top-down, forced-equilibrium market model of long-term ({approximately} 2,100) global energy-economics interactions has been modified with a bottom-up nuclear energy model and used to construct consistent scenarios describing future impacts of civil nuclear materials flows in an expanding, multi-regional (13) world economy. The relative measures and tradeoffs between economic (GNP, tax impacts, productivity, etc.), environmental (greenhouse gas accumulations, waste accumulation, proliferation risk), and energy (resources, energy mixes, supply-side versus demand-side attributes) interactions that emerge from these analyses are focused herein on advancing understanding of the role that nuclear energy (and other non-carbon energy sources) might play in mitigating greenhouse warming. Two ostensibly opposing scenario drivers are investigated: (a) demand-side improvements in (non-price-induced) autonomous energy efficiency improvements; and (b) supply-side carbon-tax inducements to shift energy mixes towards reduced- or non-carbon forms. In terms of stemming greenhouse warming for minimal cost of greenhouse-gas abatement, and with the limitations of the simplified taxing schedule used, a symbiotic combination of these two approaches may offer advantages not found if each is applied separately.

  2. Fédéralisme et droits des LGBT aux États-Unis et au Canada : analyse comparatives des politiques

    Directory of Open Access Journals (Sweden)

    Miriam Smith

    2014-12-01

    Full Text Available L’article examine le militantisme LGBT et les résultats des politiques en matière de droit pénal et du mariage entre personnes de même sexe de 1969 à aujourd’hui, dans le cadre d’une analyse comparée du fédéralisme aux États-Unis et au Canada. Nous soutiendrons que le fédéralisme a grandement façonné les politiques publiques relatives aux droits des LGBT. Dans le régime américain, le potentiel d’expansion du fédéralisme a favorisé les changements graduels de politiques dans les États et, parallèlement, les multiples points de véto créés par le système de séparation des pouvoirs conjugués aux compétences conférés aux États dans d’importants domaines de politiques ont entravé ces changements de politiques. Dans le régime canadien, la centralisation des mécanismes de protection des droits de la personne dans la Charte de même que la dynamique descendante de l’exercice du pouvoir dans le régime parlementaire de type Westminster ont facilité les changements de politiques. Le fédéralisme est souvent perçu comme un obstacle à l’adoption de politiques progressistes. La répartition des pouvoirs entrave l’élaboration de politiques cohérentes et prête le flanc à la prolifération de vétos dont peuvent se prévaloir des groupes influents pour freiner le changement. Les critiques de cette perspective arguent depuis longtemps que, même si le fédéralisme multiplie les points de véto, il présente aussi de nombreuses possibilités d’innovation. Ils font valoir que les groupes ont plus de poids dans les régimes fédéraux puisqu’ils peuvent exercer leur influence à deux paliers de gouvernement plutôt qu’à un. Ainsi, un groupe qui ne réussit pas à se faire entendre à l’un des paliers pourra tenter sa chance au second et pourra même dresser un palier contre l’autre pour atteindre ses objectifs stratégiques.

  3. Pot plant production, environmental conditions and energy consumption in insulated greenhouses

    Energy Technology Data Exchange (ETDEWEB)

    Bjerre, H.; Amsen, M.G. (Statens Planteavlsforsoeg, Havebrugscentret, Institut for Vaeksthuskulturer, Aarslev, Denmark)

    1984-01-01

    An energy experiment with 4 different types of greenhouses was carried out in the winter 1980-81 and 1981-82. Three of these greenhouses were insulated. The reference house was a single layer glasshouse with a mobile shading curtain, which was drawn at night. A comparison with the reference house showed the following energy savings for the insulated houses: Double glass 29-32%, double acryllic 39%, and thermal screens 22-24%. On average the air humidity was 80-86% RH in the double acryllic greenhouse and in the double glass house, whereas the levels was 5-10% lower in the 2 greenhouses with single glass. In spite of the high air humidity in the permanently insulated houses, no plant diseases occurred. The dry matter production of seven plant species was recorded in all greenhouses on the same date. Compared with the reference house 3 of the plant species showed a 5-10% higher production in the double acryllic greenhouse as well as the house with thermal screens. The remaining 4 plant species did not show any differences, between the 3 greenhouses. In the double glass house the production was considerably lower. To study the growth in detail, Tagetes plants were grown for 3-week periods during the winter in all houses. The aim of this study was to investigate whether the ratio between the growth in the 4 greenhouses was the same when periods of high light intensity were compared to periods with low light intensity. No characteristic changes with increasing light intensities could be observed between the different greenhouses. The differences between the greenhouses in time of production for the pot plants were generally small. The most remarkable difference in plant quality between the houses could be seen with Chrysanthemum and Kalanchoe. These 2 plant species were considerably less compact in the double acryllic greenhouse. Chrysanthemum was also less compact in the double glass house.

  4. Comparative Analyses Between the Smoking Habit Frequency and the Nucleolar Organizer Region Associated Proteins in Exfoliative Cytology of Smokers' Normal Buccal Mucosa

    Directory of Open Access Journals (Sweden)

    Yurgel Liliane

    2004-03-01

    Full Text Available Abstract An evaluation of the cellular alterations in the smoker's oral mucosal cells was performed. Exfoliative Citology technique were applied and the cytologic smears stained with silver for quantitative analyses of Argyrophilic nucleolar organizer regions. (AgNORs. Cytologic smears were collected from two anatomic sites, mouth floor and tongue border with the purpose of relating the frequency of smoking with the quantitative analyses of the AgNORs. This study showed that the average number of AgNORs/nucleus is related with the number of cigarettes per day in the mouth floor of smoker's. These results suggest a possible relation between the number of cigarettes per day and an increase rate of cellular proliferation in the oral mucosal cells.

  5. Comparative in vitro and in silico analyses of variants in splicing regions of BRCA1 and BRCA2 genes and characterization of novel pathogenic mutations.

    Directory of Open Access Journals (Sweden)

    Mara Colombo

    Full Text Available Several unclassified variants (UVs have been identified in splicing regions of disease-associated genes and their characterization as pathogenic mutations or benign polymorphisms is crucial for the understanding of their role in disease development. In this study, 24 UVs located at BRCA1 and BRCA2 splice sites were characterized by transcripts analysis. These results were used to evaluate the ability of nine bioinformatics programs in predicting genetic variants causing aberrant splicing (spliceogenic variants and the nature of aberrant transcripts. Eleven variants in BRCA1 and 8 in BRCA2, including 8 not previously characterized at transcript level, were ascertained to affect mRNA splicing. Of these, 16 led to the synthesis of aberrant transcripts containing premature termination codons (PTCs, 2 to the up-regulation of naturally occurring alternative transcripts containing PTCs, and one to an in-frame deletion within the region coding for the DNA binding domain of BRCA2, causing the loss of the ability to bind the partner protein DSS1 and ssDNA. For each computational program, we evaluated the rate of non-informative analyses, i.e. those that did not recognize the natural splice sites in the wild-type sequence, and the rate of false positive predictions, i.e., variants incorrectly classified as spliceogenic, as a measure of their specificity, under conditions setting sensitivity of predictions to 100%. The programs that performed better were Human Splicing Finder and Automated Splice Site Analyses, both exhibiting 100% informativeness and specificity. For 10 mutations the activation of cryptic splice sites was observed, but we were unable to derive simple criteria to select, among the different cryptic sites predicted by the bioinformatics analyses, those actually used. Consistent with previous reports, our study provides evidences that in silico tools can be used for selecting splice site variants for in vitro analyses. However, the latter

  6. The position of tree shrews in the mammalian tree: Comparing multi-gene analyses with phylogenomic results leaves monophyly of Euarchonta doubtful.

    Science.gov (United States)

    Zhou, Xuming; Sun, Fengming; Xu, Shixia; Yang, Guang; Li, Ming

    2015-03-01

    The well-accepted Euarchonta grandorder is a pruned version of Archonta nested within the Euarchontoglires (or Supraprimates) clade. At present, it includes tree shrews (Scandentia), flying lemurs (Dermoptera) and primates (Primates). Here, a phylogenomic dataset containing 1912 exons from 22 representative mammals was compiled to investigate the phylogenetic relationships within this group. Phylogenetic analyses and hypothesis testing suggested that tree shrews can be classified as a sister group to Primates or to Glires or even as a basal clade within Euarchontoglires. Further analyses of both modified and original previously published datasets found that the phylogenetic position of tree shrews is unstable. We also found that two of three exonic indels reported as synapomorphies of Euarchonta in a previous study do not unambiguously support the monophyly of such a clade. Therefore, the monophyly of both Euarchonta and Sundatheria (Dermoptera + Scandentia) are suspect. Molecular dating and divergence rate analyses suggested that the ancestor of Euarchontoglires experienced a rapid divergence, which may cause the unresolved position of tree shrews even using the whole genomic data.

  7. False advertising in the greenhouse?

    Science.gov (United States)

    Banse, K.

    1991-12-01

    Most scientists are convinced of the importance of their own research subjects. Broecker [1991] has deplored the temptation, if not the tendency, to go overboard and exaggerate this importance once funding enters the mind. In particular, he alleges inflated or even false claims by biological (and other) oceanographers regarding the relevance of their research to the "greenhouse effect," caused by the anthropogenic enhancement of the atmospheric CO2 content. He writes [Broecker, 1991, p. 191]: "In my estimation, on any list of subjects requiring intense study with regard to the prediction of the consequences of CO2 buildup in the atmosphere, I would place marine biological cycles near the bottom."

  8. Livestock and greenhouse gas emissions

    DEFF Research Database (Denmark)

    Herrero, M; Gerber, P; Vellinga, T

    2011-01-01

    Estimates of global greenhouse gases (GHG) emissions attributable to livestock range from 8 to 51%. This variability creates confusion among policy makers and the public as it suggests that there is a lack of consensus among scientists with regard to the contribution of livestock to global GHG...... fixed fossil C through combustion. These deviances from internationally accepted protocols create confusion and direct attention from anthropomorphic practices which have the most important contribution to global GHG emissions. Global estimates of livestock GHG emissions are most reliable when...

  9. Estimation of greenhouse impacts of continuous regional emissions

    Energy Technology Data Exchange (ETDEWEB)

    Sinisalo, J. [VTT Energy, Espoo (Finland). Energy Systems

    1998-11-01

    In this thesis a method to calculate the greenhouse impact of continuous, time-dependent, non-global greenhouse gas emissions is used to estimate the impact of estimated anthropogenic pre-1990 and future (post 1990) emissions of CO{sub 2}, CH{sub 4} and N{sub 2}O from Finland and the Nordic countries. Estimates for the impact of Finnish CFCs and their substitutes and the significance of Finnish forests as carbon sink are also calculated. The method is also used to compare several different wood and peat energy production schemes with fossil fuel use, in terms of caused greenhouse impact. The uncertainty of the results is examined. The greenhouse impact is measured in this thesis as the global mean direct radiative forcing caused by the emissions. Radiative forcing is the driving force behind the climate change and as such it can be used to assess the ensuing climate change. The method is suitable for greenhouse agents that can be considered to be well mixed in the atmosphere (mainly CO{sub 2}, CH{sub 4}, N{sub 2}O and both CFCs and their substitutes). According to the results Finnish greenhouse impact due to anthropogenic CO{sub 2}, CH{sub 4} and N{sub 2}O emissions has increased eight-fold during this century, and will very likely remain higher than current level throughout the next century. The impact of the Nordic countries has followed the same general pattern as Finland. It is likely that the per capita radiative forcing of the Nordic countries will remain above the global average. The uncertainty of the absolute results is quite high due to uncertain knowledge at several stages of the calculation. When the results are used in comparisons (e.g. between emission scenarios, or emissions of different countries), the accuracy of the results increases considerably. (orig.) 54 refs.

  10. Tomato and cowpea crop evapotranspiration in an unheated greenhouse

    Institute of Scientific and Technical Information of China (English)

    Xu Junzeng; Peng Shizhang; Luo Yufeng; Jiao Xiyun

    2008-01-01

    With the development of protected cultivation of vegetables in China, it is necessary to study the water requirements of crops in greenhouses. Lysimeter experiments were carried out to investigate tomato (2001) and cowpea (2004) crop evapotranspiration (ETc) in an unheated greenhouse in Eastern China. Results showed remarkably reduced crop evapotranspiration inside the greenhouse as compared with that outside. ETc increased with the growth of the crops, and varied in accordance with the temperature inside the greenhouse and 20-cm pan evaporation outside, reaching its maximum value at the stage when plants' growth was most active. Differences between the variation of crop evapotranspiration and pan evaporation inside the greenhouse were caused by shading of the pan in the later period when the crops were taller than the location where the pan was installed, 70 cm above ground. The ratio of crop evapotranspiration to pan evaporation was not constant as reported in previous studies, and the variation of the inside ratio αin lagged behind that of the outside ratio αout. Simulation of crop evapotranspiration based on 20-cm pan evaporation inside the greenhouse is more reasonable than that based on 20-cm pan evaporation outside, although pan evaporation outside is more consistent with ETc than that inside. The value of αin, calculated based on air temperature, relative humidity, and ground temperature inside, plays a dominant role in the calculation of ETc. As the crop height increases, altering the location of the inside pan and placing it above the canopy, out of the shade, would help to achieve more reasonable values of crop evapotranspiration.

  11. Tomato and cowpea crop evapotranspiration in an unheated greenhouse

    Directory of Open Access Journals (Sweden)

    Xu Junzeng

    2008-06-01

    Full Text Available With the development of protected cultivation of vegetables in China, it is necessary to study the water requirements of crops in greenhouses. Lysimeter experiments were carried out to investigate tomato (2001 and cowpea (2004 crop evapotranspiration (ETc in an unheated greenhouse in Eastern China. Results showed remarkably reduced crop evapotranspiration inside the greenhouse as compared with that outside. ETc increased with the growth of the crops, and varied in accordance with the temperature inside the greenhouse and 20-cm pan evaporation outside, reaching its maximum value at the stage when plants’ growth was most active. Differences between the variation of crop evapotranspiration and pan evaporation inside the greenhouse were caused by shading of the pan in the later period when the crops were taller than the location where the pan was installed, 70 cm above ground. The ratio of crop evapotranspiration to pan evaporation was not constant as reported in previous studies, and the variation of the inside ratio αin lagged behind that of the outside ratio αout. Simulation of crop evapotranspiration based on 20-cm pan evaporation inside the greenhouse is more reasonable than that based on 20-cm pan evaporation outside, although pan evaporation outside is more consistent with ETc than that inside. The value of αin, calculated based on air temperature, relative humidity, and ground temperature inside, plays a dominant role in the calculation of ETc. As the crop height increases, altering the location of the inside pan and placing it above the canopy, out of the shade, would help to achieve more reasonable values of crop evapotranspiration.

  12. Crop and soil-water stress coefficients of tomato in the glass-greenhouse conditions

    Directory of Open Access Journals (Sweden)

    Z. Razmi

    2011-12-01

    Full Text Available In order to determine the actual evapotranspiration of tomato in the greenhouse, crop and soil-water stress coefficients were surveyed. To compare the actual evapotranspiration at different irrigation intervals (1, 2, 4, 6 and 8-day, a completely randomized blocks design with four replications was performed. The present study was carried out in a greenhouse covered by 4 mm thick glass. Maximum and minimum temperatures and solar radiation were measured inside the greenhouse once in 24 h. Relative humidity was measured in the greenhouse once in 2 h. Microclimate data were measured in a metrological station, 100 m from the greenhouse, simultaneously, at outside the greenhouse. Reference crop evapotranspiration was calculated by FAO Penman-Monteith method for inside and outside of the greenhouse. Results indicated that the reference evapotranspiration in the inside of the greenhouse was 73% of outside the greenhouse. The actual evapotranspiration of tomato for inside of the greenhouse was determined by using the water balance method. By using the pergeometer and albidometer data, the crop coefficient for inside the greenhouse at three different stages (development, mid, and end of growth was determined as 0.85, 1.0 and 0.77, respectively. Soil-water stress coefficient, with readily available coefficient of 0.7, was determined to be in the range of 0.53 to 0.98 for all the treatments. This coefficient was 0.88 for water-stressed 4-day treatment, and reduced to 0.72 for 8-day treatment.

  13. 棚架、地栽两种模式下黑木耳的比较效益分析--基于海林、东宁的实证调研%Analysis on Comparative Effectiveness of Greenhouse and Land Cultivation of Black Fungus---Based on Empirical Survey in Hailin City and Dongning County

    Institute of Scientific and Technical Information of China (English)

    陈祺琪; 张俊飚

    2014-01-01

    海林市、东宁县是全国著名的黑木耳生产基地。基于实际调研,比较分析了两地棚架、地栽两种不同栽培模式下的黑木耳生产效益,得出以下结论:一是两地棚架黑木耳栽培投资回报率均高于地栽;二是海林市棚架栽培模式的利润低于东宁,地栽模式的利润则高于东宁;三是黑木耳产业发展中仍存在菌林矛盾尖锐、劳动力缺乏且人工成本高、基础设施薄弱、市场服务体系不健全及管理水平落后等问题,就此提出了促进黑木耳产业持续健康发展的对策建议。%Hailin and Dongning are the famous black fungus production bases.Based on the case study,this paper makes a comparative analysis on the efficiency of black fungus from two different greenhouse and land cultivation modes.The result shows that firstly,the investment return of green-house mode is much higher than that of land cultivation;secondly,the profit of greenhouse cultivation in Hailin is lower than that in Dongning,but its land cultivation profit is higher than that in Dongning;thirdly,there are still many problems in the development of black fungus,such as sharp contradictions between bacteria and forest,shortage of labor and high labor costs,poor infrastructure,imperfect market service system and inefficient management.Consequently,this paper proposes several suggestions on how to promote sustainable and healthy development of black fungus industry.

  14. POWER SUPPLY UNIT FOR COMMERCIAL GREENHOUSES

    Directory of Open Access Journals (Sweden)

    Sit M.

    2014-12-01

    Full Text Available The aim of the work is to develop the energy efficient schemes for energy supply of the industrial greenhouse designed for year-round production of plants that requires year-round maintenance of strongly prescribed temperature and humidity inside. We have been elaborated the complex "gas driven heat pump “water-air” – electric generator" (for use during the heating season as well as the "gas driven heat pump “water-air” – electric generator – desiccant – evaporative chiller" (for use during the off-season. Proposed structures have a high energetic and economic efficiency as compared with conventional schemes (boiler - chiller. The proposed complex ensures year-round maximum COP of heat pump and maximum performance of gas engine.

  15. A comparative study of first and all-author co-citation counting, and two different matrix generation approaches applied for author co-citation analyses

    DEFF Research Database (Denmark)

    Schneider, Jesper Wiborg; Larsen, Birger; Ingwersen, Peter

    2009-01-01

    XML documents extracted from the IEEE collection. These data allow the construction of ad-hoc citation indexes, which enables us to carry out the hitherto largest all-author co-citation study. Four ACA are made, combining the different units of analyses with the different matrix generation approaches...... into groupings. Finally, the study also demonstrates the importance of sparse matrices and their potential problems in connection with factor analysis. Conclusion: We can confirm that inclusive all-ACA produce more coherent groupings of authors, whereas the present study cannot clearly confirm previous findings...

  16. OPIC Greenhouse Gas Emissions Analysis Details

    Data.gov (United States)

    Overseas Private Investment Corporation — Summary project inventory with independent analysis to quantify the greenhouse gas ("GHG") emissions directly attributable to projects to which the Overseas Private...

  17. Observational determination of the greenhouse effect

    Science.gov (United States)

    Raval, A.; Ramanathan, V.

    1989-01-01

    Satellite measurements are used to quantify the atmospheric greenhouse effect, defined here as the infrared radiation energy trapped by atmospheric gases and clouds. The greenhouse effect is found to increase significantly with sea surface temperature. The rate of increase gives compelling evidence for the positive feedback between surface temperature, water vapor and the greenhouse effect; the magnitude of the feedback is consistent with that predicted by climate models. This study demonstrates an effective method for directly monitoring, from space, future changes in the greenhouse effect.

  18. Virtual Sensors for Designing Irrigation Controllers in Greenhouses

    Directory of Open Access Journals (Sweden)

    Manuel R. Arahal

    2012-11-01

    Full Text Available Monitoring the greenhouse transpiration for control purposes is currently a difficult task. The absence of affordable sensors that provide continuous transpiration measurements motivates the use of estimators. In the case of tomato crops, the availability of estimators allows the design of automatic fertirrigation (irrigation + fertilization schemes in greenhouses, minimizing the dispensed water while fulfilling crop needs. This paper shows how system identification techniques can be applied to obtain nonlinear virtual sensors for estimating transpiration. The greenhouse used for this study is equipped with a microlysimeter, which allows one to continuously sample the transpiration values. While the microlysimeter is an advantageous piece of equipment for research, it is also expensive and requires maintenance. This paper presents the design and development of a virtual sensor to model the crop transpiration, hence avoiding the use of this kind of expensive sensor. The resulting virtual sensor is obtained by dynamical system identification techniques based on regressors taken from variables typically found in a greenhouse, such as global radiation and vapor pressure deficit. The virtual sensor is thus based on empirical data. In this paper, some effort has been made to eliminate some problems associated with grey-box models: advance phenomenon and overestimation. The results are tested with real data and compared with other approaches. Better results are obtained with the use of nonlinear Black-box virtual sensors. This sensor is based on global radiation and vapor pressure deficit (VPD measurements. Predictive results for the three models are developed for comparative purposes.

  19. Virtual sensors for designing irrigation controllers in greenhouses.

    Science.gov (United States)

    Sánchez, Jorge Antonio; Rodríguez, Francisco; Guzmán, José Luis; Arahal, Manuel R

    2012-11-08

    Monitoring the greenhouse transpiration for control purposes is currently a difficult task. The absence of affordable sensors that provide continuous transpiration measurements motivates the use of estimators. In the case of tomato crops, the availability of estimators allows the design of automatic fertirrigation (irrigation + fertilization) schemes in greenhouses, minimizing the dispensed water while fulfilling crop needs. This paper shows how system identification techniques can be applied to obtain nonlinear virtual sensors for estimating transpiration. The greenhouse used for this study is equipped with a microlysimeter, which allows one to continuously sample the transpiration values. While the microlysimeter is an advantageous piece of equipment for research, it is also expensive and requires maintenance. This paper presents the design and development of a virtual sensor to model the crop transpiration, hence avoiding the use of this kind of expensive sensor. The resulting virtual sensor is obtained by dynamical system identification techniques based on regressors taken from variables typically found in a greenhouse, such as global radiation and vapor pressure deficit. The virtual sensor is thus based on empirical data. In this paper, some effort has been made to eliminate some problems associated with grey-box models: advance phenomenon and overestimation. The results are tested with real data and compared with other approaches. Better results are obtained with the use of nonlinear Black-box virtual sensors. This sensor is based on global radiation and vapor pressure deficit (VPD) measurements. Predictive results for the three models are developed for comparative purposes.

  20. Greenhouse Gas Emissions From Cattle

    Directory of Open Access Journals (Sweden)

    Podkówka Zbigniew

    2015-03-01

    Full Text Available Cattle produce greenhouse gases (GHG which lead to changes in the chemical composition of the atmosphere. These gases which cause greenhouse effect include: methane (CH4, nitrous oxide (N2O, nitrogen oxides (NOx, sulphur dioxide (SO2, ammonia (NH3, dust particles and non-methane volatile organic compounds, commonly described as other than methane hydrocarbons. Fermentation processes taking place in the digestive tract produce ‘digestive gases’, distinguished from gases which are emitted during the decomposition of manure. Among these digestive gases methane and non-methane volatile organic compounds are of particular relevance importance. The amount of gases produced by cows can be reduced by choosing to rear animals with an improved genetically based performance. A dairy cow with higher production efficiency, producing milk with higher protein content and at the same time reduced fat content emits less GHG into the environment. Increasing the ratio of feed mixtures in a feed ration also reduces GHG emissions, especially of methane. By selection of dairy cows with higher production efficiency and appropriate nutrition, the farm's expected milk production target can be achieved while at the same time, the size of the herd is reduced, leading to a reduction of GHG emissions.

  1. Assessment of the impact of the greenhouse gas emission and sink scenarios in Finland on radiative forcing and greenhouse effect

    Energy Technology Data Exchange (ETDEWEB)

    Savolainen, I.; Sinisalo, J.; Pipatti, R. [Technical Research Centre of Finland, Espoo (Finland)

    1996-12-31

    The objective of this work is to study greenhouse gas emissions and sinks and their greenhouse impact as a function of time. The greenhouse impact is expressed in terms of global average radiative forcing, which measures the perturbation in the Earth`s radiation budget. Radiative forcing is calculated on the basis of the concentration changes of the greenhouse gases and the radiation absorption properties of the gases. It takes into account the relatively slow changes in the concentrations due to natural removal and transformation processes and also allows a comparison of the impact of various greenhouse gases and their possible control options as a function of time. In addition to the applications mentioned above, the anthropogenic greenhouse gas emission histories of Nordic countries have been estimated, and the radiative forcing caused by them has been calculated with REFUGE. The dynamic impact of aerosol emissions both from the global point of view and in the context of different energy sources (coal, oil and natural gas) have also been studied. In some instances the caused radiative forcing has been examined on a per capita basis. The radiative forcing calculations contain considerable uncertainty due to inaccurately known factors at several stages of the calculation (emission estimation, concentration calculation and radiative forcing calculation). The total uncertainty of the results is typically on the order of +- 40 %, when absolute values are used. If the results are used in a relative way, e.g. to compare the impacts of different scenarios, the final uncertainty is considerably less (typically + 10 %), due to correlations in almost all stages of the calculation process

  2. Comparative CO2 flux measurements by eddy covariance technique using open- and closed-path gas analysers over the equatorial Pacific Ocean

    Directory of Open Access Journals (Sweden)

    Fumiyoshi Kondo

    2012-04-01

    Full Text Available Direct comparison of air–sea CO2 fluxes by open-path eddy covariance (OPEC and closed-path eddy covariance (CPEC techniques was carried out over the equatorial Pacific Ocean. Previous studies over oceans have shown that the CO2 flux by OPEC was larger than the bulk CO2 flux using the gas transfer velocity estimated by the mass balance technique, while the CO2 flux by CPEC agreed with the bulk CO2 flux. We investigated a traditional conflict between the CO2 flux by the eddy covariance technique and the bulk CO2 flux, and whether the CO2 fluctuation attenuated using the closed-path analyser can be measured with sufficient time responses to resolve small CO2 flux over oceans. Our results showed that the closed-path analyser using a short sampling tube and a high volume air pump can be used to measure the small CO2 fluctuation over the ocean. Further, the underestimated CO2 flux by CPEC due to the attenuated fluctuation can be corrected by the bandpass covariance method; its contribution was almost identical to that of H2O flux. The CO2 flux by CPEC agreed with the total CO2 flux by OPEC with density correction; however, both of them are one order of magnitude larger than the bulk CO2 flux.

  3. Phylogenetic Analyses of Shigella and Enteroinvasive Escherichia coli for the Identification of Molecular Epidemiological Markers: Whole-Genome Comparative Analysis Does Not Support Distinct Genera Designation

    Directory of Open Access Journals (Sweden)

    Emily A. Pettengill

    2016-01-01

    Full Text Available As a leading cause of bacterial dysentery, Shigella represents a significant threat to public health and food safety. Related, but often overlooked, enteroinvasive Escherichia coli (EIEC can also cause dysentery. Current typing methods have limited ability to identify and differentiate between these pathogens despite the need for rapid and accurate identification of pathogens for clinical treatment and outbreak response. We present a comprehensive phylogeny of Shigella and EIEC using whole genome sequencing (WGS of 169 samples, constituting unparalleled strain diversity, and observe a lack of monophyly between Shigella and EIEC and among Shigella taxonomic groups. The evolutionary relationships in the phylogeny are supported by analyses of population structure and hierarchical clustering patterns of translated gene homolog abundance. Lastly, we identified a panel of 404 single nucleotide polymorphism (SNP markers specific to each phylogenetic cluster for more accurate identification of Shigella and EIEC. Our findings show that Shigella and EIEC are not distinct evolutionary groups within the E. coli genus and, thus, EIEC as a group is not the ancestor to Shigella. The multiple analyses presented provide evidence for reconsidering the taxonomic placement of Shigella. The SNP markers offer more discriminatory power to molecular epidemiological typing methods involving these bacterial pathogens.

  4. Phylogenetic Analyses of Shigella and Enteroinvasive Escherichia coli for the Identification of Molecular Epidemiological Markers: Whole-Genome Comparative Analysis Does Not Support Distinct Genera Designation.

    Science.gov (United States)

    Pettengill, Emily A; Pettengill, James B; Binet, Rachel

    2015-01-01

    As a leading cause of bacterial dysentery, Shigella represents a significant threat to public health and food safety. Related, but often overlooked, enteroinvasive Escherichia coli (EIEC) can also cause dysentery. Current typing methods have limited ability to identify and differentiate between these pathogens despite the need for rapid and accurate identification of pathogens for clinical treatment and outbreak response. We present a comprehensive phylogeny of Shigella and EIEC using whole genome sequencing of 169 samples, constituting unparalleled strain diversity, and observe a lack of monophyly between Shigella and EIEC and among Shigella taxonomic groups. The evolutionary relationships in the phylogeny are supported by analyses of population structure and hierarchical clustering patterns of translated gene homolog abundance. Lastly, we identified a panel of 404 single nucleotide polymorphism (SNP) markers specific to each phylogenetic cluster for more accurate identification of Shigella and EIEC. Our findings show that Shigella and EIEC are not distinct evolutionary groups within the E. coli genus and, thus, EIEC as a group is not the ancestor to Shigella. The multiple analyses presented provide evidence for reconsidering the taxonomic placement of Shigella. The SNP markers offer more discriminatory power to molecular epidemiological typing methods involving these bacterial pathogens.

  5. Research Advances of Effects of Land Use Pattern on Greenhouse Gas Fluxes in Grassland Ecosystem

    Institute of Scientific and Technical Information of China (English)

    Cheng; Leixing; Chen; Kelong; Wang; Shiping

    2014-01-01

    The grassland is the largest terrestrial ecosystem in China,and greenhouse gas fluxes such as CO2,CH4 and N2O play an important role in the global climate change. The differences in grazing,cultivation and management measures will affect greenhouse gas emissions in grassland ecosystem. Studies suggest that reclamation will lead to increased CO2 fluxes,and fertilization will lead to increased N2 O fluxes; no grazing in summer can reduce greenhouse gas emissions,but impacts of grazing and management measures on greenhouse gas fluxes have not yet reached the same conclusion. The different results may be related to local natural conditions,management measures and research methods. Future research should be focused on unity and standardization in these areas,making the results scientific and comparable,and finally providing the basis for emission reduction of greenhouse gases in grassland ecosystem.

  6. Comparative analyses of flavonoid content in Moringa oleifera and Moringa ovalifolia with the aid of UHPLC-qTOF-MS fingerprinting

    CSIR Research Space (South Africa)

    Makita, C

    2016-07-01

    Full Text Available recently been linked to various medicinal properties has been identified in M. oleifera. Overall, M. oleifera (as compared to M. ovalifolia) is expected to exhibit wider pharmacological activities owing to its glycosylation complexity....

  7. Une analyse comparée de la médiatisation de deux sociologues de la délinquance juvénile

    OpenAIRE

    Sedel, Julie

    2012-01-01

    En France, à la fin des années 90, plusieurs « experts » ont monopolisé le débat public sur la petite délinquance en se positionnant comme les interlocuteurs légitimes des hommes politiques et des journalistes. À travers la façon dont deux sociologues de la délinquance représentant des positions antagonistes – Sébastian Roché et Laurent Mucchielli – sont intervenus dans les médias, durant cette période, cet article se propose d’analyser la façon dont la sociologie contribue à formuler les pro...

  8. Essays on the economics of energy markets. Security of supply and greenhouse gas abatement

    Energy Technology Data Exchange (ETDEWEB)

    Dieckhoener, Caroline

    2013-02-01

    In summary, the presented thesis analyzes two distinct economic subjects: security of supply in natural gas markets and greenhouse gas abatement potentials in the residential heating market. These subjects considered both reflect key points in the triangle of energy policy and are both associated with transnational market failures within energy markets. The security of supply analyses in an intermeshed network are approached from a rather normative, top-down perspective of a social planner. On the contrary, the analyses of greenhouse gases emitted by households are positive analyses of consumer choices. The normative analyses of security of supply in natural gas markets and the positive analyses on greenhouse gas abatement in the residential heating market are organized in two parts of the thesis. 1. Normative analyses - Security of supply in natural gas markets: The two papers of the first part of the dissertation thesis are based on a normative approach with the European natural gas market and infrastructure model TIGER that allows for security of supply analyses. The general idea behind the modeling approach is based on the assumption of a social planner and finds an efficient utilization of the natural gas infrastructure. More precisely, the security of supply analyses conducted in the first part of the thesis refer to scenario simulations of disrupted supply routes in the European natural gas network. The effects of these security of supply scenarios on the usage of other infrastructure components, on marginal supply costs and disruptions to consumers are investigated. 2. Positive analyses of greenhouse gas abatement potentials - Econometric modeling of consumer choices and evaluation of public policies: The second part of the thesis includes two positive analyses which investigate household choices to derive greenhouse gas abatement potentials. In the residential heating market, the energy efficiency level exhibited and the type of energy carrier used are

  9. Cost-utility and cost-effectiveness analyses of a long-term, high-intensity exercise program compared with conventional physical therapy in patients with rheumatoid arthritis.

    NARCIS (Netherlands)

    Hout, W.B. van den; Jong, Z. de; Munneke, M.; Hazes, J.M.W.; Breedveld, F.C.; Vliet Vlieland, T.P.M.

    2005-01-01

    OBJECTIVE: To estimate the cost utility and cost effectiveness of long-term, high-intensity exercise classes compared with usual care in rheumatoid arthritis (RA) patients. METHODS: RA patients (n = 300) were randomly assigned to either exercise classes or UC; followup lasted for 2 years. Outcome me

  10. Cost-utility and cost-effectiveness analyses of a long-term, high-intensity exercise program compared with conventional physical therapy in patients with rheumatoid arthritis.

    NARCIS (Netherlands)

    Hout, W.B. van den; Jong, Z. de; Munneke, M.; Hazes, J.M.W.; Breedveld, F.C.; Vliet Vlieland, T.P.M.

    2005-01-01

    OBJECTIVE: To estimate the cost utility and cost effectiveness of long-term, high-intensity exercise classes compared with usual care in rheumatoid arthritis (RA) patients. METHODS: RA patients (n = 300) were randomly assigned to either exercise classes or UC; followup lasted for 2 years. Outcome me

  11. Analyses adjusting for selective crossover show improved overall survival with adjuvant letrozole compared with tamoxifen in the BIG 1-98 study

    DEFF Research Database (Denmark)

    Colleoni, Marco; Giobbie-Hurder, Anita; Regan, Meredith M

    2011-01-01

    Among postmenopausal women with endocrine-responsive breast cancer, the aromatase inhibitor letrozole, when compared with tamoxifen, has been shown to significantly improve disease-free survival (DFS) and time to distant recurrence (TDR). We investigated whether letrozole monotherapy prolonged ov...

  12. Comparative Analyses of the Teaching Methods and Evaluation Practices in English Subject at Secondary School Certificate (SSC) and General Certificate of Education (GCE O-Level) in Pakistan

    Science.gov (United States)

    Behlol, Malik Ghulam; Anwar, Mohammad

    2011-01-01

    The study was conducted to compare the teaching methods and evaluation practices in English subject at secondary school certificate (SSC) and general certificate of education GCE-O-level in Pakistan. The population of the study was students, teachers and experts at SSC and 0-level in the Punjab province. Purposive and random sampling techniques…

  13. A comparative study in Alzheimer's and normal brains of trace element distribution using PIXE and INA analyses and glucose metabolism by positron emission tomography

    NARCIS (Netherlands)

    Cutts, DA; Maguire, RP; Stedman, JD; Leenders, KL; Spyrou, NM

    1999-01-01

    The onset of Alzheimer's disease has been shown to affect trace element concentrations in the brain when compared to "normal" subjects in ex vivo samples. The techniques used to determine trace element concentrations were proton-induced X-ray emission and instrumental neutron activation analysis. Wi

  14. L`ANALYSE COMPARATIVE DES FUSIONS-ACQUISITIONS AVEC LES AUTRES FORMES DE CROISSANCE DES ENTREPRISES (II- FUSIONS- ACQUISITIONS VS. ALLIANCES

    Directory of Open Access Journals (Sweden)

    Vancea Mariana

    2010-12-01

    Full Text Available Development through mergers and acquisitions is a companys external growth strategy, as well as business alliances, but these options can not be mistaken, because the characteristics, stakes and risks are fundamentally different nature. In this paper we intent to analyze mergers and acquisitions compared with other ways of the companys external growth, by presenting the main similarities and differences between them.

  15. Global cropland and greenhouse gas impacts of UK food supply are increasingly located overseas.

    Science.gov (United States)

    de Ruiter, Henri; Macdiarmid, Jennie I; Matthews, Robin B; Kastner, Thomas; Smith, Pete

    2016-01-01

    Producing sufficient, healthy food for a growing world population amid a changing climate is a major challenge for the twenty-first century. Agricultural trade could help alleviate this challenge by using comparative productivity advantages between countries. However, agricultural trade has implications for national food security and could displace environmental impacts from developed to developing countries. This study illustrates the global effects resulting from the agricultural trade of a single country, by analysing the global cropland and greenhouse gas impacts of the UK's food and feed supply. The global cropland footprint associated with the UK food and feed supply increased by 2022 kha (+23%) from 1986 to 2009. Greenhouse gas emissions (GHGE) associated with fertilizer and manure application, and rice cultivation remained relatively constant at 7.9 Mt CO2e between 1987 and 2008. Including GHGE from land-use change, however, leads to an increase from 19.1 in 1987 to 21.9 Mt CO2e in 2008. The UK is currently importing over 50% of its food and feed, whereas 70% and 64% of the associated cropland and GHGE impacts, respectively, are located abroad. These results imply that the UK is increasingly reliant on external resources and that the environmental impact of its food supply is increasingly displaced overseas. © 2016 The Author(s).

  16. Seasonal variation of heat consumption in greenhouses

    DEFF Research Database (Denmark)

    Nielsen, O.F.; Amsen, M.G.; Strøm, J.S.

    The concept of dynamic variation is introduced as a method to visualize the dynamic fluctuations of heat consumption and thermal climate in greenhouses. The feasibility of the concept is illustrated by describing effects of different greenhouse designs. Engineering data on design heat consumption...

  17. Climate and Yield in a closed greenhouse

    NARCIS (Netherlands)

    Heuvelink, E.; Bakker, M.J.; Marcelis, L.F.M.; Raaphorst, M.

    2008-01-01

    The so-called closed greenhouse (closed ventilation windows) is a recent innovation in Dutch greenhouse industry. The technical concept consists of a heat pump, underground (aquifer) seasonal energy storage as well as daytime storage, air treatment units with heat exchangers, and air distribution du

  18. Greenhouse climate management : an optimal control approach

    NARCIS (Netherlands)

    Henten, van E.J.

    1994-01-01

    In this thesis a methodology is developed for the construction and analysis of an optimal greenhouse climate control system.

    In chapter 1, the results of a literature survey are presented and the research objectives are defined. In the literature, optimal greenhouse climate

  19. Climatic evaluation of semi-closed greenhouses

    NARCIS (Netherlands)

    Campen, J.B.; Kempkes, F.L.K.

    2011-01-01

    In the Netherlands the development of semi-closed greenhouses is going on for eight years. Increased carbon dioxide levels, reduced pesticide use, and energy saving are the main benefits of semi-closed greenhouses. Companies have developed several concepts with the goal to reduce the ventilation wit

  20. The greenhouse gas balance of the landscape

    NARCIS (Netherlands)

    Nol, Linda; Neubert, Rolf; Vermeulen, Alex; Vellinga, Olaf; Meesters, Antoon; Tolk, Lieselotte; Olivier, Jos; Peters, Wouter; Lesschen, Jan Peter; Hutjes, Ronald; Moors, Eddy

    2010-01-01

    It is difficult to measure or even estimate the Dutch greenhouse gas emissions of the landscape, because we cannot put a flux chamber over the entire Netherlands. Greenhouse gas emissions are usually estimated by bottom-up methods or top-down methods. The Netherlands report most emissions to the

  1. A Hiatus of the Greenhouse Effect.

    Science.gov (United States)

    Song, Jinjie; Wang, Yuan; Tang, Jianping

    2016-09-12

    The rate at which the global average surface temperature is increasing has slowed down since the end of the last century. This study investigates whether this warming hiatus results from a change in the well-known greenhouse effect. Using long-term, reliable, and consistent observational data from the Earth's surface and the top of the atmosphere (TOA), two monthly gridded atmospheric and surface greenhouse effect parameters (Ga and Gs) are estimated to represent the radiative warming effects of the atmosphere and the surface in the infrared range from 1979 to 2014. The atmospheric and surface greenhouse effect over the tropical monsoon-prone regions is found to contribute substantially to the global total. Furthermore, the downward tendency of cloud activity leads to a greenhouse effect hiatus after the early 1990 s, prior to the warming pause. Additionally, this pause in the greenhouse effect is mostly caused by the high number of La Niña events between 1991 and 2014. A strong La Niña indicates suppressed convection in the tropical central Pacific that reduces atmospheric water vapor content and cloud volume. This significantly weakened regional greenhouse effect offsets the enhanced warming influence in other places and decelerates the rising global greenhouse effect. This work suggests that the greenhouse effect hiatus can be served as an additional factor to cause the recent global warming slowdown.

  2. Greenhouse gas emissions from South Africa

    CSIR Research Space (South Africa)

    Scholes, RJ

    1996-05-01

    Full Text Available South African greenhouse gas emissions contributed about 1.2% to the global increase in the greenhouse effect in 1988. South Africa generated trace gases with a radiation absorption potential over a 20-year period equivalent to 534 million tons...

  3. Greenhouse climate management: an optimal control approach.

    NARCIS (Netherlands)

    Henten, van E.J.

    1994-01-01

    In this thesis a methodology is developed for the construction and analysis of an optimal greenhouse climate control system.In chapter 1, the results of a literature survey are presented and the research objectives are defined. In the literature, optimal greenhouse climate management systems have be

  4. A Hiatus of the Greenhouse Effect

    Science.gov (United States)

    Song, Jinjie; Wang, Yuan; Tang, Jianping

    2016-09-01

    The rate at which the global average surface temperature is increasing has slowed down since the end of the last century. This study investigates whether this warming hiatus results from a change in the well-known greenhouse effect. Using long-term, reliable, and consistent observational data from the Earth’s surface and the top of the atmosphere (TOA), two monthly gridded atmospheric and surface greenhouse effect parameters (Ga and Gs) are estimated to represent the radiative warming effects of the atmosphere and the surface in the infrared range from 1979 to 2014. The atmospheric and surface greenhouse effect over the tropical monsoon-prone regions is found to contribute substantially to the global total. Furthermore, the downward tendency of cloud activity leads to a greenhouse effect hiatus after the early 1990 s, prior to the warming pause. Additionally, this pause in the greenhouse effect is mostly caused by the high number of La Niña events between 1991 and 2014. A strong La Niña indicates suppressed convection in the tropical central Pacific that reduces atmospheric water vapor content and cloud volume. This significantly weakened regional greenhouse effect offsets the enhanced warming influence in other places and decelerates the rising global greenhouse effect. This work suggests that the greenhouse effect hiatus can be served as an additional factor to cause the recent global warming slowdown.

  5. Titan's greenhouse and antigreenhouse effects

    Science.gov (United States)

    Mckay, Christopher P.; Pollack, James B.; Courtin, Regis

    1992-01-01

    Thermal mechanisms active in Titan's atmosphere are discussed in a brief review of data obtained during the Voyager I flyby in 1980. Particular attention is given to the greenhouse effect (GHE) produced by atmospheric H2, N2, and CH4; this GHE is stronger than that on earth, with CH4 and H2 playing roles similar to those of H2O and CO2 on earth. Also active on Titan is an antigreenhouse effect, in which dark-brown and orange organic aerosols block incoming solar light while allowing IR radiation from the Titan surface to escape. The combination of GHE and anti-GHE leads to a surface temperature about 12 C higher than it would be if Titan had no atmosphere.

  6. Comparative analyses of phenotypic methods and 16S rRNA, khe, rpoB genes sequencing for identification of clinical isolates of Klebsiella pneumoniae.

    Science.gov (United States)

    He, Yanxia; Guo, Xianguang; Xiang, Shifei; Li, Jiao; Li, Xiaoqin; Xiang, Hui; He, Jinlei; Chen, Dali; Chen, Jianping

    2016-07-01

    The present work aimed to evaluate 16S rRNA, khe and rpoB gene sequencing for the identification of Klebsiella pneumoniae in comparison with phenotypic methods. Fifteen clinical isolates were examined, which were initially identified as K. pneumoniae subsp. pneumoniae using the automated VITEK 32 system in two hospitals in Enshi City, China. Their identity was further supported by conventional phenotypic methods on the basis of morphological and biochemical characteristics. Using Bayesian phylogenetic analyses and haplotypes network reconstruction, 13 isolates were identified as K. pneumoniae, whereas the other two isolates (K19, K24) were classified as Shigella sp. and Enterobacter sp., respectively. Of the three genes, 16S rRNA and khe gene could discriminate the clinical isolates at the genus level, whereas rpoB could discriminate Klebsiella at the species and even subspecies level. Overall, the gene tree based on rpoB is more compatible with the currently accepted classification of Klebsiella than those based on 16S rRNA and khe genes, showing that rpoB can be a powerful tool for identification of K. pneumoniae isolates. Above all, our study challenges the utility of khe as a species-specific marker for identification of K. pneumoniae.

  7. Energy management as a factor of success. International comparative analysis of energy management systems standards; Energiemanagement als Erfolgsfaktor. International vergleichende Analyse von Energiemanagementnormen

    Energy Technology Data Exchange (ETDEWEB)

    Kahlenborn, Walter; Knopf, Jutta; Richter, Ina [adelphi research, Berlin (Germany)

    2010-11-15

    This report outlines the current state of standardised energy management systems (EnMSs) worldwide whose aim is to promote energy efficiency in the industrial sector. The core intention of the study is to identify the potential of EnMSs for German energy efficiency policy. The study examines the experiences of countries that can be defined as front runners in this context, such as the Netherlands, Denmark, Sweden, Ireland and the USA. Further input was taken from recently completed, and still ongoing, development processes of national standards. Data were generated from an intensive literature review as well as interviews with experts. Central to the analysis are questions of characteristics as well as the effectiveness of national energy management standards. In addition, political frameworks (i.e. voluntary agreements), financial tools (i.e. subsidies) and other measures of assistance (i.e. capacity building) supporting the implementation of an EnMS were analysed. The study concludes with a comparison of findings from the country-by-country analysis and provides recommendations for the effective implementation of EnMS in Germany. As part of the entire project adelphi produced a manual on the use of EN 16001 which has been published by BMU/UBA. (orig.)

  8. Energy Flexibility of The Commercial Greenhouse Growers

    DEFF Research Database (Denmark)

    Ma, Zheng; Jørgensen, Bo Nørregaard

    2016-01-01

    The commercial greenhouses can provide energy flexibility with the artificial lighting usage. Therefore, the commercial greenhouse growers can potentially play an important role in the electricity market as providers of flexibility services with the technology and software readiness. This paper...... takes Danish commercial growers and the Nordic regulating market as an example, to investigate the market potential with two business models. One business model is that commercial greenhouse growers directly participate in the regulating market. Another model is rescuing the BRPs’ (Balance Responsible...... Parties) imbalance error. Two calculations are formulated to evaluate the monetary benefits for the commercial greenhouse growers’ participation in both business models. The positive results indicate potential and benefits for the Danish commercial greenhouse growers’ participation in the electricity...

  9. GREENHOUSE GASES AND MEANS OF PREVENTION

    Directory of Open Access Journals (Sweden)

    Dušica Stojanović

    2013-09-01

    Full Text Available The greenhouse effect can be defined as the consequence of increased heating of the Earth's surface, as well as the lower atmosphere by carbon dioxide, water vapor, and other trace amounts gases. It is well-known that human industrial activities have released large amounts of greenhouse gases in the atmosphere, about 900 billion tons of carbon dioxide, and it is estimated that up to 450 billion are still in the atmosphere. In comparison to greenhouse gases water vapor is one of the greatest contributors to the greenhouse effect on Earth. Many projects, as does the PURGE project, have tendences to build on the already conducted research and to quantify the positive and negative impacts on health and wellbeing of the population with greenhouse gas reduction strategies that are curently being implemented and should be increasingly applied in various sectors and urban areas, having offices in Europe, China and India.

  10. Energy Flexibility of The Commercial Greenhouse Growers

    DEFF Research Database (Denmark)

    Ma, Zheng; Jørgensen, Bo Nørregaard

    2017-01-01

    The commercial greenhouses can provide energy flexibility with the artificial lighting usage. Therefore, the commercial greenhouse growers can potentially play an important role in the electricity market as providers of flexibility services with the technology and software readiness. This paper...... Parties) imbalance error. Two calculations are formulated to evaluate the monetary benefits for the commercial greenhouse growers’ participation in both business models. The positive results indicate potential and benefits for the Danish commercial greenhouse growers’ participation in the electricity...... takes Danish commercial growers and the Nordic regulating market as an example, to investigate the market potential with two business models. One business model is that commercial greenhouse growers directly participate in the regulating market. Another model is rescuing the BRPs’ (Balance Responsible...

  11. Dental cone beam computed tomography analyses of postoperative labial bone thickness in maxillary anterior implants: comparing immediate and delayed implant placement.

    Science.gov (United States)

    Miyamoto, Yasukazu; Obama, Tadakazu

    2011-06-01

    This study aimed to evaluate the influence of labial alveolar bone thickness and the corresponding vertical bone loss on postoperative gingival recessions around anterior maxillary dental implants. Using cone beam computed tomography (CBCT) scanning, the temporal changes of three-dimensional images of alveolar bone were monitored to determine hard and soft tissue outcomes of two different implant placement techniques: delayed two-stage and immediate placement. Furthermore, for the delayed two-stage placement, guided bone regeneration was applied using either nonresorbable or resorbable membranes combined with anorganic bovine bone matrix. The comparative results suggested that gingival recessions were significantly lower in delayed two-stage placement, especially when using a nonresorbable membrane, compared to immediate placement, and labial bone thickness, measured by CBCT, offered an effectual indicator to assess gingival recession in the anterior region.

  12. Comparative Sequence, Structure and Redox Analyses of Klebsiella pneumoniae DsbA Show That Anti-Virulence Target DsbA Enzymes Fall into Distinct Classes

    OpenAIRE

    Fabian Kurth; Kieran Rimmer; Lakshmanane Premkumar; Biswaranjan Mohanty; Wilko Duprez; Halili, Maria A; Shouldice, Stephen R.; Begoña Heras; Fairlie, David P.; Martin J. Scanlon; Jennifer L Martin

    2013-01-01

    Bacterial DsbA enzymes catalyze oxidative folding of virulence factors, and have been identified as targets for antivirulence drugs. However, DsbA enzymes characterized to date exhibit a wide spectrum of redox properties and divergent structural features compared to the prototypical DsbA enzyme of Escherichia coli DsbA (EcDsbA). Nonetheless, sequence analysis shows that DsbAs are more highly conserved than their known substrate virulence factors, highlighting the potential to inhibit virulenc...

  13. Analyse statistique des données textuelles et traitement automatique des langues. Une étude comparée

    OpenAIRE

    Valette, Mathieu

    2016-01-01

    International audience; Our purpose in this article is to compare the Statistical Analysis of Textual Data and the Natural Language Processing by regarding several points of view: epistemological, methodological and applicative, and studying objects. The aim is to clarify the relations between these sub-disciplines in order to consider the possible conciliations: (i) automatics vs. hermeneutics; (ii) techne vs. episteme; (iii) tests vs. acceptability judgments; (iv) algorithms vs. ergonomics;...

  14. Comparative analyses of the cholinergic locus of ChAT and VAChT and its expression in the silkworm Bombyx mori.

    Science.gov (United States)

    Banzai, Kota; Adachi, Takeshi; Izumi, Susumu

    2015-07-01

    The cholinergic locus, which encodes choline acetyltransferase (ChAT) and vesicular acetylcholine transporter (VAChT), is specifically expressed in cholinergic neurons, maintaining the cholinergic phenotype. The organization of the locus is conserved in Bilateria. Here we examined the structure of cholinergic locus and cDNA coding for ChAT and VAChT in the silkworm, Bombyx mori. The B. mori ChAT (BmChAT) cDNA encodes a deduced polypeptide including a putative choline/carnitine O-acyltransferase domain and a conserved His residue required for catalysis. The B. mori VAChT (BmVAChT) cDNA encodes a polypeptide including a putative major facilitator superfamily domain and 10 putative transmembrane domains. BmChAT and BmVAChT cDNAs share the 5'-region corresponding to the first and second exon of cholinergic locus. Polymerase chain reaction analyses revealed that BmChAT and BmVAChT mRNAs were specifically expressed in the brain and segmental ganglia. The expression of BmChAT was detected 3 days after oviposition. The expression level was almost constant during the larval stage, decreased in the early pupal stage, and increased toward eclosion. The average ratios of BmChAT mRNA to BmVAChT mRNA in brain-subesophageal ganglion complexes were 0.54±0.10 in the larvae and 1.92±0.11 in adults. In addition, we examined promoter activity of the cholinergic locus and localization of cholinergic neurons, using a baculovirus-mediated gene transfer system. The promoter sequence, located 2kb upstream from the start of transcription, was essential for cholinergic neuron-specific gene õexpression. Cholinergic neurons were found in several regions of the brain and segmental ganglia in the larvae and pharate adults.

  15. Transcriptome de novo assembly from next-generation sequencing and comparative analyses in the hexaploid salt marsh species Spartina maritima and Spartina alterniflora (Poaceae).

    Science.gov (United States)

    Ferreira de Carvalho, J; Poulain, J; Da Silva, C; Wincker, P; Michon-Coudouel, S; Dheilly, A; Naquin, D; Boutte, J; Salmon, A; Ainouche,