A Novel W1999S Mutation and Non-Target Site Resistance Impact on Acetyl-CoA Carboxylase Inhibiting Herbicides to Varying Degrees in a UK Lolium multiflorum Population

PubMed Central

Kaundun, Shiv Shankhar; Bailly, Geraldine C.; Dale, Richard P.; Hutchings, Sarah-Jane; McIndoe, Eddie

2013-01-01

Background Acetyl-CoA carboxylase (ACCase) inhibiting herbicides are important products for the post-emergence control of grass weed species in small grain cereal crops. However, the appearance of resistance to ACCase herbicides over time has resulted in limited options for effective weed control of key species such as Lolium spp. In this study, we have used an integrated biological and molecular biology approach to investigate the mechanism of resistance to ACCase herbicides in a Lolium multiflorum Lam. from the UK (UK21). Methodology/Principal Findings The study revealed a novel tryptophan to serine mutation at ACCase codon position 1999 impacting on ACCase inhibiting herbicides to varying degrees. The W1999S mutation confers dominant resistance to pinoxaden and partially recessive resistance to cycloxydim and sethoxydim. On the other hand, plants containing the W1999S mutation were sensitive to clethodim and tepraloxydim. Additionally population UK21 is characterised by other resistance mechanisms, very likely non non-target site based, affecting several aryloxyphenoxyproprionate (FOP) herbicides but not the practical field rate of pinoxaden. The positive identification of wild type tryptophan and mutant serine alleles at ACCase position 1999 could be readily achieved with an original DNA based derived cleaved amplified polymorphic sequence (dCAPS) assay that uses the same PCR product but two different enzymes for positively identifying the wild type tryptophan and mutant serine alleles identified here. Conclusion/Significance This paper highlights intrinsic differences between ACCase inhibiting herbicides that could be exploited for controlling ryegrass populations such as UK21 characterised by compound-specific target site and non-target site resistance. PMID:23469130

Cellular, Molecular and Functional Characterisation of YAC Transgenic Mouse Models of Friedreich Ataxia

PubMed Central

Anjomani Virmouni, Sara; Sandi, Chiranjeevi; Al-Mahdawi, Sahar; Pook, Mark A.

2014-01-01

Background Friedreich ataxia (FRDA) is an autosomal recessive neurodegenerative disorder, caused by a GAA repeat expansion mutation within intron 1 of the FXN gene. We have previously established and performed preliminary characterisation of several human FXN yeast artificial chromosome (YAC) transgenic FRDA mouse models containing GAA repeat expansions, Y47R (9 GAA repeats), YG8R (90 and 190 GAA repeats) and YG22R (190 GAA repeats). Methodology/Principal Findings We now report extended cellular, molecular and functional characterisation of these FXN YAC transgenic mouse models. FXN transgene copy number analysis of the FRDA mice demonstrated that the YG22R and Y47R lines each have a single copy of the FXN transgene while the YG8R line has two copies. Single integration sites of all transgenes were confirmed by fluorescence in situ hybridisation (FISH) analysis of metaphase and interphase chromosomes. We identified significant functional deficits, together with a degree of glucose intolerance and insulin hypersensitivity, in YG8R and YG22R FRDA mice compared to Y47R and wild-type control mice. We also confirmed increased somatic GAA repeat instability in the cerebellum and brain of YG22R and YG8R mice, together with significantly reduced levels of FXN mRNA and protein in the brain and liver of YG8R and YG22R compared to Y47R. Conclusions/Significance Together these studies provide a detailed characterisation of our GAA repeat expansion-based YAC transgenic FRDA mouse models that will help investigations of FRDA disease mechanisms and therapy. PMID:25198290

Characterisation of metals in the electronic waste of complex mixtures of end-of-life ICT products for development of cleaner recovery technology

DOE Office of Scientific and Technical Information (OSTI.GOV)

Sun, Z.H.I.; Xiao, Y.; Sietsma, J.

2015-01-15

Highlights: • New characterisation methodology has been established to understand an industrially processed ICT waste. • Particle size distribution, composition, thermal–chemical behaviour and occurrence of metals were considered. • The characterisation provides direct guidelines for values recovery from the waste. - Abstract: Recycling of valuable metals from electronic waste, especially complex mixtures of end-of-life information and communication technology (ICT) products, is of great difficulty due to their complexity and heterogeneity. One of the important reasons is the lack of comprehensive characterisation on such materials, i.e. accurate compositions, physical/chemical properties. In the present research, we focus on developing methodologies for themore » characterisation of metals in an industrially processed ICT waste. The morphology, particle size distribution, compositional distribution, occurrence, liberation as well as the thermo-chemical properties of the ICT waste were investigated with various characterisation techniques, including X-ray Fluorescence Spectrometry (XRF), differential scanning calorimetry (DSC) and scanning electron microscopy (SEM) with energy dispersed spectroscopy (EDS). Due to the high heterogeneity of the material, special sample preparation procedures were introduced to minimise the discrepancies during compositional analyses. As a result, a clearer overview of the ICT waste has been reached. This research provides better understanding of the extractability of each metal and improves the awareness of potential obstacles for extraction. It will lead to smarter decisions during further development of a clean and effective recovery process.« less

The S-Layer Glycoprotein of the Crenarchaeote Sulfolobus acidocaldarius Is Glycosylated at Multiple Sites with Chitobiose-Linked N-Glycans

PubMed Central

Peyfoon, Elham; Meyer, Benjamin; Hitchen, Paul G.; Panico, Maria; Morris, Howard R.; Haslam, Stuart M.; Albers, Sonja-Verena; Dell, Anne

2010-01-01

Glycosylation of the S-layer of the crenarchaea Sulfolobus acidocaldarius has been investigated using glycoproteomic methodologies. The mature protein is predicted to contain 31 N-glycosylation consensus sites with approximately one third being found in the C-terminal domain spanning residues L1004-Q1395. Since this domain is rich in Lys and Arg and therefore relatively tractable to glycoproteomic analysis, this study has focused on mapping its N-glycosylation. Our analysis identified nine of the 11 consensus sequence sites, and all were found to be glycosylated. This constitutes a remarkably high glycosylation density in the C-terminal domain averaging one site for each stretch of 30–40 residues. Each of the glycosylation sites observed was shown to be modified with a heterogeneous family of glycans, with the largest having a composition Glc1Man2GlcNAc2 plus 6-sulfoquinovose (QuiS), consistent with the tribranched hexasaccharide previously reported in the cytochrome b558/566 of S. acidocaldarius. S. acidocaldarius is the only archaeal species whose N-glycans are known to be linked via the chitobiose core disaccharide that characterises the N-linked glycans of Eukarya. PMID:20936123

Multi-scale structural community organisation of the human genome.

PubMed

Boulos, Rasha E; Tremblay, Nicolas; Arneodo, Alain; Borgnat, Pierre; Audit, Benjamin

2017-04-11

Structural interaction frequency matrices between all genome loci are now experimentally achievable thanks to high-throughput chromosome conformation capture technologies. This ensues a new methodological challenge for computational biology which consists in objectively extracting from these data the structural motifs characteristic of genome organisation. We deployed the fast multi-scale community mining algorithm based on spectral graph wavelets to characterise the networks of intra-chromosomal interactions in human cell lines. We observed that there exist structural domains of all sizes up to chromosome length and demonstrated that the set of structural communities forms a hierarchy of chromosome segments. Hence, at all scales, chromosome folding predominantly involves interactions between neighbouring sites rather than the formation of links between distant loci. Multi-scale structural decomposition of human chromosomes provides an original framework to question structural organisation and its relationship to functional regulation across the scales. By construction the proposed methodology is independent of the precise assembly of the reference genome and is thus directly applicable to genomes whose assembly is not fully determined.

Structure-level fuel load assessment in the wildland-urban interface: a fusion of airborne laser scanning and spectral remote-sensing methodologies

Treesearch

Nicholas S. Skowronski; Scott Haag; Jim Trimble; Kenneth L. Clark; Michael R. Gallagher; Richard G. Lathrop

2015-01-01

Large-scale fuel assessments are useful for developing policy aimed at mitigating wildfires in the wildland-urban interface (WUI), while finer-scale characterisation is necessary for maximising the effectiveness of fuel reduction treatments and directing suppression activities. We developed and tested an objective, consistent approach for characterising hazardous fuels...

Geostatistical characterisation of geothermal parameters for a thermal aquifer storage site in Germany

NASA Astrophysics Data System (ADS)

Rodrigo-Ilarri, J.; Li, T.; Grathwohl, P.; Blum, P.; Bayer, P.

2009-04-01

The design of geothermal systems such as aquifer thermal energy storage systems (ATES) must account for a comprehensive characterisation of all relevant parameters considered for the numerical design model. Hydraulic and thermal conductivities are the most relevant parameters and its distribution determines not only the technical design but also the economic viability of such systems. Hence, the knowledge of the spatial distribution of these parameters is essential for a successful design and operation of such systems. This work shows the first results obtained when applying geostatistical techniques to the characterisation of the Esseling Site in Germany. In this site a long-term thermal tracer test (> 1 year) was performed. On this open system the spatial temperature distribution inside the aquifer was observed over time in order to obtain as much information as possible that yield to a detailed characterisation both of the hydraulic and thermal relevant parameters. This poster shows the preliminary results obtained for the Esseling Site. It has been observed that the common homogeneous approach is not sufficient to explain the observations obtained from the TRT and that parameter heterogeneity must be taken into account.

Assessment and selection of geomorphosites and trails in the Miage Glacier area (Western Italian alps).

PubMed

Bollati, Irene; Smiraglia, Claudio; Pelfini, Manuela

2013-04-01

Glacial environments are considered geomorphosites because they exhibit all of the features that characterise sites of geomorphological interest. The Miage Glacier, in particular, is the most important debris-covered glacier of the Italian Alps, and it has been extensively studied since the 18th century because of its scientific features. In this area, the geomorphological and geological attributes are evaluated at 11 sites that have been individuated along the three main touristic trails, which allow an exploration of the surroundings of the glacial tongue and its two main lobes. Using a methodology previously tested in a fluvial environment, single sites and trails are quantitatively assessed to determine the most suitable trail for educational purposes. Hazards that could potentially affect the trails are considered in terms of both risk education and final selection of the most suitable trails for the various possible user groups. The richness of scientific data in this area should increase its importance as a geomorphosite by increasing the educational value of the Miage Glacier and the Veny Valley.

Assessment and Selection of Geomorphosites and Trails in the Miage Glacier Area (Western Italian Alps)

NASA Astrophysics Data System (ADS)

Bollati, Irene; Smiraglia, Claudio; Pelfini, Manuela

2013-04-01

Glacial environments are considered geomorphosites because they exhibit all of the features that characterise sites of geomorphological interest. The Miage Glacier, in particular, is the most important debris-covered glacier of the Italian Alps, and it has been extensively studied since the 18th century because of its scientific features. In this area, the geomorphological and geological attributes are evaluated at 11 sites that have been individuated along the three main touristic trails, which allow an exploration of the surroundings of the glacial tongue and its two main lobes. Using a methodology previously tested in a fluvial environment, single sites and trails are quantitatively assessed to determine the most suitable trail for educational purposes. Hazards that could potentially affect the trails are considered in terms of both risk education and final selection of the most suitable trails for the various possible user groups. The richness of scientific data in this area should increase its importance as a geomorphosite by increasing the educational value of the Miage Glacier and the Veny Valley.

Identifying dentists' attitudes towards prevention guidance using Q-sort methodology.

PubMed

Witton, R V; Moles, D R

2015-06-01

To gain insight into the attitudes and motivating factors of dentists working in the English National Health Service (NHS) towards prevention guidance. Q-methodology: an established hybrid quantitative/qualitative technique used in the social sciences to categorise subjects based on their views by considering factors as part of their overall decision-making profile. General Dental Practices offering care under an NHS contract. NHS dentists (n = 26) placed 36 statements about prevention guidance derived from an earlier study into a distribution grid that ranked the statements from "most agree" to "most disagree". Principal components factor analysis was applied to determine the principal patterns in the rankings of statements. Analysis indicated a total of six distinct profiles within the responses, of which three profiles had at least six dentists loading onto them. The first profile was strongly characterised by dentists who appear motivated to provide prevention but financial and time constraints prevent them from doing so. The second was characterised by dentists using prevention guidance but restricting its use to only certain patients. The third was characterised by dentists who appeared "health-focused". They placed importance on working to prevention guidance, but were keen to have greater patient and professional support in achieving this. In this group of dentists Q-methodology identified three main profiles to the delivery of prevention guidance.

Value-centric design architecture based on analysis of space system characteristics

NASA Astrophysics Data System (ADS)

Xu, Q.; Hollingsworth, P.; Smith, K.

2018-03-01

Emerging design concepts such as miniaturisation, modularity, and standardisation, have contributed to the rapid development of small and inexpensive platforms, particularly cubesats. This has been stimulating an upcoming revolution in space design and development, leading satellites into the era of "smaller, faster, and cheaper". However, the current requirement-centric design philosophy, focused on bespoke monolithic systems, along with the associated development and production process does not inherently fit with the innovative modular, standardised, and mass-produced technologies. This paper presents a new categorisation, characterisation, and value-centric design architecture to address this need for both traditional and novel system designs. Based on the categorisation of system configurations, a characterisation of space systems, comprised of duplication, fractionation, and derivation, is proposed to capture the overall system configuration characteristics and promote potential hybrid designs. Complying with the definitions of the system characterisation, mathematical mapping relations between the system characterisation and the system properties are described to establish the mathematical foundation of the proposed value-centric design methodology. To illustrate the methodology, subsystem reliability relationships are therefore analysed to explore potential system configurations in the design space. The results of the applications of system characteristic analysis clearly show that the effects of different configuration characteristics on the system properties can be effectively analysed and evaluated, enabling the optimization of system configurations.

Methodological Capacity within the Field of "Educational Technology" Research: An Initial Investigation

ERIC Educational Resources Information Center

Bulfin, Scott; Henderson, Michael; Johnson, Nicola F.; Selwyn, Neil

2014-01-01

The academic study of educational technology is often characterised by critics as methodologically limited. In order to test this assumption, the present paper reports on data collected from a survey of 462 "research active" academic researchers working in the broad areas of educational technology and educational media. The paper…

An E-Assessment Approach for Evaluation in Engineering Overcrowded Groups

ERIC Educational Resources Information Center

Mora, M. C.; Sancho-Bru, J. L.; Iserte, J. L.; Sanchez, F. T.

2012-01-01

The construction of the European Higher Education Area has been an adaptation challenge for Spanish universities. New methodologies require a more active role on the students' part and come into conflict with the previous educational model characterised by a high student/professor ratio, a lecture-based teaching methodology and a summative…

Conceptual uncertainty in crystalline bedrock: Is simple evaluation the only practical approach?

USGS Publications Warehouse

Geier, J.; Voss, C.I.; Dverstorp, B.

2002-01-01

A simple evaluation can be used to characterise the capacity of crystalline bedrock to act as a barrier to releases of radionuclides from a nuclear waste repository. Physically plausible bounds on groundwater flow and an effective transport-resistance parameter are estimated based on fundamental principles and idealised models of pore geometry. Application to an intensively characterised site in Sweden shows that, due to high spatial variability and uncertainty regarding properties of transport paths, the uncertainty associated with the geological barrier is too high to allow meaningful discrimination between good and poor performance. Application of more complex (stochastic-continuum and discrete-fracture-network) models does not yield a significant improvement in the resolution of geologic-barrier performance. Comparison with seven other less intensively characterised crystalline study sites in Sweden leads to similar results, raising a question as to what extent the geological barrier function can be characterised by state-of-the art site investigation methods prior to repository construction. A simple evaluation provides a simple and robust practical approach for inclusion in performance assessment.

Characterisation and modelling of mixing processes in groundwaters of a potential geological repository for nuclear wastes in crystalline rocks of Sweden.

PubMed

Gómez, Javier B; Gimeno, María J; Auqué, Luis F; Acero, Patricia

2014-01-15

This paper presents the mixing modelling results for the hydrogeochemical characterisation of groundwaters in the Laxemar area (Sweden). This area is one of the two sites that have been investigated, under the financial patronage of the Swedish Nuclear Waste and Management Co. (SKB), as possible candidates for hosting the proposed repository for the long-term storage of spent nuclear fuel. The classical geochemical modelling, interpreted in the light of the palaeohydrogeological history of the system, has shown that the driving process in the geochemical evolution of this groundwater system is the mixing between four end-member waters: a deep and old saline water, a glacial meltwater, an old marine water, and a meteoric water. In this paper we put the focus on mixing and its effects on the final chemical composition of the groundwaters using a comprehensive methodology that combines principal component analysis with mass balance calculations. This methodology allows us to test several combinations of end member waters and several combinations of compositional variables in order to find optimal solutions in terms of mixing proportions. We have applied this methodology to a dataset of 287 groundwater samples from the Laxemar area collected and analysed by SKB. The best model found uses four conservative elements (Cl, Br, oxygen-18 and deuterium), and computes mixing proportions with respect to three end member waters (saline, glacial and meteoric). Once the first order effect of mixing has been taken into account, water-rock interaction can be used to explain the remaining variability. In this way, the chemistry of each water sample can be obtained by using the mixing proportions for the conservative elements, only affected by mixing, or combining the mixing proportions and the chemical reactions for the non-conservative elements in the system, establishing the basis for predictive calculations. © 2013 Elsevier B.V. All rights reserved.

Source-term characterisation and solid speciation of plutonium at the Semipalatinsk NTS, Kazakhstan.

PubMed

Nápoles, H Jiménez; León Vintró, L; Mitchell, P I; Omarova, A; Burkitbayev, M; Priest, N D; Artemyev, O; Lukashenko, S

2004-01-01

New data on the concentrations of key fission/activation products and transuranium nuclides in samples of soil and water from the Semipalatinsk Nuclear Test Site are presented and interpreted. Sampling was carried out at Ground Zero, Lake Balapan, the Tel'kem craters and reference locations within the test site boundary well removed from localised sources. Radionuclide ratios have been used to characterise the source term(s) at each of these sites. The geochemical partitioning of plutonium has also been examined and it is shown that the bulk of the plutonium contamination at most of the sites examined is in a highly refractory, non-labile form.

Using 15N-Ammonium to Characterise and Map Potassium Binding Sites in Proteins by NMR Spectroscopy

PubMed Central

Werbeck, Nicolas D; Kirkpatrick, John; Reinstein, Jochen; Hansen, D Flemming

2014-01-01

A variety of enzymes are activated by the binding of potassium ions. The potassium binding sites of these enzymes are very specific, but ammonium ions can often replace potassium ions in vitro because of their similar ionic radii. In these cases, ammonium can be used as a proxy for potassium to characterise potassium binding sites in enzymes: the 1H,15N spin-pair of enzyme-bound 15NH4+ can be probed by 15N-edited heteronuclear NMR experiments. Here, we demonstrate the use of NMR spectroscopy to characterise binding of ammonium ions to two different enzymes: human histone deacetylase 8 (HDAC8), which is activated allosterically by potassium, and the bacterial Hsp70 homologue DnaK, for which potassium is an integral part of the active site. Ammonium activates both enzymes in a similar way to potassium, thus supporting this non-invasive approach. Furthermore, we present an approach to map the observed binding site onto the structure of HDAC8. Our method for mapping the binding site is general and does not require chemical shift assignment of the enzyme resonances. PMID:24520048

Quantification of uncertainty in aerosol optical thickness retrieval arising from aerosol microphysical model and other sources, applied to Ozone Monitoring Instrument (OMI) measurements

NASA Astrophysics Data System (ADS)

Määttä, A.; Laine, M.; Tamminen, J.; Veefkind, J. P.

2014-05-01

Satellite instruments are nowadays successfully utilised for measuring atmospheric aerosol in many applications as well as in research. Therefore, there is a growing need for rigorous error characterisation of the measurements. Here, we introduce a methodology for quantifying the uncertainty in the retrieval of aerosol optical thickness (AOT). In particular, we concentrate on two aspects: uncertainty due to aerosol microphysical model selection and uncertainty due to imperfect forward modelling. We apply the introduced methodology for aerosol optical thickness retrieval of the Ozone Monitoring Instrument (OMI) on board NASA's Earth Observing System (EOS) Aura satellite, launched in 2004. We apply statistical methodologies that improve the uncertainty estimates of the aerosol optical thickness retrieval by propagating aerosol microphysical model selection and forward model error more realistically. For the microphysical model selection problem, we utilise Bayesian model selection and model averaging methods. Gaussian processes are utilised to characterise the smooth systematic discrepancies between the measured and modelled reflectances (i.e. residuals). The spectral correlation is composed empirically by exploring a set of residuals. The operational OMI multi-wavelength aerosol retrieval algorithm OMAERO is used for cloud-free, over-land pixels of the OMI instrument with the additional Bayesian model selection and model discrepancy techniques introduced here. The method and improved uncertainty characterisation is demonstrated by several examples with different aerosol properties: weakly absorbing aerosols, forest fires over Greece and Russia, and Sahara desert dust. The statistical methodology presented is general; it is not restricted to this particular satellite retrieval application.

Climate change and landscape development in post-closure safety assessment of solid radioactive waste disposal: Results of an initiative of the IAEA.

PubMed

Lindborg, T; Thorne, M; Andersson, E; Becker, J; Brandefelt, J; Cabianca, T; Gunia, M; Ikonen, A T K; Johansson, E; Kangasniemi, V; Kautsky, U; Kirchner, G; Klos, R; Kowe, R; Kontula, A; Kupiainen, P; Lahdenperä, A-M; Lord, N S; Lunt, D J; Näslund, J-O; Nordén, M; Norris, S; Pérez-Sánchez, D; Proverbio, A; Riekki, K; Rübel, A; Sweeck, L; Walke, R; Xu, S; Smith, G; Pröhl, G

2018-03-01

The International Atomic Energy Agency has coordinated an international project addressing climate change and landscape development in post-closure safety assessments of solid radioactive waste disposal. The work has been supported by results of parallel on-going research that has been published in a variety of reports and peer reviewed journal articles. The project is due to be described in detail in a forthcoming IAEA report. Noting the multi-disciplinary nature of post-closure safety assessments, here, an overview of the work is given to provide researchers in the broader fields of radioecology and radiological safety assessment with a review of the work that has been undertaken. It is hoped that such dissemination will support and promote integrated understanding and coherent treatment of climate change and landscape development within an overall assessment process. The key activities undertaken in the project were: identification of the key processes that drive environmental change (mainly those associated with climate and climate change), and description of how a relevant future may develop on a global scale; development of a methodology for characterising environmental change that is valid on a global scale, showing how modelled global changes in climate can be downscaled to provide information that may be needed for characterising environmental change in site-specific assessments, and illustrating different aspects of the methodology in a number of case studies that show the evolution of site characteristics and the implications for the dose assessment models. Overall, the study has shown that quantitative climate and landscape modelling has now developed to the stage that it can be used to define an envelope of climate and landscape change scenarios at specific sites and under specific greenhouse-gas emissions assumptions that is suitable for use in quantitative post-closure performance assessments. These scenarios are not predictions of the future, but are projections based on a well-established understanding of the important processes involved and their impacts on different types of landscape. Such projections support the understanding of, and selection of, plausible ranges of scenarios for use in post-closure safety assessments. Copyright © 2017 The Authors. Published by Elsevier Ltd.. All rights reserved.

Using Enactivism as a Methodology to Characterise Algebraic Learning

ERIC Educational Resources Information Center

Lozano, Maria-Dolores

2015-01-01

My purpose in this paper is to illustrate the way in which an enactivist methodological approach guided me as I conducted a two-case longitudinal study where the learning of algebra was explored in different contexts throughout time. Three groups of students in two different schools in the city of Puebla, Mexico, were followed from the last year…

Approach to fitting parameters and clustering for characterising measured voltage dips based on two-dimensional polarisation ellipses

DOE Office of Scientific and Technical Information (OSTI.GOV)

García-Sánchez, Tania; Gómez-Lázaro, Emilio; Muljadi, E.

An alternative approach to characterise real voltage dips is proposed and evaluated in this study. The proposed methodology is based on voltage-space vector solutions, identifying parameters for ellipses trajectories by using the least-squares algorithm applied on a sliding window along the disturbance. The most likely patterns are then estimated through a clustering process based on the k-means algorithm. The objective is to offer an efficient and easily implemented alternative to characterise faults and visualise the most likely instantaneous phase-voltage evolution during events through their corresponding voltage-space vector trajectories. This novel solution minimises the data to be stored but maintains extensivemore » information about the dips including starting and ending transients. The proposed methodology has been applied satisfactorily to real voltage dips obtained from intensive field-measurement campaigns carried out in a Spanish wind power plant up to a time period of several years. A comparison to traditional minimum root mean square-voltage and time-duration classifications is also included in this study.« less

Using Hidden Markov Models to characterise intermittent social behaviour in fish shoals

NASA Astrophysics Data System (ADS)

Bode, Nikolai W. F.; Seitz, Michael J.

2018-02-01

The movement of animals in groups is widespread in nature. Understanding this phenomenon presents an important problem in ecology with many applications that range from conservation to robotics. Underlying all group movements are interactions between individual animals and it is therefore crucial to understand the mechanisms of this social behaviour. To date, despite promising methodological developments, there are few applications to data of practical statistical techniques that inferentially investigate the extent and nature of social interactions in group movement. We address this gap by demonstrating the usefulness of a Hidden Markov Model approach to characterise individual-level social movement in published trajectory data on three-spined stickleback shoals ( Gasterosteus aculeatus) and novel data on guppy shoals ( Poecilia reticulata). With these models, we formally test for speed-mediated social interactions and verify that they are present. We further characterise this inferred social behaviour and find that despite the substantial shoal-level differences in movement dynamics between species, it is qualitatively similar in guppies and sticklebacks. It is intermittent, occurring in varying numbers of individuals at different time points. The speeds of interacting fish follow a bimodal distribution, indicating that they are either stationary or move at a preferred mean speed, and social fish with more social neighbours move at higher speeds, on average. Our findings and methodology present steps towards characterising social behaviour in animal groups.

Characterisation of a proposed internet synthesis of N,N-dimethyltryptamine using liquid chromatography/electrospray ionisation tandem mass spectrometry.

PubMed

Martins, Cláudia P B; Freeman, Sally; Alder, John F; Brandt, Simon D

2009-08-14

The psychoactive properties of N,N-dimethyltryptamine (DMT) are known to induce altered states of consciousness in humans. These properties attract great interest from clinical, neuroscientific, clandestine and forensic communities. The Breath of Hope Synthesis was reported on an internet website as a convenient two-step methodology for the preparation of DMT. The analytical characterisation of the first stage was the subject of previous publications by the authors and involved the thermal decarboxylation of tryptophan and the formation of tryptamine. The present study reports on the characterisation of the second step of this procedure which was based on the methylation of tryptamine. This employed methyl iodide and benzyltriethylammonium chloride/sodium hydroxide as a phase transfer catalyst. The reaction product was characterised by liquid chromatography/electrospray ionisation tandem mass spectrometry and orthogonal acceleration time-of-flight mass spectrometry. Quantitative evaluation was carried out in positive multiple reaction monitoring mode (MRM), which included synthesis of the identified reaction products. MRM screening of the product did not lead to the detection of DMT. Instead, 11.1% tryptamine starting material, 21.0% N,N,N-trimethyltryptammonium iodide (TMT) and 47.4% 1-N-methyl-TMT were detected. A 0.5% trace of the monomethylated N-methyltryptamine was also detected. This study demonstrated the impact on product purity of doubtful synthetic methodologies discussed on the internet.

Studying relationships between environment and malaria incidence in Camopi (French Guiana) through the objective selection of buffer-based landscape characterisations

PubMed Central

2011-01-01

Background Malaria remains a major health problem in French Guiana, with a mean of 3800 cases each year. A previous study in Camopi, an Amerindian village on the Oyapock River, highlighted the major contribution of environmental features to the incidence of malaria attacks. We propose a method for the objective selection of the best multivariate peridomestic landscape characterisation that maximises the chances of identifying relationships between environmental features and malaria incidence, statistically significant and meaningful from an epidemiological point of view. Methods A land-cover map, the hydrological network and the geolocalised inhabited houses were used to characterise the peridomestic landscape in eleven discoid buffers with radii of 50, 100, 200, 300, 400, 500, 600, 700, 800, 900 and 1000 metres. Buffer-based landscape characterisations were first compared in terms of their capacity to discriminate between sites within the geographic space and of their effective multidimensionality in variable space. The Akaike information criterion (AIC) was then used to select the landscape model best explaining the incidences of P. vivax and P. falciparum malaria. Finally, we calculated Pearson correlation coefficients for the relationships between environmental variables and malaria incidence, by species, for the more relevant buffers. Results The optimal buffers for environmental characterisation had radii of 100 m around houses for P. vivax and 400 m around houses for P. falciparum. The incidence of P. falciparum malaria seemed to be more strongly linked to environmental features than that of P. vivax malaria, within these buffers. The incidence of P. falciparum malaria in children was strongly correlated with proportions of bare soil (r = -0.69), land under high vegetation (r = 0.68) and primary forest (r = 0.54), landscape division (r = 0.48) and the number of inhabited houses (r = -0.60). The incidence of P. vivax malaria was associated only with landscape division (r = 0.49). Conclusions The proposed methodology provides a simple and general framework for objective characterisation of the landscape to account for field observations. The use of this method enabled us to identify different optimal observation horizons around houses, depending on the Plasmodium species considered, and to demonstrate significant correlations between environmental features and the incidence of malaria. PMID:22151738

Studying relationships between environment and malaria incidence in Camopi (French Guiana) through the objective selection of buffer-based landscape characterisations.

PubMed

Stefani, Aurélia; Roux, Emmanuel; Fotsing, Jean-Marie; Carme, Bernard

2011-12-13

Malaria remains a major health problem in French Guiana, with a mean of 3800 cases each year. A previous study in Camopi, an Amerindian village on the Oyapock River, highlighted the major contribution of environmental features to the incidence of malaria attacks. We propose a method for the objective selection of the best multivariate peridomestic landscape characterisation that maximises the chances of identifying relationships between environmental features and malaria incidence, statistically significant and meaningful from an epidemiological point of view. A land-cover map, the hydrological network and the geolocalised inhabited houses were used to characterise the peridomestic landscape in eleven discoid buffers with radii of 50, 100, 200, 300, 400, 500, 600, 700, 800, 900 and 1000 metres. Buffer-based landscape characterisations were first compared in terms of their capacity to discriminate between sites within the geographic space and of their effective multidimensionality in variable space. The Akaike information criterion (AIC) was then used to select the landscape model best explaining the incidences of P. vivax and P. falciparum malaria. Finally, we calculated Pearson correlation coefficients for the relationships between environmental variables and malaria incidence, by species, for the more relevant buffers. The optimal buffers for environmental characterisation had radii of 100 m around houses for P. vivax and 400 m around houses for P. falciparum. The incidence of P. falciparum malaria seemed to be more strongly linked to environmental features than that of P. vivax malaria, within these buffers. The incidence of P. falciparum malaria in children was strongly correlated with proportions of bare soil (r = -0.69), land under high vegetation (r = 0.68) and primary forest (r = 0.54), landscape division (r = 0.48) and the number of inhabited houses (r = -0.60). The incidence of P. vivax malaria was associated only with landscape division (r = 0.49). The proposed methodology provides a simple and general framework for objective characterisation of the landscape to account for field observations. The use of this method enabled us to identify different optimal observation horizons around houses, depending on the Plasmodium species considered, and to demonstrate significant correlations between environmental features and the incidence of malaria. © 2011 Stefani et al; licensee BioMed Central Ltd.

Genome-wide methylation analysis in Silver-Russell syndrome patients

PubMed Central

Böhm, S; Frost, JM; Puszyk, W; Abu-Amero, S; Stanier, P; Schulz, R; Moore, GE; Oakey, RJ

2015-01-01

Silver-Russell Syndrome (SRS) is a clinically heterogeneous disorder characterised by severe in utero growth restriction and poor postnatal growth, body asymmetry, irregular craniofacial features and several additional minor malformations. The aetiology of SRS is complex and current evidence strongly implicates imprinted genes. Approximately half of all patients exhibit DNA hypomethylation at the H19/IGF2 imprinted domain, and around 10% have maternal uniparental disomy of chromosome 7. We measured DNA methylation in 18 SRS patients at >485,000 CpG sites using DNA methylation microarrays. Using a novel bioinformatics methodology specifically designed to identify subsets of patients with a shared epimutation, we analysed methylation changes genome-wide as well as at known imprinted regions to identify SRS-associated epimutations. Our analysis identifies epimutations at the previously characterised domains of H19/IGF2 and at imprinted regions on chromosome 7, providing proof of principle that our methodology can detect DNA methylation changes at imprinted loci. In addition we discovered two novel epimutations associated with SRS and located at imprinted loci previously linked to relevant mouse and human phenotypes. We identify RB1 as an additional imprinted locus associated with SRS, with a region near the RB1 DMR hypermethylated in 13/18 (~70 %) patients. We also report 6/18 (~33 %) patients were hypermethylated at a CpG island near the ANKRD11 gene. We do not observe consistent cooccurrence of epimutations at multiple imprinted loci in single SRS individuals. SRS is clinically heterogeneous and the absence of multiple imprinted loci epimutations reflects the heterogeneity at the molecular level. Further stratification of SRS patients by molecular phenotypes might aid the identification of disease causes. PMID:25563730

Multivariate thermo-hygrometric characterisation of the archaeological site of Plaza de l'Almoina (Valencia, Spain) for preventive conservation.

PubMed

Fernández-Navajas, Angel; Merello, Paloma; Beltrán, Pedro; García-Diego, Fernando-Juan

2013-07-29

Preventive conservation requires monitoring and control of the parameters involved in the deterioration process, mainly temperature and relative humidity. It is important to characterise an archaeological site prior to carrying out comparative studies in the future for preventive conservation, either by regular studies to verify whether the conditions are constant, or occasional ones when the boundary conditions are altered. There are numerous covered archaeological sites, but few preventive conservation works that give special attention to the type of cover installed. In particular, there is no background of microclimatic studies in sites that are in the ground and, as in the Plaza de l'Almoina (Valencia, Spain), are buried and partially covered by a transparent roof. A large effect of the transparent cover was found by the sensors located below this area, with substantial increases in temperature and a decrease in the relative humidity during the day. Surrounding zones also have values above the recommended temperature values. On the other hand, the influence of a buried water drainage line near the site is notable, causing an increase in relative humidity levels in the surrounding areas. Multivariate statistical analyses enabled us to characterise the microclimate of the archaeological site, allowing future testing to determine whether the conservation conditions have been altered.

Multivariate Thermo-Hygrometric Characterisation of the Archaeological Site of Plaza de l’Almoina (Valencia, Spain) for Preventive Conservation

PubMed Central

Fernández-Navajas, Ángel; Merello, Paloma; Beltrán, Pedro; García-Diego, Fernando-Juan

2013-01-01

Preventive conservation requires monitoring and control of the parameters involved in the deterioration process, mainly temperature and relative humidity. It is important to characterise an archaeological site prior to carrying out comparative studies in the future for preventive conservation, either by regular studies to verify whether the conditions are constant, or occasional ones when the boundary conditions are altered. There are numerous covered archaeological sites, but few preventive conservation works that give special attention to the type of cover installed. In particular, there is no background of microclimatic studies in sites that are in the ground and, as in the Plaza de l’Almoina (Valencia, Spain), are buried and partially covered by a transparent roof. A large effect of the transparent cover was found by the sensors located below this area, with substantial increases in temperature and a decrease in the relative humidity during the day. Surrounding zones also have values above the recommended temperature values. On the other hand, the influence of a buried water drainage line near the site is notable, causing an increase in relative humidity levels in the surrounding areas. Multivariate statistical analyses enabled us to characterise the microclimate of the archaeological site, allowing future testing to determine whether the conservation conditions have been altered. PMID:23899937

Detection, breakpoint identification and detailed characterisation of a CNV at the FRA16D site using SNP assays.

PubMed

Winchester, L; Newbury, D F; Monaco, A P; Ragoussis, J

2008-01-01

Copy Number Variants (CNV) and other submicroscopic structural changes are now recognised to be widespread across the human genome. We show that SNP data generated for association study can be utilised for the identification of deletion CNVs. During analysis of data for an SNP association study for Specific Language Impairment (SLI) a deletion was identified. SLI adversely affects the language development of children in the absence of any obvious cause. Previous studies have found linkage to a region on chromosome 16. The deletion was located in a known fragile site FRA16D in intron 5-6 of the WWOX gene (also known as FOR). Changes in the FRA16D site have been previously linked to cancer and are often characterised in cell lines. A long-range PCR assay was used to confirm the existence of the deletion. We also show the breakpoint identification and large-scale characterisation of this CNV in a normal human sample set. Copyright 2009 S. Karger AG, Basel.

Constraints on sea to air emissions from methane clathrates in the vicinity of Svalbard

NASA Astrophysics Data System (ADS)

Pisso, Ignacio; Vadakkepuliyambatta, Sunil; Platt, Stephen Matthew; Eckhardt, Sabine; Allen, Grant; Pitt, Joseph; Silyakova, Anna; Hermansen, Ove; Schmidbauer, Norbert; Mienert, Jurgen; Myhre, Cathrine Lund; Stohl, Andreas

2016-04-01

Methane stored in the seabed in the form of clathrates has the potential to be released into the atmosphere due to ongoing ocean warming. The Methane Emissions from Arctic Ocean to Atmosphere (MOCA, http://moca.nilu.no/) proje sct conducted measurement campaigns in the vicinity of Svalbard during the summers of 2014 and 2015 in collaboration with the Centre for Arctic Gas Hydrate, Environment and Climate (CAGE, https://cage.uit.no/) and the MAMM (https://arcticmethane.wordpress.com) project . The extensive set of measurements includes air (BAe 146) and ship (RV Helmer Hansen) borne methane concentrations, complemented with the nearby monitoring site at Zeppelin mountain. In order to assess the atmospheric impact of emissions from seabed methane hydrates, we characterised the local and long range atmospheric transport during the aircraft campaign and different scenarios for the emission sources. We present a range of upper bounds for the CH4 emissions during the campaign period as well as the methodologies used to obtain them. The methodologies include a box model, Lagrangian transport and elementary inverse modelling. We emphasise the analysis of the aircraft data. We discuss in detail the different methodologies used for determining the upper flux bounds as well as its uncertainties and limitations. The additional information provided by the ship and station observations will be briefly mentioned.

Probabilistic seismic hazard analysis for a nuclear power plant site in southeast Brazil

NASA Astrophysics Data System (ADS)

de Almeida, Andréia Abreu Diniz; Assumpção, Marcelo; Bommer, Julian J.; Drouet, Stéphane; Riccomini, Claudio; Prates, Carlos L. M.

2018-05-01

A site-specific probabilistic seismic hazard analysis (PSHA) has been performed for the only nuclear power plant site in Brazil, located 130 km southwest of Rio de Janeiro at Angra dos Reis. Logic trees were developed for both the seismic source characterisation and ground-motion characterisation models, in both cases seeking to capture the appreciable ranges of epistemic uncertainty with relatively few branches. This logic-tree structure allowed the hazard calculations to be performed efficiently while obtaining results that reflect the inevitable uncertainty in long-term seismic hazard assessment in this tectonically stable region. An innovative feature of the study is an additional seismic source zone added to capture the potential contributions of characteristics earthquake associated with geological faults in the region surrounding the coastal site.

Anopheles fauna of coastal Cayenne, French Guiana: modelling and mapping of species presence using remotely sensed land cover data.

PubMed

Adde, Antoine; Dusfour, Isabelle; Roux, Emmanuel; Girod, Romain; Briolant, Sébastien

2016-12-01

Little is known about the Anopheles species of the coastal areas of French Guiana, or their spatiotemporal distribution or environmental determinants. The present study aimed to (1) document the distribution of Anopheles fauna in the coastal area around Cayenne, and (2) investigate the use of remotely sensed land cover data as proxies of Anopheles presence. To characterise the Anopheles fauna, we combined the findings of two entomological surveys that were conducted during the period 2007-2009 and in 2014 at 37 sites. Satellite imagery data were processed to extract land cover variables potentially related to Anopheles ecology. Based on these data, a methodology was formed to estimate a statistical predictive model of the spatial-seasonal variations in the presence of Anopheles in the Cayenne region. Two Anopheles species, known as main malaria vectors in South America, were identified, including the more dominant An. aquasalis near town and rural sites, and An. darlingi only found in inland sites. Furthermore, a cross-validated model of An. aquasalis presence that integrated marsh and forest surface area was extrapolated to generate predictive maps. The present study supports the use of satellite imagery by health authorities for the surveillance of malaria vectors and planning of control strategies.

Surface water monitoring in the mercury mining district of Asturias (Spain).

PubMed

Loredo, Jorge; Petit-Domínguez, María Dolores; Ordóñez, Almudena; Galán, María Pilar; Fernández-Martínez, Rodolfo; Alvarez, Rodrigo; Rucandio, María Isabel

2010-04-15

Systematic monitoring of surface waters in the area of abandoned mine sites constitutes an essential step in the characterisation of pollution from historic mine sites. The analytical data collected throughout a hydrologic period can be used for hydrological modelling and also to select appropriate preventive and/or corrective measures in order to avoid pollution of watercourses. Caudal River drains the main abandoned Hg mine sites (located in Mieres and Pola de Lena districts) in Central Asturias (NW Spain). This paper describes a systematic monitoring of physical and chemical parameters in eighteen selected sampling points within the Caudal River catchment. At each sampling station, water flow, pH, specific conductance, dissolved oxygen, salinity, temperature, redox potential and turbidity were controlled "in situ" and major and trace elements were analysed in the laboratory. In the Hg-mineralised areas, As is present in the form of As-rich pyrite, realgar and occasionally arsenopyrite. Mine drainage and leachates from spoil heaps exhibit in some cases acidic conditions and high As contents, and they are incorporated to Caudal River tributaries. Multivariate statistical analysis aids to the interpretation of the spatial and temporary variations found in the sampled areas, as part of a methodology applicable to different environmental and geological studies. 2009 Elsevier B.V. All rights reserved.

In-depth glycoproteomic characterisation of grape berry vacuolar invertase using a combination of mass spectrometry-based approaches.

PubMed

Hovasse, Agnès; Alayi, Tchilabalo Dilezitoko; Van Dorsselaer, Alain; Marchal, Richard; Jégou, Sandrine; Schaeffer-Reiss, Christine

2016-06-01

Vacuolar invertase is a key enzyme of sugar metabolism in grape berries. A full characterisation of this highly N-glycosylated protein is required to help understand its biological and biochemical significance in grapes. We have developed a mass spectrometry (MS)-based glycoproteomic approach wherein deglycosylated peptides are analysed by LC-MS/MS, while intact glycopeptides are characterised using a dedicated MS method to determine the attachment sites and micro-heterogeneity. For grape invertase, in parallel with deglycosylated peptides analysis, different enzymatic digestions were performed and glycopeptide detection was improved by enrichment method, nanoLC-MS and oxonium glycan ions. This MS-based glycoproteomic approach demonstrates that vacuolar invertase is glycosylated at all twelve potential N-glycosylation sites. Glycosylation is heterogeneous, with twelve glycoforms identified at six of the sites. The identification of several types of N-glycans is a major result to correlate with the surface and foaming properties of wine, the solubility, allergenicity, and protease resistance of wine proteins. Copyright © 2016 Elsevier Ltd. All rights reserved.

Methodology to estimate variations in solar radiation reaching densely forested slopes in mountainous terrain.

PubMed

Sypka, Przemysław; Starzak, Rafał; Owsiak, Krzysztof

2016-12-01

Solar radiation reaching densely forested slopes is one of the main factors influencing the water balance between the atmosphere, tree stands and the soil. It also has a major impact on site productivity, spatial arrangement of vegetation structure as well as forest succession. This paper presents a methodology to estimate variations in solar radiation reaching tree stands in a small mountain valley. Measurements taken in three inter-forest meadows unambiguously showed the relationship between the amount of solar insolation and the shading effect caused mainly by the contour of surrounding tree stands. Therefore, appropriate knowledge of elevation, aspect and tilt angles of the analysed planes had to be taken into consideration during modelling. At critical times, especially in winter, the diffuse and reflected components of solar radiation only reached some of the sites studied as the beam component of solar radiation was totally blocked by the densely forested mountain slopes in the neighbourhood. The cross-section contours and elevation angles of all obstructions are estimated from a digital surface model including both digital elevation model and the height of tree stands. All the parameters in a simplified, empirical model of the solar insolation reaching a given horizontal surface within the research valley are dependent on the sky view factor (SVF). The presented simplified, empirical model and its parameterisation scheme should be easily adaptable to different complex terrains or mountain valleys characterised by diverse geometry or spatial orientation. The model was developed and validated (R 2  = 0.92 , σ = 0.54) based on measurements taken at research sites located in the Silesian Beskid Mountain Range. A thorough understanding of the factors determining the amount of solar radiation reaching woodlands ought to considerably expand the knowledge of the water exchange balance within forest complexes as well as the estimation of site productivity.

Geometrical Characterisation of a 2D Laser System and Calibration of a Cross-Grid Encoder by Means of a Self-Calibration Methodology

PubMed Central

Torralba, Marta; Díaz-Pérez, Lucía C.

2017-01-01

This article presents a self-calibration procedure and the experimental results for the geometrical characterisation of a 2D laser system operating along a large working range (50 mm × 50 mm) with submicrometre uncertainty. Its purpose is to correct the geometric errors of the 2D laser system setup generated when positioning the two laser heads and the plane mirrors used as reflectors. The non-calibrated artefact used in this procedure is a commercial grid encoder that is also a measuring instrument. Therefore, the self-calibration procedure also allows the determination of the geometrical errors of the grid encoder, including its squareness error. The precision of the proposed algorithm is tested using virtual data. Actual measurements are subsequently registered, and the algorithm is applied. Once the laser system is characterised, the error of the grid encoder is calculated along the working range, resulting in an expanded submicrometre calibration uncertainty (k = 2) for the X and Y axes. The results of the grid encoder calibration are comparable to the errors provided by the calibration certificate for its main central axes. It is, therefore, possible to confirm the suitability of the self-calibration methodology proposed in this article. PMID:28858239

Development of a Methodology for the Characterisation of Air-coupled Ultrasound Probes

NASA Astrophysics Data System (ADS)

Pietroni, Paolo; Marco Revel, Gian

2010-05-01

This study is aimed at developing a technique for the characterisation of air-coupled ultrasound probes, starting from the analysis of the mechanical behaviour of the probe membrane. The vibratory behaviour of the emission membrane is studied using laser-Doppler vibrometry techniques with high frequency demodulation system (20 MHz). The determination of the vibration provides information which are useful for the assessment of the performance of the probe, in particular concerning the Quality factor and the portion of the membrane which really contributes to the emission. During the second step the results of the vibration measurements are used to calculate, by means of numerical boundary element method, the ultrasound beam emitted in terms of intensity in space. The obtained field is compared with the direct measurements carried out by scanning with the receiver probe and a pinhole plate. This comparison allows the potential and the problems of the two different characterisation techniques to be determined, even if the pinhole technique (which is currently considered the state of the art) cannot be used as an absolute reference. This study appears to be useful for paving the way for a new methodology for the calibration of air-coupled ultrasound probes, which potentially could be used not only to improve the probe manufacturing process, but also to control conformity to specifications.

Analytical Characterisation of Nanoscale Zero-Valent Iron: A Methodological Review

EPA Science Inventory

Zero-valent iron nanoparticles (nZVI) have been widely tested as they are showing significant promise for environmental remediation. However, many recent studies have demonstrated that their mobility and reactivity in subsurface environments are significantly affected by their te...

Characterising the influence of atmospheric mixing state on Urban Heat Island Intensity using Radon-222

NASA Astrophysics Data System (ADS)

Chambers, Scott D.; Podstawczyńska, Agnieszka; Williams, Alastair G.; Pawlak, Włodzimierz

2016-12-01

Characterisation of the effects of varying atmospheric mixing states (stability) in urban climate studies has historically been hampered by problems associated with the complexity of the urban environment, representativity of measurement techniques, and the logistical and financial burdens of maintaining multiple long-term comprehensive measurement sites. These shortcomings, together with a lack of a consistent measurement approach, have limited our ability to understand the physical processes contributing to the urban heat island effect. In this study, we analyse 4 years of continuous hourly near-surface meteorological and atmospheric radon data from an urban-rural site pair in central Poland. A recently-developed radon-based stability classification technique, previously developed for urban pollution characterisation, is employed to characterise the Urban Heat Island Intensity (UHII) and other climatic factors over the full diurnal cycle by season and atmospheric mixing state. By characterising the UHII over a range of atmospheric mixing states in a statistically robust way, this technique provides an effective tool for assessing the efficacy of mitigation measures for urban climate effects in a consistent way over timescales of years to decades. The consistency of approach, ease of application, and unprecedented clarity of findings, provide a strong argument for atmospheric radon observations to be included as part of the 'standard measurement suite' for urban climate monitoring networks for non-coastal cities.

Performance Art at the Campusphere: Pedagogical Experiments On-Site

ERIC Educational Resources Information Center

Ben-Shaul, Daphna

2018-01-01

Following a unique practice and research laboratory entitled "Performance: Site/Self" that took place in 2013-2015, this article discusses the implementation of performance art at an academic site--the Tel Aviv University campus. This pedagogical and artistic initiative, characterised by the transgressive pedagogy of performance art…

The use of unmanned aerial systems for the mapping of legacy uranium mines.

PubMed

Martin, P G; Payton, O D; Fardoulis, J S; Richards, D A; Scott, T B

2015-05-01

Historical mining of uranium mineral veins within Cornwall, England, has resulted in a significant amount of legacy radiological contamination spread across numerous long disused mining sites. Factors including the poorly documented and aged condition of these sites as well as the highly localised nature of radioactivity limit the success of traditional survey methods. A newly developed terrain-independent unmanned aerial system [UAS] carrying an integrated gamma radiation mapping unit was used for the radiological characterisation of a single legacy mining site. Using this instrument to produce high-spatial-resolution maps, it was possible to determine the radiologically contaminated land areas and to rapidly identify and quantify the degree of contamination and its isotopic nature. The instrument was demonstrated to be a viable tool for the characterisation of similar sites worldwide. Copyright © 2015 The Authors. Published by Elsevier Ltd.. All rights reserved.

Legacy of a Chemical Factory Site: Contaminated Groundwater Impacts Stream Macroinvertebrates.

PubMed

Rasmussen, Jes J; McKnight, Ursula S; Sonne, Anne Th; Wiberg-Larsen, Peter; Bjerg, Poul L

2016-02-01

Legislative and managing entities of EU member states face a comprehensive task because the chemical and ecological impacts of contaminated sites on surface waters must be assessed. The ecological assessment is further complicated by the low availability or, in some cases, absence of ecotoxicity data for many of the compounds occurring at contaminated sites. We studied the potential impact of a contaminated site, characterised by chlorinated solvents, sulfonamides, and barbiturates, on benthic macroinvertebrates in a receiving stream. Most of these compounds are characterised by low or unknown ecotoxicity, but they are continuously discharged into the stream by way of a long-lasting source generating long-term chronic exposure of the stream biota. Our results show that taxonomical density and diversity of especially sediment dwelling taxa were reduced by >50 % at the sampling sites situated in the primary inflow zone of the contaminated GW. Moreover, macroinvertebrate communities at these sampling sites could be distinguished from those at upstream control sites and sites situated along a downstream dilution gradient using multidimensional scaling. Importantly, macroinvertebrate indices currently used did not identify this impairment, thus underpinning an urgent need for developing suitable tools for the assessment of ecological effects of contaminated sites in streams.

Ecotoxicological risk assessment linked to infilling quarries with treated dredged seaport sediments.

PubMed

Perrodin, Yves; Donguy, Gilles; Bazin, Christine; Volatier, Laurence; Durrieu, Claude; Bony, Sylvie; Devaux, Alain; Abdelghafour, Mohammed; Moretto, Robert

2012-08-01

The dredged sediments of polluted seaports now raise complex management problems since it is no longer possible to discharge them into the sea. This results in the need to manage them on land, raising other types of technical, economic and environmental problems. Regarding the technical and economic dimensions, traditional waste treatment methods have proved to be poorly adapted, due to very high costs and low absorbable volumes. In this context, filling quarries in coastal areas with treated sediments could represent an interesting alternative for these materials. Nevertheless, for the environmental dimension, it is necessary to demonstrate that this possibility is harmless to inland ecosystems. Consequently, a specific ecotoxicological risk assessment methodology has been formulated and tested on three sediments taken from seaboards of France, in view to providing an operational and usable tool for the prior validation of any operation to fill quarries with treated seaport sediments. This method incorporates the formulation of a global conceptual model of the scenario studied and the definition of protocols for each of its steps: the characterisation of exposures (based on a simulation of sediment deposit), the characterisation of effects (via the study of sediments ecotoxicity), and the final ecotoxicological risk assessment performed as a calculation of a risk quotient. It includes the implementation in parallel of two types of complementary approach: the "substances" approach derived from the European methodology for assessing new substances placed on the market, and the "matrix" approach which is similar to methods developed in France to assess ecological risks in other domains (waste management, polluted site management, …). The application of this dual approach to the three sediments tested led to conclude with reliability that the project to deposit sediments "1" and "2" presented a low risk for the peripheral aquatic ecosystems while sediment "3" presented a high risk. Copyright © 2012 Elsevier B.V. All rights reserved.

Technological advancements and their importance for nematode identification

NASA Astrophysics Data System (ADS)

Ahmed, Mohammed; Sapp, Melanie; Prior, Thomas; Karssen, Gerrit; Back, Matthew Alan

2016-06-01

Nematodes represent a species-rich and morphologically diverse group of metazoans known to inhabit both aquatic and terrestrial environments. Their role as biological indicators and as key players in nutrient cycling has been well documented. Some plant-parasitic species are also known to cause significant losses to crop production. In spite of this, there still exists a huge gap in our knowledge of their diversity due to the enormity of time and expertise often involved in characterising species using phenotypic features. Molecular methodology provides useful means of complementing the limited number of reliable diagnostic characters available for morphology-based identification. We discuss herein some of the limitations of traditional taxonomy and how molecular methodologies, especially the use of high-throughput sequencing, have assisted in carrying out large-scale nematode community studies and characterisation of phytonematodes through rapid identification of multiple taxa. We also provide brief descriptions of some the current and almost-outdated high-throughput sequencing platforms and their applications in both plant nematology and soil ecology.

Global tidal phasing potential

NASA Astrophysics Data System (ADS)

Neill, S. P.; Cooper, M. M.; Lewis, M. J.

2016-02-01

Tidal energy is characterised by intermittency over a range of timescales, from semi-diurnal and lunar periods through to annual and decadal. Therefore, the electricity that can be generated by the tides will be characterised by similar scales of intermittency. However, with knowledge of the phase relationship between sites, it may be possible to reduce intermittency, particularly at the semi-diurnal timescale, by aggregating the electricity generated by discrete regions suitable for the conversion of tidal energy into electricity. In this study, we make use of a global tidal atlas (FES2012) to make a preliminary assessment of regions of the globe where it could be possible to combine the electricity generated at a number of discrete sites to provide firmer power to regional electricity networks. In contrast to the northwest European shelf, where the high tidal stream sites tend to either be in phase or 180 out-of-phase with one-another, we find numerous regions around the globe with potential for regional tidal phasing. However, development of higher resolution regional models, or the examination of field data, are required to fully characterise the phasing potential of these regions. In addition, technical and economical constraints on the resource should be considered such as water depth and distance to shore.

Development of a Methodology for the Characterisation of Air-coupled Ultrasound Probes

DOE Office of Scientific and Technical Information (OSTI.GOV)

Pietroni, Paolo; Marco Revel, Gian

2010-05-28

This study is aimed at developing a technique for the characterisation of air-coupled ultrasound probes, starting from the analysis of the mechanical behaviour of the probe membrane. The vibratory behaviour of the emission membrane is studied using laser-Doppler vibrometry techniques with high frequency demodulation system (20 MHz). The determination of the vibration provides information which are useful for the assessment of the performance of the probe, in particular concerning the Quality factor and the portion of the membrane which really contributes to the emission. During the second step the results of the vibration measurements are used to calculate, by meansmore » of numerical boundary element method, the ultrasound beam emitted in terms of intensity in space. The obtained field is compared with the direct measurements carried out by scanning with the receiver probe and a pinhole plate. This comparison allows the potential and the problems of the two different characterisation techniques to be determined, even if the pinhole technique (which is currently considered the state of the art) cannot be used as an absolute reference. This study appears to be useful for paving the way for a new methodology for the calibration of air-coupled ultrasound probes, which potentially could be used not only to improve the probe manufacturing process, but also to control conformity to specifications.« less

Using Life Cycle Assessment methodology to assess UHT milk production in Portugal.

PubMed

González-García, Sara; Castanheira, Erica G; Dias, Ana Cláudia; Arroja, Luis

2013-01-01

Milk and dairy products constitute an important ingredient in the human diet. Ultra-high temperature (UHT) milk is the main dairy product consumed in Portugal and its production entails large inputs of resources which derive on negative environmental effects such as nutrient enrichment of the ecosystem and climate change. In this study, Life Cycle Assessment (LCA) methodology was considered for the environmental assessment of packaged UHT milk produced in Portugal, including simple (whole, semi-skimmed and skimmed) and cocoa milk from a cradle-to-gate perspective and to identify the environmental hot spots. Results showed that the production of the raw milk in the dairy farm is the main hot spot in almost all the categories under assessment mainly due to the emissions from enteric fermentation, manure management and fertilisers production and application. Furthermore, on-site emissions derived from dairy factory are remarkable together with the packages and energy requirements production. The values reported in this study are in the range of other related papers. However, differences were also identified due to several reasons such as allocation approach, data sources, characterisation factors, farm management regimes and assumptions considered. Therefore, these aspects should be carefully addressed and sensitivity to the assumptions and uncertainty of the results should be evaluated. Copyright © 2012 Elsevier B.V. All rights reserved.

Question-Asking and Question-Exploring

ERIC Educational Resources Information Center

Sands, Lorraine; Carr, Margaret; Lee, Wendy

2012-01-01

The Centre of Innovation Research at Greerton Early Childhood Centre was characterised as a dispositional milieu where working theories were explored through a narrative research methodology. As the research progressed, the teachers at Greerton strengthened the way we were listening to, and watching out for young children's questions to enable…

[The interview as a research data collection method].

PubMed

Debout, Christophe

2016-04-01

The interview is a widely-used method for collecting research data, notably in qualitative and mixed protocols. However, it is an umbrella term which groups together numerous types of interviews adapted to the methodological diversity which characterises nursing science. Copyright © 2016. Published by Elsevier Masson SAS.

De novo design, synthesis and characterisation of MP3, a new catalytic four-helix bundle hemeprotein.

PubMed

Faiella, Marina; Maglio, Ornella; Nastri, Flavia; Lombardi, Angela; Lista, Liliana; Hagen, Wilfred R; Pavone, Vincenzo

2012-12-07

A new artificial metalloenzyme, MP3 (MiniPeroxidase 3), designed by combining the excellent structural properties of four-helix bundle protein scaffolds with the activity of natural peroxidases, was synthesised and characterised. This new hemeprotein model was developed by covalently linking the deuteroporphyrin to two peptide chains of different compositions to obtain an asymmetric helix-loop-helix/heme/helix-loop-helix sandwich arrangement, characterised by 1) a His residue on one chain that acts as an axial ligand to the iron ion; 2) a vacant distal site that is able to accommodate exogenous ligands or substrates; and 3) an Arg residue in the distal site that should assist in hydrogen peroxide activation to give an HRP-like catalytic process. MP3 was synthesised and characterised as its iron complex. CD measurements revealed the high helix-forming propensity of the peptide, confirming the appropriateness of the model procedure; UV/Vis, MCD and EPR experiments gave insights into the coordination geometry and the spin state of the metal. Kinetic experiments showed that Fe(III)-MP3 possesses peroxidase-like activity comparable to R38A-hHRP, highlighting the possibility of mimicking the functional features of natural enzymes. The synergistic application of de novo design methods, synthetic procedures, and spectroscopic characterisation, described herein, demonstrates a method by which to implement and optimise catalytic activity for an enzyme mimetic. Copyright © 2012 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

Electromagnetic exploration in high-salinity groundwater zones: case studies from volcanic and soft sedimentary sites in coastal Japan

NASA Astrophysics Data System (ADS)

Suzuki, Koichi; Kusano, Yukiko; Ochi, Ryota; Nishiyama, Nariaki; Tokunaga, Tomochika; Tanaka, Kazuhiro

2017-01-01

Estimating the spatial distribution of groundwater salinity in coastal plain regions is becoming increasingly important for site characterisation and the prediction of hydrogeological environmental conditions resulting from radioactive waste disposal and underground CO2 storage. In previous studies of the freshwater-saltwater interface, electromagnetic methods were used for sites characterised by unconsolidated deposits or Neocene soft sedimentary rocks. However, investigating the freshwater-saltwater interface in hard rock sites (e.g. igneous areas) is more complex, with the permeability of the rocks greatly influenced by fractures. In this study, we investigated the distribution of high-salinity groundwater at two volcanic rock sites and one sedimentary rock site, each characterised by different hydrogeological features. Our investigations included (1) applying the controlled source audio-frequency magnetotelluric (CSAMT) method and (2) conducting laboratory tests to measure the electrical properties of rock core samples. We interpreted the 2D resistivity sections by referring to previous data on geology and geochemistry of groundwater. At the Tokusa site, an area of inland volcanic rocks, low resistivity zones were detected along a fault running through volcanic rocks and shallow sediments. The results suggest that fluids rise through the Tokusa-Jifuku Fault to penetrate shallow sediments in a direction parallel to the river, and some fluids are diluted by rainwater. At the Oki site, a volcanic island on a continental shelf, four resistivity zones (in upward succession: low, high, low and high) were detected. The results suggest that these four zones were formed during a transgression-regression cycle caused by the last glacial period. At the Saijo site, located on a coastal plain composed of thick sediments, we observed a deep low resistivity zone, indicative of fossil seawater remnant from a transgression after the last glacial period. The current coastal plain formed in historical times, following which fresh water penetrated the upper parts of the fossil seawater zone to form a freshwater aquifer ~200 m in thickness.

Nano-metrology and terrain modelling - convergent practice in surface characterisation

USGS Publications Warehouse

Pike, R.J.

2000-01-01

The quantification of magnetic-tape and disk topography has a macro-scale counterpart in the Earth sciences - terrain modelling, the numerical representation of relief and pattern of the ground surface. The two practices arose independently and continue to function separately. This methodological paper introduces terrain modelling, discusses its similarities to and differences from industrial surface metrology, and raises the possibility of a unified discipline of quantitative surface characterisation. A brief discussion of an Earth-science problem, subdividing a heterogeneous terrain surface from a set of sample measurements, exemplifies a multivariate statistical procedure that may transfer to tribological applications of 3-D metrological height data.

Comparative Study of Child Assessment Practices in English and Korean Preschools

ERIC Educational Resources Information Center

Nah, Kwi-Ok

2014-01-01

Child assessment practices in English and Korean preschools were compared by analysing data from interviews with educators, examples of child assessment, and official documents from each country. Child assessment in England was systematically implemented and characterised by several methodological and procedural strengths, whereas assessment in…

Tension as an Enabling Characteristic of Innovating in Schools

ERIC Educational Resources Information Center

Perillo, Suzanne

2007-01-01

Purpose: The purpose of this paper is to argue that school innovation is a complex process requiring a detailed accounting of the relational activity characterising everyday innovating activity. It is further proposed that complex accounts of innovation practice that describe social factors only are insufficient. Design/methodology/approach: Using…

Knowledge Creation in Construction Organisations: A Case Approach

ERIC Educational Resources Information Center

Eliufoo, Harriet

2008-01-01

Purpose: The purpose of this paper is to investigate and characterise the knowledge creation process in construction organisations and explore to what extent organisations facilitate the process. Design/methodology/approach: A case study approach is adopted using four construction organisations; a knowledge creation model is also used as the…

Researching Ethnic "Others": Conducting Critical Ethnographic Research in Australia and Scotland

ERIC Educational Resources Information Center

Santoro, Ninetta; Smyth, Geri

2010-01-01

In many parts of the world, classrooms are characterised by cultural and ethnic diversity. Increasingly, researchers are interested in exploring these rich and socially complex contexts. However, research into "the ethnic other" can present complex ethical and methodological challenges. In this paper, the authors discuss, with reference…

Theoretical characterisation of point defects on a MoS2 monolayer by scanning tunnelling microscopy.

PubMed

González, C; Biel, B; Dappe, Y J

2016-03-11

Different S and Mo vacancies as well as their corresponding antisite defects in a free-standing MoS2 monolayer are analysed by means of scanning tunnelling microscopy (STM) simulations. Our theoretical methodology, based on the Keldysh nonequilibrium Green function formalism within the density functional theory (DFT) approach, is applied to simulate STM images for different voltages and tip heights. Combining the geometrical and electronic effects, all features of the different STM images can be explained, providing a valuable guide for future experiments. Our results confirm previous reports on S atom imaging, but also reveal a strong dependence on the applied bias for vacancies and antisite defects that include extra S atoms. By contrast, when additional Mo atoms cover the S vacancies, the MoS2 gap vanishes and a bias-independent bright protrusion is obtained in the STM image. Finally, we show that the inclusion of these point defects promotes the emergence of reactive dangling bonds that may act as efficient adsorption sites for external adsorbates.

Further characterisation of two Eimeria species (Eimeria quokka and Eimeria setonicis) in quokkas (Setonix brachyurus).

PubMed

Austen, J M; Friend, J A; Yang, R; Ryan, U M

2014-03-01

The identification and characterisation of novel Eimeria species has largely been based on sporulated oocyst and sporocyst morphology, the host species and the geographical range. Variation in the size and shape of Eimeria oocysts across their host range however, make the identification and characterisation of novel species using traditional methodologies alone problematic. The use of molecular markers and phylogenetic analysis has greatly advanced our ability to characterise Eimeria species and has recently been applied to understand evolutionary relationships among Eimeria species from Australian marsupials. In the present study, Eimeria species isolated from quokkas (Setonix brachyurus) captured from Two Peoples Bay, Bald Island and Rottnest Island, Western Australia, were morphologically identified as Eimeria quokka and Eimeria setonicis. Both Eimeria species were identified as being polymorphic in nature with regards to sporulated oocyst and sporocyst morphometrics. Phylogenetic analysis using 18S rRNA and COI (cytochrome c oxidase subunit 1) genes, grouped E. quokka and E. setonicis within the Eimeria marsupial clade together with Eimeria trichosuri from brushtail possums, Eimeria macropodis from tammar wallabies (Macropus eugenii) and several unidentified macropod Eimeria species from western grey kangaroos (Macropus fuliginosus). This study is the first to characterise E. quokka and E. setonicis by molecular analysis, enabling more extensive resolution of evolutionary relationships among marsupial-derived Eimeria species. Copyright © 2014 Elsevier Inc. All rights reserved.

Employability and Talent Management: Challenges for HRD Practices

ERIC Educational Resources Information Center

Nilsson, Staffan; Ellstrom, Per-Erik

2012-01-01

Purpose: The purpose of this conceptual paper is to illuminate the problems that are associated with defining and identifying talent and to discuss the development of talent as a contributor to employability. Design/methodology/approach: The world of work is characterised by new and rapidly changing demands. Talent management has recently been the…

UMTS signal measurements with digital spectrum analysers.

PubMed

Licitra, G; Palazzuoli, D; Ricci, A S; Silvi, A M

2004-01-01

The launch of the Universal Mobile Telecommunications System (UMTS), the most recent mobile telecommunications standard has imposed the requirement of updating measurement instrumentation and methodologies. In order to define the most reliable measurement procedure, which is aimed at assessing the exposure to electromagnetic fields, modern spectrum analysers' features for correct signal characterisation has been reviewed.

Sociological analysis and comparative education

NASA Astrophysics Data System (ADS)

Woock, Roger R.

1981-12-01

It is argued that comparative education is essentially a derivative field of study, in that it borrows theories and methods from academic disciplines. After a brief humanistic phase, in which history and philosophy were central for comparative education, sociology became an important source. In the mid-50's and 60's, sociology in the United States was characterised by Structural Functionalism as a theory, and Social Survey as a dominant methodology. Both were incorporated into the development of comparative education. Increasingly in the 70's, and certainly today, the new developments in sociology are characterised by an attack on Positivism, which is seen as the philosophical position underlying both functionalism and survey methods. New or re-discovered theories with their attendant methodologies included Marxism, Phenomenological Sociology, Critical Theory, and Historical Social Science. The current relationship between comparative education and social science is one of uncertainty, but since social science is seen to be returning to its European roots, the hope is held out for the development of an integrated social theory and method which will provide a much stronger basis for developments in comparative education.

Characterisation of ALS genes in the polyploid species Schoenoplectus mucronatus and implications for resistance management.

PubMed

Scarabel, Laura; Locascio, Antonella; Furini, Antonella; Sattin, Maurizio; Varotto, Serena

2010-03-01

The polyploid weed Schoenoplectus mucronatus (L.) Palla has evolved target-site resistance to ALS-inhibiting herbicides in Italian rice crops. Molecular and genetic characterisation of the resistance mechanism is relevant to the evolution and management of herbicide resistance. The authors aimed (a) to study the organisation of the target-site loci in two field-selected S. mucronatus populations with different cross-resistance patterns, (b) to identify the mutations endowing resistance to ALS inhibitors and determine the role of these mutations by using transgenesis and (c) to analyse the implications for the management of the S. mucronatus populations. Two complete ALS genes (ALS1 and ALS2) having an intron and a third partial intronless ALS gene (ALS3) were identified. The presence of multiple ALS genes was confirmed by Southern blot analyses, and ALS loci were characterised by examining cytosine methylation. In S. mucronatus leaves, the transcripts of ALS1, ALS2 and ALS3 were detected. Two mutations endowing resistance (Pro(197) to His and Trp(574) to Leu) were found in both resistant populations, but at different frequencies. Tobacco plants transformed with the two resistant alleles indicated that the Pro(197)-to-His substitution conferred resistance to SU and TP herbicides, while the allele with the Trp(574)-to-Leu substitution conferred cross-resistance to SU, TP, IMI and PTB herbicides. Schoenoplectus mucronatus has multiple ALS genes characterised by methylated sites that can influence the expression profile. The two mutated alleles proved to be responsible for ALS resistance. At population level, the resistance pattern depends on the frequency of various resistant genotypes, and this influences the efficacy of various ALS-inhibiting herbicides.

Mathematical modelling and quantitative methods.

PubMed

Edler, L; Poirier, K; Dourson, M; Kleiner, J; Mileson, B; Nordmann, H; Renwick, A; Slob, W; Walton, K; Würtzen, G

2002-01-01

The present review reports on the mathematical methods and statistical techniques presently available for hazard characterisation. The state of the art of mathematical modelling and quantitative methods used currently for regulatory decision-making in Europe and additional potential methods for risk assessment of chemicals in food and diet are described. Existing practices of JECFA, FDA, EPA, etc., are examined for their similarities and differences. A framework is established for the development of new and improved quantitative methodologies. Areas for refinement, improvement and increase of efficiency of each method are identified in a gap analysis. Based on this critical evaluation, needs for future research are defined. It is concluded from our work that mathematical modelling of the dose-response relationship would improve the risk assessment process. An adequate characterisation of the dose-response relationship by mathematical modelling clearly requires the use of a sufficient number of dose groups to achieve a range of different response levels. This need not necessarily lead to an increase in the total number of animals in the study if an appropriate design is used. Chemical-specific data relating to the mode or mechanism of action and/or the toxicokinetics of the chemical should be used for dose-response characterisation whenever possible. It is concluded that a single method of hazard characterisation would not be suitable for all kinds of risk assessments, and that a range of different approaches is necessary so that the method used is the most appropriate for the data available and for the risk characterisation issue. Future refinements to dose-response characterisation should incorporate more clearly the extent of uncertainty and variability in the resulting output.

The X-Ray Crystal Structure of Escherichia coli Succinic Semialdehyde Dehydrogenase; Structural Insights into NADP+/Enzyme Interactions

PubMed Central

Langendorf, Christopher G.; Key, Trevor L. G.; Fenalti, Gustavo; Kan, Wan-Ting; Buckle, Ashley M.; Caradoc-Davies, Tom; Tuck, Kellie L.; Law, Ruby H. P.; Whisstock, James C.

2010-01-01

Background In mammals succinic semialdehyde dehydrogenase (SSADH) plays an essential role in the metabolism of the inhibitory neurotransmitter γ-aminobutyric acid (GABA) to succinic acid (SA). Deficiency of SSADH in humans results in elevated levels of GABA and γ-Hydroxybutyric acid (GHB), which leads to psychomotor retardation, muscular hypotonia, non-progressive ataxia and seizures. In Escherichia coli, two genetically distinct forms of SSADHs had been described that are essential for preventing accumulation of toxic levels of succinic semialdehyde (SSA) in cells. Methodology/Principal Findings Here we structurally characterise SSADH encoded by the E coli gabD gene by X-ray crystallographic studies and compare these data with the structure of human SSADH. In the E. coli SSADH structure, electron density for the complete NADP+ cofactor in the binding sites is clearly evident; these data in particular revealing how the nicotinamide ring of the cofactor is positioned in each active site. Conclusions/Significance Our structural data suggest that a deletion of three amino acids in E. coli SSADH permits this enzyme to use NADP+, whereas in contrast the human enzyme utilises NAD+. Furthermore, the structure of E. coli SSADH gives additional insight into human mutations that result in disease. PMID:20174634

Characterisation of adhesional properties of lactose carriers using atomic force microscopy.

PubMed

Louey, M D; Mulvaney, P; Stewart, P J

2001-06-01

The atomic force microscopy (AFM) colloid probe technique was investigated as a method for the characterisation of adhesional properties of pharmaceutical powder surfaces. Lactose carriers used in dry powder inhaler (DPI) formulations were chosen for investigation since adhesion between the carrier surface and drug particles has been proposed to affect the dispersion of drug particles. Individual adhesion forces were determined by measuring the detachment forces in air between the colloid probe and the lactose particle surface. The colloid probe consisted of a silica sphere (10 microm diameter) attached to a V-shaped silicon nitride cantilever (spring constant, k=0.42 N/m). Adhesion forces were calculated from individual force-distance curves using Hooke's Law. Individual forces measured at various adhesion sites were observed to be reproducible and stable over 10 min (coefficient of variation, CV below 5%). The adhesion force distribution determined from measurements at multiple sites (n>50) on each sample followed a log-normal relationship (regression coefficient, r(2) ranged between 0.95 and 0.99). This enabled characterisation in terms of the geometric mean adhesion force and a geometric standard deviation (GSD). Significant differences (P<0.001) in adhesion force were observed between samples, ranging from 37.47+/-1.95 to 117.48+/-2.20 nN. This study demonstrates the suitability of AFM as sensitive technique for the characterisation of adhesional properties of pharmaceutical particles.

Microscopic characterisation of old mortars from the Santa Maria Church in Evora

DOE Office of Scientific and Technical Information (OSTI.GOV)

Adriano, P., E-mail: padriano@lnec.pt; Santos Silva, A., E-mail: ssilva@lnec.pt; Veiga, R., E-mail: rveiga@lnec.pt

2009-07-15

Evora Cathedral (one of the most emblematic monuments of Evora - Portugal) has suffered several conservation and restoration interventions through the ages, without, however, any type of previous knowledge about mortars and materials used. This work was carried out in order to identify the mortar's composition in different locations, which were attributed to different construction or conservation periods. The characterisation methodology involved a multidisciplinary set of chemical, physical, microstructural and mechanical techniques, and gave special attention to the use of microstructural characterisation techniques, particularly petrographical analysis and scanning electron microscopy for the identification of the mortar's constituents as well asmore » in the evaluation of the state of conservation. The test results showed that two types of aerial binders were used, dolomitic and calcitic limes, the former being predominant. The aggregates used have a siliceous nature and are similar in composition to the granodiorites of the region around Evora. The mortars differ in the aggregate contents and, in some cases, crushed bricks were used as an additive.« less

[Applying the clustering technique for characterising maintenance outsourcing].

PubMed

Cruz, Antonio M; Usaquén-Perilla, Sandra P; Vanegas-Pabón, Nidia N; Lopera, Carolina

2010-06-01

Using clustering techniques for characterising companies providing health institutions with maintenance services. The study analysed seven pilot areas' equipment inventory (264 medical devices). Clustering techniques were applied using 26 variables. Response time (RT), operation duration (OD), availability and turnaround time (TAT) were amongst the most significant ones. Average biomedical equipment obsolescence value was 0.78. Four service provider clusters were identified: clusters 1 and 3 had better performance, lower TAT, RT and DR values (56 % of the providers coded O, L, C, B, I, S, H, F and G, had 1 to 4 day TAT values:

Characterisation of exposure to non-ionising electromagnetic fields in the Spanish INMA birth cohort: study protocol.

PubMed

Gallastegi, Mara; Guxens, Mònica; Jiménez-Zabala, Ana; Calvente, Irene; Fernández, Marta; Birks, Laura; Struchen, Benjamin; Vrijheid, Martine; Estarlich, Marisa; Fernández, Mariana F; Torrent, Maties; Ballester, Ferrán; Aurrekoetxea, Juan J; Ibarluzea, Jesús; Guerra, David; González, Julián; Röösli, Martin; Santa-Marina, Loreto

2016-02-18

Analysis of the association between exposure to electromagnetic fields of non-ionising radiation (EMF-NIR) and health in children and adolescents is hindered by the limited availability of data, mainly due to the difficulties on the exposure assessment. This study protocol describes the methodologies used for characterising exposure of children to EMF-NIR in the INMA (INfancia y Medio Ambiente- Environment and Childhood) Project, a prospective cohort study. Indirect (proximity to emission sources, questionnaires on sources use and geospatial propagation models) and direct methods (spot and fixed longer-term measurements and personal measurements) were conducted in order to assess exposure levels of study participants aged between 7 and 18 years old. The methodology used varies depending on the frequency of the EMF-NIR and the environment (homes, schools and parks). Questionnaires assessed the use of sources contributing both to Extremely Low Frequency (ELF) and Radiofrequency (RF) exposure levels. Geospatial propagation models (NISMap) are implemented and validated for environmental outdoor sources of RFs using spot measurements. Spot and fixed longer-term ELF and RF measurements were done in the environments where children spend most of the time. Moreover, personal measurements were taken in order to assess individual exposure to RF. The exposure data are used to explore their relationships with proximity and/or use of EMF-NIR sources. Characterisation of the EMF-NIR exposure by this combination of methods is intended to overcome problems encountered in other research. The assessment of exposure of INMA cohort children and adolescents living in different regions of Spain to the full frequency range of EMF-NIR extends the characterisation of environmental exposures in this cohort. Together with other data obtained in the project, on socioeconomic and family characteristics and development of the children and adolescents, this will enable to evaluate the complex interaction between health outcomes in children and adolescents and the various environmental factors that surround them.

New Continuous Monitoring Technologies for Vapor Intrusion, Remediation and Site Assessment: Benefits of Time Series Data

DTIC Science & Technology

2011-03-31

00-00-2011 4. TITLE AND SUBTITLE New Continuous Monitoring Technologies for Vapor Intrusion, Remediation and Site Assessment . Benefits of Time...Std Z39-18 Dr Peter Morris, Geoff Hewitt New Continuous Monitoring Technologies for Vapor Intrusion, Remediation and Site Assessment . Benefits of...but which poses a greater risk ? V O C p p m Acetone Industrial facility with VOC Leak Site characterisation and Real time monitoring of Remediation

Experimental procedures characterizing firebrand generation in wildland fires

Treesearch

Mohamad El Houssami; Eric Mueller; Alexander Filkov; Jan C Thomas; Nicholas Skowronski; Michael R Gallagher; Ken Clark; Robert Kremens; Albert Simeoni

2016-01-01

This study aims to develop a series of robust and efficient methodologies, which can be applied to understand and estimate firebrand generation and to evaluate firebrand showers close to a fire front. A field scale high intensity prescribed fire was conducted in the New Jersey Pine Barrens in March 2013. Vegetation was characterised with field and remotely sensed data...

How Can the Relationship between Argumentation and Proof Be Analysed?

ERIC Educational Resources Information Center

Pedemonte, Bettina

2007-01-01

The paper presents a characterisation about argumentation and proof in mathematics. On the basis of contemporary linguistic theories, the hypothesis that proof is a special case of argumentation is put forward and Toulmin's model is proposed as a methodological tool to compare them. This model can be used to detect and analyse the structure of an…

Sustainable Attitudes and Behaviours amongst a Sample of Non-Academic Staff: A Case Study from an Information Services Department, Griffith University, Brisbane

ERIC Educational Resources Information Center

Davis, G.; O'Callaghan, F.; Knox, K.

2009-01-01

Purpose: The purpose of this paper is seek to characterise sustainable attitudes and behaviours (including recycling and waste minimisation, energy efficiency, water conservation and "green" purchasing) amongst non-academic staff within Griffith University, Queensland. Design/methodology/approach: For this study, the attitudes and…

The State of Agricultural Extension: An Overview and New Caveats for the Future

ERIC Educational Resources Information Center

Benson, Amanda; Jafry, Tahseen

2013-01-01

Purpose: This review paper presents an overview of changes in agricultural extension on a global scale and helps to characterise on-going developments in extension practice. Design/methodology/approach: Through a critique and synthesis of literature the paper focuses on global political changes which have led to widespread changes from production-…

The use of portable Non-Destructive Techniques for material decay characterisation of palaeontological Geosites

NASA Astrophysics Data System (ADS)

Gomez-Heras, Miguel; Ortega-Becerril, Jose A.; López-Martínez, Jerónimo; Oliva-Urcia, Belén; Maestro, Adolfo

2017-04-01

The conservation of both natural and cultural heritage is regarded as a priority for humankind and it is therefore recognised by the UNESCO since the Convention Concerning the Protection of the World Cultural and Natural Heritage in 1972. The International Union of Geological Sciences launched in 1995 in collaboration with UNESCO the Global Geosites programme to create an inventory of geological heritage sites. Although the conservation of Geosites may face different issues to those of stone-built cultural heritage, much could be learnt from techniques initially used to characterise weathering and material decay in stone-built cultural heritage. This is especially the case for portable Non-Destructive Techniques (NDT). Portable NDT allow characterising on-site the degree of material decay and are, therefore, a good way to assess the state of conservation of certain Geosites whose relevance lies on localised features. Geosites chosen for the outstanding occurrence of dinosaur ichnites, such as those in the Cameros Massif (north-western part of the Iberian Range, Spain), are a good example of this. This communication explores the potential of portable NDT to characterise the state of decay and susceptibility to further decay of dinosaur ichnites in the Cameros Massif. These techniques included: Ultrasound Pulse Velocity determination, Leeb hardness rebound test, colour determination by means of a spectrophotometer and thermal imaging obtained with an infrared camera. Results will show the potential of these techniques to characterise differential weathering patterns in both individual ichnites as well as on tracks in addition to assessing the possible effects of conservation strategies on the long-term preservation of the mentioned Geosites. Research funded by Madrid's Regional Government project Geomateriales 2 S2013/MIT-2914

A framework for assessment and characterisation of municipal solid waste landfill leachate: an application to the Turbhe landfill, Navi Mumbai, India.

PubMed

Mishra, Harshit; Rathod, Merwan; Karmakar, Subhankar; Kumar, Rakesh

2016-06-01

Rapid industrialisation, growing population and changing lifestyles are the root causes for the generation of huge amounts of solid waste in developing countries. In India, disposal of municipal solid waste (MSW) through open dumping is the most common waste disposal method. Unfortunately, leachate generation from landfill is high due to the prolonged and prominent monsoon season in India. As leachate generation rate is high in most of the tropical countries, long-term and extensive monitoring efforts are expected to evaluate actual environmental pollution potential due to leachate contamination. However, the leachate characterisation involves a comprehensive process, which has numerous shortcomings and uncertainties possibly due to the complex nature of landfilling process, heterogeneous waste characteristics, widely varying hydrologic conditions and selection of analytes. In order to develop a sustainable MSW management strategy for protecting the surface and ground water resources, particularly from MSW landfill leachate contamination, assessment and characterisation of leachate are necessary. Numerous studies have been conducted in the past to characterise leachate quality from various municipal landfills; unfortunately, none of these propose a framework or protocol. The present study proposes a generic framework for municipal landfill leachate assessment and characterisation. The proposed framework can be applied to design any type of landfill leachate quality monitoring programme and also to facilitate improved leachate treatment activities. A landfill site located at Turbhe, Navi Mumbai, India, which had not been investigated earlier, has been selected as a case study. The proposed framework has been demonstrated on the Turbhe landfill site which is a comparatively new and the only sanitary landfill in Navi Mumbai.

Statistical Tools Applied in the Characterisation and Evaluation of a Thermo-Hygrometric Corrective Action Carried out at the Noheda Archaeological Site (Noheda, Spain)

PubMed Central

Valero, Miguel Ángel; Merello, Paloma; Navajas, Ángel Fernández; García-Diego, Fernando-Juan

2014-01-01

The Noheda archaeological site is unique and exceptional for its size, and the quality and conservation condition of the Roman mosaic pavement covering its urban pars. In 2008 a tent was installed as protection from rain and sun. Being of interest to characterise the microclimate of the remains, six probes with relative humidity and temperature sensors were installed in 2013 for this purpose. Microclimate monitoring allowed us to check relative humidity differences resulting from the groundwater level, as well as inner sensors reaching maximum temperatures higher than the outdoors ones as a consequence of the non-ventilated tent covering the archaeological site. Microclimatic conditions in the archaeological site were deemed detrimental for the conservation of the mosaics. Thus, in summer 2013, expanded clay and geotextile were installed over the mosaics as a corrective action. The outcomes of this study have proven the effectiveness of this solution to control temperature and relative humidity, helping to configure a more stable microclimate suitable for preservation of the mosaic. PMID:24445414

Statistical tools applied in the characterisation and evaluation of a thermo-hygrometric corrective action carried out at the Noheda archaeological site (Noheda, Spain).

PubMed

Valero, Miguel Ángel; Merello, Paloma; Navajas, Ángel Fernández; García-Diego, Fernando-Juan

2014-01-17

The Noheda archaeological site is unique and exceptional for its size, and the quality and conservation condition of the Roman mosaic pavement covering its urban pars. In 2008 a tent was installed as protection from rain and sun. Being of interest to characterise the microclimate of the remains, six probes with relative humidity and temperature sensors were installed in 2013 for this purpose. Microclimate monitoring allowed us to check relative humidity differences resulting from the groundwater level, as well as inner sensors reaching maximum temperatures higher than the outdoors ones as a consequence of the non-ventilated tent covering the archaeological site. Microclimatic conditions in the archaeological site were deemed detrimental for the conservation of the mosaics. Thus, in summer 2013, expanded clay and geotextile were installed over the mosaics as a corrective action. The outcomes of this study have proven the effectiveness of this solution to control temperature and relative humidity, helping to configure a more stable microclimate suitable for preservation of the mosaic.

Integrated geophysical characterisation of Sunyani municipal solid waste disposal site using magnetic gradiometry, magnetic susceptibility survey and electrical resistivity tomography

NASA Astrophysics Data System (ADS)

Appiah, Isaac; Wemegah, David Dotse; Asare, Van-Dycke Sarpong; Danuor, Sylvester K.; Forson, Eric Dominic

2018-06-01

Non-invasive geophysical investigation using magnetic gradiometry, magnetic susceptibility survey and electrical resistivity tomography (ERT) was carried out on the Sunyani Municipal Assembly (SMA) solid waste disposal (SWD) site. The study was aimed at delineating the physical boundaries and the area extent of the waste deposit, mapping the distribution of the waste at the site, detecting and delineating zones of leachate contamination and its preferential migration pathways beneath the waste deposit and its surroundings. The results of both magnetic susceptibility and gradiometric methods displayed in anomaly maps clearly delineated the physical boundaries of the waste deposit with an approximate area extent of 82,650 m2 that are characterised by high magnetic susceptibilities between 426 × 10-5 SI and 9890 × 10-5 SI. They also revealed high magnetic anomalies erratically distributed within the waste deposit attributable to its heterogeneous and uncontrolled nature. The high magnetic anomalies outside the designated waste boundaries were also attributed to indiscriminate deposition of the waste. Similarly, the ERT sections delineated and characterised zones of leachate contamination beneath the waste body and its close surroundings as well as pathways for leachate migration with low resistivity signatures up to 43.9 Ωm. In spite of the successes reported herein using the ERT, this research also revealed that the ERT is less effective in estimating the thickness of the waste deposit in unlined SWD sites due to leachate infiltration into the ground beneath it that masks the resistivities of the top level ground and makes it indistinguishable from the waste body.

Development of USEtox characterisation factors for dishwasher detergents using data made available under REACH.

PubMed

Igos, Elorri; Moeller, Ruth; Benetto, Enrico; Biwer, Arno; Guiton, Mélanie; Dieumegard, Philippe

2014-04-01

Because of the more and more stringent regulations and customer demand, dishwasher detergent manufacturers are constantly improving the composition of the products towards better environmental performances. In order to quantify the pros and cons of these changes on the lifecycle of detergents, as compared to conventional products, the use of Life Cycle Assessment (LCA) is a meaningful opportunity. However, the application of the methodology is hampered by the lack of Characterisation Factors (CFs) relative to the specific chemical substances included in the detergents composition, which cannot be included in the impact assessment of the effluent discharge. In this study we have tackled this problem, taking advantage of the specific case of three dishwasher detergents produced by the Chemolux/McBride group: phosphate-based, eco-labelled and phosphate-free formulations. Nine CFs for freshwater ecotoxicity and seven CFs for human toxicity have been developed, using the USEtox methodology and data made available under the REACH regulation. As a result, the dishwasher effluent composition could be characterised by more than 95% for freshwater ecotoxicity whereas for human toxicity the percentage was less than 36%, due to the lack of adequate and reliable repeated dose toxicity studies. The main contributing substances to freshwater ecotoxicity were found to be sodium percarbonate and sodium triphosphate, the latter confirming the pertinence of phosphates banning in the detergent industry. Regarding human toxicity, zinc shows the highest contribution. Further comparison to previous studies and sensitivity analysis substantiated the robustness of these conclusions. Copyright © 2013 Elsevier Ltd. All rights reserved.

The Heroic and the Villainous: a qualitative study characterising the role models that shaped senior doctors' professional identity.

PubMed

Foster, Kirsty; Roberts, Chris

2016-08-16

The successful development and sustaining of professional identity is critical to being a successful doctor. This study explores the enduring impact of significant early role models on the professional identity formation of senior doctors. Personal Interview Narratives were derived from the stories told by twelve senior doctors as they recalled accounts of people and events from the past that shaped their notions of being a doctor. Narrative inquiry methodology was used to explore and analyse video recording and transcript data from interviews. Role models were frequently characterised as heroic, or villainous depending on whether they were perceived as good or bad influences respectively. The degree of sophistication in participants' characterisations appeared to correspond with the stage of life of the participant at the time of the encounter. Heroes were characterised as attractive, altruistic, caring and clever, often in exaggerated terms. Conversely, villains were typically characterised as direct or covert bullies. Everyday events were surprisingly powerful, emotionally charged and persisted in participants' memories much longer than expected. In particular, unresolved emotions dating from encounters where bullying behaviour had been witnessed or experienced were still apparent decades after the event. The characterisation of role models is an important part of the professional identity and socialisation of senior doctors. The enduring impact of what role models say and do means that all doctors, need to consistently reflect on how their own behaviour impacts the development of appropriate professional behaviours in both students and training doctors. This is especially important where problematic behaviours occur as, if not dealt with, they have the potential for long-lasting undesirable effects. The importance of small acts of caring in building a nurturing and supportive learning atmosphere at all stages of medical education cannot be underestimated.

Characterisation of metals in the electronic waste of complex mixtures of end-of-life ICT products for development of cleaner recovery technology.

PubMed

Sun, Z H I; Xiao, Y; Sietsma, J; Agterhuis, H; Visser, G; Yang, Y

2015-01-01

Recycling of valuable metals from electronic waste, especially complex mixtures of end-of-life information and communication technology (ICT) products, is of great difficulty due to their complexity and heterogeneity. One of the important reasons is the lack of comprehensive characterisation on such materials, i.e. accurate compositions, physical/chemical properties. In the present research, we focus on developing methodologies for the characterisation of metals in an industrially processed ICT waste. The morphology, particle size distribution, compositional distribution, occurrence, liberation as well as the thermo-chemical properties of the ICT waste were investigated with various characterisation techniques, including X-ray Fluorescence Spectrometry (XRF), differential scanning calorimetry (DSC) and scanning electron microscopy (SEM) with energy dispersed spectroscopy (EDS). Due to the high heterogeneity of the material, special sample preparation procedures were introduced to minimise the discrepancies during compositional analyses. As a result, a clearer overview of the ICT waste has been reached. This research provides better understanding of the extractability of each metal and improves the awareness of potential obstacles for extraction. It will lead to smarter decisions during further development of a clean and effective recovery process. Copyright © 2014 Elsevier Ltd. All rights reserved.

Benthic habitat characterisation of soft-bottom continental shelves: Integration of acoustic surveys, benthic samples and trawling disturbance intensity

NASA Astrophysics Data System (ADS)

de Juan, S.; Lo Iacono, C.; Demestre, M.

2013-01-01

Eleven sites were located on Mediterranean continental shelves to explore the link between the physical characteristics and epibenthic fauna from soft-sediment habitats. These sites, at 32-82 m in depth, were associated with fishing grounds and the trawling intensity was estimated at the site scale to assess the effects of trawling on benthic communities. Each site was surveyed with Multi-Beam (bathymetry and backscatter), side-scan sonar, benthic grabs and a surface dredge. The sites were clustered in three habitat types. Habitat 1, with moderate trawling disturbance, was characterised by homogeneous mud and associated epifauna that was also highly homogeneous across sites. Habitat 2, with sandy mud and scattered gravel and rocks, had a high abundance of sessile suspension feeders that probably attach to the coarser substratum and benefit from the low fishing disturbance in these sites. Habitat 3 included sites with heterogeneous sediments with maërl as the prevailing biocenosis and having the highest species richness, despite being subjected to variable trawling intensity. Statistical models were used to relate environmental parameters and the species abundance. More than 3 physical variables were necessary to explain the epifaunal patterns across sites, including the percentage of mud, sediment heterogeneity and fishing effort. These analyses are an essential step for extrapolating information from benthic samples to the larger scale of habitats, mapped through acoustic surveys. Despite this, a good integration is required between the mapping of physical habitat distribution and the ecological knowledge of communities.

Low-voltage cross-sectional EBIC for characterisation of GaN-based light emitting devices.

PubMed

Moldovan, Grigore; Kazemian, Payam; Edwards, Paul R; Ong, Vincent K S; Kurniawan, Oka; Humphreys, Colin J

2007-01-01

Electron beam induced current (EBIC) characterisation can provide detailed information on the influence of crystalline defects on the diffusion and recombination of minority carriers in semiconductors. New developments are required for GaN light emitting devices, which need a cross-sectional approach to provide access to their complex multi-layered structures. A sample preparation approach based on low-voltage Ar ion milling is proposed here and shown to produce a flat cross-section with very limited surface recombination, which enables low-voltage high resolution EBIC characterisation. Dark defects are observed in EBIC images and correlation with cathodoluminescence images identify them as threading dislocations. Emphasis is placed on one-dimensional quantification which is used to show that junction delineation with very good spatial resolution can be achieved, revealing significant roughening of this GaN p-n junction. Furthermore, longer minority carrier diffusion lengths along the c-axis are found at dislocation sites, in both p-GaN and the multi-quantum well (MQW) region. This is attributed to gettering of point defects at threading dislocations in p-GaN and higher escape rate from quantum wells at dislocation sites in the MQW region, respectively. These developments show considerable promise for the use of low-voltage cross-sectional EBIC in the characterisation of point and extended defects in GaN-based devices and it is suggested that this technique will be particularly useful for degradation analysis.

"En Sus Proprias Palabras" ("In Their Own Words"): Latina Women's Perspectives on Enablers of HIV Testing Using Freelisting

ERIC Educational Resources Information Center

Morrison, Sharon D.; Sudha, S.; Herrera, Samantha; Ruiz, Carolina; Thomas, Emma

2016-01-01

Objective: Comprehensive information on the facilitators of HIV testing in Latino women (Latinas) in the Southeastern USA is lacking. Efforts to rectify this should include Latina perspectives on the issue. This study aimed to (1) solicit Latina perspectives using qualitative methodology and (2) characterise enablers of HIV testing follow-through.…

Prioritising Paradigms, Mixing Methods, and Characterising the "Qualitative" in Educational Research

ERIC Educational Resources Information Center

Taber, Keith S.

2012-01-01

There seems to be a continuous flow of new and revised books to support the teaching and learning of research methods in education and related fields. At one level, this is to be welcomed in an area such as research methodology where there is no single, widely accepted and coherent overview of the subject. The availability of diverse voices and…

Threads that guide or ties that bind: William Kirby and the essentialism story.

PubMed

Varma, Charissa S

2009-01-01

Nineteenth-century British entomologist William Kirby is best known for his generic division of bees based on tongues and his vigorous defence of natural theology. Focusing on these aspects of Kirby's work has lead many current scholars to characterise Kirby as an "essentialist." As a result of this characterisation, many important aspects of his work, Monographia Apum Angliae (1802) have been over-looked or misunderstood. Kirby's religious devotion, for example, have lead some scholars to assume Kirby used the term "type" for connecting an ontological assumption about essences with a creationist assumption about species fixity, which I argue conceals a variety of ways Kirby employed the term. Also, Kirby frequently cautioned against organising a classification system exclusively by what he called "analytic reasoning," a style of reasoning 20th century scholars often associate with Aristotelian logic of division. I argue that Kirby's critique of analytic reasoning brought the virtues of his own methodological agenda into sharp relief. Kirby used familiar metaphors in the natural history literature--Ariadne's thread, the Eleusinian mysteries, and Bacon's bee and spider metaphors--to emphasise the virtues of building tradition and cooperation in the goals and methodological practices of 19th century British naturalists.

Inclusion complexes of yellow bell pepper pigments with β-cyclodextrin: preparation, characterisation and application as food natural colorant.

PubMed

Lobo, Francine Albernaz Tf; Silva, Vitoria; Domingues, Josiane; Rodrigues, Silvana; Costa, Valéria; Falcão, Deborah; de Lima Araújo, Kátia G

2018-05-01

This work aimed to prepare inclusion complexes using yellow bell pepper pigments and β-cyclodextrin by two different procedures (method A, ultrasonic homogenisation; method B, kneading), to characterise them and evaluate their colour stability in an isotonic beverage model. The extract/β-cyclodextrin ratio was 1:2 for both inclusion methodologies evaluated. The formed extract-β-cyclodextrin complexes and a physical mixture of extract and β-cyclodextrin were evaluated by differential scanning calorimetry (DSC) and Fourier transform infrared spectroscopy (FTIR). Both methodologies resulted in good complex yield and inclusion efficiency. The colour indices L* (lightness), a* (green/red) and b* (blue/yellow) of isotonic drinks added with the complexes were measured during storage under irradiance (1400 lx) and in the absence of light at temperatures between 25 and 31 °C for 21 days. The complex obtained by inclusion method B promoted better colour protection for the beverage compared with the use of the crude extract, showing that the molecular inclusion of yellow bell pepper carotenoids can provide good results for that purpose. © 2017 Society of Chemical Industry. © 2017 Society of Chemical Industry.

Prediction of anaerobic biodegradability and bioaccessibility of municipal sludge by coupling sequential extractions with fluorescence spectroscopy: towards ADM1 variables characterization.

PubMed

Jimenez, Julie; Gonidec, Estelle; Cacho Rivero, Jesús Andrés; Latrille, Eric; Vedrenne, Fabien; Steyer, Jean-Philippe

2014-03-01

Advanced dynamic anaerobic digestion models, such as ADM1, require both detailed organic matter characterisation and intimate knowledge of the involved metabolic pathways. In the current study, a methodology for municipal sludge characterization is investigated to describe two key parameters: biodegradability and bioaccessibility of organic matter. The methodology is based on coupling sequential chemical extractions with 3D fluorescence spectroscopy. The use of increasingly strong solvents reveals different levels of organic matter accessibility and the spectroscopy measurement leads to a detailed characterisation of the organic matter. The results obtained from testing 52 municipal sludge samples (primary, secondary, digested and thermally treated) showed a successful correlation with sludge biodegradability and bioaccessibility. The two parameters, traditionally obtained through the biochemical methane potential (BMP) lab tests, are now obtain in only 5 days compared to the 30-60 days usually required. Experimental data, obtained from two different laboratory scale reactors, were used to validate the ADM1 model. The proposed approach showed a strong application potential for reactor design and advanced control of anaerobic digestion processes. Copyright © 2013 Elsevier Ltd. All rights reserved.

Low altitude unmanned aerial vehicle for characterising remediation effectiveness following the FDNPP accident.

PubMed

Martin, P G; Payton, O D; Fardoulis, J S; Richards, D A; Yamashiki, Y; Scott, T B

2016-01-01

On the 12th of March 2011, The Great Tōhoku Earthquake occurred 70 km off the eastern coast of Japan, generating a large 14 m high tsunami. The ensuing catalogue of events over the succeeding 12 d resulted in the release of considerable quantities of radioactive material into the environment. Important to the large-scale remediation of the affected areas is the accurate and high spatial resolution characterisation of contamination, including the verification of decontaminated areas. To enable this, a low altitude unmanned aerial vehicle equipped with a lightweight gamma-spectrometer and height normalisation system was used to produce sub-meter resolution maps of contamination. This system provided a valuable method to examine both contaminated and remediated areas rapidly, whilst greatly reducing the dose received by the operator, typically in localities formerly inaccessible to ground-based survey methods. The characterisation of three sites within Fukushima Prefecture is presented; one remediated (and a site of much previous attention), one un-remediated and a third having been subjected to an alternative method to reduce emitted radiation dose. Copyright © 2015 The Authors. Published by Elsevier Ltd.. All rights reserved.

An automated laboratory-scale methodology for the generation of sheared mammalian cell culture samples.

PubMed

Joseph, Adrian; Goldrick, Stephen; Mollet, Michael; Turner, Richard; Bender, Jean; Gruber, David; Farid, Suzanne S; Titchener-Hooker, Nigel

2017-05-01

Continuous disk-stack centrifugation is typically used for the removal of cells and cellular debris from mammalian cell culture broths at manufacturing-scale. The use of scale-down methods to characterise disk-stack centrifugation performance enables substantial reductions in material requirements and allows a much wider design space to be tested than is currently possible at pilot-scale. The process of scaling down centrifugation has historically been challenging due to the difficulties in mimicking the Energy Dissipation Rates (EDRs) in typical machines. This paper describes an alternative and easy-to-assemble automated capillary-based methodology to generate levels of EDRs consistent with those found in a continuous disk-stack centrifuge. Variations in EDR were achieved through changes in capillary internal diameter and the flow rate of operation through the capillary. The EDRs found to match the levels of shear in the feed zone of a pilot-scale centrifuge using the experimental method developed in this paper (2.4×10 5 W/Kg) are consistent with those obtained through previously published computational fluid dynamic (CFD) studies (2.0×10 5 W/Kg). Furthermore, this methodology can be incorporated into existing scale-down methods to model the process performance of continuous disk-stack centrifuges. This was demonstrated through the characterisation of culture hold time, culture temperature and EDRs on centrate quality. © 2017 The Authors. Biotechnology Journal published by WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

Characterising switching behaviour in perceptual multi-stability.

PubMed

Denham, Susan; Bendixen, Alexandra; Mill, Robert; Tóth, Dénes; Wennekers, Thomas; Coath, Martin; Bőhm, Tamás; Szalardy, Orsolya; Winkler, István

2012-09-15

When people experience an unchanging sensory input for a long period of time, their perception tends to switch stochastically and unavoidably between alternative interpretations of the sensation; a phenomenon known as perceptual bi-stability or multi-stability. The huge variability in the experimental data obtained in such paradigms makes it difficult to distinguish typical patterns of behaviour, or to identify differences between switching patterns. Here we propose a new approach to characterising switching behaviour based upon the extraction of transition matrices from the data, which provide a compact representation that is well-understood mathematically. On the basis of this representation we can characterise patterns of perceptual switching, visualise and simulate typical switching patterns, and calculate the likelihood of observing a particular switching pattern. The proposed method can support comparisons between different observers, experimental conditions and even experiments. We demonstrate the insights offered by this approach using examples from our experiments investigating multi-stability in auditory streaming. However, the methodology is generic and thus widely applicable in studies of multi-stability in any domain. Copyright © 2012 Elsevier B.V. All rights reserved.

Set-membership fault detection under noisy environment with application to the detection of abnormal aircraft control surface positions

NASA Astrophysics Data System (ADS)

El Houda Thabet, Rihab; Combastel, Christophe; Raïssi, Tarek; Zolghadri, Ali

2015-09-01

The paper develops a set membership detection methodology which is applied to the detection of abnormal positions of aircraft control surfaces. Robust and early detection of such abnormal positions is an important issue for early system reconfiguration and overall optimisation of aircraft design. In order to improve fault sensitivity while ensuring a high level of robustness, the method combines a data-driven characterisation of noise and a model-driven approach based on interval prediction. The efficiency of the proposed methodology is illustrated through simulation results obtained based on data recorded in several flight scenarios of a highly representative aircraft benchmark.

Challenges and unanswered questions for the next decade of circulating tumour cell research in lung cancer

PubMed Central

Mohan, Sumitra; Chemi, Francesca

2017-01-01

Since blood borne circulating tumour cells (CTCs) initially shed from the primary tumour can seed and initiate metastasis at distant sites a better understanding of the biology of CTCs and their dissemination could provide valuable information that could guide therapeutic intervention and real time monitoring of disease progression. Although CTC enumeration has provided a reliable prognostic readout for a number of cancers, including lung cancer, the precise clinical utility of CTCs remains to be established. The rarity of CTCs together with the vanishingly small amounts of nucleic acids present in a single cell as well as cell to cell heterogeneity has stimulated the development of a wide range of powerful cellular and molecular methodologies applied to CTCs. These technical developments are now enabling researchers to focus on understanding the biology of CTCs and their clinical utility as a predictive and pharmacodynamics markers. This review summarises recent advances in the field of CTC research with focus on technical and biological challenges as well the progress made towards clinical utility of characterisation of CTCs with emphasis on studies in lung cancer. PMID:28904889

The electrochemical performance of graphene modified electrodes: an analytical perspective.

PubMed

Brownson, Dale A C; Foster, Christopher W; Banks, Craig E

2012-04-21

We explore the use of graphene modified electrodes towards the electroanalytical sensing of various analytes, namely dopamine hydrochloride, uric acid, acetaminophen and p-benzoquinone via cyclic voltammetry. In line with literature methodologies and to investigate the full-implications of employing graphene in this electrochemical context, we modify electrode substrates that exhibit either fast or slow electron transfer kinetics (edge- or basal- plane pyrolytic graphite electrodes respectively) with well characterised commercially available graphene that has not been chemically treated, is free from surfactants and as a result of its fabrication has an extremely low oxygen content, allowing the true electroanalytical applicability of graphene to be properly de-convoluted and determined. In comparison to the unmodified underlying electrode substrates (constructed from graphite), we find that graphene exhibits a reduced analytical performance in terms of sensitivity, linearity and observed detection limits towards each of the various analytes studied within. Owing to graphene's structural composition, low proportion of edge plane sites and consequent slow heterogeneous electron transfer rates, there appears to be no advantages, for the analytes studied here, of employing graphene in this electroanalytical context.

Pectin functionalised by fatty acids: Diffuse reflectance infrared Fourier transform (DRIFT) spectroscopic characterisation

NASA Astrophysics Data System (ADS)

Kamnev, Alexander A.; Calce, Enrica; Tarantilis, Petros A.; Tugarova, Anna V.; De Luca, Stefania

2015-01-01

Chemically modified pectin derivatives obtained by partial esterification of its hydroxyl moieties with fatty acids (FA; oleic, linoleic and palmitic acids), as well as the initial apple peel pectin were comparatively characterised using diffuse reflectance infrared Fourier transform (DRIFT) spectroscopy. Characteristic changes observed in DRIFT spectra in going from pectin to its FA esters are related to the corresponding chemical modifications. Comparing the DRIFT spectra with some reported data on FTIR spectra of the same materials measured in KBr or NaCl matrices has revealed noticeable shifts of several polar functional groups both in pectin and in its FA-esterified products induced by the halide salts. The results obtained have implications for careful structural analyses of biopolymers with hydrophilic functional groups by means of different FTIR spectroscopic methodologies.

On multi-site damage identification using single-site training data

NASA Astrophysics Data System (ADS)

Barthorpe, R. J.; Manson, G.; Worden, K.

2017-11-01

This paper proposes a methodology for developing multi-site damage location systems for engineering structures that can be trained using single-site damaged state data only. The methodology involves training a sequence of binary classifiers based upon single-site damage data and combining the developed classifiers into a robust multi-class damage locator. In this way, the multi-site damage identification problem may be decomposed into a sequence of binary decisions. In this paper Support Vector Classifiers are adopted as the means of making these binary decisions. The proposed methodology represents an advancement on the state of the art in the field of multi-site damage identification which require either: (1) full damaged state data from single- and multi-site damage cases or (2) the development of a physics-based model to make multi-site model predictions. The potential benefit of the proposed methodology is that a significantly reduced number of recorded damage states may be required in order to train a multi-site damage locator without recourse to physics-based model predictions. In this paper it is first demonstrated that Support Vector Classification represents an appropriate approach to the multi-site damage location problem, with methods for combining binary classifiers discussed. Next, the proposed methodology is demonstrated and evaluated through application to a real engineering structure - a Piper Tomahawk trainer aircraft wing - with its performance compared to classifiers trained using the full damaged-state dataset.

Characterisation of the site-specific monoPEGylated rhG-CSF analogue pegteograstim.

PubMed

Hong, Jeungwoon; Lee, Byoungju; Kang, Kwanyub; Lee, Seung-Hoon; Ryu, Jaehwan; Jung, Gangsoo; Oh, Jaetaek; Jo, Eui-Cheol; Kim, Chan-Wha

2018-01-01

We describe the characterisation of a novel monoPEGylated recombinant human granulocyte colony-stimulating factor analogue, pegteograstim (Neulapeg), prepared by site-specific 20 kDa maleimide-PEG conjugation. An additional cysteine was inserted between Gly136 and Ala137 of filgrastim (methionyl human granulocyte colony-stimulating factor) for site-specific PEGylation, and Cys18 of filgrastim was replaced with Ser18 to prevent unwanted PEGylation. Pegteograstim was produced by Escherichia coli and purified by cation exchange chromatography, and its structural, physicochemical, biological and immunological properties were investigated. Male Sprague-Dawley rats were administered pegteograstim (100 μg/kg) and the pharmacokinetics and pharmacodynamics compared with those of filgrastim. The results of long-term stability testing of pegteograstim revealed no significant change in its quality attributes at 2-8 °C for 36 months. In addition, pegteograstim was stable under the accelerated conditions (25 ± 2 °C, RH of 60 ± 5%) for 6 months. The site-specific monoPEGylated pegteograstim is a highly pure, stable and novel drug for long-lasting treatment of chemotherapy-induced neutropenia. Copyright © 2017. Published by Elsevier Ltd.

Development of a laboratory niche Web site.

PubMed

Dimenstein, Izak B; Dimenstein, Simon I

2013-10-01

This technical note presents the development of a methodological laboratory niche Web site. The "Grossing Technology in Surgical Pathology" (www.grossing-technology.com) Web site is used as an example. Although common steps in creation of most Web sites are followed, there are particular requirements for structuring the template's menu on methodological laboratory Web sites. The "nested doll principle," in which one object is placed inside another, most adequately describes the methodological approach to laboratory Web site design. Fragmentation in presenting the Web site's material highlights the discrete parts of the laboratory procedure. An optimally minimal triad of components can be recommended for the creation of a laboratory niche Web site: a main set of media, a blog, and an ancillary component (host, contact, and links). The inclusion of a blog makes the Web site a dynamic forum for professional communication. By forming links and portals, cloud computing opens opportunities for connecting a niche Web site with other Web sites and professional organizations. As an additional source of information exchange, methodological laboratory niche Web sites are destined to parallel both traditional and new forms, such as books, journals, seminars, webinars, and internal educational materials. Copyright © 2013 Elsevier Inc. All rights reserved.

Quantifying the influence of previously burned areas on suppression effectiveness and avoided exposure: A case study of the Las Conchas Fire

Treesearch

Matthew P. Thompson; Patrick Freeborn; Jon D. Rieck; Dave Calkin; Julie W. Gilbertson-Day; Mark A. Cochrane; Michael S. Hand

2016-01-01

We present a case study of the Las Conchas Fire (2011) to explore the role of previously burned areas (wildfires and prescribed fires) on suppression effectiveness and avoided exposure. Methodological innovations include characterisation of the joint dynamics of fire growth and suppression activities, development of a fire line effectiveness framework, and...

Assessing Deep Sea Communities Through Seabed Imagery

NASA Astrophysics Data System (ADS)

Matkin, A. G.; Cross, K.; Milititsky, M.

2016-02-01

The deep sea still remains virtually unexplored. Human activity, such as oil and gas exploration and deep sea mining, is expanding further into the deep sea, increasing the need to survey and map extensive areas of this habitat in order to assess ecosystem health and value. The technology needed to explore this remote environment has been advancing. Seabed imagery can cover extensive areas of the seafloor and investigate areas where sampling with traditional coring methodologies is just not possible (e.g. cold water coral reefs). Remotely operated vehicles (ROVs) are an expensive option, so drop or towed camera systems can provide a more viable and affordable alternative, while still allowing for real-time control. Assessment of seabed imagery in terms of presence, abundance and density of particular species can be conducted by bringing together a variety of analytical tools for a holistic approach. Sixteen deep sea transects located offshore West Africa were investigated with a towed digital video telemetry system (DTS). Both digital stills and video footage were acquired. An extensive data set was obtained from over 13,000 usable photographs, allowing for characterisation of the different habitats present in terms of community composition and abundance. All observed fauna were identified to the lowest taxonomic level and enumerated when possible, with densities derived after the seabed area was calculated for each suitable photograph. This methodology allowed for consistent assessment of the different habitat types present, overcoming constraints, such as specific taxa that cannot be enumerated, such as sponges, corals or bryozoans, the presence of mobile and sessile species, or the level of taxonomic detail. Although this methodology will not enable a full characterisation of a deep sea community, in terms of species composition for instance, itt will allow a robust assessment of large areas of the deep sea in terms of sensitive habitats present and community characteristics of each habitat. Such data can be readily utilised for planning and licensing purposes and be potentially revisited in the future when taxonomic resolution increases, for a more detailed characterisation or monitoring of this poorly described environment.

A "Do-It-Yourself" phenotyping system: measuring growth and morphology throughout the diel cycle in rosette shaped plants.

PubMed

Dobrescu, Andrei; Scorza, Livia C T; Tsaftaris, Sotirios A; McCormick, Alistair J

2017-01-01

Improvements in high-throughput phenotyping technologies are rapidly expanding the scope and capacity of plant biology studies to measure growth traits. Nevertheless, the costs of commercial phenotyping equipment and infrastructure remain prohibitively expensive for wide-scale uptake, while academic solutions can require significant local expertise. Here we present a low-cost methodology for plant biologists to build their own phenotyping system for quantifying growth rates and phenotypic characteristics of Arabidopsis thaliana rosettes throughout the diel cycle. We constructed an image capture system consisting of a near infra-red (NIR, 940 nm) LED panel with a mounted Raspberry Pi NoIR camera and developed a MatLab-based software module (iDIEL Plant) to characterise rosette expansion. Our software was able to accurately segment and characterise multiple rosettes within an image, regardless of plant arrangement or genotype, and batch process image sets. To further validate our system, wild-type Arabidopsis plants (Col-0) and two mutant lines with reduced Rubisco contents, pale leaves and slow growth phenotypes ( 1a3b and 1a2b ) were grown on a single plant tray. Plants were imaged from 9 to 24 days after germination every 20 min throughout the 24 h light-dark growth cycle (i.e. the diel cycle). The resulting dataset provided a dynamic and uninterrupted characterisation of differences in rosette growth and expansion rates over time for the three lines tested. Our methodology offers a straightforward solution for setting up automated, scalable and low-cost phenotyping facilities in a wide range of lab environments that could greatly increase the processing power and scalability of Arabidopsis soil growth experiments.

Finger printing of mixed contaminants from former manufactured gas plant (MGP) site soils: Implications to bioremediation.

PubMed

Thavamani, Palanisami; Megharaj, Mallavarapu; Krishnamurti, G S R; McFarland, Ross; Naidu, Ravi

2011-01-01

Contaminants in general do not occur as single chemicals but as mixtures at any contaminated site. Gasworks sites are the typical mixed contaminated sites. These sites are not only subjected to PAH contamination but also varying degrees of heavy metal contamination. Bioremediation in these sites is often hindered by the presence of heavy metals. The co-occurrence of PAHs with heavy metals has not been systematically investigated. Metals are reported to inhibit the general soil microbiological processes. The total concentration of soluble metal in the system includes both free metal ion and complexed forms. Within bioavailable fraction, the most toxic form is the free metal species, which was not addressed well so far in gas works site characterisation. This study underpins the science and importance of metal bioavailability and speciation based site characterisation in mixed contaminated sites. In this study a detailed elemental chemistry of the gas works site soils are discussed using different methods. The PAH contamination was contributed by both low and high molecular weight PAHs. The total PAHs concentration ranged from 335 to 8645 mg/kg. Among most toxic metals Pb was found in high concentration ranging from 88 to 671 mg/kg, Cd 8 to 112 mg/kg and Zn varied from 64 to 488 mg/kg. Thermodynamic chemical equilibrium model VMINTEQ (Ver 2.52) was used to calculate the free metal species in gas works site soils. The percentage free metal species showed a different trend compared to total metal concentrations, free Zn species ranged 18-86%, free Cd was 26-87% and Pb showed lowest free metal percentage (0-17%). The bioavailable metal species and its implications to bioremediation have also been discussed. Copyright © 2010 Elsevier Ltd. All rights reserved.

Testing Pearl Model In Three European Sites

NASA Astrophysics Data System (ADS)

Bouraoui, F.; Bidoglio, G.

The Plant Protection Product Directive (91/414/EEC) stresses the need of validated models to calculate predicted environmental concentrations. The use of models has become an unavoidable step before pesticide registration. In this context, European Commission, and in particular DGVI, set up a FOrum for the Co-ordination of pes- ticide fate models and their USe (FOCUS). In a complementary effort, DG research supported the APECOP project, with one of its objective being the validation and im- provement of existing pesticide fate models. The main topic of research presented here is the validation of the PEARL model for different sites in Europe. The PEARL model, actually used in the Dutch pesticide registration procedure, was validated in three well- instrumented sites: Vredepeel (the Netherlands), Brimstone (UK), and Lanna (Swe- den). A step-wise procedure was used for the validation of the PEARL model. First the water transport module was calibrated, and then the solute transport module, using tracer measurements keeping unchanged the water transport parameters. The Vrede- peel site is characterised by a sandy soil. Fourteen months of measurements were used for the calibration. Two pesticides were applied on the site: bentazone and etho- prophos. PEARL predictions were very satisfactory for both soil moisture content, and pesticide concentration in the soil profile. The Brimstone site is characterised by a cracking clay soil. The calibration was conducted on a time series measurement of 7 years. The validation consisted in comparing predictions and measurement of soil moisture at different soil depths, and in comparing the predicted and measured con- centration of isoproturon in the drainage water. The results, even if in good agreement with the measuremens, highlighted the limitation of the model when the preferential flow becomes a dominant process. PEARL did not reproduce well soil moisture pro- file during summer months, and also under-predicted the arrival of isoproturon to the drains. The Lanna site is characterised by s structured clay soil. PEARL was success- ful in predicting soil moisture profiles and the draining water. PEARL performed well in predicting the soil concentration of bentazone at different depth. However, since PEARL does not consider cracks in the soil, it did not predict well the peak concen- trations of bentazone in the drainage water. Along with the validation results for the three sites, a sensitivity analysis of the model is presented.

Landfill mining: Resource potential of Austrian landfills--Evaluation and quality assessment of recovered municipal solid waste by chemical analyses.

PubMed

Wolfsberger, Tanja; Aldrian, Alexia; Sarc, Renato; Hermann, Robert; Höllen, Daniel; Budischowsky, Andreas; Zöscher, Andreas; Ragoßnig, Arne; Pomberger, Roland

2015-11-01

Since the need for raw materials in countries undergoing industrialisation (like China) is rising, the availability of metal and fossil fuel energy resources (like ores or coal) has changed in recent years. Landfill sites can contain considerable amounts of recyclables and energy-recoverable materials, therefore, landfill mining is an option for exploiting dumped secondary raw materials, saving primary sources. For the purposes of this article, two sanitary landfill sites have been chosen for obtaining actual data to determine the resource potential of Austrian landfills. To evaluate how pretreating waste before disposal affects the resource potential of landfills, the first landfill site has been selected because it has received untreated waste, whereas mechanically-biologically treated waste was dumped in the second. The scope of this investigation comprised: (1) waste characterisation by sorting analyses of recovered waste; and (2) chemical analyses of specific waste fractions for quality assessment regarding potential energy recovery by using it as solid recovered fuels. The content of eight heavy metals and the net calorific values were determined for the chemical characterisation tests. © The Author(s) 2015.

Economic method for helical gear flank surface characterisation

NASA Astrophysics Data System (ADS)

Koulin, G.; Reavie, T.; Frazer, R. C.; Shaw, B. A.

2018-03-01

Typically the quality of a gear pair is assessed based on simplified geometric tolerances which do not always correlate with functional performance. In order to identify and quantify functional performance based parameters, further development of the gear measurement approach is required. Methodology for interpolation of the full active helical gear flank surface, from sparse line measurements, is presented. The method seeks to identify the minimum number of line measurements required to sufficiently characterise an active gear flank. In the form ground gear example presented, a single helix and three profile line measurements was considered to be acceptable. The resulting surfaces can be used to simulate the meshing engagement of a gear pair and therefore provide insight into functional performance based parameters. Therefore the assessment of the quality can be based on the predicted performance in the context of an application.

Liquid Chromatography Combined with Mass Spectrometry Utilising High-Resolution, Exact Mass, and Multi-Stage Fragmentation for the Identification of Oxysterols in Rat Brain

PubMed Central

Karu, Kersti; Hornshaw, Martin; Woffendin, Gary; Bodin, Karl; Hamberg, Mats; Alvelius, Gunvor; Sjövall, Jan; Turton, John; Wang, Yuqin; Griffiths, William J.

2008-01-01

In man the brain accounts for about 20% of the body's free cholesterol, most of which is synthesised de novo in brain. To maintain cholesterol balance throughout life, cholesterol becomes metabolised to 24S-hydroxycholesterol principally in neurons. In mouse, rat, and probably human, metabolism to 24S-hydroxycholesterol accounts for about 50% of cholesterol turnover, however, the route by which the remainder is turned over has yet to be elucidated. Here we describe a novel liquid chromatography (LC) – multi-stage fragmentation mass spectrometry (MSn) methodology for the identification, with high sensitivity (low pg), of cholesterol metabolites in rat brain. The methodology includes derivatisation to enhance ionisation, exact mass analysis at high-resolution to identify potential metabolites, and LC-MS3 to allow their characterisation. 24S-Hydroxycholesterol was confirmed as a major oxysterol in rat brain, while other oxysterols identified for the first time in brain included 24,25-, 24,27-, 25,27-, 6,24, 7α,25-, and 7α,27-dihydroxycholesterols. In addition, 3β-hydroxy-5-oxo-5,6-secocholestan-6-al and its aldol, two molecules linked to amyloidogenesis of proteins, were characterised in rat brain. PMID:17251593

The National Visitor Use Monitoring methodology and final results for round 1

Treesearch

S.J. Zarnoch; E.M. White; D.B.K. English; Susan M. Kocis; Ross Arnold

2011-01-01

A nationwide, systematic monitoring process has been developed to provide improved estimates of recreation visitation on National Forest System lands. Methodology is presented to provide estimates of site visits and national forest visits based on an onsite sampling design of site-days and last-exiting recreationists. Stratification of the site days, based on site type...

Exploration of the integration of care for persons with a traumatic brain injury using social network analysis methodology.

PubMed

Lamontagne, Marie-Eve

2013-01-01

Integration is a popular strategy to increase the quality of care within systems of care. However, there is no common language, approach or tool allowing for a valid description, comparison and evaluation of integrated care. Social network analysis could be a viable methodology to provide an objective picture of integrated networks. To illustrate social network analysis use in the context of systems of care for traumatic brain injury. We surveyed members of a network using a validated questionnaire to determine the links between them. We determined the density, centrality, multiplexity, and quality of the links reported. The network was described as moderately dense (0.6), the most prevalent link was knowledge, and four organisation members of a consortium were central to the network. Social network analysis allowed us to create a graphic representation of the network. Social network analysis is a useful methodology to objectively characterise integrated networks.

STEM-EDX tomography of bimetallic nanoparticles: A methodological investigation

DOE Office of Scientific and Technical Information (OSTI.GOV)

Slater, Thomas J. A.; Janssen, Arne; Camargo, Pedro H. C.

This paper presents an investigation of the limitations and optimization of energy dispersive X-ray (EDX) tomography within the scanning transmission electron microscope, focussing on application of the technique to characterising the 3D elemental distribution of bimetallic AgAu nanoparticles. The detector collection efficiency when using a standard tomography holder is characterised using a tomographic data set from a single nanoparticle and compared to a standard low background double tilt holder. Optical depth profiling is used to investigate the angles and origin of detector shadowing as a function of specimen field of view. A novel time-varied acquisition scheme is described to compensatemore » for variations in the intensity of spectrum images at each sample tilt. Lastly, the ability of EDX spectrum images to satisfy the projection requirement for nanoparticle samples is discussed, with consideration of the effect of absorption and shadowing variations« less

STEM-EDX tomography of bimetallic nanoparticles: A methodological investigation

DOE PAGES

Slater, Thomas J. A.; Janssen, Arne; Camargo, Pedro H. C.; ...

2015-10-22

This paper presents an investigation of the limitations and optimization of energy dispersive X-ray (EDX) tomography within the scanning transmission electron microscope, focussing on application of the technique to characterising the 3D elemental distribution of bimetallic AgAu nanoparticles. The detector collection efficiency when using a standard tomography holder is characterised using a tomographic data set from a single nanoparticle and compared to a standard low background double tilt holder. Optical depth profiling is used to investigate the angles and origin of detector shadowing as a function of specimen field of view. A novel time-varied acquisition scheme is described to compensatemore » for variations in the intensity of spectrum images at each sample tilt. Lastly, the ability of EDX spectrum images to satisfy the projection requirement for nanoparticle samples is discussed, with consideration of the effect of absorption and shadowing variations« less

End of living: maintaining a lifeworld during terminal illness.

PubMed

Wrubel, Judith; Acree, Michael; Goodman, Steffanie; Folkman, Susan

2009-12-01

The narrative responses of 32 people with AIDS or cancer with survival prognoses of 6 months to a year to monthly interview questions about their daily lives were analysed with a team-based qualitative methodology. Two groups emerged: (a) a Maintained Lifeworld Group characterised by one or more of the following: continued engagement with family, friends, and community; the ability to relinquish untenable goals and substitute new, realistic ones; engagement in spirituality and a spiritual practice; and, (b) a Lifeworld Interrupted Group characterised by one or more of the following: relocation just before or during the study, cognitive impairment, commitment to untenable goals, ongoing substance abuse. Understanding how people with a terminal illness can maintain a lifeworld and experience well-being while also managing the physical challenges of their illness could help inform the support offered by professional and family caregivers to improve care recipients' quality of life.

Sheet metals characterization using the virtual fields method

NASA Astrophysics Data System (ADS)

Marek, Aleksander; Davis, Frances M.; Pierron, Fabrice

2018-05-01

In this work, a characterisation method involving a deep-notched specimen subjected to a tensile loading is introduced. This specimen leads to heterogeneous states of stress and strain, the latter being measured using a stereo DIC system (MatchID). This heterogeneity enables the identification of multiple material parameters in a single test. In order to identify material parameters from the DIC data, an inverse method called the Virtual Fields Method is employed. The method combined with recently developed sensitivity-based virtual fields allows to optimally locate areas in the test where information about each material parameter is encoded, improving accuracy of the identification over the traditional user-defined virtual fields. It is shown that a single test performed at 45° to the rolling direction is sufficient to obtain all anisotropic plastic parameters, thus reducing experimental effort involved in characterisation. The paper presents the methodology and some numerical validation.

Understanding the physical dynamics and ecological interactions in tidal stream energy environments

NASA Astrophysics Data System (ADS)

Fraser, Shaun; Williamson, Benjamin J.; Nikora, Vladimir; Scott, Beth E.

2017-04-01

Tidal stream energy devices are intended to operate in energetic physical environments characterised by high flows and extreme turbulence. These environments are often of ecological importance to a range of marine species. Understanding the physical dynamics and ecological interactions at fine scales in such sites is essential for device/array design and to understand environmental impacts. However, investigating fine scale characteristics requires high resolution field measurements which are difficult to attain and interpret, with data often confounded by interference related to turbulence. Consequently, field observations in tidal stream energy environments are limited and require the development of specialised analysis methods and so significant knowledge gaps are still present. The seabed mounted FLOWBEC platform is addressing these knowledge gaps using upward facing instruments to collect information from around marine energy infrastructure. Multifrequency and multibeam echosounder data provide detailed information on the distribution and interactions of biological targets, such as fish and diving seabirds, while simultaneously recording the scales and intensity of turbulence. Novel processing methodologies and instrument integration techniques have been developed which combine different data types and successfully separates signal from noise to reveal new evidence about the behaviour of mobile species and the structure of turbulence at all speeds of the tide and throughout the water column. Multiple platform deployments in the presence and absence of marine energy infrastructure reveal the natural characteristics of high energy sites, and enable the interpretation of the physical and biological impacts of tidal stream devices. These methods and results are relevant to the design and consenting of marine renewable energy technologies, and provide novel information on the use of turbulence for foraging opportunities in high energy sites by mobile species.

Atmospheric stability effects on potential radiological releases at a nuclear research facility in Romania: Characterising the atmospheric mixing state.

PubMed

Chambers, Scott D; Galeriu, Dan; Williams, Alastair G; Melintescu, Anca; Griffiths, Alan D; Crawford, Jagoda; Dyer, Leisa; Duma, Marin; Zorila, Bogdan

2016-04-01

A radon-based nocturnal stability classification scheme is developed for a flat inland site near Bucharest, Romania, characterised by significant local surface roughness heterogeneity, and compared with traditional meteorologically-based techniques. Eight months of hourly meteorological and atmospheric radon observations from a 60 m tower at the IFIN-HH nuclear research facility are analysed. Heterogeneous surface roughness conditions in the 1 km radius exclusion zone around the site hinder accurate characterisation of nocturnal atmospheric mixing conditions using conventional meteorological techniques, so a radon-based scheme is trialled. When the nocturnal boundary layer is very stable, the Pasquill-Gifford "radiation" scheme overestimates the atmosphere's capacity to dilute pollutants with near-surface sources (such as tritiated water vapour) by 20% compared to the radon-based scheme. Under these conditions, near-surface wind speeds drop well below 1 m s(-1) and nocturnal mixing depths vary from ∼ 25 m to less than 10 m above ground level (a.g.l.). Combining nocturnal radon with daytime ceilometer data, we were able to reconstruct the full diurnal cycle of mixing depths. Average daytime mixing depths at this flat inland site range from 1200 to 1800 m a.g.l. in summer, and 500-900 m a.g.l. in winter. Using tower observations to constrain the nocturnal radon-derived effective mixing depth, we were able to estimate the seasonal range in the Bucharest regional radon flux as: 12 mBq m(-2) s(-1) in winter to 14 mBq m(-2) s(-1) in summer. Crown Copyright © 2016. Published by Elsevier Ltd. All rights reserved.

Diversity and structure of Chironomidae communities in relation to water quality differences in the Swartkops River

NASA Astrophysics Data System (ADS)

Odume, O. N.; Muller, W. J.

The Swartkops River is an important freshwater ecosystem in South Africa. But owing to its location, it suffers varying degrees of human induced impacts which include industrial and domestic effluent discharges, deforestation as well as agricultural land use which have negatively impacted on the water quality. Diversity and community composition of aquatic insects are frequently used to assess environmental water quality status. Chironomids occupy extremely varied biotopes. Their extraordinary ecological range and environmental sensitivity make them particularly useful for assessing and interpreting changes in water quality of aquatic ecosystems. The community structure of chironomid larvae was investigated at four sites in the Swartkops River and effects of different chemical and physical variables on their distribution were explored. Chironomid larvae were collected using the South African Scoring System version 5 (SASS5) protocol. A total of 26 taxa from four sampling sites in the Swartkops River were identified. Margalef’s species richness index, equitability, Shannon and Simpson diversity indices were highest at site 1 (reference site). The downstream sites contained 6-20 taxa compared to the 25 taxa at site 1. Site 1 was characterised by the subfamilies Orthocladiinae, Tanypodinae and the tribe Tanytarsini while the impacted sites were characterised by Orthocladiinae and Chironomini. Chironomus spp., Dirotendipes sp., Kiefferulus sp. and Tanypus sp. seemed to be tolerant to pollution, occurring in high abundance at sites 2, 3 and 4. In contrast, Polypedilum sp., Tanytarsus sp., Orthocladius sp., Cricotopus spp. and Ablabesmyia sp. appeared to be more sensitive taxa, being less common at the impacted sites (sites 2, 3 and 4). Five days biochemical oxygen demand, dissolved oxygen, electrical conductivity, orthophosphate-phosphorus and total inorganic nitrogen were among the important variables that determine the observed chironomid community structure. Results revealed that the family Chironomidae, identified to species or genus, can be use to assess environmental water quality status in South African freshwater ecosystems.

Gold glyconanoparticles: synthetic polyvalent ligands mimicking glycocalyx-like surfaces as tools for glycobiological studies.

PubMed

Barrientos, Africa G; de la Fuente, Jesús M; Rojas, Teresa C; Fernández, Asunción; Penadés, Soledad

2003-05-09

A simple and versatile methodology is described for tailoring sugar-functionalised gold nanoclusters (glyconanoparticles) that have 3D polyvalent carbohydrate display and globular shapes. This methodology allows the preparation of glyconanoparticles with biologically significant oligosaccharides as well as with differing carbohydrate density. Fluorescent glyconanoparticles have been also prepared for labelling cells in biological tests. The materials are water soluble, stable under physiological conditions and present an exceptional small core size. All of them have been characterised by (1)H NMR, UV and IR spectroscopy, TEM and elemental analysis. Their highly polyvalent network can mimic glycosphingolipid clustering and interactions at the plasma membrane, providing an controlled system for glycobiological studies. Furthermore, they are useful building blocks for the design of nanomaterials.

A neural network based methodology to predict site-specific spectral acceleration values

NASA Astrophysics Data System (ADS)

Kamatchi, P.; Rajasankar, J.; Ramana, G. V.; Nagpal, A. K.

2010-12-01

A general neural network based methodology that has the potential to replace the computationally-intensive site-specific seismic analysis of structures is proposed in this paper. The basic framework of the methodology consists of a feed forward back propagation neural network algorithm with one hidden layer to represent the seismic potential of a region and soil amplification effects. The methodology is implemented and verified with parameters corresponding to Delhi city in India. For this purpose, strong ground motions are generated at bedrock level for a chosen site in Delhi due to earthquakes considered to originate from the central seismic gap of the Himalayan belt using necessary geological as well as geotechnical data. Surface level ground motions and corresponding site-specific response spectra are obtained by using a one-dimensional equivalent linear wave propagation model. Spectral acceleration values are considered as a target parameter to verify the performance of the methodology. Numerical studies carried out to validate the proposed methodology show that the errors in predicted spectral acceleration values are within acceptable limits for design purposes. The methodology is general in the sense that it can be applied to other seismically vulnerable regions and also can be updated by including more parameters depending on the state-of-the-art in the subject.

Long-term ground deformation patterns of Bucharest using multi-temporal InSAR and multivariate dynamic analyses: a possible transpressional system?

PubMed Central

Armaş, Iuliana; Mendes, Diana A.; Popa, Răzvan-Gabriel; Gheorghe, Mihaela; Popovici, Diana

2017-01-01

The aim of this exploratory research is to capture spatial evolution patterns in the Bucharest metropolitan area using sets of single polarised synthetic aperture radar (SAR) satellite data and multi-temporal radar interferometry. Three sets of SAR data acquired during the years 1992–2010 from ERS-1/-2 and ENVISAT, and 2011–2014 from TerraSAR-X satellites were used in conjunction with the Small Baseline Subset (SBAS) and persistent scatterers (PS) high-resolution multi-temporal interferometry (InSAR) techniques to provide maps of line-of-sight displacements. The satellite-based remote sensing results were combined with results derived from classical methodologies (i.e., diachronic cartography) and field research to study possible trends in developments over former clay pits, landfill excavation sites, and industrial parks. The ground displacement trend patterns were analysed using several linear and nonlinear models, and techniques. Trends based on the estimated ground displacement are characterised by long-term memory, indicated by low noise Hurst exponents, which in the long-term form interesting attractors. We hypothesize these attractors to be tectonic stress fields generated by transpressional movements. PMID:28252103

Long-term ground deformation patterns of Bucharest using multi-temporal InSAR and multivariate dynamic analyses: a possible transpressional system?

PubMed

Armaş, Iuliana; Mendes, Diana A; Popa, Răzvan-Gabriel; Gheorghe, Mihaela; Popovici, Diana

2017-03-02

The aim of this exploratory research is to capture spatial evolution patterns in the Bucharest metropolitan area using sets of single polarised synthetic aperture radar (SAR) satellite data and multi-temporal radar interferometry. Three sets of SAR data acquired during the years 1992-2010 from ERS-1/-2 and ENVISAT, and 2011-2014 from TerraSAR-X satellites were used in conjunction with the Small Baseline Subset (SBAS) and persistent scatterers (PS) high-resolution multi-temporal interferometry (InSAR) techniques to provide maps of line-of-sight displacements. The satellite-based remote sensing results were combined with results derived from classical methodologies (i.e., diachronic cartography) and field research to study possible trends in developments over former clay pits, landfill excavation sites, and industrial parks. The ground displacement trend patterns were analysed using several linear and nonlinear models, and techniques. Trends based on the estimated ground displacement are characterised by long-term memory, indicated by low noise Hurst exponents, which in the long-term form interesting attractors. We hypothesize these attractors to be tectonic stress fields generated by transpressional movements.

An integrated map of genetic variation from 1,092 human genomes

PubMed Central

2012-01-01

Summary Through characterising the geographic and functional spectrum of human genetic variation, the 1000 Genomes Project aims to build a resource to help understand the genetic contribution to disease. We describe the genomes of 1,092 individuals from 14 populations, constructed using a combination of low-coverage whole-genome and exome sequencing. By developing methodologies to integrate information across multiple algorithms and diverse data sources we provide a validated haplotype map of 38 million SNPs, 1.4 million indels and over 14 thousand larger deletions. We show that individuals from different populations carry different profiles of rare and common variants and that low-frequency variants show substantial geographic differentiation, which is further increased by the action of purifying selection. We show that evolutionary conservation and coding consequence are key determinants of the strength of purifying selection, that rare-variant load varies substantially across biological pathways and that each individual harbours hundreds of rare non-coding variants at conserved sites, such as transcription-factor-motif disrupting changes. This resource, which captures up to 98% of accessible SNPs at a frequency of 1% in populations of medical genetics focus, enables analysis of common and low-frequency variants in individuals from diverse, including admixed, populations. PMID:23128226

Frontal crashworthiness characterisation of a vehicle segment using curve comparison metrics.

PubMed

Abellán-López, D; Sánchez-Lozano, M; Martínez-Sáez, L

2018-08-01

The objective of this work is to propose a methodology for the characterization of the collision behaviour and crashworthiness of a segment of vehicles, by selecting the vehicle that best represents that group. It would be useful in the development of deformable barriers, to be used in crash tests intended to study vehicle compatibility, as well as for the definition of the representative standard pulses used in numerical simulations or component testing. The characterisation and selection of representative vehicles is based on the objective comparison of the occupant compartment acceleration and barrier force pulses, obtained during crash tests, by using appropriate comparison metrics. This method is complemented with another one, based exclusively on the comparison of a few characteristic parameters of crash behaviour obtained from the previous curves. The method has been applied to different vehicle groups, using test data from a sample of vehicles. During this application, the performance of several metrics usually employed in the validation of simulation models have been analysed, and the most efficient ones have been selected for the task. The methodology finally defined is useful for vehicle segment characterization, taken into account aspects of crash behaviour related to the shape of the curves, difficult to represent by simple numerical parameters, and it may be tuned in future works when applied to larger and different samples. Copyright © 2018 Elsevier Ltd. All rights reserved.

Proposal and application of a regional methodology of comparative risk assessment for potentially contaminated sites.

PubMed

Marzocchini, Manrico; Tatàno, Fabio; Moretti, Michela Simona; Antinori, Caterina; Orilisi, Stefano

2018-06-05

A possible approach for determining soil and groundwater quality criteria for contaminated sites is the comparative risk assessment. Originating from but not limited to Italian interest in a decentralised (regional) implementation of comparative risk assessment, this paper first addresses the proposal of an original methodology called CORIAN REG-M , which was created with initial attention to the context of potentially contaminated sites in the Marche Region (Central Italy). To deepen the technical-scientific knowledge and applicability of the comparative risk assessment, the following characteristics of the CORIAN REG-M methodology appear to be relevant: the simplified but logical assumption of three categories of factors (source and transfer/transport of potential contamination, and impacted receptors) within each exposure pathway; the adaptation to quality and quantity of data that are available or derivable at the given scale of concern; the attention to a reliable but unsophisticated modelling; the achievement of a conceptual linkage to the absolute risk assessment approach; and the potential for easy updating and/or refining of the methodology. Further, the application of the CORIAN REG-M methodology to some case-study sites located in the Marche Region indicated the following: a positive correlation can be expected between air and direct contact pathway scores, as well as between individual pathway scores and the overall site scores based on a root-mean-square algorithm; the exposure pathway, which presents the highest variability of scores, tends to be dominant at sites with the highest computed overall site scores; and the adoption of a root-mean-square algorithm can be expected to emphasise the overall site scoring.

Methodological proceedings to evaluate the physical accessibility in urban historic sites.

PubMed

Ribeiro, Gabriela Sousa; Martins, Laura Bezerra; Monteiro, Circe Maria Gama

2012-01-01

Historic urban sites are set by cultural and social diversities, generating multiple activities and use and access to these sites should be available to all people including those with disabilities. Taking into consideration that using the same methodology that was used in different historic sites researches with positive results facilitates replication, we aimed to develop methodological procedures that identify conditions of physical accessibility in open public spaces and access to public buildings in historic urban sites to support proposals about design requirements for improvements to the problems diagnosed and control inadequacies of the physical environment. The study methods and techniques from different areas of knowledge culminated in a proposal built with an emphasis on user participation that could be applied with low cost and in relatively short period of time.

D Recording for 2d Delivering - the Employment of 3d Models for Studies and Analyses -

NASA Astrophysics Data System (ADS)

Rizzi, A.; Baratti, G.; Jiménez, B.; Girardi, S.; Remondino, F.

2011-09-01

In the last years, thanks to the advances of surveying sensors and techniques, many heritage sites could be accurately replicated in digital form with very detailed and impressive results. The actual limits are mainly related to hardware capabilities, computation time and low performance of personal computer. Often, the produced models are not visible on a normal computer and the only solution to easily visualized them is offline using rendered videos. This kind of 3D representations is useful for digital conservation, divulgation purposes or virtual tourism where people can visit places otherwise closed for preservation or security reasons. But many more potentialities and possible applications are available using a 3D model. The problem is the ability to handle 3D data as without adequate knowledge this information is reduced to standard 2D data. This article presents some surveying and 3D modeling experiences within the APSAT project ("Ambiente e Paesaggi dei Siti d'Altura Trentini", i.e. Environment and Landscapes of Upland Sites in Trentino). APSAT is a multidisciplinary project funded by the Autonomous Province of Trento (Italy) with the aim documenting, surveying, studying, analysing and preserving mountainous and hill-top heritage sites located in the region. The project focuses on theoretical, methodological and technological aspects of the archaeological investigation of mountain landscape, considered as the product of sequences of settlements, parcelling-outs, communication networks, resources, and symbolic places. The mountain environment preserves better than others the traces of hunting and gathering, breeding, agricultural, metallurgical, symbolic activities characterised by different lengths and environmental impacts, from Prehistory to the Modern Period. Therefore the correct surveying and documentation of this heritage sites and material is very important. Within the project, the 3DOM unit of FBK is delivering all the surveying and 3D material to the interdisciplinary partners of the project to allow successive analyses or derivations of restoration plans and conservation policies.

Limits of 'patient-centredness': valuing contextually specific communication patterns.

PubMed

Mole, Tom B; Begum, Hasna; Cooper-Moss, Nicola; Wheelhouse, Rebecca; MacKeith, Pieter; Sanders, Tom; Wass, Valerie

2016-03-01

Globally, doctor-patient communication is becoming synonymous with high-quality health care in the 21st century. However, what is meant by 'good communication' and whether there is consensus internationally remain unclear. Here, we characterise understandings of 'good communication' in future doctors from medical schools in three contextually contrasting continents. Given locally specific socio-cultural influences, we hypothesised that there would be a lack of global consensus on what constitutes 'good communication'. A standardised two-phase methodology was applied in turn to each of three medical schools in the UK, Egypt and India (n = 107 subjects), respectively, in which students were asked: 'What is good communication?' Phase I involved exploratory focus groups to define preliminary themes (mean number of participants per site: 17). Phase II involved thematic confirmation and expansion in one-to-one semi-structured interviews (mean number of participants per site: 18; mean hours of dialogue captured per site: 55). Findings were triangulated and analysed using grounded theory. The overarching theme that emerged from medical students was that 'good communication' requires adherence to certain 'rules of communication'. A shared rule that doctors must communicate effectively despite perceived disempowerment emerged across all sites. However, contradictory culturally specific rules about communication were identified in relation to three major domains: family; gender, and emotional expression. Egyptian students perceived emotional aspects of Western doctors' communication strikingly negatively, viewing these doctors as problematically cold and unresponsive. Contradictory perceptions of 'good communication' in future doctors are found cross-continentally and may contribute to prevalent cultural misunderstandings in medicine. The lack of global consensus on what defines good communication challenges prescriptively taught Western 'patient-centredness' and questions assumptions about international transferability. Health care professionals must be educated openly about flexible, context-specific communication patterns so that they can avoid cultural incompetence and tailor behaviours in ways that optimise therapeutic outcomes wherever they work around the globe. © 2016 John Wiley & Sons Ltd.

First experiences in the implementation of biometric technology to link data from Health and Demographic Surveillance Systems with health facility data

PubMed Central

Serwaa-Bonsu, Adwoa; Herbst, Abraham J.; Reniers, Georges; Ijaa, Wilfred; Clark, Benjamin; Kabudula, Chodziwadziwa; Sankoh, Osman

2010-01-01

Background In developing countries, Health and Demographic Surveillance Systems (HDSSs) provide a framework for tracking demographic and health dynamics over time in a defined geographical area. Many HDSSs co-exist with facility-based data sources in the form of Health Management Information Systems (HMIS). Integrating both data sources through reliable record linkage could provide both numerator and denominator populations to estimate disease prevalence and incidence rates in the population and enable determination of accurate health service coverage. Objective To measure the acceptability and performance of fingerprint biometrics to identify individuals in demographic surveillance populations and those attending health care facilities serving the surveillance populations. Methodology Two HDSS sites used fingerprint biometrics for patient and/or surveillance population participant identification. The proportion of individuals for whom a fingerprint could be successfully enrolled were characterised in terms of age and sex. Results Adult (18–65 years) fingerprint enrolment rates varied between 94.1% (95% CI 93.6–94.5) for facility-based fingerprint data collection at the Africa Centre site to 96.7% (95% CI 95.9–97.6) for population-based fingerprint data collection at the Agincourt site. Fingerprint enrolment rates in children under 1 year old (Africa Centre site) were only 55.1% (95% CI 52.7–57.4). By age 5, child fingerprint enrolment rates were comparable to those of adults. Conclusion This work demonstrates the feasibility of fingerprint-based individual identification for population-based research in developing countries. Record linkage between demographic surveillance population databases and health care facility data based on biometric identification systems would allow for a more comprehensive evaluation of population health, including the ability to study health service utilisation from a population perspective, rather than the more restrictive health service perspective. PMID:20200659

Characterisation of a C1qtnf5 Ser163Arg Knock-In Mouse Model of Late-Onset Retinal Macular Degeneration

PubMed Central

Shu, Xinhua; Luhmann, Ulrich F. O.; Aleman, Tomas S.; Barker, Susan E.; Lennon, Alan; Tulloch, Brian; Chen, Mei; Xu, Heping; Jacobson, Samuel G.; Ali, Robin; Wright, Alan F.

2011-01-01

A single founder mutation resulting in a Ser163Arg substitution in the C1QTNF5 gene product causes autosomal dominant late-onset retinal macular degeneration (L-ORMD) in humans, which has clinical and pathological features resembling age-related macular degeneration. We generated and characterised a mouse “knock-in” model carrying the Ser163Arg mutation in the orthologous murine C1qtnf5 gene by site-directed mutagenesis and homologous recombination into mouse embryonic stem cells. Biochemical, immunological, electron microscopic, fundus autofluorescence, electroretinography and laser photocoagulation analyses were used to characterise the mouse model. Heterozygous and homozygous knock-in mice showed no significant abnormality in any of the above measures at time points up to 2 years. This result contrasts with another C1qtnf5 Ser163Arg knock-in mouse which showed most of the features of L-ORMD but differed in genetic background and targeting construct. PMID:22110650

Complexity Measures in Magnetoencephalography: Measuring "Disorder" in Schizophrenia

PubMed Central

Brookes, Matthew J.; Hall, Emma L.; Robson, Siân E.; Price, Darren; Palaniyappan, Lena; Liddle, Elizabeth B.; Liddle, Peter F.; Robinson, Stephen E.; Morris, Peter G.

2015-01-01

This paper details a methodology which, when applied to magnetoencephalography (MEG) data, is capable of measuring the spatio-temporal dynamics of ‘disorder’ in the human brain. Our method, which is based upon signal entropy, shows that spatially separate brain regions (or networks) generate temporally independent entropy time-courses. These time-courses are modulated by cognitive tasks, with an increase in local neural processing characterised by localised and transient increases in entropy in the neural signal. We explore the relationship between entropy and the more established time-frequency decomposition methods, which elucidate the temporal evolution of neural oscillations. We observe a direct but complex relationship between entropy and oscillatory amplitude, which suggests that these metrics are complementary. Finally, we provide a demonstration of the clinical utility of our method, using it to shed light on aberrant neurophysiological processing in schizophrenia. We demonstrate significantly increased task induced entropy change in patients (compared to controls) in multiple brain regions, including a cingulo-insula network, bilateral insula cortices and a right fronto-parietal network. These findings demonstrate potential clinical utility for our method and support a recent hypothesis that schizophrenia can be characterised by abnormalities in the salience network (a well characterised distributed network comprising bilateral insula and cingulate cortices). PMID:25886553

Prevention, screening and treatment of colorectal cancer: a global and regional generalized cost effectiveness analysis

PubMed Central

2010-01-01

Background Regional generalized cost-effectiveness estimates of prevention, screening and treatment interventions for colorectal cancer are presented. Methods Standardised WHO-CHOICE methodology was used. A colorectal cancer model was employed to provide estimates of screening and treatment effectiveness. Intervention effectiveness was determined via a population state-transition model (PopMod) that simulates the evolution of a sub-regional population accounting for births, deaths and disease epidemiology. Economic costs of procedures and treatment were estimated, including programme overhead and training costs. Results In regions characterised by high income, low mortality and high existing treatment coverage, the addition of screening to the current high treatment levels is very cost-effective, although no particular intervention stands out in cost-effectiveness terms relative to the others. In regions characterised by low income, low mortality with existing treatment coverage around 50%, expanding treatment with or without screening is cost-effective or very cost-effective. Abandoning treatment in favour of screening (no treatment scenario) would not be cost effective. In regions characterised by low income, high mortality and low treatment levels, the most cost-effective intervention is expanding treatment. Conclusions From a cost-effectiveness standpoint, screening programmes should be expanded in developed regions and treatment programmes should be established for colorectal cancer in regions with low treatment coverage. PMID:20236531

Measurement of 15N longitudinal relaxation rates in 15NH4+ spin systems to characterise rotational correlation times and chemical exchange

NASA Astrophysics Data System (ADS)

Hansen, D. Flemming

2017-06-01

Many chemical and biological processes rely on the movement of monovalent cations and an understanding of such processes can therefore only be achieved by characterising the dynamics of the involved ions. It has recently been shown that 15N-ammonium can be used as a proxy for potassium to probe potassium binding in bio-molecules such as DNA quadruplexes and enzymes. Moreover, equations have been derived to describe the time-evolution of 15N-based spin density operator elements of 15NH4+ spin systems. Herein NMR pulse sequences are derived to select specific spin density matrix elements of the 15NH4+ spin system and to measure their longitudinal relaxation in order to characterise the rotational correlation time of the 15NH4+ ion as well as report on chemical exchange events of the 15NH4+ ion. Applications to 15NH4+ in acidic aqueous solutions are used to cross-validate the developed pulse sequence while measurements of spin-relaxation rates of 15NH4+ bound to a 41 kDa domain of the bacterial Hsp70 homologue DnaK are presented to show the general applicability of the derived pulse sequence. The rotational correlation time obtained for 15N-ammonium bound to DnaK is similar to the correlation time that describes the rotation about the threefold axis of a methyl group. The methodology presented here provides, together with the previous theoretical framework, an important step towards characterising the motional properties of cations in macromolecular systems.

Sensitivity of ground motion parameters to local site effects for areas characterised by a thick buried low-velocity layer.

NASA Astrophysics Data System (ADS)

Farrugia, Daniela; Galea, Pauline; D'Amico, Sebastiano; Paolucci, Enrico

2016-04-01

It is well known that earthquake damage at a particular site depends on the source, the path that the waves travel through and the local geology. The latter is capable of amplifying and changing the frequency content of the incoming seismic waves. In regions of sparse or no strong ground motion records, like Malta (Central Mediterranean), ground motion simulations are used to obtain parameters for purposes of seismic design and analysis. As an input to ground motion simulations, amplification functions related to the shallow subsurface are required. Shear-wave velocity profiles of several sites on the Maltese islands were obtained using the Horizontal-to-Vertical Spectral Ratio (H/V), the Extended Spatial Auto-Correlation (ESAC) technique and the Genetic Algorithm. The sites chosen were all characterised by a layer of Blue Clay, which can be up to 75 m thick, underlying the Upper Coralline Limestone, a fossiliferous coarse grained limestone. This situation gives rise to a velocity inversion. Available borehole data generally extends down till the top of the Blue Clay layer therefore the only way to check the validity of the modelled shear-wave velocity profile is through the thickness of the topmost layer. Surface wave methods are characterised by uncertainties related to the measurements and the model used for interpretation. Moreover the inversion procedure is also highly non-unique. Such uncertainties are not commonly included in site response analysis. Yet, the propagation of uncertainties from the extracted dispersion curves to inversion solutions can lead to significant differences in the simulations (Boaga et al., 2011). In this study, a series of sensitivity analyses will be presented with the aim of better identifying those stratigraphic properties which can perturb the ground motion simulation results. The stochastic one-dimensional site response analysis algorithm, Extended Source Simulation (EXSIM; Motazedian and Atkinson, 2005), was used to perform these analyses. The amplification functions were extracted using the programme SITE_AMP (Boore, 2003), which computes amplifications based on the square root of the effective seismic impedance. Sensitivity indices were obtained by changing two parameters (thickness and shear-wave velocity) of the different layers while keeping the others constant. Additional analyses were carried out by producing various profiles within specified boundaries which are able to fit the experimental data. The analyses also show the important role that the shear-wave velocity profiles play in ground motion simulations. The results obtained highlight the importance of the correct knowledge of both the properties of the Upper Coralline Limestone and the Blue Clay, especially the Blue Clay thickness.

Three-dimensional geological modelling of anthropogenic deposits at small urban sites: a case study from Sheepcote Valley, Brighton, UK.

PubMed

Tame, C; Cundy, A B; Royse, K R; Smith, M; Moles, N R

2013-11-15

Improvements in computing speed and capacity and the increasing collection and digitisation of geological data now allow geoscientists to produce meaningful 3D spatial models of the shallow subsurface in many large urban areas, to predict ground conditions and reduce risk and uncertainty in urban planning. It is not yet clear how useful this 3D modelling approach is at smaller urban scales, where poorly characterised anthropogenic deposits (artificial/made ground and fill) form the dominant subsurface material and where the availability of borehole and other geological data is less comprehensive. This is important as it is these smaller urban sites, with complex site history, which frequently form the focus of urban regeneration and redevelopment schemes. This paper examines the extent to which the 3D modelling approach previously utilised at large urban scales can be extended to smaller less well-characterised urban sites, using a historic landfill site in Sheepcote Valley, Brighton, UK as a case study. Two 3D models were generated and compared using GSI3D™ software, one using borehole data only, one combining borehole data with local geological maps and results from a desk study (involving collation of available site data, including ground contour plans). These models clearly delimit the overall subsurface geology at the site, and allow visualisation and modelling of the anthropogenic deposits present. Shallow geophysical data collected from the site partially validate the 3D modelled data, and can improve GSI3D™ outputs where boundaries of anthropogenic deposits may not be clearly defined by surface, contour or borehole data. Attribution of geotechnical and geochemical properties to the 3D model is problematic without intrusive investigations and sampling. However, combining available borehole data, shallow geophysical methods and site histories may allow attribution of generic fill properties, and consequent reduction of urban development risk and uncertainty. Copyright © 2013 Elsevier Ltd. All rights reserved.

Idealisation and Galileo's Pendulum Discoveries: Historical, Philosophical and Pedagogical Considerations

NASA Astrophysics Data System (ADS)

Matthews, Michael R.

2004-11-01

Galileo's discovery of the properties of pendulum motion depended on his adoption of the novel methodology of idealisation. Galileo's laws of pendulum motion could not be accepted until the empiricist methodological constraints placed on science by Aristotle, and by common sense, were overturned. As long as scientific claims were judged by how the world was immediately seen to behave, and as long as mathematics and physics were kept separate, then Galileo's pendulum claims could not be substantiated; the evidence was against them. Proof of the laws required not just a new science, but a new way of doing science, a new way of handling evidence, a new methodology of science. This was Galileo's method of idealisatioin. It was the foundation of the Galilean-Newtonian Paradigm which characterised the Scientific Revolution of the 17th century, and the subsequent centuries of modern science. As the pendulum was central to Galileo's and Newton's physics, appreciating the role of idealisation in their work is an instructive way to learn about the nature of science.

Exploration of the integration of care for persons with a traumatic brain injury using social network analysis methodology

PubMed Central

Lamontagne, Marie-Eve

2013-01-01

Introduction Integration is a popular strategy to increase the quality of care within systems of care. However, there is no common language, approach or tool allowing for a valid description, comparison and evaluation of integrated care. Social network analysis could be a viable methodology to provide an objective picture of integrated networks. Goal of the article To illustrate social network analysis use in the context of systems of care for traumatic brain injury. Method We surveyed members of a network using a validated questionnaire to determine the links between them. We determined the density, centrality, multiplexity, and quality of the links reported. Results The network was described as moderately dense (0.6), the most prevalent link was knowledge, and four organisation members of a consortium were central to the network. Social network analysis allowed us to create a graphic representation of the network. Conclusion Social network analysis is a useful methodology to objectively characterise integrated networks. PMID:24250281

Lipid Interaction Sites on Channels, Transporters and Receptors: Recent Insights from Molecular Dynamics Simulations

PubMed Central

Hedger, George; Sansom, Mark S. P.

2017-01-01

Lipid molecules are able to selectively interact with specific sites on integral membrane proteins, and modulate their structure and function. Identification and characterisation of these sites is of importance for our understanding of the molecular basis of membrane protein function and stability, and may facilitate the design of lipid-like drug molecules. Molecular dynamics simulations provide a powerful tool for the identification of these sites, complementing advances in membrane protein structural biology and biophysics. We describe recent notable biomolecular simulation studies which have identified lipid interaction sites on a range of different membrane proteins. The sites identified in these simulation studies agree well with those identified by complementary experimental techniques. This demonstrates the power of the molecular dynamics approach in the prediction and characterization of lipid interaction sites on integral membrane proteins. PMID:26946244

Fission products and nuclear fuel behaviour under severe accident conditions part 3: Speciation of fission products in the VERDON-1 sample

NASA Astrophysics Data System (ADS)

Le Gall, C.; Geiger, E.; Gallais-During, A.; Pontillon, Y.; Lamontagne, J.; Hanus, E.; Ducros, G.

2017-11-01

Qualitative and quantitative analyses on the VERDON-1 sample made it possible to obtain valuable information on fission product behaviour in the fuel during the test. A promising methodology based on the quantitative results of post-test characterisations has been implemented to assess the release fraction of non γ-emitter fission products. The order of magnitude of the estimated release fractions for each fission product was consistent with their class of volatility.

Ground Penetrating Radar as a Contextual Sensor for Multi-Sensor Radiological Characterisation

PubMed Central

Ukaegbu, Ikechukwu K.; Gamage, Kelum A. A.

2017-01-01

Radioactive sources exist in environments or contexts that influence how they are detected and localised. For instance, the context of a moving source is different from a stationary source because of the effects of motion. The need to incorporate this contextual information in the radiation detection and localisation process has necessitated the integration of radiological and contextual sensors. The benefits of the successful integration of both types of sensors is well known and widely reported in fields such as medical imaging. However, the integration of both types of sensors has also led to innovative solutions to challenges in characterising radioactive sources in non-medical applications. This paper presents a review of such recent applications. It also identifies that these applications mostly use visual sensors as contextual sensors for characterising radiation sources. However, visual sensors cannot retrieve contextual information about radioactive wastes located in opaque environments encountered at nuclear sites, e.g., underground contamination. Consequently, this paper also examines ground-penetrating radar (GPR) as a contextual sensor for characterising this category of wastes and proposes several ways of integrating data from GPR and radiological sensors. Finally, it demonstrates combined GPR and radiation imaging for three-dimensional localisation of contamination in underground pipes using radiation transport and GPR simulations. PMID:28387706

Nanostructure characterisation of flow-formed Cr-Mo-V steel using transmission Kikuchi diffraction technique.

PubMed

Birosca, S; Ding, R; Ooi, S; Buckingham, R; Coleman, C; Dicks, K

2015-06-01

Nowadays flow-forming has become a desired near net shape manufacturing method as it provides excellent mechanical properties with improved surface finish and significant manufacturing cost reduction. However, the material is subjected to excessive plastic deformation during flow-forming process, generating a very fine and complex microstructure. In addition, the intense dislocation density and residual stress that is generated in the component during processing makes the microstructure characterisation using conventional micro-analytical tools challenging. Thus, the microstructure/property relationship study in such a material is rather difficult. In the present study a flow-formed Cr-Mo-V steel nanostructure and crystallographic texture were characterised by means of Transmission Kikuchi Diffraction (TKD). Here, TKD is shown to be a powerful technique in revealing very fine martensite laths within an austenite matrix. Moreover, fine precipitates in the order of 20-70 nm on the martensite lath boundaries were clearly imaged and characterised. This greatly assisted in understanding the preferable site formation of the carbides in such a complex microstructure. The results showed that the actual TKD spatial resolution was in the range of 5-10 nm using 25 kV for flow-formed Cr-Mo-V steel. Copyright © 2015 Elsevier B.V. All rights reserved.

Characterisation of potential landing sites for the European Space Agency's Lunar Lander project

NASA Astrophysics Data System (ADS)

De Rosa, Diego; Bussey, Ben; Cahill, Joshua T.; Lutz, Tobias; Crawford, Ian A.; Hackwill, Terence; van Gasselt, Stephan; Neukum, Gerhard; Witte, Lars; McGovern, Andy; Grindrod, Peter M.; Carpenter, James D.

2012-12-01

This article describes the characterisation activities of the landing sites currently envisaged for the Lunar Lander mission of the European Space Agency. These sites have been identified in the South Pole Region (-85° to-90° latitude) based on favourable illumination conditions, which make it possible to have a long-duration mission with conventional power and thermal control subsystems, capable of enduring relatively short periods of darkness (in the order of tens of hours), instead of utilising Radioisotope Heating Units. The illumination conditions are simulated at the potential landing sites based on topographic data from the Lunar Orbiter Laser Altimeter (LOLA), using three independent tools. Risk assessment of the identified sites is also being performed through independent studies. Long baseline slopes are assessed based on LOLA, while craters and boulders are detected both visually and using computer tools in Lunar Reconnaissance Orbiter Camera (LROC) images, down to a size of less than 2 m, and size-frequency distributions are generated. Shadow hazards are also assessed via LROC images. The preliminary results show that areas with quasi-continuous illumination of several months exist, but their size is small (few hundred metres); the duration of the illumination period drops quickly to less than one month outside the areas, and some areas present gaps with short illumination periods. Concerning hazard distributions, 50 m slopes are found to be shallow (few degrees) based on LOLA, whereas at the scale of the lander footprint (˜5 m) they are mostly dominated by craters, expected to be mature (from geological context) and shallow (˜11°). The preliminary conclusion is that the environment at the prospective landing sites is within the capabilities of the Lander design.

Proceedings of the tenth annual DOE low-level waste management conference: Session 2: Site performance assessment

DOE Office of Scientific and Technical Information (OSTI.GOV)

Not Available

1988-12-01

This document contains twelve papers on various aspects of low-level radioactive waste management. Topics of this volume include: performance assessment methodology; remedial action alternatives; site selection and site characterization procedures; intruder scenarios; sensitivity analysis procedures; mathematical models for mixed waste environmental transport; and risk assessment methodology. Individual papers were processed separately for the database. (TEM)

Anthropogenic impact on environmental filamentous fungi communities along the Mediterranean littoral.

PubMed

Al-Yasiri, Mohammed Hashim; Normand, Anne-Cécile; Mauffrey, Jean-François; Ranque, Stéphane

2017-07-01

We hypothesised that anthropogenic influences impact the filamentous fungi community structure and that particular species or species patterns might serve as markers to characterise ecosystems. This study aimed to describe the filamentous fungi community structure in various biotopes along the Mediterranean shore that were exposed to various levels of anthropogenic influence. We sampled filamentous fungi from yellow-legged gull faecal samples at five study sites along the Mediterranean littoral in southern France. The sites were characterised by variable anthropogenic influence, ranging from building rooftops in two cities to a natural reserve. The sites also included two suburban ecoclines, one of which was exposed to sewer pollution. Filamentous fungal colonies were quantified and identified via MALDI-TOF mass spectrometry. Interestingly, we found that both fungal diversity and abundance were low in urban areas compared with suburban ecocline or environments little affected by anthropogenic influence. Furthermore, some fungal species were clearly associated with particular environments. In particular, Mucor circinelloides was associated with a natural environment with little anthropogenic impact and distant from human settlements. Whereas, Scedosporium apiospermum was associated with an ecocline polluted by sewage. Our findings indicate that particular fungal species or species combination might be used as surrogate markers of ecosystems exposed to anthropogenic pollution. © 2017 Blackwell Verlag GmbH.

Characterising Tidal Flow Within AN Energetic Tidal Environment

NASA Astrophysics Data System (ADS)

Neill, S. P.; Goward Brown, A.; Lewis, M. J.

2016-02-01

The Pentland Firth is a highly energetic and complex tidal strait separating the north of Scotland with the Orkney Islands and is a key location for tidal energy exploitation. Topographic features including islands and headlands, combined with bathymetric complexities within the Pentland Firth create turbulent hydrodynamic flows which are difficult to observe. Site selection in tidal energy environments historically focuses on tidal current magnitude. Without consideration for the more complex hydrodynamics of tidal energy environments tidal energy developers may miss the opportunity to tune their devices or create environment specific tidal energy converters in order to harness the greatest potential from site. Fully characterising these tidal energy environments ensures economic energy extraction. Understanding the interaction of energy extraction with the environment will reduce uncertainty in site selection and allow mitigation of any potential environmental concerns. We apply the 3D ROMS model to the Pentland Firth with the aim of resolving uncertainties within tidal energy resource assessment. Flow magnitudes and directions are examined with a focus on tidal phasing and asymmetry and application to sediment dynamics. Using the ROMS model, it is possible to determine the extent to which the tidal resource varies temporally and spatially with tidal energy extraction. Accurately modelling the tidal dynamics within this environment ensures that potential consequences of tidal energy extraction on the surrounding environment are better understood.

Archaeological recording and chemical stratigraphy applied to contaminated land studies.

PubMed

Photos-Jones, Effie; Hall, Allan J

2011-11-15

The method used by archaeologists for excavation and recording of the stratigraphic evidence, within trenches with or without archaeological remains, can potentially be useful to contaminated land consultants (CLCs). The implementation of archaeological practice in contaminated land assessments (CLAs) is not meant to be an exercise in data overkill; neither should it increase costs. Rather, we suggest, that if the excavation and recording, by a trained archaeologist, of the stratigraphy is followed by in-situ chemical characterisation then it is possible that much uncertainty associated with current field sampling practices, may be removed. This is because built into the chemical stratigraphy is the temporal and spatial relationship between different parts of the site reflecting the logic behind the distribution of contamination. An archaeological recording with chemical stratigraphy approach to sampling may possibly provide 'one method fits all' for potentially contaminated land sites (CLSs), just as archaeological characterisation of the stratigraphic record provides 'one method fits all' for all archaeological sites irrespective of period (prehistoric to modern) or type (rural, urban or industrial). We also suggest that there may be practical and financial benefits to be gained by pulling together expertise and resources stemming from different disciplines, not simply at the assessment phase, but also subsequent phases, in contaminated land improvement. Copyright © 2011 Elsevier B.V. All rights reserved.

EMD-Based Methodology for the Identification of a High-Speed Train Running in a Gear Operating State.

PubMed

Bustos, Alejandro; Rubio, Higinio; Castejón, Cristina; García-Prada, Juan Carlos

2018-03-06

An efficient maintenance is a key consideration in systems of railway transport, especially in high-speed trains, in order to avoid accidents with catastrophic consequences. In this sense, having a method that allows for the early detection of defects in critical elements, such as the bogie mechanical components, is a crucial for increasing the availability of rolling stock and reducing maintenance costs. The main contribution of this work is the proposal of a methodology that, based on classical signal processing techniques, provides a set of parameters for the fast identification of the operating state of a critical mechanical system. With this methodology, the vibratory behaviour of a very complex mechanical system is characterised, through variable inputs, which will allow for the detection of possible changes in the mechanical elements. This methodology is applied to a real high-speed train in commercial service, with the aim of studying the vibratory behaviour of the train (specifically, the bogie) before and after a maintenance operation. The results obtained with this methodology demonstrated the usefulness of the new procedure and allowed for the disclosure of reductions between 15% and 45% in the spectral power of selected Intrinsic Mode Functions (IMFs) after the maintenance operation.

EMD-Based Methodology for the Identification of a High-Speed Train Running in a Gear Operating State

PubMed Central

García-Prada, Juan Carlos

2018-01-01

An efficient maintenance is a key consideration in systems of railway transport, especially in high-speed trains, in order to avoid accidents with catastrophic consequences. In this sense, having a method that allows for the early detection of defects in critical elements, such as the bogie mechanical components, is a crucial for increasing the availability of rolling stock and reducing maintenance costs. The main contribution of this work is the proposal of a methodology that, based on classical signal processing techniques, provides a set of parameters for the fast identification of the operating state of a critical mechanical system. With this methodology, the vibratory behaviour of a very complex mechanical system is characterised, through variable inputs, which will allow for the detection of possible changes in the mechanical elements. This methodology is applied to a real high-speed train in commercial service, with the aim of studying the vibratory behaviour of the train (specifically, the bogie) before and after a maintenance operation. The results obtained with this methodology demonstrated the usefulness of the new procedure and allowed for the disclosure of reductions between 15% and 45% in the spectral power of selected Intrinsic Mode Functions (IMFs) after the maintenance operation. PMID:29509690

Design of a decision tool for hydromorphological restoration of water bodies in Walloon Region

NASA Astrophysics Data System (ADS)

Lambot, Francis; de Le Court, Bernard; Petit, François; Hallot, Eric; Peeters, Alexandre; Descy, Jean-Pierre; Verniers, Gisèle; Latli, Adrien

2010-05-01

The pilot project WALPHY (LIFE + Environment LIFE07 ENV/B/000038, UE-funded) develops a structured approach aiming at improving hydromorphological quality of the upstream Meuse basin in order to achieve the "good ecological status" required by the Water Framework Directive (WFD 2000/60). It began in January 2009 for a period of 5 years. River's biological recovery needs the recovery of river's structure and physical dynamics. Returning to "good ecological status" inevitably involves physical restoration of affected rivers. Physical component of aquatic environment acts as a limiting factor for their functioning. Three types of modification are key obstacles for river good ecological status: (i) fluxes alteration (discharge, sedimentation…), (ii) forms alteration (uniform facies…) and (iii) biotopes access alteration (lateral connections breaks, modification of the continuity upstream/downstream…). Therefore hydromorphology is needed to implement the WFD. To respond to this legal necessity, we develop a unique, useful and suitable methodology in Walloon Region to determine and schedule river physical quality restoration works. This methodology has been applied on 3 "risk water bodies". The works are based on two axes : longitudinal continuity and transversal continuity. The two first selected water bodies (Bocq river, eastern tributary of the Meuse) seem to be convenient for the restoration works which concern the longitudinal continuity due to the presence of dams and other obstacles usually between 1 and 3 m high. These works consist in dam management (weir removal or fish passage) taking into account hydromorphological (bedload transport) and biological (invertebrate or fish species free movement) impacts. The third water bodies (Eau Blanche river, western tributary of the Meuse) presents straightened rivers with artificial banks, witch consequently own bad connections between the stream and its floodplain. This water bodies should therefore be appropriated for the works based on the transversal continuity recovery. They consist in enhancing straightened river channels, restoring meanders or bank restoration. The first river restoration works will take place from summer 2010. A monitoring has already been undertaken to draw up the situation before the restoration works, witch will be able to compare to the situations during and after works. In addition, a natural site has been chosen to enable any comparison with the intervention sites. The geomorphological monitoring is based on physical and sedimentological parameters (substrate cartography, velocity measures, stream channel DEM, topography and sedimentological index). The ecological monitoring consists in analysing the physical and chemical parameters (turbidity, suspended sediment load). It also analyses the biological quality through 3 indicators: macrophytes, macroinvertebrates and fishes. Among other, a microhabitats method has been improved and applied on 3 intervention sites and 1 natural site. The microhabitats cartography results from both the flow velocity cartography and the substrate cartography. With this method, the physical quality of each intervention site could be compared with the natural site and above all with the future situation. Our method is also useful to inventory precisely invertebrates and to characterise fish habitats.

Sources and transport of microbial tetraether membrane lipids in Karst Systems

NASA Astrophysics Data System (ADS)

Jex, C.; Blyth, A. J.; McDonald, J.; Woltering, M.; Khan, S.; Baker, A.

2014-12-01

Speleothems preserve organic biomarkers, proxies for surface climate. Microbial-derived lipids, specifically glycerol dialkyl glycerol tetraetheral (GDGT) lipids have been identified in cave deposits and shown to correlate well with surface air temperature using the archaea-derived isoprenoid '(i)GDGT' index of TEX86 and the bacteria derived branched '(b)GDGT' index of MBT/CBT of modern speleothems [1]. Two competing sources for GDGTs in karst systems have been suggested: 1) A soil derived microbial signal dominated by bGDGTs; and 2) An in situ signal dominated by iGDGTs, representative of archaea existing within the cave or overlying bedrock [2]. These findings are yet to be thoroughly tested by characterising the seasonal nature of GDGTs in caves to establish the source and transport pathways within these complex fractured rock systems. Here, we address this and present the results of a yearlong monitoring campaign of GDGTs within two contrasting cave sites from the Yarrangobilly Caves in Kosciuszko national park, SE Australia. The caves are located at a high altitude, semi-arid site. Harriewood cave is dominated by discrete infiltration events throughout the year. Above the cave there are thin soils consisting of loose shallow scree, steep slopes and sparse shrub vegetation. The surface above Jillabenan is characterised by thick red clays of moderate to no slope and Eucalypt dominated forest. As such, these caves provide ideal test sites to characterise the variability in GDGT signals that may be a result of non-temperature related factors, including varying inputs (groundwater vs. in situ growth) or site-specific hydrological conditions. We present data obtained from within the cave: drip waters and in situ collection of GDGTs formed on filter papers left inside the cave throughout the year, and externally sourced signals from soils and their leachates. We also identify key differences in soil pH and cave air temperatures that are best predicted by using cave specific GDGT calibrations of [1]. [1] Blyth et al. 2013. Calibrating the glycerol dialkyl glycerol tetraether temperature signal in speleothems. Geochim Cosmochim Ac. 109, 312-328. [2] Blyth et al. 2014. Contrasting distributions of glycerol dialkyl glycerol tetraethers (GDGTs) in speleothems and associated soils, Org Geochem, 69, 1-10.

Role of a Novel I1781T Mutation and Other Mechanisms in Conferring Resistance to Acetyl-CoA Carboxylase Inhibiting Herbicides in a Black-Grass Population

PubMed Central

Kaundun, Shiv Shankhar; Hutchings, Sarah-Jane; Dale, Richard P.; McIndoe, Eddie

2013-01-01

Background Knowledge of the mechanisms of herbicide resistance is important for designing long term sustainable weed management strategies. Here, we have used an integrated biology and molecular approach to investigate the mechanisms of resistance to acetyl-CoA carboxylase inhibiting herbicides in a UK black-grass population (BG2). Methodology/Principal Findings Comparison between BG2 phenotypes using single discriminant rates of herbicides and genotypes based on ACCase gene sequencing showed that the I1781L, a novel I1781T, but not the W2027C mutations, were associated with resistance to cycloxydim. All plants were killed with clethodim and a few individuals containing the I1781L mutation were partially resistant to tepraloxydim. Whole plant dose response assays demonstrated that a single copy of the mutant T1781 allele conferred fourfold resistance levels to cycloxydim and clodinafop-propargyl. In contrast, the impact of the I1781T mutation was low (Rf = 1.6) and non-significant on pinoxaden. BG2 was also characterised by high levels of resistance, very likely non-target site based, to the two cereal selective herbicides clodinafop-propargyl and pinoxaden and not to the poorly metabolisable cyclohexanedione herbicides. Analysis of 480 plants from 40 cycloxydim resistant black grass populations from the UK using two very effective and high throughput dCAPS assays established for detecting any amino acid changes at the 1781 ACCase codon and for positively identifying the threonine residue, showed that the occurrence of the T1781 is extremely rare compared to the L1781 allele. Conclusion/Significance This study revealed a novel mutation at ACCase codon position 1781 and adequately assessed target site and non-target site mechanisms in conferring resistance to several ACCase herbicides in a black-grass population. It highlights that over time the level of suspected non-target site resistance to some cereal selective ACCase herbicides have in some instances surpassed that of target site resistance, including the one endowed by the most commonly encountered I1781L mutation. PMID:23936046

U.S. Department of Energy worker health risk evaluation methodology for assessing risks associated with environmental restoration and waste management

DOE Office of Scientific and Technical Information (OSTI.GOV)

Blaylock, B.P.; Legg, J.; Travis, C.C.

1995-06-01

This document describes a worker health risk evaluation methodology for assessing risks associated with Environmental Restoration (ER) and Waste Management (WM). The methodology is appropriate for estimating worker risks across the Department of Energy (DOE) Complex at both programmatic and site-specific levels. This document supports the worker health risk methodology used to perform the human health risk assessment portion of the DOE Programmatic Environmental Impact Statement (PEIS) although it has applications beyond the PEIS, such as installation-wide worker risk assessments, screening-level assessments, and site-specific assessments.

Characterisation of Crevice and Pit Solution Chemistries Using Capillary Electrophoresis with Contactless Conductivity Detector

PubMed Central

Nie, Mengyan; Wharton, Julian A.; Cranny, Andy; Harris, Nick R.; Wood, Robert J.K.; Stokes, Keith R.

2013-01-01

The ability to predict structural degradation in-service is often limited by a lack of understanding of the evolving chemical species occurring within a range of different microenvironments associated with corrosion sites. Capillary electrophoresis (CE) is capable of analysing nanolitre solution volumes with widely disparate concentrations of ionic species, thereby producing accurate and reliable results for the analysis of the chemical compositions found within microenvironment corrosion solutions, such as those found at crevice and pit corrosion sites. In this study, CE with contactless conductivity detection (CCD) has been used to characterize pitting and crevice corrosion solution chemistries for the first time. By using the capillary electrophoresis with contactless conductivity detection (CE-CCD) system, direct and simultaneous detection of seven metal cations (Cu2+, Ni2+, Fe3+, Fe2+, Cr3+, Mn2+, and Al3+) and chloride anions was achieved with a buffer solution of 10 mM 2,6-pyridinedicarboxylic acid and 0.5 mM cetyltrimethylammonium hydroxide at pH 4 using a pre-column complexation method. The detection limits obtained for the metal cations and chloride anions were 100 and 10 ppb, respectively. The CE-CCD methodology has been demonstrated to be a versatile technique capable of speciation and quantifying the ionic species generated within artificial pit (a pencil electrode) and crevice corrosion geometries for carbon steels and nickel-aluminium bronze, thus allowing the evolution of the solution chemistry to be assessed with time and the identification of the key corrosion analyte targets for structural health monitoring. PMID:28788335

River pollution remediation monitored by optical and infrared high-resolution satellite images.

PubMed

Trivero, Paolo; Borasi, Maria; Biamino, Walter; Cavagnero, Marco; Rinaudo, Caterina; Bonansea, Matias; Lanfri, Sofia

2013-09-01

The Bormida River Basin, located in the northwestern region of Italy, has been strongly contaminated by the ACNA chemical factory. This factory was in operation from 1892 to 1998, and contamination from the factory has had deleterious consequences on the water quality, agriculture, natural ecosystems and human health. Attempts have been made to remediate the site. The aims of this study were to use high-resolution satellite images combined with a classical remote sensing methodology to monitor vegetation conditions along the Bormida River, both upstream and downstream of the ACNA chemical factory site, and to compare the results obtained at different times before and after the remediation process. The trends of the Normalised Difference Vegetation Index (NDVI) and the Enhanced Vegetation Index (EVI) along the riverbanks are used to assess the effect of water pollution on vegetation. NDVI and EVI values show that the contamination produced by the ACNA factory had less severe effects in the year 2007, when most of the remediation activities were concluded, than in 2006 and 2003. In 2007, the contamination effects were noticeable up to 6 km downstream of the factory, whereas in 2003 and 2006 the influence range was up to about 12 km downstream of the factory. The results of this study show the effectiveness of remediation activities that have been taking place in this area. In addition, the comparison between NDVI and EVI shows that the EVI is more suitable to characterise the vegetation health and can be considered an additional tool to assess vegetation health and to monitor restoration activities.

Soil slurry reactors for the assessment of contaminant biodegradation

NASA Astrophysics Data System (ADS)

Toscano, G.; Colarieti, M. L.; Greco, G.

2012-04-01

Slurry reactors are frequently used in the assessment of feasibility of biodegradation in natural soil systems. The rate of contaminant removal is usually quantified by zero- or first-order kinetics decay constants. The significance of such constants for the evaluation of removal rate in the field could be questioned because the slurry reactor is a water-saturated, well-stirred system without resemblance with an unsaturated fixed bed of soil. Nevertheless, a kinetic study with soil slurry reactors can still be useful by means of only slightly more sophisticated kinetic models than zero-/first-order decay. The use of kinetic models taking into account the role of degrading biomass, even in the absence of reliable experimental methods for its quantification, provides further insight into the effect of nutrient additions. A real acceleration of biodegradation processes is obtained only when the degrading biomass is in the growth condition. The apparent change in contaminant removal course can be useful to diagnose biomass growth without direct biomass measurement. Even though molecular biology techniques are effective to assess the presence of potentially degrading microorganism in a "viable-but-nonculturable" state, the attainment of conditions for growth is still important to the development of enhanced remediation techniques. The methodology is illustrated with reference to data gathered for two test sites, Oslo airport Gardermoen in Norway (continuous contamination by aircraft deicing fluids) and the Trecate site in Italy (aged contamination by crude oil spill). This research is part of SoilCAM project (Soil Contamination, Advanced integrated characterisation and time-lapse Monitoring 2008-2012, EU-FP7).

The influence of habitat structure on energy allocation tactics in an estuarine batch spawner

NASA Astrophysics Data System (ADS)

Brigolin, D.; Cavraro, F.; Zanatta, V.; Pastres, R.; Malavasi, S.

2016-04-01

Trade-off between fecundity and survival was tested in a batch spawner, the Mediterranean killifish Aphanius fasciatus, using an integrated modelling-data approach based on previously collected empirical data. Two sites of the lagoon of Venice (Northern Adriatic sea, Italy) were selected in order to compare the energy allocation between growth and reproduction in two contrasting habitats. These were characterised by high and comparable level of richness in basal resources, but showed two different mortality schedules: an open natural salt marsh, exposed to high level of predation, and a confined artificial site protected from piscivorous predation. By means of a bioenergetic Scope for Growth model, developed and calibrated for the specific goals of this work, we compared the average individual life history between the two habitats. The average individual life history is characterised by a higher number of spawning events and lower per-spawning investment in the confined site exposed to lower predation risk, compared to the site connected with the open lagoon. Thus, model predictions suggest that habitat structure with different extrinsic mortality schedules may shape the life history strategy in modulating the pattern of energy allocation. Model application highlights the central role of energy partitioning through batch spawning, in determining the life history strategy. The particular ovary structure of a batch spawner seems therefore to allow the fish to modulate timing and investment of spawning events, shaping the optimal life history in relation to the environmental conditions.

Site characterization for LIL radioactive waste disposal in Romania

DOE Office of Scientific and Technical Information (OSTI.GOV)

Diaconu, D. R.; Birdsell, K. H.; Witkowski, M. S.

2001-01-01

Recent studies in radioactive waste management in Romania have focussed mainly on the disposal of low and intermediate level waste from the operation of the new nuclear power plant at Cernavoda. Following extensive geological, hydrological, seismological, physical and chemical investigations, a disposal site at Saligny has been selected. This paper presents description of the site at Saligny as well as the most important results of the site characterisation. These are reflected in the three-dimensional, stratigraphical representation of the loess and clay layers and in representative parameter values for the main layers. Based on these data, the simulation of the background,more » unsaturated-zone water flow at the Saligny site, calculated by the FEHM code, is in a good agreement with the measured moisture profile.« less

Production, optimisation and characterisation of angiotensin converting enzyme inhibitory peptides from sea cucumber (Stichopus japonicus) gonad.

PubMed

Zhong, Chan; Sun, Le-Chang; Yan, Long-Jie; Lin, Yi-Chen; Liu, Guang-Ming; Cao, Min-Jie

2018-01-24

In this study, production of bioactive peptides with angiotensin converting enzyme (ACE) inhibitory activity from sea cucumber (Stichopus japonicus) gonad using commercial protamex was optimised by response surface methodology (RSM). As a result, the optimal condition to achieve the highest ACE inhibitory activity in sea cucumber gonad hydrolysate (SCGH) was hydrolysis for 1.95 h and E/S of 0.75%. For further characterisation, three individual peptides (EIYR, LF and NAPHMR) were purified and identified. The peptide NAPHMR showed the highest ACE inhibitory activity with IC 50 of 260.22 ± 3.71 μM. NAPHMR was stable against simulated gastrointestinal digestion and revealed no significant cytotoxicity toward Caco-2 cells. Molecular docking study suggested that Arg, His and Asn residues in NAPHMR interact with the S2 pocket or Zn 2+ binding motifs of ACE via hydrogen or π-bonds, potentially contributing to ACE inhibitory effect. Sea cucumber gonad is thus a potential resource to produce ACE inhibitory peptides for preparation of functional foods.

Relevant principal component analysis applied to the characterisation of Portuguese heather honey.

PubMed

Martins, Rui C; Lopes, Victor V; Valentão, Patrícia; Carvalho, João C M F; Isabel, Paulo; Amaral, Maria T; Batista, Maria T; Andrade, Paula B; Silva, Branca M

2008-01-01

The main purpose of this study was the characterisation of 'Serra da Lousã' heather honey by using novel statistical methodology, relevant principal component analysis, in order to assess the correlations between production year, locality and composition. Herein, we also report its chemical composition in terms of sugars, glycerol and ethanol, and physicochemical parameters. Sugars profiles from 'Serra da Lousã' heather and 'Terra Quente de Trás-os-Montes' lavender honeys were compared and allowed the discrimination: 'Serra da Lousã' honeys do not contain sucrose, generally exhibit lower contents of turanose, trehalose and maltose and higher contents of fructose and glucose. Different localities from 'Serra da Lousã' provided groups of samples with high and low glycerol contents. Glycerol and ethanol contents were revealed to be independent of the sugars profiles. These data and statistical models can be very useful in the comparison and detection of adulterations during the quality control analysis of 'Serra da Lousã' honey.

Serotonergic ergoline derivatives.

PubMed

Mantegani, S; Brambilla, E; Caccia, C; Damiani, G; Fornaretto, M G; McArthur, R A; Varasi, M

1998-05-05

Novel classes of 13- and 14-tertbutyl-ergoline derivatives were prepared, and characterised in vitro for their affinity for adrenergic, dopaminergic and serotonergic binding sites. This study particularly examines the importance of the presence and the position of the tert-butyl group in conferring either significant 5-HT1A or 5-HT2 affinity and selectivity respectively.

The Process and Product: Crafting Community Portraits with Young People in Flexible Learning Settings

ERIC Educational Resources Information Center

Baker, Alison M.

2016-01-01

Community-based alternative education is situated on the margins in relation to mainstream education. Young people attending these learning sites are often characterised as "disengaged learners", who have fallen through the cracks of the traditional schooling system. The aim of this project was to use participatory visual methods with…

Integrated ExoMars PanCam, Raman, and close-up imaging field tests on AMASE 2009

NASA Astrophysics Data System (ADS)

Foss Amundsen, Hans Erik; Westall, Frances; Steele, Andrew; Vago, Jorge; Schmitz, Nicole; Bauer, Arnold; Cousins, Claire; Rull, Fernando; Sansano, Antonio; Midtkandal, Ivar

2010-05-01

Arctic Mars Analog Svalbard Expedition (AMASE) uses Mars analog field sites on the Arctic islands of Svalbard (Norway) for research within astrobiology and for testing of payload instruments onboard Mars missions Mars Science Laboratory, ExoMars and Mars Sample Return. AMASE 2009 marked the seventh consecutive year of field testing. Instrument shakedowns were arranged to mimic rover operations on Mars and included the panoramic camera (PanCam), mineral- and organic chemistry sensors (Raman-LIBS) and ground penetrating radar (Wisdom) onboard ExoMars together with CheMin and SAM instruments onboard MSL and testing of sampling and caching protocols using JPĹs Fido rover. Test sites included volcanic rocks within the Bockfjord Volcanic Complex (BVC) with carbonate deposits identical to those in ALH84001 and Carboniferous sandstones and paleosols at Ismåsestranda. In view of the 2018 ExoMars mission, field models of the PanCam and Raman instruments, as well as an Olympus E410 camera having similar technical specifications to the ExoMars Close-Up Imager (CLUPI) were used in an integrated exercise to characterise the geology and habitability of the different field sites. The BVC locality consisted of volcanclastic sediments deposited on the flanks of the 1 Ma old Sverrefjell volcano. This volcano is constructed of primitive alkaline basalt with abundant mantle xenoliths. The sediments were a mixture of hyaloclastite, ash, volcanic bombs, lava detritus, and xenoliths (peridotites, granulites) deposited in a roughly laminated fashion on the slopes of the volcano. Late stage carbonate deposits were also present. The Ismåsestranda locality consisted of fine-grained sandstone deposited in a littoral environment. The sandstones were characterised by a variety of sedimentary structures reflecting a marginal marine depositional environment. They were highly variegated in colour due to diagenetic remobilisation of trace elements. PanCam made general context observations using the stereo Wide Angle Camera for taking images at 12 VIS-NIR wavelengths. More detailed images were made with the narrow angle colour High Resolution Channel of PanCam (PanCam HRC). These images were complimented by colour images made at 50-7 cm distance from the rock targets by the CLUPI-simulator camera. Compositional information was provided by the Raman spectrometer.The images and analyses obtained from the instruments permitted preliminary characterisation of the geological context at the two test sites. However, full characterisation of the rocks using more than one site is necessary to correctly interpret the nature of the rocks and their environment of formation, especially in the case of the Ismåsestranda sediments. Joint testing of ExoMars, MSL and MSR instruments on AMASE provides a unique opportunity to highgrade instrument selection for future Mars missions and to foster collaboration between ESA and NASA teams towards the tandem launch of ExoMars and MAX-C in 2018.

Designed topology and site-selective metal composition in tetranuclear [MM'...M'M] linear complexes.

PubMed

Barrios, Leoní A; Aguilà, David; Roubeau, Olivier; Gamez, Patrick; Ribas-Ariño, Jordi; Teat, Simon J; Aromí, Guillem

2009-10-26

The ligand 1,3-bis[3-oxo-3-(2-hydroxyphenyl)propionyl]benzene (H(4)L), designed to align transition metals into tetranuclear linear molecules, reacts with M(II) salts (M=Ni, Co, Cu) to yield complexes with the expected [MMMM] topology. The novel complexes [Co(4)L(2)(py)(6)] (2; py=pyridine) and [Na(py)(2)][Cu(4)L(2)(py)(4)](ClO(4)) (3) have been crystallographically characterised. The metal sites in complexes 2 and 3, together with previously characterised [Ni(4)L(2)(py)(6)] (1), favour different coordination geometries. These have been exploited for the deliberate synthesis of the heterometallic complex [Cu(2)Ni(2)L(2)(py)(6)] (4). Complexes 1, 2, 3 and 4 exhibit antiferromagnetic interactions between pairs of metals within each cluster, leading to S=0 spin ground states, except for the latter cluster, which features two quasi-independent S=1/2 moieties within the molecule. Complex 4 gathers the structural and physical conditions, thus allowing it to be considered as prototype of a two-qbit quantum gate.

Comparison and Validation of Hydrological E-Flow Methods through Hydrodynamic Modelling

NASA Astrophysics Data System (ADS)

Kuriqi, Alban; Rivaes, Rui; Sordo-Ward, Alvaro; Pinheiro, António N.; Garrote, Luis

2017-04-01

Flow regime determines physical habitat conditions and local biotic configuration. The development of environmental flow guidelines to support the river integrity is becoming a major concern in water resources management. In this study, we analysed two sites located in southern part of Portugal, respectively at Odelouca and Ocreza Rivers, characterised by the Mediterranean climate. Both rivers are almost in pristine condition, not regulated by dams or other diversion construction. This study presents an analysis of the effect on fish habitat suitability by the implementation of different hydrological e-flow methods. To conduct this study we employed certain hydrological e-flow methods recommended by the European Small Hydropower Association (ESHA). River hydrology assessment was based on approximately 30 years of mean daily flow data, provided by the Portuguese Water Information System (SNIRH). The biological data, bathymetry, physical and hydraulic features, and the Habitat Suitability Index for fish species were collected from extensive field works. We followed the Instream Flow Incremental Methodology (IFIM) to assess the flow-habitat relationship taking into account the habitat suitability of different instream flow releases. Initially, we analysed fish habitat suitability based on natural conditions, and we used it as reference condition for other scenarios considering the chosen hydrological e-flow methods. We accomplished the habitat modelling through hydrodynamic analysis by using River-2D model. The same methodology was applied to each scenario by considering as input the e-flows obtained from each of the hydrological method employed in this study. This contribution shows the significance of ecohydrological studies in establishing a foundation for water resources management actions. Keywords: ecohydrology, e-flow, Mediterranean rivers, river conservation, fish habitat, River-2D, Hydropower.

Structural Characterisation of Acetogenins from Annona muricata by Supercritical Fluid Chromatography Coupled to High-Resolution Tandem Mass Spectrometry.

PubMed

Laboureur, Laurent; Bonneau, Natacha; Champy, Pierre; Brunelle, Alain; Touboul, David

2017-11-01

Acetogenins are plant polyketides known to be cytotoxic and proposed as antitumor candidates. They are also suspected to be alimentary neurotoxins. Their occurrence as complex mixtures renders their dereplication and structural identification difficult using liquid chromatography coupled to tandem mass spectrometry and efforts are required to improve the methodology. To develop a supercritical fluid chromatography (SFC) high-resolution tandem mass spectrometry method, involving lithium post-column cationisation, for the structural characterisation of Annonaceous acetogenins in crude extracts. The seeds of Annona muricata L. were extracted with methanol. Supercritical fluid chromatography of the extract, using a 2-ethylpyridine stationary phase column, was monitored using a high-resolution quadrupole time-of-flight mass spectrometer. Lithium iodide was added post-column in the make-up solvent. For comparison, the same extract was analysed using high-pressure liquid chromatography coupled to the same mass spectrometer, with a column based on solid core particles. Sensitivity was similar for both HPLC and SFC approaches. Retention behaviour and fragmentation pathways of three different isomer groups are described. A previously unknown group of acetogenins was also evidenced for the first time. The use of SFC-MS/MS allows the reduction of the time of analysis, of environmental impact and an increase in the chromatographic resolution, compared to liquid chromatography. This new methodology enlightened a new group of acetogenins, isomers of montanacin-D. Copyright © 2017 John Wiley & Sons, Ltd. Copyright © 2017 John Wiley & Sons, Ltd.

Chemical shift magnetic resonance imaging for distinguishing minimal-fat renal angiomyolipoma from renal cell carcinoma: a meta-analysis.

PubMed

Chen, Ling-Shan; Zhu, Zheng-Qiu; Wang, Zhi-Tao; Li, Jing; Liang, Li-Feng; Jin, Ji-Yang; Wang, Zhong-Qiu

2018-05-01

To determine the performance of chemical shift signal intensity index (CS-SII) values for distinguishing minimal-fat renal angiomyolipoma (mfAML) from renal cell carcinoma (RCC) and to assess RCC subtype characterisation. We identified eligible studies on CS magnetic resonance imaging (CS-MRI) of focal renal lesions via PubMed, Embase, and the Cochrane Library. CS-SII values were extracted by lesion type and evaluated using linear mixed model-based meta-regression. RCC subtypes were analysed. Two-sided p value <0.05 indicated statistical significance. Methodological quality was assessed using the Quality Assessment of Diagnostic Accuracy Studies 2 tool. Eleven articles involving 850 patients were included. Minimal-fat AML had significantly higher CS-SII value than RCC (p < 0.05); there were no significant differences between mfAML and clear cell RCC (cc-RCC) (p = 0.112). Clear cell RCC had a significantly higher CS-SII value than papillary RCC (p-RCC) (p < 0.001) and chromophobe RCC (ch-RCC) (p = 0.045). The methodological quality was relatively high, and Begg's test data points indicated no obvious publication bias. The CS-SII value for differentiating mfAML from cc-RCC remains unproven, but is a promising method for differentiating cc-RCC from p-RCC and ch-RCC. • RCC CS-SII values are significantly lower than those of mfAML overall. • CS-SII values cannot aid differentiation between mfAML and cc-RCC. • CS-SII values might help characterise RCC subtypes.

Image processing in digital pathology: an opportunity to solve inter-batch variability of immunohistochemical staining

NASA Astrophysics Data System (ADS)

van Eycke, Yves-Rémi; Allard, Justine; Salmon, Isabelle; Debeir, Olivier; Decaestecker, Christine

2017-02-01

Immunohistochemistry (IHC) is a widely used technique in pathology to evidence protein expression in tissue samples. However, this staining technique is known for presenting inter-batch variations. Whole slide imaging in digital pathology offers a possibility to overcome this problem by means of image normalisation techniques. In the present paper we propose a methodology to objectively evaluate the need of image normalisation and to identify the best way to perform it. This methodology uses tissue microarray (TMA) materials and statistical analyses to evidence the possible variations occurring at colour and intensity levels as well as to evaluate the efficiency of image normalisation methods in correcting them. We applied our methodology to test different methods of image normalisation based on blind colour deconvolution that we adapted for IHC staining. These tests were carried out for different IHC experiments on different tissue types and targeting different proteins with different subcellular localisations. Our methodology enabled us to establish and to validate inter-batch normalization transforms which correct the non-relevant IHC staining variations. The normalised image series were then processed to extract coherent quantitative features characterising the IHC staining patterns.

Image processing in digital pathology: an opportunity to solve inter-batch variability of immunohistochemical staining

PubMed Central

Van Eycke, Yves-Rémi; Allard, Justine; Salmon, Isabelle; Debeir, Olivier; Decaestecker, Christine

2017-01-01

Immunohistochemistry (IHC) is a widely used technique in pathology to evidence protein expression in tissue samples. However, this staining technique is known for presenting inter-batch variations. Whole slide imaging in digital pathology offers a possibility to overcome this problem by means of image normalisation techniques. In the present paper we propose a methodology to objectively evaluate the need of image normalisation and to identify the best way to perform it. This methodology uses tissue microarray (TMA) materials and statistical analyses to evidence the possible variations occurring at colour and intensity levels as well as to evaluate the efficiency of image normalisation methods in correcting them. We applied our methodology to test different methods of image normalisation based on blind colour deconvolution that we adapted for IHC staining. These tests were carried out for different IHC experiments on different tissue types and targeting different proteins with different subcellular localisations. Our methodology enabled us to establish and to validate inter-batch normalization transforms which correct the non-relevant IHC staining variations. The normalised image series were then processed to extract coherent quantitative features characterising the IHC staining patterns. PMID:28220842

A TRAJECTORY-CLUSTERING CORRELATION METHODOLOGY FOR EXAMINING THE LONG-RANGE TRANSPORT OF AIR POLLUTANTS. (R825260)

EPA Science Inventory

We present a robust methodology for examining the relationship between synoptic-scale atmospheric transport patterns and pollutant concentration levels observed at a site. Our approach entails calculating a large number of back-trajectories from the observational site over a long...

Characterisation of slope directional resonance by analysing ambient noise instantaneous polarisation

NASA Astrophysics Data System (ADS)

Del Gaudio, Vincenzo; Wasowski, Janusz

2014-05-01

Several studies have shown that the dynamic response of landslide prone slopes to seismic shaking can play an important role in failure triggering during earthquakes. It was also demonstrated that slope seismic response is often characterised by directional resonance phenomena. Directivity can be revealed by the analysis of ambient noise recordings according to a technique known as HVNR method based on the analysis of azimuthal variation of spectral ratios between the spectral amplitude of horizontal H and vertical V component of noise recording. Directional resonance is then revealed by the presence of a preferential polarisation of H/V ratio peaks, whose frequencies correspond to resonance frequencies and whose amplitudes depend on the impedance contrast between surface material and bedrock. H/V ratio amplitudes can potentially provide information also on amplification factors. However, the relation is not straightforward depending on the nature of the waves contributing to the ambient noise. Thus, it is desirable to distinguish different kinds of noise wave packets, possibly isolating the contribution of Rayleigh waves, which appear to better reflect site response properties. To identify Rayleigh wave packets in noise recording a new approach was tested, based on a technique of analysis of instantaneous polarisation. The results are promising for the investigation of site response directional properties, particularly in the case of complex site conditions, where resonance can be characterised by multiple anisotropic peaks. In our preliminary tests of noise recordings carried out at a site located on a slope affected by landslides, only a small fraction of data samples (in the order of 1 %) were identified as Rayleigh type waves: this was likely due the fact that the noise recording was dominated by an overlapping of signals with different kinds of polarisation. Thus, it was possible to recognise Rayleigh polarisation only when the energy of this kind of wave was prevalent. However, from a relatively short noise recording (in the order of 30-45 minutes) one can obtain a high number (in the order of thousands) of estimates of H/V amplitude and azimuth, providing a robust statistics to recognise ground vibration properties reflecting site response. The tests on sites where directional resonance properties had been verified through the analysis of seismic event recordings, showed that more coherent observations can be obtained for H/V ratios and directivity estimates by selecting Rayleigh type data samples, rather than analysing the entire data set or SH-type wave packets.This offers the possibility of reducing the uncertainties in data interpretation related to the influence of the nature of the noise wavefield.

A soil sampling reference site: the challenge in defining reference material for sampling.

PubMed

de Zorzi, Paolo; Barbizzi, Sabrina; Belli, Maria; Fajgelj, Ales; Jacimovic, Radojko; Jeran, Zvonka; Sansone, Umberto; van der Perk, Marcel

2008-11-01

In the frame of the international SOILSAMP project, funded and coordinated by the Italian Environmental Protection Agency, an agricultural area was established as a reference site suitable for performing soil sampling inter-comparison exercises. The reference site was characterized for trace element content in soil, in terms of the spatial and temporal variability of their mass fraction. Considering that the behaviour of long-lived radionuclides in soil can be expected to be similar to that of some stable trace elements and that the distribution of these trace elements in soil can simulate the distribution of radionuclides, the reference site characterised in term of trace elements, can be also used to compare the soil sampling strategies developed for radionuclide investigations.

Characterisation of the hydrology of an estuarine wetland

NASA Astrophysics Data System (ADS)

Hughes, Catherine E.; Binning, Philip; Willgoose, Garry R.

1998-11-01

The intertidal zone of estuarine wetlands is characterised by a transition from a saline marine environment to a freshwater environment with increasing distance from tidal streams. An experimental site has been established in an area of mangrove and salt marsh wetland in the Hunter River estuary, Australia, to characterise and provide data for a model of intertidal zone hydrology. The experimental site is designed to monitor water fluxes at a small scale (36 m). A weather station and groundwater monitoring wells have been installed and hydraulic head and tidal levels are monitored over a 10-week period along a short one-dimensional transect covering the transition between the tidal and freshwater systems. Soil properties have been determined in the laboratory and the field. A two-dimensional finite element model of the site was developed using SEEP/W to analyse saturated and unsaturated pore water movement. Modification of the water retention function to model crab hole macropores was found necessary to reproduce the observed aquifer response. Groundwater response to tidal fluctuations was observed to be almost uniform beyond the intertidal zone, due to the presence of highly permeable subsurface sediments below the less permeable surface sediments. Over the 36 m transect, tidal forcing was found to generate incoming fluxes in the order of 0.22 m 3/day per metre width of creek bank during dry periods, partially balanced by evaporative fluxes of about 0.13 m 3/day per metre width. During heavy rainfall periods, rainfall fluxes were about 0.61 m 3/day per metre width, dominating the water balance. Evapotranspiration rates were greater for the salt marsh dominated intertidal zone than the non-tidal zone. Hypersalinity and salt encrustation observed show that evapotranspiration fluxes are very important during non-rainfall periods and are believed to significantly influence salt concentration both in the surface soil matrix and the underlying aquifer.

Proportional-delayed controllers design for LTI-systems: a geometric approach

NASA Astrophysics Data System (ADS)

Hernández-Díez, J.-E.; Méndez-Barrios, C.-F.; Mondié, S.; Niculescu, S.-I.; González-Galván, E. J.

2018-04-01

This paper focuses on the design of P-δ controllers for single-input-single-output linear time-invariant systems. The basis of this work is a geometric approach allowing to partitioning the parameter space in regions with constant number of unstable roots. This methodology defines the hyper-planes separating the aforementioned regions and characterises the way in which the number of unstable roots changes when crossing such a hyper-plane. The main contribution of the paper is that it provides an explicit tool to find P-δ gains ensuring the stability of the closed-loop system. In addition, the proposed methodology allows to design a non-fragile controller with a desired exponential decay rate σ. Several numerical examples illustrate the results and a haptic experimental set-up shows the effectiveness of P-δ controllers.

Production of heparanase constructs suitable for nuclear magnetic resonance and drug discovery studies.

PubMed

Mosulén, Silvia; Ortí, Leticia; Bas, Esperanza; Carbajo, Rodrigo J; Pineda-Lucena, Antonio

2011-02-01

Heparanase is an endo-β-D-glucosidase capable of specifically degrading heparan sulphate, one of the main components of the extracellular matrix. This 65 kDa polypeptide is implicated in cancer processes such as tumour formation, angiogenesis and metastasis, making it a very attractive target in antitumour treatments. Structure-based approaches to find inhibitors of heparanase have been historically hampered by the lack of success in crystallizing the protein. With the aim to undertake the NMR structural characterisation of heparanase, we have designed and produced, using recombinant methods, smaller constructs of heparanase containing the catalytically active glutamic acids and the two binding sites for heparan sulphate. An extensive range of expression and purification conditions were evaluated to alleviate the intrinsic low solubility and aggregation propensity of heparanase, allowing the obtention of the enzyme in milligram quantities, both unlabelled and ¹⁵N-labelled for NMR studies. Using the smallest of the designed constructs and applying NMR and SPR methodologies, we have demonstrated that known inhibitors of heparanase bind to this construct specifically and selectively with K(D) values in the range of those reported for human heparanase, validating it for future drug discovery projects focused on the identification of novel inhibitors of this enzyme. © 2010 Wiley Periodicals, Inc.

Somatosensory nociceptive characteristics differentiate subgroups in people with chronic low back pain: a cluster analysis.

PubMed

Rabey, Martin; Slater, Helen; OʼSullivan, Peter; Beales, Darren; Smith, Anne

2015-10-01

The objectives of this study were to explore the existence of subgroups in a cohort with chronic low back pain (n = 294) based on the results of multimodal sensory testing and profile subgroups on demographic, psychological, lifestyle, and general health factors. Bedside (2-point discrimination, brush, vibration and pinprick perception, temporal summation on repeated monofilament stimulation) and laboratory (mechanical detection threshold, pressure, heat and cold pain thresholds, conditioned pain modulation) sensory testing were examined at wrist and lumbar sites. Data were entered into principal component analysis, and 5 component scores were entered into latent class analysis. Three clusters, with different sensory characteristics, were derived. Cluster 1 (31.9%) was characterised by average to high temperature and pressure pain sensitivity. Cluster 2 (52.0%) was characterised by average to high pressure pain sensitivity. Cluster 3 (16.0%) was characterised by low temperature and pressure pain sensitivity. Temporal summation occurred significantly more frequently in cluster 1. Subgroups were profiled on pain intensity, disability, depression, anxiety, stress, life events, fear avoidance, catastrophizing, perception of the low back region, comorbidities, body mass index, multiple pain sites, sleep, and activity levels. Clusters 1 and 2 had a significantly greater proportion of female participants and higher depression and sleep disturbance scores than cluster 3. The proportion of participants undertaking <300 minutes per week of moderate activity was significantly greater in cluster 1 than in clusters 2 and 3. Low back pain, therefore, does not appear to be homogeneous. Pain mechanisms relating to presentations of each subgroup were postulated. Future research may investigate prognoses and interventions tailored towards these subgroups.

An isotopic and modelling study of flow paths and storage in Quaternary calcarenite, SW Australia: implications for speleothem paleoclimate records

NASA Astrophysics Data System (ADS)

Treble, Pauline C.; Bradley, Chris; Wood, Anne; Baker, Andy; Jex, Catherine N.; Fairchild, Ian J.; Gagan, Michael K.; Cowley, Joan; Azcurra, Cecilia

2013-03-01

We investigated the distinctive shallow sub-surface hydrology of the southwest Western Australia (SWWA) dune calcarenite using observed rainfall and rainfall δ18O; soil moisture, cave drip rate and dripwater δ18O over a six-year period: August 2005-March 2012. A lumped parameter hydrological model is developed to describe water fluxes and drip δ18O. Comparison of observed data and model output allow us to assess the critical non-climatic karst hydrological processes that modify the precipitation δ18O signal and discuss the implications for speleothem paleoclimate records from this cave and those with a similar karst setting. Our findings include evidence of multiple reservoirs, characterised by distinct δ18O values and recharge responses ('low' and 'high' flow sites). Dripwaters exhibit δ18O variations in wet versus dry years at low-flow sites receiving diffuse seepage from the epikarst with an attenuated isotopic composition that approximates mean rainfall. Recharge from high-magnitude rain events is stored in a secondary reservoir which is associated with high-flow dripwater that is 1‰ lower than our monitored low-flow sites (δ18O). One drip site is characterised by mixed-flow behaviour and exhibits a non-linear threshold response after the cessation of drainage from a secondary reservoir following a record dry year (2006). Additionally, our results yield a better understanding of the vadose zone hydrology and dripwater characteristics in Quaternary age dune limestones. We show that flow to our monitored sites is dominated by diffuse flow with inferred transit times of less than one year. Diffuse flow appears to follow vertical preferential paths through the limestone reflecting differences in permeability and deep recharge into the host rock.

Marine turtles are not fussy nesters: a novel test of small-scale nest site selection using structure from motion beach terrain information

PubMed Central

Leon, Javier X.; Gilby, Ben L.; Olds, Andrew D.; Schlacher, Thomas A.

2017-01-01

Background Nest selection is widely regarded as a key process determining the fitness of individuals and viability of animal populations. For marine turtles that nest on beaches, this is particularly pivotal as the nesting environment can significantly control reproductive success.The aim of this study was to identify the environmental attributes of beaches (i.e., morphology, vegetation, urbanisation) that may be associated with successful oviposition in green and loggerhead turtle nests. Methods We quantified the proximity of turtle nests (and surrounding beach locations) to urban areas, measured their exposure to artificial light, and used ultra-high resolution (cm-scale) digital surface models derived from Structure-from-Motion (SfM) algorithms, to characterise geomorphic and vegetation features of beaches on the Sunshine Coast, eastern Australia. Results At small spatial scales (i.e., <100 m), we found no evidence that turtles selected nest sites based on a particular suite of environmental attributes (i.e., the attributes of nest sites were not consistently different from those of surrounding beach locations). Nest sites were, however, typically characterised by occurring close to vegetation, on parts of the shore where the beach- and dune-face was concave and not highly rugged, and in areas with moderate exposure to artificial light. Conclusion This study used a novel empirical approach to identify the attributes of turtle nest sites from a broader ‘envelope’ of environmental nest traits, and is the first step towards optimizing conservation actions to mitigate, at the local scale, present and emerging human impacts on turtle nesting beaches. PMID:28070454

Regional risk assessment for contaminated sites part 2: ranking of potentially contaminated sites.

PubMed

Pizzol, Lisa; Critto, Andrea; Agostini, Paola; Marcomini, Antonio

2011-11-01

Environmental risks are traditionally assessed and presented in non spatial ways although the heterogeneity of the contaminants spatial distributions, the spatial positions and relations between receptors and stressors, as well as the spatial distribution of the variables involved in the risk assessment, strongly influence exposure estimations and hence risks. Taking into account spatial variability is increasingly being recognized as a further and essential step in sound exposure and risk assessment. To address this issue an innovative methodology which integrates spatial analysis and a relative risk approach was developed. The purpose of this methodology is to prioritize sites at regional scale where a preliminary site investigation may be required. The methodology aimed at supporting the inventory of contaminated sites was implemented within the spatial decision support sYstem for Regional rIsk Assessment of DEgraded land, SYRIADE, and was applied to the case-study of the Upper Silesia region (Poland). The developed methodology and tool are both flexible and easy to adapt to different regional contexts, allowing the user to introduce the regional relevant parameters identified on the basis of user expertise and regional data availability. Moreover, the used GIS functionalities, integrated with mathematical approaches, allow to take into consideration, all at once, the multiplicity of sources and impacted receptors within the region of concern, to assess the risks posed by all contaminated sites in the region and, finally, to provide a risk-based ranking of the potentially contaminated sites. Copyright © 2011. Published by Elsevier Ltd.

Application of rapid onsite PCR (TaqMan) for Phytophthora ramorum under U.S. conditions

Treesearch

Kelvin Hughes; Jenny Tomlinson; Neil Boonham; Kelly Ivors; Matteo Garbelotto; Ian Barker

2006-01-01

Currently, diagnosis of Phytophthora ramorum involves sending samples to a laboratory for traditional isolation and morphological characterisation, and/or PCR analysis. This can take as long as 2 weeks from sampling to final diagnosis. However, the Plant Health Group, Central Science Laboratory, has produced on-site DNA extraction and real-time PCR (...

NANOSTRUCTURED METAL OXIDE CATALYSTS VIA BUILDING BLOCK SYNTHESES

DOE Office of Scientific and Technical Information (OSTI.GOV)

Craig E. Barnes

2013-03-05

A broadly applicable methodology has been developed to prepare new single site catalysts on silica supports. This methodology requires of three critical components: a rigid building block that will be the main structural and compositional component of the support matrix; a family of linking reagents that will be used to insert active metals into the matrix as well as cross link building blocks into a three dimensional matrix; and a clean coupling reaction that will connect building blocks and linking agents together in a controlled fashion. The final piece of conceptual strategy at the center of this methodology involves dosingmore » the building block with known amounts of linking agents so that the targeted connectivity of a linking center to surrounding building blocks is obtained. Achieving targeted connectivities around catalytically active metals in these building block matrices is a critical element of the strategy by which single site catalysts are obtained. This methodology has been demonstrated with a model system involving only silicon and then with two metal-containing systems (titanium and vanadium). The effect that connectivity has on the reactivity of atomically dispersed titanium sites in silica building block matrices has been investigated in the selective oxidation of phenols to benezoquinones. 2-connected titanium sites are found to be five times as active (i.e. initial turnover frequencies) than 4-connected titanium sites (i.e. framework titanium sites).« less

Comprehensive characterisation of atmospheric aerosols in Budapest, Hungary: physicochemical properties of inorganic species

NASA Astrophysics Data System (ADS)

Salma, Imre; Maenhaut, Willy; Zemplén-Papp, Éva; Záray, Gyula

As part of an air pollution project in Budapest, aerosol samples were collected by stacked filter units and cascade impactors at an urban background site, two downtown sites, and within a road tunnel in field campaigns conducted in 1996, 1998 and 1999. Some criteria pollutants were also measured at one of the downtown sites. The aerosol samples were analysed by one or more of the following methods: instrumental neutron activation analysis, particle-induced X-ray emission analysis, a light reflection technique, gravimetry, thermal profiling carbon analysis and capillary electrophoresis. The quantities measured or derived include atmospheric concentrations of elements (from Na to U), of particulate matter, of black and elemental carbon, and total carbonaceous fraction, of some ionic species (e.g., nitrate and sulphate) in the fine ( <2 μm equivalent aerodynamic diameter, EAD) or in both coarse (10- 2 μm EAD) and fine size fractions, atmospheric concentrations of NO, NO 2, SO 2, CO and total suspended particulate matter, and meteorological parameters. The analytical results were used for characterisation of the concentration levels, elemental composition, time trends, enrichment of and relationships among the aerosol species in coarse and fine size fractions, for studying their fine-to-coarse concentration ratios, spatial and temporal variability, for determining detailed elemental mass size distributions, and for examining the extent of chemical mass closure.

Characterising freeze in the UK: applications for the insurance industry

NASA Astrophysics Data System (ADS)

Raven, E. K.; Keef, C.; Busby, K.

2012-04-01

The UK winters of 2009-2010 and 2010-2011 were characterised by prolonged and widespread low temperatures. This was challenging for the UK insurance industry and organisations such as the emergency services, the Highways Agency and British Gas who had to manage the extra demands that resulted. In the 6-day period running to Christmas Eve 2010, British Gas reported 100,000 boiler repair call-outs, whilst those 190,000 homes and businesses left with frozen and subsequently burst pipes contributed to the ABI's estimated £ 900 million in insured losses for December 2010 alone; the highest payout by the industry for damages associated with cold weather. Unfortunately, the severity of these winters made the difference between profit and loss for some primary UK insurance companies. To enable better pricing of premiums in the future, insurance companies are looking to understand the potential risk from cold waves at a local, postcode-level, whilst reinsurance firms seek to determine the accumulated loss across the UK associated with spatially coherent events. Other industry sectors also strive to improve their understanding of weather extremes for planning and management. Underpinning this is the need to statistically characterise the physical hazard. Aimed primarily at the re/insurance industry, we have applied an established methodology for developing statistical event sets and applied this to generate a UK freeze event set. An event set provides a stochastic set of several thousand events over 10's of 1000's of years and is typically applied within probabilistic catastrophe models. Our method applies extreme value theory and dependence modelling to explain low-temperature relationships across the UK and over time using historical records. The resulting event set represents the spatial and temporal dependence of cold waves in the UK and is modelled against household factors that increase the vulnerability to freezing conditions, such as property type, age and condition. By presenting our methodology, we illustrate some of the complex spatial and temporal relationships in UK freeze events and place the past two winters into a statistical context. Furthermore, we demonstrate the application of event sets within catastrophe modelling and risk mapping services.

A methodology for creating greenways through multidisciplinary sustainable landscape planning.

PubMed

Pena, Selma Beatriz; Abreu, Maria Manuela; Teles, Rui; Espírito-Santo, Maria Dalila

2010-01-01

This research proposes a methodology for defining greenways via sustainable planning. This approach includes the analysis and discussion of culture and natural processes that occur in the landscape. The proposed methodology is structured in three phases: eco-cultural analysis; synthesis and diagnosis; and proposal. An interdisciplinary approach provides an assessment of the relationships between landscape structure and landscape dynamics, which are essential to any landscape management or land use. The landscape eco-cultural analysis provides a biophysical, dynamic (geomorphologic rate), vegetation (habitats from directive 92/43/EEC) and cultural characterisation. The knowledge obtained by this analysis then supports the definition of priority actions to stabilise the landscape and the management measures for the habitats. After the analysis and diagnosis phases, a proposal for the development of sustainable greenways can be achieved. This methodology was applied to a study area of the Azambuja Municipality in the Lisbon Metropolitan Area (Portugal). The application of the proposed methodology to the study area shows that landscape stability is crucial for greenway users in order to appreciate the landscape and its natural and cultural elements in a sustainable and healthy way, both by cycling or by foot. A balanced landscape will increase the value of greenways and in return, they can develop socio-economic activities with benefits for rural communities. Copyright 2009 Elsevier Ltd. All rights reserved.

Fuzzy logic controllers for electrotechnical devices - On-site tuning approach

NASA Astrophysics Data System (ADS)

Hissel, D.; Maussion, P.; Faucher, J.

2001-12-01

Fuzzy logic offers nowadays an interesting alternative to the designers of non linear control laws for electrical or electromechanical systems. However, due to the huge number of tuning parameters, this kind of control is only used in a few industrial applications. This paper proposes a new, very simple, on-site tuning strategy for a PID-like fuzzy logic controller. Thanks to the experimental designs methodology, we will propose sets of optimized pre-established settings for this kind of fuzzy controllers. The proposed parameters are only depending on one on-site open-loop identification test. In this way, this on-site tuning methodology has to be compared to the Ziegler-Nichols one's for conventional controllers. Experimental results (on a permanent magnets synchronous motor and on a DC/DC converter) will underline all the efficiency of this tuning methodology. Finally, the field of validity of the proposed pre-established settings will be given.

Remote sensing for site characterization

USGS Publications Warehouse

Kuehn, Friedrich; King, Trude V.; Hoerig, Bernhard; Peters, Douglas C.; Kuehn, Friedrich; King, Trude V.; Hoerig, Bernhard; Peters, Douglas C.

2000-01-01

This volume, Remote Sensing for Site Characterization, describes the feasibility of aircraft- and satellite-based methods of revealing environmental-geological problems. A balanced ratio between explanations of the methodological/technical side and presentations of case studies is maintained. The comparison of case studies from North America and Germany show how the respective territorial conditions lead to distinct methodological approaches.

Characterising Atlantic deep waters during the extreme warmth of the early Eocene 'greenhouse'.

NASA Astrophysics Data System (ADS)

Cameron, A.; Sexton, P. F.; Anand, P.; Huck, C. E.; Fehr, M.; Dickson, A.; Scher, H. D.; van de Flierdt, T.; Westerhold, T.; Roehl, U.

2014-12-01

The meridional overturning circulation (MOC) is a planetary-scale oceanic flow that is of direct importance to the climate system because it transports heat, salt and nutrients to high latitudes and regulates the exchange of CO2 with the atmosphere. The Atlantic Ocean plays a strong role in the modern day MOC however, it is unclear what role it may have played during extreme climate conditions such as those found in the early Eocene 'greenhouse'. In order to resolve the Atlantic's role in the MOC during the early/middle Eocene, we present a multi-proxy approach to investigate changes in ocean circulation, water mass geometry, sediment supply to the deep oceans and the physical strength of deep waters from four different IODP drill sites. Neodymium isotopes (ɛNd), REE profiles and cerium anomalies measured in fossilised fish teeth help to characterise geochemical changes to water masses throughout the Atlantic whilst bulk sediment ɛNd and XRF-core scan data documents changes in sediment supply to the region. Sortable silt data provides a physical constraint on the strength of deep-water movements during the extreme climatic conditions of the early Eocene. We utilise expanded and continuous sequences from two sites in the North west Atlantic spanning the early to middle Eocene recently recovered on IODP Exp. 342 (1403, 1409) that are located on the Newfoundland Ridge, directly in the flow path of today's Deep Western Boundary Current. We also present data from equatorial Demerara Rise (IODP site 1258) and from further north at the mouth of the Labrador Sea (ODP Site 647).

Changes in Brazilian Drosophilidae (Diptera) assemblages across an urbanisation gradient.

PubMed

Gottschalk, Marco S; De Toni, Daniela C; Valente, Vera L S; Hofmann, Paulo R P

2007-01-01

The present study aims to characterise the assemblages of Drosophilidae sampled from four sites subject to different levels of urbanisation, in the city of Florianópolis, South Brazil. Five samples were collected between August 2000 and August 2001 and five between August 2002 and August 2003 in each site. A gradual change in the dominant species was observed in the urbanisation gradient, with an increase in relative abundance of exotic species in urban areas. Among the native species, the relative abundance of Drosophila capricorni Dobzhansky & Pavan had an expressive decrease. In the other hand the richness in the low urbanisation site increased, probably due to the presence of urban gardens. The diversity index did not vary significantly among sites, but its correlation with evenness and richness changed.

First evidence of an extensive Acheulean large cutting tool accumulation in Europe from Porto Maior (Galicia, Spain).

PubMed

Méndez-Quintas, E; Santonja, M; Pérez-González, A; Duval, M; Demuro, M; Arnold, L J

2018-02-15

We describe a European Acheulean site characterised by an extensive accumulation of large cutting tools (LCT). This type of Lower Paleolithic assemblage, with dense LCT accumulations, has only been found on the African continent and in the Near East until now. The identification of a site with large accumulations of LCTs favours the hypothesis of an African origin for the Acheulean of Southwest Europe. The lithic tool-bearing deposits date back to 293-205 thousand years ago. Our chronological findings confirm temporal overlap between sites with clear "African" Acheulean affinities and Early Middle Paleolithic sites found elsewhere in the region. These complex technological patterns could be consistent with the potential coexistence of different human species in south-western Europe during the Middle Pleistocene.

Refinement of a methodology for siting maintenance area headquarters.

DOT National Transportation Integrated Search

1986-01-01

Prior to this study, a methodology that generates travel time, or isochronal, contours around area headquarters or the housing bases of maintenance crews was developed. The methodology was then pilot tested for the Charlottesville Residency, and was ...

The Generation of a Stochastic Flood Event Catalogue for Continental USA

NASA Astrophysics Data System (ADS)

Quinn, N.; Wing, O.; Smith, A.; Sampson, C. C.; Neal, J. C.; Bates, P. D.

2017-12-01

Recent advances in the acquisition of spatiotemporal environmental data and improvements in computational capabilities has enabled the generation of large scale, even global, flood hazard layers which serve as a critical decision-making tool for a range of end users. However, these datasets are designed to indicate only the probability and depth of inundation at a given location and are unable to describe the likelihood of concurrent flooding across multiple sites.Recent research has highlighted that although the estimation of large, widespread flood events is of great value to flood mitigation and insurance industries, to date it has been difficult to deal with this spatial dependence structure in flood risk over relatively large scales. Many existing approaches have been restricted to empirical estimates of risk based on historic events, limiting their capability of assessing risk over the full range of plausible scenarios. Therefore, this research utilises a recently developed model-based approach to describe the multisite joint distribution of extreme river flows across continental USA river gauges. Given an extreme event at a site, the model characterises the likelihood neighbouring sites are also impacted. This information is used to simulate an ensemble of plausible synthetic extreme event footprints from which flood depths are extracted from an existing global flood hazard catalogue. Expected economic losses are then estimated by overlaying flood depths with national datasets defining asset locations, characteristics and depth damage functions. The ability of this approach to quantify probabilistic economic risk and rare threshold exceeding events is expected to be of value to those interested in the flood mitigation and insurance sectors.This work describes the methodological steps taken to create the flood loss catalogue over a national scale; highlights the uncertainty in the expected annual economic vulnerability within the USA from extreme river flows; and presents future developments to the modelling approach.

Analytical Methodologies for the Determination of Endocrine Disrupting Compounds in Biological and Environmental Samples

PubMed Central

Sosa-Ferrera, Zoraida; Mahugo-Santana, Cristina; Santana-Rodríguez, José Juan

2013-01-01

Endocrine-disruptor compounds (EDCs) can mimic natural hormones and produce adverse effects in the endocrine functions by interacting with estrogen receptors. EDCs include both natural and synthetic chemicals, such as hormones, personal care products, surfactants, and flame retardants, among others. EDCs are characterised by their ubiquitous presence at trace-level concentrations and their wide diversity. Since the discovery of the adverse effects of these pollutants on wildlife and human health, analytical methods have been developed for their qualitative and quantitative determination. In particular, mass-based analytical methods show excellent sensitivity and precision for their quantification. This paper reviews recently published analytical methodologies for the sample preparation and for the determination of these compounds in different environmental and biological matrices by liquid chromatography coupled with mass spectrometry. The various sample preparation techniques are compared and discussed. In addition, recent developments and advances in this field are presented. PMID:23738329

Childhood obesity in Asia: the value of accurate body composition methodology.

PubMed

Hills, Andrew P; Mokhtar, Najat; Brownie, Sharon; Byrne, Nuala M

2014-01-01

Childhood obesity, a significant global public health problem, affects an increasing number of low- and middle-income countries, including in Asia. The obesity epidemic has been fuelled by the rapid nutrition and physical activity transition with the availability of more energy-dense nutrient-poor foods and lifestyles of many children dominated by physical inactivity. During the growing years the pace and quality of grow this best quantified by a combination of anthropometric and body composition measures. However, where normative data are available, this has typically been collected on Caucasian children. To better define and characterise overweight and obesity in Asian children, and to monitor nutrition and physical activity interventions, there is a need to increase the use of standardized anthropometric and body composition methodologies. The current paper reports on initiatives facilitated by the International Atomic Energy Agency (IAEA) and outlines future research needs for the prevention and management of childhood obesity in Asia.

A quality evaluation methodology of health web-pages for non-professionals.

PubMed

Currò, Vincenzo; Buonuomo, Paola Sabrina; Onesimo, Roberta; de Rose, Paola; Vituzzi, Andrea; di Tanna, Gian Luca; D'Atri, Alessandro

2004-06-01

The proposal of an evaluation methodology for determining the quality of healthcare web sites for the dissemination of medical information to non-professionals. Three (macro) factors are considered for the quality evaluation: medical contents, accountability of the authors, and usability of the web site. Starting from two results in the literature the problem of whether or not to introduce a weighting function has been investigated. This methodology has been validated on a specialized information content, i.e., sore throats, due to the large interest such a topic enjoys with target users. The World Wide Web was accessed using a meta-search system merging several search engines. A statistical analysis was made to compare the proposed methodology with the obtained ranks of the sample web pages. The statistical analysis confirms that the variables examined (per item and sub factor) show substantially similar ranks and are capable of contributing to the evaluation of the main quality macro factors. A comparison between the aggregation functions in the proposed methodology (non-weighted averages) and the weighting functions, derived from the literature, allowed us to verify the suitability of the method. The proposed methodology suggests a simple approach which can quickly award an overall quality score for medical web sites oriented to non-professionals.

Decimetric-resolution stochastic inversion of shallow marine seismic reflection data; dedicated strategy and application to a geohazard case study

NASA Astrophysics Data System (ADS)

Provenzano, Giuseppe; Vardy, Mark E.; Henstock, Timothy J.

2018-06-01

Characterisation of the top 10-50 m of the subseabed is key for landslide hazard assessment, offshore structure engineering design and underground gas-storage monitoring. In this paper, we present a methodology for the stochastic inversion of ultra-high-frequency (UHF, 0.2-4.0 kHz) pre-stack seismic reflection waveforms, designed to obtain a decimetric-resolution remote elastic characterisation of the shallow sediments with minimal pre-processing and little a-priori information. We use a genetic algorithm in which the space of possible solutions is sampled by explicitly decoupling the short and long wavelengths of the P-wave velocity model. This approach, combined with an objective function robust to cycle skipping, outperforms a conventional model parametrisation when the ground-truth is offset from the centre of the search domain. The robust P-wave velocity model is used to precondition the width of the search range of the multi-parameter elastic inversion, thereby improving the efficiency in high dimensional parametrizations. Multiple independent runs provide a set of independent results from which the reproducibility of the solution can be estimated. In a real dataset acquired in Finneidfjord, Norway, we also demonstrate the sensitivity of UHF seismic inversion to shallow subseabed anomalies that play a role in submarine slope stability. Thus, the methodology has the potential to become an important practical tool for marine ground model building in spatially heterogeneous areas, reducing the reliance on expensive and time-consuming coring campaigns for geohazard mitigation in marine areas.

Diversity in livestock resources in pastoral systems in Africa.

PubMed

Kaufmann, B A; Lelea, M A; Hulsebusch, C G

2016-11-01

Pastoral systems are important producers and repositories of livestock diversity. Pastoralists use variability in their livestock resources to manage high levels of environmental variability in economically advantageous ways. In pastoral systems, human-animal-environment interactions are the basis of production and the key to higher productivity and efficiency. In other words, pastoralists manage a production system that exploits variability and keeps production costs low. When differentiating, characterising and evaluating pastoral breeds, this context-specific, functional dimension of diversity in livestock resources needs to be considered. The interaction of animals with their environment is determined not only by morphological and physiological traits but also by experience and socially learned behaviour. This high proportion of non-genetic components determining the performance of livestock means that current models for analysing livestock diversity and performance, which are based on genetic inheritance, have limited ability to describe pastoral performance. There is a need for methodological innovations to evaluate pastoral breeds and animals, since comparisons based on performance 'under optimal conditions' are irrelevant within this production system. Such innovations must acknowledge that livestock or breed performance is governed by complex human-animal-environment interactions, and varies through time and space due to the mobile and seasonal nature of the pastoral system. Pastoralists' breeding concepts and selection strategies seem to be geared towards improving their animals' capability to exploit variability, by - among other things - enhancing within-breed diversity. In-depth studies of these concepts and strategies could contribute considerably towards developing methodological innovations for the characterisation and evaluation of pastoral livestock resources.

Experimental Investigation of Gas/Slag/Matte/Tridymite Equilibria in the Cu-Fe-O-S-Si System in Controlled Atmospheres: Development of Technique

NASA Astrophysics Data System (ADS)

Fallah-Mehrjardi, Ata; Hidayat, Taufiq; Hayes, Peter C.; Jak, Evgueni

2017-12-01

The majority of primary pyrometallurgical copper making processes involve the formation of two immiscible liquid phases, i.e., matte product and the slag phase. There are significant gaps and discrepancies in the phase equilibria data of the slag and the matte systems due to issues and difficulties in performing the experiments and phase analysis. The present study aims to develop an improved experimental methodology for accurate characterisation of gas/slag/matte/tridymite equilibria in the Cu-Fe-O-S-Si system under controlled atmospheres. The experiments involve high-temperature equilibration of synthetic mixtures on silica substrates in CO/CO2/SO2/Ar atmospheres, rapid quenching of samples into water, and direct composition measurement of the equilibrium phases using Electron Probe X-ray Microanalysis (EPMA). A four-point-test procedure was applied to ensure the achievement of equilibrium, which included the following: (i) investigation of equilibration as a function of time, (ii) assessment of phase homogeneity, (iii) confirmation of equilibrium by approaching from different starting conditions, and (iv) systematic analysis of the reactions specific to the system. An iterative improved experimental methodology was developed using this four-point-test approach to characterize the complex multi-component, multi-phase equilibria with high accuracy and precision. The present study is a part of a broader overall research program on the characterisation of the multi-component (Cu-Fe-O-S-Si-Al-Ca-Mg), multi-phase (gas/slag/matte/metal/solids) systems with minor elements (Pb, Zn, As, Bi, Sn, Sb, Ag, and Au).

Gender and sexual vulnerability of young women in Africa: experiences of young girls in secondary schools in Uganda.

PubMed

Muhanguzi, Florence Kyoheirwe

2011-06-01

Sexuality is part and parcel of students' experiences of schooling manifested in personal friendships, relations and social interaction. These encounters constitute sites within which sexual identities are developed, practiced and actively produced through processes of negotiation. Drawing on qualitative research conducted in 14 selected secondary schools in Central and Western Uganda, the study illuminates gendered sexual vulnerability within patterns of social interaction and young girls gendered experiences and negotiation of their sexuality. The study reveals that through social and discursive practices, students construct complex gendered relations of domination and subordination that position boys and girls differently, often creating gender inequalities and sexual vulnerability for those gendered as girls. Girls' vulnerability is characterised by confusing and traumatic experiences fraught with double standards and silences. Typical of these experiences are complex tensions and contradictions surrounding constructions of sexuality that are predicated upon unequal power and gender relations characterised by homophobia, misogyny, control of female sexuality and sexual abuse and exploitation, all which work against girls' expression of sexuality. Gender sensitive sexuality education is identified as a valuable site of intervention to address such vulnerabilities and promote gender equality and equity in society.

Epigenetic regulation of the DRD4 gene and dimensions of attention-deficit/hyperactivity disorder in children.

PubMed

Dadds, Mark R; Schollar-Root, Olivia; Lenroot, Rhoshel; Moul, Caroline; Hawes, David J

2016-10-01

Recent evidence suggests that epigenetic regulation of the DRD4 gene may characterise specific aspects of ADHD symptomology. We tested associations between ADHD symptoms and epigenetic changes to the DRD4 gene in DNA extracted from blood and saliva in N = 330 children referred for a variety of behavioural and emotional problems. ADHD was indexed using DSM diagnoses as well as mother, father, and teacher reports. Methylation levels were assayed for the island of 18 CpG sites in the DRD4 receptor gene. A nearby SNP, rs3758653, was also genotyped as it has previously been shown to influence methylation levels. There was high consistency of methylation levels across CpG sites and tissue sources, and higher methylation levels were associated with the major allele of SNP rs3758653. Higher methylation levels were associated with more severe ADHD independent of SNP status, tissue source, ethnicity, environmental adversity, and comorbid conduct problems. The association applied specifically to the cognitive/attentional, rather than hyperactivity problems that characterise ADHD. The results indicate that epigenetic regulation of the DRD4 gene in the form of increased methylation is associated with the cognitive/attentional deficits in ADHD.

The Atmospheric Monitoring Strategy for the Cherenkov Telescope Array

NASA Astrophysics Data System (ADS)

Daniel, M. K.; CTA Consortium

2015-04-01

The Imaging Atmospheric Cherenkov Technique (IACT) is unusual in astronomy as the atmosphere actually forms an intrinsic part of the detector system, with telescopes indirectly detecting very high energy particles by the generation and transport of Cherenkov photons deep within the atmosphere. This means that accurate measurement, characterisation and monitoring of the atmosphere is at the very heart of successfully operating an IACT system. The Cherenkov Telescope Array (CTA) will be the next generation IACT observatory with an ambitious aim to improve the sensitivity of an order of magnitude over current facilities, along with corresponding improvements in angular and energy resolution and extended energy coverage, through an array of Large (23 m), Medium (12 m) and Small (4 m) sized telescopes spread over an area of order ~km2. Whole sky coverage will be achieved by operating at two sites: one in the northern hemisphere and one in the southern hemisphere. This proceedings will cover the characterisation of the candidate sites and the atmospheric calibration strategy. CTA will utilise a suite of instrumentation and analysis techniques for atmospheric modelling and monitoring regarding pointing forecasts, intelligent pointing selection for the observatory operations and for offline data correction.

Characterising the biophysical properties of normal and hyperkeratotic foot skin.

PubMed

Hashmi, Farina; Nester, Christopher; Wright, Ciaran; Newton, Veronica; Lam, Sharon

2015-01-01

Plantar foot skin exhibits unique biophysical properties that are distinct from skin on other areas of the body. This paper characterises, using non-invasive methods, the biophysical properties of foot skin in healthy and pathological states including xerosis, heel fissures, calluses and corns. Ninety three people participated. Skin hydration, elasticity, collagen and elastin fibre organisation and surface texture was measured from plantar calluses, corns, fissured heel skin and xerotic heel skin. Previously published criteria were applied to classify the severity of each skin lesion and differences in the biophysical properties compared between each classification. Calluses, corns, xerotic heel skin and heel fissures had significantly lower levels of hydration; less elasticity and greater surface texture than unaffected skin sites (p < 0.01). Some evidence was found for a positive correlation between hydration and elasticity data (r ≤ 0.65) at hyperkeratotic sites. Significant differences in skin properties (with the exception of texture) were noted between different classifications of skin lesion. This study provides benchmark data for healthy and different severities of pathological foot skin. These data have applications ranging from monitoring the quality of foot skin, to measuring the efficacy of therapeutic interventions.

Current Status of the Nuclear Waste Management Programme in Finland - 13441

DOE Office of Scientific and Technical Information (OSTI.GOV)

Lehto, Kimmo; Vuorio, Petteri

2013-07-01

Pursuant to the Decision-in-Principle of 2001 the Finnish programme for geologic disposal of spent fuel has now moved to the phase of applying for construction licence to build up the encapsulation plant and underground repository. The main objective of former programme phase, underground characterisation phase, was to confirm - or refute - the suitability of the Olkiluoto site by investigations conducted underground at the actual depth of the repository. The construction work of the access tunnel to the rock characterisation facility (ONKALO) started in the late summer of 2004. The site research and investigations work aimed at the maturity neededmore » for submission of the application for construction license of the actual repository in end of 2012. This requires, however, that also the technology has reached the maturity needed. The design and technical plans form the necessary platform for the development of the safety case for spent fuel disposal. A plan, 'road map', has been produced for the portfolio of reports that demonstrates the safety of disposal as required by the criteria set by the government and further detailed by the safety authority, STUK. (authors)« less

Paludified forests of Komi Republic (Northeastern Europe) do not act as hotspots of the CH4 emissions

NASA Astrophysics Data System (ADS)

Schneider, Julia; Lukasheva, Maria; Gudyrev, Vasiliy; Miglovets, Mikhail

2017-04-01

In the Komi Republic, which is situated in Northeastern Europe and is subject of Russian Federation, 306,000km2 or about 73 % of the total area are covered by forest. The predominant part of these forests lies within the boreal zone. Within the boreal forests the vegetation patterns are a result of the moisture characteristics and air temperature. Based on the moisture conditions forest communities can be grouped into wet, mesic and dry sites. In conditions of high soil moisture content forest peatlands can develop. In boreal forest landscapes it is not a rare phenomenon and can reach coverage of up to one third of the total area. In addition to the high water content of the soils forested peatlands are characterised by low soil temperatures, high organic matter accumulation and low organic matter decomposition. The thick moss-organic layer on the forest floor and waterlogged soils favours methanogenesis. Such process of accumulation of poorly decomposed organic matter mostly originating from Sphagnum which involves the formation of waterlogged conditions is defined as paludification. Highly favourable to forest paludification are sites characterised by fine-textured soils which highly hamper percolation. Paludified forests also occur at peatland margins as a result of peatland expansion. During the last years peatland margins were considered as potential biogeochemical hotspots within the peatlands and due to their high nutrient and dissolved organic matter content they may also be a major methane emitter. Paludification can also occur at forests sites after clear cutting, which is a very intensive logging type and usually leads to water table elevations. In this study measurements were conducted at peatland margins and at a clear cut sites during three climatically different years. The summer of the year 2013 was considerably warmer and drier, and the summer of the year 2014 was considerably colder and wetter than the long term mean. The investigation period in 2015 was characterised by warm and dry spring and early summer, July was colder and very dry, and from August on the weather in the region was colder and wetter than the mean. In this study we show, that regardless of the weather conditions and the water table levels related thereto, the peatland margins did not act as strong methane emitter but are mostly sources of methane and the clear cut sites emit very small amounts of methane or are even sinks for atmospheric methane.

Overexpression of Transcription Factor Sp1 Leads to Gene Expression Perturbations and Cell Cycle Inhibition

PubMed Central

Deniaud, Emmanuelle; Baguet, Joël; Chalard, Roxane; Blanquier, Bariza; Brinza, Lilia; Meunier, Julien; Michallet, Marie-Cécile; Laugraud, Aurélie; Ah-Soon, Claudette; Wierinckx, Anne; Castellazzi, Marc; Lachuer, Joël; Gautier, Christian

2009-01-01

Background The ubiquitous transcription factor Sp1 regulates the expression of a vast number of genes involved in many cellular functions ranging from differentiation to proliferation and apoptosis. Sp1 expression levels show a dramatic increase during transformation and this could play a critical role for tumour development or maintenance. Although Sp1 deregulation might be beneficial for tumour cells, its overexpression induces apoptosis of untransformed cells. Here we further characterised the functional and transcriptional responses of untransformed cells following Sp1 overexpression. Methodology and Principal Findings We made use of wild-type and DNA-binding-deficient Sp1 to demonstrate that the induction of apoptosis by Sp1 is dependent on its capacity to bind DNA. Genome-wide expression profiling identified genes involved in cancer, cell death and cell cycle as being enriched among differentially expressed genes following Sp1 overexpression. In silico search to determine the presence of Sp1 binding sites in the promoter region of modulated genes was conducted. Genes that contained Sp1 binding sites in their promoters were enriched among down-regulated genes. The endogenous sp1 gene is one of the most down-regulated suggesting a negative feedback loop induced by overexpressed Sp1. In contrast, genes containing Sp1 binding sites in their promoters were not enriched among up-regulated genes. These results suggest that the transcriptional response involves both direct Sp1-driven transcription and indirect mechanisms. Finally, we show that Sp1 overexpression led to a modified expression of G1/S transition regulatory genes such as the down-regulation of cyclin D2 and the up-regulation of cyclin G2 and cdkn2c/p18 expression. The biological significance of these modifications was confirmed by showing that the cells accumulated in the G1 phase of the cell cycle before the onset of apoptosis. Conclusion This study shows that the binding to DNA of overexpressed Sp1 induces an inhibition of cell cycle progression that precedes apoptosis and a transcriptional response targeting genes containing Sp1 binding sites in their promoter or not suggesting both direct Sp1-driven transcription and indirect mechanisms. PMID:19753117

Crossed optical and chemical evaluations of modern glass soiling in various European urban environments

NASA Astrophysics Data System (ADS)

Favez, Olivier; Cachier, Hélène; Chabas, Anne; Ausset, Patrick; Lefevre, Roger

As part of the MULTI-ASSESS and VIDRIO EC projects, the soiling of modern glass is characterised in various European urban atmospheres. Our original methodology relies on crossed chemical measurements of the deposit (evaluation of the ion, elemental and organic carbon contents, and subsequent "mass closure") and exhaustive measurements of glass optical properties (light reflectance, transmittance and absorption). Samples were exposed sheltered from rain in Athens, Krakow, London, Montelibretti (Italy), Prague and Troyes (France), during increasing exposure durations, up to more than two years. Although a slowing down of the deposition rate is observed for some species at some sites, no obvious saturation phenomenon seems to occur for the particle deposition. The chemical composition of the deposit is shown to reflect the atmospheric environment of the exposure site. Some post-deposit evolutions, such as the disappearance of ammonium and possibly of particulate organic matter, are found to occur. For thin deposits, the glass optical properties (e.g. light absorption and diffuse transmittance) are found to evolve quasi-linearly with species concentrations (EC and ions, respectively). However, for conditions creating heavier deposits such as long time exposures in rather polluted environments, a saturation phenomenon is observed. Using a simple model, light absorption, which is primarily due to EC particles, is shown to reach the saturation level ( S) for A≈16% and the concentration for which the semi-saturation level is reached (C 1/2) is found to be about 15 μgC of EC/cm 2. For diffuse transmittance, due to scattering species, these parameters are found to be about 30% and 65 μg of ions/cm 2, respectively. These values may be considered as representative of the soiling in Europe.

Improved characterisation of measurement errors in electrical resistivity tomography (ERT) surveys

NASA Astrophysics Data System (ADS)

Tso, C. H. M.; Binley, A. M.; Kuras, O.; Graham, J.

2016-12-01

Measurement errors can play a pivotal role in geophysical inversion. Most inverse models require users to prescribe a statistical model of data errors before inversion. Wrongly prescribed error levels can lead to over- or under-fitting of data, yet commonly used models of measurement error are relatively simplistic. With the heightening interests in uncertainty estimation across hydrogeophysics, better characterisation and treatment of measurement errors is needed to provide more reliable estimates of uncertainty. We have analysed two time-lapse electrical resistivity tomography (ERT) datasets; one contains 96 sets of direct and reciprocal data collected from a surface ERT line within a 24h timeframe, while the other is a year-long cross-borehole survey at a UK nuclear site with over 50,000 daily measurements. Our study included the characterisation of the spatial and temporal behaviour of measurement errors using autocorrelation and covariance analysis. We find that, in addition to well-known proportionality effects, ERT measurements can also be sensitive to the combination of electrodes used. This agrees with reported speculation in previous literature that ERT errors could be somewhat correlated. Based on these findings, we develop a new error model that allows grouping based on electrode number in additional to fitting a linear model to transfer resistance. The new model fits the observed measurement errors better and shows superior inversion and uncertainty estimates in synthetic examples. It is robust, because it groups errors together based on the number of the four electrodes used to make each measurement. The new model can be readily applied to the diagonal data weighting matrix commonly used in classical inversion methods, as well as to the data covariance matrix in the Bayesian inversion framework. We demonstrate its application using extensive ERT monitoring datasets from the two aforementioned sites.

Geophysical and hydrogeological characterisation of the impacts of on-site wastewater treatment discharge to groundwater in a poorly productive bedrock aquifer.

PubMed

Donohue, Shane; McCarthy, Valerie; Rafferty, Patrick; Orr, Alison; Flynn, Raymond

2015-08-01

Contaminants discharging from on-site wastewater treatment systems (OSWTSs) can impact groundwater quality, threatening human health and surface water ecosystems. Risk of negative impacts becomes elevated in areas of extreme vulnerability with high water tables, where thin unsaturated intervals limit vadose zone attenuation. A combined geophysical/hydrogeological investigation into the effects of an OSWTS, located over a poorly productive aquifer (PPA) with thin subsoil cover, aimed to characterise effluent impacts on groundwater. Groundwater, sampled from piezometers down-gradient of the OSWTS percolation area displayed spatially erratic, yet temporally consistent, contaminant distributions. Electrical resistivity tomography identified an area of gross groundwater contamination close to the percolation area and, when combined with seismic refraction and water quality data, indicated that infiltrating effluent reaching the water table discharged to a deeper more permeable zone of weathered shale resting on more competent bedrock. Subsurface structure, defined by geophysics, indicated that elevated chemical and microbiological contaminant levels encountered in groundwater samples collected from piezometers, down-gradient of sampling points with lower contaminant levels, corresponded to those locations where piezometers were screened close to the weathered shale/competent rock interface; those immediately up-gradient were too shallow to intercept this interval, and thus the more impacted zone of the contaminant plume. Intermittent occurrence of faecal indicator bacteria more than 100m down gradient of the percolation area suggested relatively short travel times. Study findings highlight the utility of geophysics as part of multidisciplinary investigations for OSWTS contaminant plume characterisation, while also demonstrating the capacity of effluent discharging to PPAs to impact groundwater quality at distance. Comparable geophysical responses observed in similar settings across Ireland suggest the phenomena observed in this study are more widespread than previously suspected. Copyright © 2015 Elsevier B.V. All rights reserved.

Bacterial Production of Site Specific 13C Labeled Phenylalanine and Methodology for High Level Incorporation into Bacterially Expressed Recombinant Proteins

PubMed Central

Ramaraju, Bhargavi; McFeeters, Hana; Vogler, Bernhard; McFeeters, Robert L.

2016-01-01

Nuclear magnetic resonance spectroscopy studies of ever larger systems have benefited from many different forms of isotope labeling, in particular, site specific isotopic labeling. Site specific 13C labeling of methyl groups has become an established means of probing systems not amenable to traditional methodology. However useful, methyl reporter sites can be limited in number and/or location. Therefore, new complementary site specific isotope labeling strategies are valuable. Aromatic amino acids make excellent probes since they are often found at important interaction interfaces and play significant structural roles. Aromatic side chains have many of the same advantages as methyl containing amino acids including distinct 13C chemical shifts and multiple magnetically equivalent 1H positions. Herein we report economical bacterial production and one-step purification of phenylalanine with 13C incorporation at the Cα, Cγ and Cε positions, resulting in two isolated 1H-13C spin systems. We also present methodology to maximize incorporation of phenylalanine into recombinantly overexpressed proteins in bacteria and demonstrate compatibility with ILV-methyl labeling. Inexpensive, site specific isotope labeled phenylalanine adds another dimension to biomolecular NMR, opening new avenues of study. PMID:28028744

Quantitative analysis of chaperone network throughput in budding yeast

PubMed Central

Brownridge, Philip; Lawless, Craig; Payapilly, Aishwarya B; Lanthaler, Karin; Holman, Stephen W; Harman, Victoria M; Grant, Christopher M; Beynon, Robert J; Hubbard, Simon J

2013-01-01

The network of molecular chaperones mediates the folding and translocation of the many proteins encoded in the genome of eukaryotic organisms, as well as a response to stress. It has been particularly well characterised in the budding yeast, Saccharomyces cerevisiae, where 63 known chaperones have been annotated and recent affinity purification and MS/MS experiments have helped characterise the attendant network of chaperone targets to a high degree. In this study, we apply our QconCAT methodology to directly quantify the set of yeast chaperones in absolute terms (copies per cell) via SRM MS. Firstly, we compare these to existing quantitative estimates of these yeast proteins, highlighting differences between approaches. Secondly, we cast the results into the context of the chaperone target network and show a distinct relationship between abundance of individual chaperones and their targets. This allows us to characterise the ‘throughput’ of protein molecules passing through individual chaperones and their groups on a proteome-wide scale in an unstressed model eukaryote for the first time. The results demonstrate specialisations of the chaperone classes, which display different overall workloads, efficiencies and preference for the sub-cellular localisation of their targets. The novel integration of the interactome data with quantification supports re-estimates of the level of protein throughout going through molecular chaperones. Additionally, although chaperones target fewer than 40% of annotated proteins we show that they mediate the folding of the majority of protein molecules (∼62% of the total protein flux in the cell), highlighting their importance. PMID:23420633

Pterodon pubescens oil: characterisation, certification of origin and quality control via mass spectrometry fingerprinting analysis.

PubMed

Cabral, E C; Sevart, L; Spindola, H M; Coelho, M B; Sousa, I M O; Queiroz, N C A; Foglio, M A; Eberlin, M N; Riveros, J M

2013-02-01

The oil obtained from Pterodon pubescens (Leguminosae) seeds are known to display anti-cancer, anti-dermatogenic and anti-nociceptive activitiy. Phytochemical studies have demonstrated that its main constituents are diterpenoids with voucapan skeletons. Considering the potential biological activities of the oil, rapid and efficient methods for assessing its quality would facilitate certification and quality control. To develop a direct mass spectrometric fingerprinting method for the P. pubescens seed oil that would focus on the major diterpenoids constituents, enabling quality control, origin certification and recognition of marker species in commercially available products. Two techniques were used: (i) direct infusion electrospray ionisation (ESI) mass spectrometry after solvent extraction and dilution and (ii) ambient desorption/ionisation via easy ambient sonic-spray ionisation, EASI(+)-MS, performed directly on the seed surface or at a paper surface imprinted with the oil. From a combination of ESI-MS, HRESI-MS and ESI-MS/MS data, 12 diterpenes were characterised, and typical profiles were obtained for the oil extract or the crude oil via both ESI-MS and EASI-MS. These techniques require no or very simple sample preparation protocols and the whole analytical processes with spectra acquisition take just a few minutes. Both techniques, but particularly EASI-MS, provide simple, fast and efficient MS fingerprinting methodologies to characterise the P. pubescens oil with typical (di)terpene profiles being applicable to quality control and certification of authenticity and origin. Copyright © 2012 John Wiley & Sons, Ltd.

Effect of image scaling and segmentation in digital rock characterisation

NASA Astrophysics Data System (ADS)

Jones, B. D.; Feng, Y. T.

2016-04-01

Digital material characterisation from microstructural geometry is an emerging field in computer simulation. For permeability characterisation, a variety of studies exist where the lattice Boltzmann method (LBM) has been used in conjunction with computed tomography (CT) imaging to simulate fluid flow through microscopic rock pores. While these previous works show that the technique is applicable, the use of binary image segmentation and the bounceback boundary condition results in a loss of grain surface definition when the modelled geometry is compared to the original CT image. We apply the immersed moving boundary (IMB) condition of Noble and Torczynski as a partial bounceback boundary condition which may be used to better represent the geometric definition provided by a CT image. The IMB condition is validated against published work on idealised porous geometries in both 2D and 3D. Following this, greyscale image segmentation is applied to a CT image of Diemelstadt sandstone. By varying the mapping of CT voxel densities to lattice sites, it is shown that binary image segmentation may underestimate the true permeability of the sample. A CUDA-C-based code, LBM-C, was developed specifically for this work and leverages GPU hardware in order to carry out computations.

The importance of mineralogical input into geometallurgy programs

USGS Publications Warehouse

Hoal, K. Olson; Woodhead, J.D.; Smith, Kathleen S.

2013-01-01

Mineralogy is the link between ore formation and ore extraction. It is the most fundamental component of geomet programs, and the most important aspect of a life-of-project approach to mineral resource projects. Understanding orebodies is achieved by understanding the mineralogy and texture of the materials, throughout the process, because minerals hold the information required to unlock the value they contain. Geomet mineralogy programs absolutely require the appropriate expertise and at least three steps of mineral characterisation prior to using semi-automated or other methods: field examination, thorough core logging, and optical microscopy. Economic geological inputs for orebody characterisation are necessary for orebody understanding, and are exemplified by current research in the Zambian Copperbelt, where revised sequence stratigraphy and understanding of alteration, metasomatism and metamorphism can be used to predict topical issues at mine sites. Environmental inputs for sustainability characterisation are demonstrated by recent work on tailings from the Leadville, Colorado, USA area, including linking mineralogy to water quality issues. Risk assessments need to take into account the technical uncertainties around geological variability and mineral extractability, and mineralogy is the only metric that can be used to make this risk contribution.

A Versatile Strategy for the Semisynthetic Production of Ser65 Phosphorylated Ubiquitin and Its Biochemical and Structural Characterisation

PubMed Central

Han, Cong; Pao, Kuan-Chuan; Kazlauskaite, Agne; Muqit, Miratul M K; Virdee, Satpal

2015-01-01

Ubiquitin phosphorylation is emerging as an important regulatory layer in the ubiquitin system. This is exemplified by the phosphorylation of ubiquitin on Ser65 by the Parkinson's disease-associated kinase PINK1, which mediates the activation of the E3 ligase Parkin. Additional phosphorylation sites on ubiquitin might also have important cellular roles. Here we report a versatile strategy for preparing phosphorylated ubiquitin. We biochemically and structurally characterise semisynthetic phospho-Ser65-ubiquitin. Unexpectedly, we observed disulfide bond formation between ubiquitin molecules, and hence a novel crystal form. The method outlined provides a direct approach to study the combinatorial effects of phosphorylation on ubiquitin function. Our analysis also suggests that disulfide engineering of ubiquitin could be a useful strategy for obtaining alternative crystal forms of ubiquitin species thereby facilitating structural validation. PMID:26010437

Infaunal Benthic Communities from the Inner Shelf off Southwestern Africa Are Characterised by Generalist Species

PubMed Central

Steffani, Nina; Sedick, Safiyya; Rogers, John; Gibbons, Mark John

2015-01-01

Infaunal communities of benthic macro-organisms (≥ 1mm length) were studied from 81 samples collected across nine sites to the north and south of the Orange River in the Benguela upwelling ecosystem in 2003, with a view to describing communities and understanding the drivers of regional community structure, as well as to document diversity and to examine geographic affinities. Although the fauna was dominated by polychaetes and peracarid crustaceans, patterns in community structure could only weakly be explained by the measured environment (~35%). This is attributed to the generalist nature of the species recovered, which were widely distributed amongst different sediments, water-depths and latitudes. The fauna is dominated by species that enjoy a widespread regional and global distribution and is characterised by relatively low diversity, which is discussed. PMID:26618477

Vulnerability of sandy coasts to climate change and anthropic pressures: methodology and preliminary results

NASA Astrophysics Data System (ADS)

Idier, D.; Poumadère, M.; Vinchon, C.; Romieu, E.; Oliveros, C.

2009-04-01

1-INTRODUCTION Climate change is considered in the latest reports of the Intergovernmental Panel on Climate Change IPCC (2007) as unequivocal. Induced vulnerability of the system is defined as "the combination of sensitivity to climatic variations, probability of adverse effects, and adaptive capacity". Substantial methodological challenges remain, in particular estimating the risk of adverse climate change impacts and interpreting relative vulnerability across diverse situations. As stated by the IPCC, the "coastal systems should be considered vulnerable to changes in climate". In these areas, amongst the most serious impacts of sea-level rise (Nicholls, 1996) are erosion and marine inundation. Thus, the coast of metropolitan France, being composed of 31% sandy coasts, is potentially vulnerable, as it has been qualitatively assessed on the pilot coasts of Aquitaine and Languedoc-Roussillon in the RESPONSE project (Vinchon et al., 2008). Within the ANR VULSACO project (VULnerability of SAndy COast to climate change and anthropic pressure), the present day erosion tendencies as well as the potentially future erosion trends are investigated. The main objectives are to: (1) assess indicators of vulnerability to climate change for low-lying linear sandy coastal systems, from the shore to the hinterland, facing undergoing climate change and anthropic pressure until the 2030s; and (2) identify the aggravating or improving effect of human pressure on this vulnerability. This second issue is sometimes considered as a main driver of coastal risks. The methodology proposed in the project considers anthropic adaptation (or not) by putting decision makers in front of potential modifications of the physical system, to study the decision process and the choice of adaptation (or not). The coastal system is defined by its morphology, its physical characteristics and its land use. The time scales will range from short-term (days to weeks, e.g. time scale of extreme events) to medium-term (decades), whereas the space scales range from several tens of meters to several tens of kilometers. The project is based on the study of representative coastal units: 4 sites characterised by low-lying linear sandy beaches but different, representative, hydrodynamic and socio-economic environments. These sites are located in: Mediterranean Sea (Lido of Sète), Atlantic coast (Truc Vert beach and Noirmoutier island) and English channel coast (Est of Dunkerque). Each of these sites is studied following the same methodology, on both the physical and socio-economic dimensions, the aim being to identify vulnerability indicators regarding climate change and anthropic pressure. 2 - METHODOLOGY The work is based on the following methodology, for every site: 1) The compartments of the unit are defined: shoreface, coastline, backshore, hinterland, from a physical and socio-economical point of view. 2) The available data are analysed in order to provide some information on the present trend of the coastal unit, regarding climate change and anthropic pressure, but also to support the model validation. 3) The vulnerability is studied. On one hand, the socio-economic dimension is assessed and, in a risk governance perspective, stake holders are identified and involved. This part of the project combines the study of social perceptions of dangers along with a deliberative workshop. On the other hand, numerical models of the physical behaviour of shoreface and coastline are applied. The selected models cover a time scale from short-term (storm time scale) to long-term (decades). Then, vulnerability can be studied: the vulnerability of coast/beach is defined and studied based on in-situ observations and model results. Most of these models needs some forcing conditions (waves at the boundary of the computational domains for instance). The present day conditions can be potentially modified by climate change. However, the model and literature review on climate change show that the few prediction of wave conditions available for the future deal mainly with the significant wave height, and not so much with the wave direction or period. To compensate this lack of knowledge, a sensitivity study is done to get information on the possible changes within the next decades (2030). It consists in studying the influence of a modification in the characteristics of the present day forcing conditions(like waves) within a reasonable magnitude order. 4) The anthropic pressure is taken into account as a modulator of the physical vulnerability. In each context, participative techniques are used to involve representatives of the main stakeholder groups into decision-making simulations. The scenario of a storm in 2030 is adopted to provide structured interactions during the workshop. Along with socio-economic projections, this simulation relies upon a fictive journal article written on the basis of the model outputs. These methodological choices aim at better understanding how decisions are made by stake holders dealing with risks and scientific uncertainty. Some applied results on the study sites will be presented at the EGU. ACKNOWLEDGEMENTS The VULSACO project is financially supported by the ANR (French National Research Agency) within the Vulnérabilité-Milieux-Climat programm.

A non-intrusive screening methodology for environmental hazard assessment at waste disposal sites for water resources protection

DOE Office of Scientific and Technical Information (OSTI.GOV)

Simons, B.A.; Woldt, W.E.; Jones, D.D.

The environmental and health risks posed by unregulated waste disposal sites are potential concerns of Pacific Rim regions and island ares because of the need to protect aquifers and other valuable water resources. A non-intrusive screening methodology to determine site characteristics including possible soil and/or groundwater contamination, areal extent of waste, etc. is being developed and tested at waste disposal sites in Nebraska. This type of methodology would be beneficial to Pacific Rim regions in investigating and/or locating unknown or poorly documented contamination areas for hazard assessment and groundwater protection. Traditional assessment methods are generally expensive, time consuming, and potentiallymore » exacerbate the problem. Ideally, a quick and inexpensive assessment method to reliably characterize these sites is desired. Electromagnetic (EM) conductivity surveying and soil-vapor sampling techniques, combined with innovative three-dimensional geostatistical methods are used to map the data to develop a site characterization of the subsurface and to aid in tracking any contaminant plumes. The EM data is analyzed to determine/estimate the extent and volume of waste and/or leachate. Soil-vapor data are analyzed to estimate a site`s volatile organic compound (VOC) emission rate to the atmosphere. The combined information could then be incorporated as one part of an overall hazard assessment system.« less

Indirect calculation of monoclonal antibodies in nanoparticles using the radiolabeling process with technetium 99 metastable as primary factor: Alternative methodology for the entrapment efficiency.

PubMed

Helal-Neto, Edward; Cabezas, Santiago Sánchez; Sancenón, Félix; Martínez-Máñez, Ramón; Santos-Oliveira, Ralph

2018-05-10

The use of monoclonal antibodies (Mab) in the current medicine is increasing. Antibody-drug conjugates (ADCs) represents an increasingly and important modality for treating several types of cancer. In this area, the use of Mab associated with nanoparticles is a valuable strategy. However, the methodology used to calculate the Mab entrapment, efficiency and content is extremely expensive. In this study we developed and tested a novel very simple one-step methodology to calculate monoclonal antibody entrapment in mesoporous silica (with magnetic core) nanoparticles using the radiolabeling process as primary methodology. The magnetic core mesoporous silica were successfully developed and characterised. The PXRD analysis at high angles confirmed the presence of magnetic cores in the structures and transmission electron microscopy allowed to determine structures size (58.9 ± 8.1 nm). From the isotherm curve, a specific surface area of 872 m 2 /g was estimated along with a pore volume of 0.85 cm 3 /g and an average pore diameter of 3.15 nm. The radiolabeling process to proceed the indirect determination were well-done. Trastuzumab were successfully labeled (>97%) with Tc-99m generating a clear suspension. Besides, almost all the Tc-99m used (labeling the trastuzumab) remained trapped in the surface of the mesoporous silica for a period as long as 8 h. The indirect methodology demonstrated a high entrapment in magnetic core mesoporous silica surface of Tc-99m-traztuzumab. The results confirmed the potential use from the indirect entrapment efficiency methodology using the radiolabeling process, as a one-step, easy and cheap methodology. Copyright © 2018 Elsevier B.V. All rights reserved.

Design and use of nanostructured single-site heterogeneous catalysts for the selective transformation of fine chemicals.

PubMed

Dal Santo, Vladimiro; Liguori, Francesca; Pirovano, Claudio; Guidotti, Matteo

2010-05-26

Nanostructured single-site heterogeneous catalysts possess the advantages of classical solid catalysts, in terms of easy recovery and recycling, together with a defined tailored chemical and steric environment around the catalytically active metal site. The use of inorganic oxide supports with selected shape and porosity at a nanometric level may have a relevant impact on the regio- and stereochemistry of the catalytic reaction. Analogously, by choosing the optimal preparation techniques to obtain spatially isolated and well-characterised active sites, it is possible to achieve performances that are comparable to (or, in the most favourable cases, better than) those obtained with homogeneous systems. Such catalysts are therefore particularly suitable for the transformation of highly-functionalised fine chemicals and some relevant examples where high chemo-, regio- and stereoselectivity are crucial will be described.

A Comparison of two Brunhes Chron Geomagnetic Excursions Recorded by Neighbouring North Atlantic Sites (ODP Sites 1062 and 1063)

NASA Astrophysics Data System (ADS)

Bourne, M.; Mac Niocaill, C.; Knudsen, M. F.; Thomas, A. L.; Henderson, G. M.

2012-04-01

A full picture of geomagnetic field behaviour during the Blake excursion is currently limited by a paucity of robust, high-resolution records of this ambiguous event. Some records seem to point towards a 'double-excursion' character whilst others fail to record the Blake excursion at all. We present here a high-resolution record of the Blake excursion obtained from Ocean Drilling Program (ODP) Site 1062 on the Blake Outer Ridge (ODP Leg 172). Palaeomagnetic measurements in three cores reveal a single excursional feature associated with a broad palaeointensity low, characterised by rapid transitions (less than 500 years) between a stable normal polarity and a fully-reversed, pseudo-stable polarity. A relatively high sedimentation rate (~10 cm kyr-1) allows the determination of transitional field behaviour during the excursion. Rather than assuming a constant sedimentation rate between assigned age tie-points, we employ measurements of 230Thxs concentrations in the sediment to assess variations in the sedimentation rates through the core sections of interest. This allows us to determine an age and duration for the two excursions with greater accuracy and known uncertainty. Our new age model gives an age of 127 ka for the midpoint of the Blake event at Site 1062. The age model also gives a duration for the directional excursion of 7.1±1.6 kyr. This duration is similar to that previously reported for the Iceland Basin Excursion (~185 ka) from the nearby Bermuda Rise (ODP Site 1063), which recorded a ~7-8 kyr event. Similarly, a high sedimentation rate (10-15 cm kyr-1) at this site allows a high-resolution reconstruction of the geomagnetic field behaviour during the Iceland Basin Excursion. The Site 1063 palaeomagnetic record suggests more complicated behaviour than that of the Blake excursion at Site 1062. Instead, transitional VGP paths are characterised by stop-and-go behaviour between VGP clusters that may be related to long-standing thermo-dynamic features of the core-mantle system. The long duration of fully reversed directions at the two sites is somewhat longer than that typically assumed for excursions and appears to suggest that there may be a degree of stability associated with the two excursional events. We will present a comparison of the geomagnetic field behaviour of the two excursions as recorded at these two sites.

Controlling allosteric networks in proteins

NASA Astrophysics Data System (ADS)

Dokholyan, Nikolay

2013-03-01

We present a novel methodology based on graph theory and discrete molecular dynamics simulations for delineating allosteric pathways in proteins. We use this methodology to uncover the structural mechanisms responsible for coupling of distal sites on proteins and utilize it for allosteric modulation of proteins. We will present examples where inference of allosteric networks and its rewiring allows us to ``rescue'' cystic fibrosis transmembrane conductance regulator (CFTR), a protein associated with fatal genetic disease cystic fibrosis. We also use our methodology to control protein function allosterically. We design a novel protein domain that can be inserted into identified allosteric site of target protein. Using a drug that binds to our domain, we alter the function of the target protein. We successfully tested this methodology in vitro, in living cells and in zebrafish. We further demonstrate transferability of our allosteric modulation methodology to other systems and extend it to become ligh-activatable.

Identificación de objetos extensos en el VVV

NASA Astrophysics Data System (ADS)

Baravalle, L.; Alonso, M. V.; Nilo Castellón, J. L.; Minniti, D.

2017-10-01

The Vista Variables en la Via Lactea (VVV) is an ESO public survey in the near infrared of the bulge and southern mid-plane of the Milky Way. The main goal of the VVV is the study of the stellar population and variable stars but it can also be useful for extragalactic investigations behind the Galaxy. Using the VVV images and the combination of SExtractor + PSFEx, we have obtained astrometric and photometric data of two peripheric regions of the Galactic disk. Our goal is to identify and characterise the extragalactic sources. In this work we show our detection algorithm and adopted methodology.

Can ecological history influence immunomarker responses and antioxidant enzyme activities in bivalves that have been experimentally exposed to contaminants? A new subject for discussion in "eco-immunology" studies.

PubMed

Matozzo, Valerio; Giacomazzo, Matteo; Finos, Livio; Marin, Maria Gabriella; Bargelloni, Luca; Milan, Massimo

2013-07-01

Numerous studies have demonstrated that environmental parameters affect bivalve immunomarkers. In the present study, we tested the hypothesis that clams (Venerupis philippinarum) collected in sites with different environmental conditions respond differently to experimental contaminant exposure. Clams were collected at two sites within the Lagoon of Venice that are influenced differently by both anthropogenic impact and natural conditions: Marghera, which is characterised by relatively high contamination levels and restricted clam fishing, and Chioggia, which is inside a licensed clam culture area that is characterised by lower contamination levels. Total haemocyte count, haemocyte diameter and volume, lysozyme activity in both haemocyte lysate and cell-free haemolymph, superoxide dismutase and catalase activities in gills and digestive glands were measured at time 0 (clam sampling time), after 7 days of acclimation in the laboratory and after 1, 3 and 7 days of copper exposure. Interestingly, statistical analyses (three-way ANOVA and Canonical Correlation Analysis) revealed persistent differences in the biological responses of clams from the two sampling sites before and after copper exposure. Conversely, the influence of copper on cellular and biochemical parameters was negligible. Overall, the results obtained indicated that animals with a different ecological history respond differently to experimental contaminant exposure. In addition, this study suggested that immunomarkers and other biomarkers might be used to determine the origin of fishing products. Copyright © 2013 Elsevier Ltd. All rights reserved.

A Comparative Approach for Ranking Contaminated Sites Based on the Risk Assessment Paradigm Using Fuzzy PROMETHEE

NASA Astrophysics Data System (ADS)

Zhang, Kejiang; Kluck, Cheryl; Achari, Gopal

2009-11-01

A ranking system for contaminated sites based on comparative risk methodology using fuzzy Preference Ranking Organization METHod for Enrichment Evaluation (PROMETHEE) was developed in this article. It combines the concepts of fuzzy sets to represent uncertain site information with the PROMETHEE, a subgroup of Multi-Criteria Decision Making (MCDM) methods. Criteria are identified based on a combination of the attributes (toxicity, exposure, and receptors) associated with the potential human health and ecological risks posed by contaminated sites, chemical properties, site geology and hydrogeology and contaminant transport phenomena. Original site data are directly used avoiding the subjective assignment of scores to site attributes. When the input data are numeric and crisp the PROMETHEE method can be used. The Fuzzy PROMETHEE method is preferred when substantial uncertainties and subjectivities exist in site information. The PROMETHEE and fuzzy PROMETHEE methods are both used in this research to compare the sites. The case study shows that this methodology provides reasonable results.

A comparative approach for ranking contaminated sites based on the risk assessment paradigm using fuzzy PROMETHEE.

PubMed

Zhang, Kejiang; Kluck, Cheryl; Achari, Gopal

2009-11-01

A ranking system for contaminated sites based on comparative risk methodology using fuzzy Preference Ranking Organization METHod for Enrichment Evaluation (PROMETHEE) was developed in this article. It combines the concepts of fuzzy sets to represent uncertain site information with the PROMETHEE, a subgroup of Multi-Criteria Decision Making (MCDM) methods. Criteria are identified based on a combination of the attributes (toxicity, exposure, and receptors) associated with the potential human health and ecological risks posed by contaminated sites, chemical properties, site geology and hydrogeology and contaminant transport phenomena. Original site data are directly used avoiding the subjective assignment of scores to site attributes. When the input data are numeric and crisp the PROMETHEE method can be used. The Fuzzy PROMETHEE method is preferred when substantial uncertainties and subjectivities exist in site information. The PROMETHEE and fuzzy PROMETHEE methods are both used in this research to compare the sites. The case study shows that this methodology provides reasonable results.

Determining rotational dynamics of the guanidino group of arginine side chains in proteins by carbon-detected NMR.

PubMed

Gerecht, Karola; Figueiredo, Angelo Miguel; Hansen, D Flemming

2017-09-16

Arginine residues are imperative for many active sites and protein-interaction interfaces. A new NMR-based method is presented to determine the rotational dynamics around the N ε -C ζ bond of arginine side chains. An application to a 19 kDa protein shows that the strengths of interactions involving arginine side chains can be characterised.

Characterising the transport and preservation of microbial tetraether membrane lipids in Karst Systems

NASA Astrophysics Data System (ADS)

Jex, C.; Blyth, A. J.; Baker, A.; Mcdonald, J. A.; Woltering, M.; Khan, S. J.

2013-12-01

Stalagmites have the potential to preserve organic biomarkers, proxies for changes in surface climate. Of particular interest is a class of microbial-derived lipids, the glycerol dialkyl glycerol tetraetheral (GDGT) lipids, which have been identified in cave deposits (Yang et al. 2011). Speleothem GDGT composition has been demonstrated to correlate with surface air temperature using the achaea derived isoprenoid ';(i)GDGT' index of TEX86 and the bacteria derived branched ';(b)GDGT' index of MBT/CBT of modern speleothem samples (Blyth & Schouten, 2013), indicating considerable potential for paleo-temperature reconstructions. These studies have suggested two competing sources for GDGTs in karst systems: 1) A soil derived microbial signal dominated by bGDGTs and 2) An in situ signal dominated by iGDGTs, representative of achaea existing within the cave or overlying bedrock, which dominates the speleothem signal. These findings are yet to be thoroughly tested by characterising the seasonal and spatial nature of GDGTs within caves to establish their sources and transport pathways within these complex fractured rock systems. We address this by presenting the preliminary results of a monitoring study of GDGTs within a single cave system, in South East Australia. Harrie Wood cave in Kosciusko national park is a high altitude, semi-arid site, dominated by discrete infiltration events throughout the year. Above the cave there are thin soils consisting of loose shallow scree, steep slopes and sparse shrub vegetation. We present data obtained from waters and soils immediately above and within Harrie Wood as well as in situ collection of GDGTs formed on filter papers left inside the cave throughout the year. A second cave within the same system provides contrasting surface conditions: thick red clays of moderate to no slope and Eucalypt dominated forest. As such these caves provide ideal test sites to characterise the variability in GDGT signals that may be a result of non-temperature related factors, including varying inputs (groundwater vs. in situ growth) or site specific hydrological conditions. Blyth, A.J., Schouten, S., 2013. Geochimica et Cosmochimica Acta 109, 312-328. Yang, H. et al. 2011. Organic Geochemistry 42, 108-115.

A novel W1999S mutation and non-target site resistance impact on acetyl-CoA carboxylase inhibiting herbicides to varying degrees in a UK Lolium multiflorum population.

PubMed

Kaundun, Shiv Shankhar; Bailly, Geraldine C; Dale, Richard P; Hutchings, Sarah-Jane; McIndoe, Eddie

2013-01-01

Acetyl-CoA carboxylase (ACCase) inhibiting herbicides are important products for the post-emergence control of grass weed species in small grain cereal crops. However, the appearance of resistance to ACCase herbicides over time has resulted in limited options for effective weed control of key species such as Lolium spp. In this study, we have used an integrated biological and molecular biology approach to investigate the mechanism of resistance to ACCase herbicides in a Lolium multiflorum Lam. from the UK (UK21). The study revealed a novel tryptophan to serine mutation at ACCase codon position 1999 impacting on ACCase inhibiting herbicides to varying degrees. The W1999S mutation confers dominant resistance to pinoxaden and partially recessive resistance to cycloxydim and sethoxydim. On the other hand, plants containing the W1999S mutation were sensitive to clethodim and tepraloxydim. Additionally population UK21 is characterised by other resistance mechanisms, very likely non non-target site based, affecting several aryloxyphenoxyproprionate (FOP) herbicides but not the practical field rate of pinoxaden. The positive identification of wild type tryptophan and mutant serine alleles at ACCase position 1999 could be readily achieved with an original DNA based derived cleaved amplified polymorphic sequence (dCAPS) assay that uses the same PCR product but two different enzymes for positively identifying the wild type tryptophan and mutant serine alleles identified here. This paper highlights intrinsic differences between ACCase inhibiting herbicides that could be exploited for controlling ryegrass populations such as UK21 characterised by compound-specific target site and non-target site resistance.

Engineering aspects of the Large Binocular Telescope Observatory adaptive optics systems

NASA Astrophysics Data System (ADS)

Brusa, Guido; Ashby, Dave; Christou, Julian C.; Kern, Jonathan; Lefebvre, Michael; McMahon, Tom J.; Miller, Douglas; Rahmer, Gustavo; Sosa, Richard; Taylor, Gregory; Vogel, Conrad; Zhang, Xianyu

2016-07-01

Vertical profiles of the atmospheric optical turbulence strength and velocity is of critical importance for simulating, designing, and operating the next generation of instruments for the European Extremely Large Telescope. Many of these instruments are already well into the design phase meaning these profies are required immediately to ensure they are optimised for the unique conditions likely to be observed. Stereo-SCIDAR is a generalised SCIDAR instrument which is used to characterise the profile of the atmospheric optical turbulence strength and wind velocity using triangulation between two optical binary stars. Stereo-SCIDAR has demonstrated the capability to resolve turbulent layers with the required vertical resolution to support wide-field ELT instrument designs. These high resolution atmospheric parameters are critical for design studies and statistical evaluation of on-sky performance under real conditions. Here we report on the new Stereo-SCIDAR instrument installed on one of the Auxillary Telescope ports of the Very Large Telescope array at Cerro Paranal. Paranal is located approximately 20 km from Cerro Armazones, the site of the E-ELT. Although the surface layer of the turbulence will be different for the two sites due to local geography, the high-altitude resolution profiles of the free atmosphere from this instrument will be the most accurate available for the E-ELT site. In addition, these unbiased and independent profiles are also used to further characterise the site of the VLT. This enables instrument performance calibration, optimisation and data analysis of, for example, the ESO Adaptive Optics facility and the Next Generation Transit Survey. It will also be used to validate atmospheric models for turbulence forecasting. We show early results from the commissioning and address future implications of the results.

Modelling of Earthquake Ground Response in the Maltese Islands Using Results from Geophysical Investigations

NASA Astrophysics Data System (ADS)

Farrugia, D.; Galea, P. M.; D'Amico, S.

2016-12-01

The Maltese archipelago is characterised by a four layer sequence of limestones and clays. The Lower Coralline Limestone is the oldest exposed layer, overlain by the Globigerina Limestone. Some parts of the islands are characterised by Upper Coralline Limestone plateaus and hillcaps covering a soft Blue Clay layer which can be up to 75 m thick. The BC layer introduces a velocity inversion in the stratigraphy, and makes the Vs30 parameter not always suitable for seismic microzonation purposes. Such a layer may still produce amplification effects, however would not contribute to the numerical mean of Vs in the upper 30m. In this study, site response analysis for the Maltese islands is conducted, with particular attention being given to sites described above. Array and single-station measurements of ambient noise were first carried out at numerous sites in Malta. Surface wave dispersion and H/V curves were jointly inverted using a genetic algorithm, so that the Vs profiles were obtained. The stochastic extended-fault algorithm EXSIM was used to simulate historical and recent earthquakes at the bedrock. These were used in conjunction with the equivalent-linear programme SHAKE2000 to carry out the site-specific response analysis, using the derived geophysical models. Maps of ground motion parameters, such as peak ground acceleration and spectral accelerations, confirm that the clay, even when buried under a hard outcropping layer can still produce significant amplifications at frequencies which are of engineering interest when considering the recent urbanisation patterns. The results of this project will give important, and previously unavailable information and predictions about the behaviour of local lithotypes in response to earthquake ground shaking while also contributing knowledge about the issue of buried low velocity layers.

Seafloor massive sulfide deposits support unique megafaunal assemblages: Implications for seabed mining and conservation.

PubMed

Boschen, Rachel E; Rowden, Ashley A; Clark, Malcolm R; Pallentin, Arne; Gardner, Jonathan P A

2016-04-01

Mining of seafloor massive sulfides (SMS) is imminent, but the ecology of assemblages at SMS deposits is poorly known. Proposed conservation strategies include protected areas to preserve biodiversity at risk from mining impacts. Determining site suitability requires biological characterisation of the mine site and protected area(s). Video survey of a proposed mine site and protected area off New Zealand revealed unique megafaunal assemblages at the mine site. Significant relationships were identified between assemblage structure and environmental conditions, including hydrothermal features. Unique assemblages occurred at both active and inactive chimneys and are particularly at risk from mining-related impacts. The occurrence of unique assemblages at the mine site suggests that the proposed protected area is insufficient alone and should instead form part of a network. These results provide support for including hydrothermally active and inactive features within networks of protected areas and emphasise the need for quantitative survey data of proposed sites. Copyright © 2016 The Authors. Published by Elsevier Ltd.. All rights reserved.

New characterisation method of electrical and electronic equipment wastes (WEEE).

PubMed

Menad, N; Guignot, S; van Houwelingen, J A

2013-03-01

Innovative separation and beneficiation techniques of various materials encountered in electrical and electronic equipment wastes (WEEE) is a major improvement for its recycling. Mechanical separation-oriented characterisation of WEEE was conducted in an attempt to evaluate the amenability of mechanical separation processes. Properties such as liberation degree of fractions (plastics, metals ferrous and non-ferrous), which are essential for mechanical separation, are analysed by means of a grain counting approach. Two different samples from different recycling industries were characterised in this work. The first sample is a heterogeneous material containing different types of plastics, metals (ferrous and non-ferrous), printed circuit board (PCB), rubber and wood. The second sample contains a mixture of mainly plastics. It is found for the first sample that all aluminium particles are free (100%) in all investigated size fractions. Between 92% and 95% of plastics are present as free particles; however, 67% in average of ferromagnetic particles are liberated. It can be observed that only 42% of ferromagnetic particles are free in the size fraction larger than 20mm. Particle shapes were also quantified manually particle by particle. The results show that the particle shapes as a result of shredding, turn out to be heterogeneous, thereby complicating mechanical separation processes. In addition, the separability of various materials was ascertained by a sink-float analysis and eddy current separation. The second sample was separated by automatic sensor sorting in four different products: ABS, PC-ABS, PS and rest product. The fractions were characterised by using the methodology described in this paper. The results show that the grade and liberation degree of the plastic products ABS, PC-ABS and PS are close to 100%. Sink-float separation and infrared plastic identification equipment confirms the high plastic quality. On the basis of these findings, a global separation flow sheet is proposed to improve the plastic separation of WEEE. Copyright © 2012 Elsevier Ltd. All rights reserved.

Installation Restoration Program Records Search for Kingsley Field, Oregon.

DTIC Science & Technology

1982-06-01

Hazardous Assesment Rating Methodology (HARM), is now used for all Air Force IRP studies. To maintain consistency, AFESC had their on-call contractors review...Installation History D. Industrial Facilities E. POL Storage Tanks F. Abandoned Tanks G. Oil/Water Separators :" H. Site Hazard Rating Methodology I. Site...and implementing regulations. The pur- pose of DOD policy is to control the migration of hazardous material contaminants from DOD installations. 3

Methodologies for Crawler Based Web Surveys.

ERIC Educational Resources Information Center

Thelwall, Mike

2002-01-01

Describes Web survey methodologies used to study the content of the Web, and discusses search engines and the concept of crawling the Web. Highlights include Web page selection methodologies; obstacles to reliable automatic indexing of Web sites; publicly indexable pages; crawling parameters; and tests for file duplication. (Contains 62…

2.5D change detection from satellite imagery to monitor small-scale mining activities in the Democratic Republic of the Congo

NASA Astrophysics Data System (ADS)

Kranz, Olaf; Lang, Stefan; Schoepfer, Elisabeth

2017-09-01

Mining natural resources serve fundamental societal needs or commercial interests, but it may well turn into a driver of violence and regional instability. In this study, very high resolution (VHR) optical stereo satellite data are analysed to monitor processes and changes in one of the largest artisanal and small-scale mining sites in the Democratic Republic of the Congo, which is among the world's wealthiest countries in exploitable minerals To identify the subtle structural changes, the applied methodological framework employs object-based change detection (OBCD) based on optical VHR data and generated digital surface models (DSM). Results prove the DSM-based change detection approach enhances the assessment gained from sole 2D analyses by providing valuable information about changes in surface structure or volume. Land cover changes as analysed by OBCD reveal an increase in bare soil area by a rate of 47% between April 2010 and September 2010, followed by a significant decrease of 47.5% until March 2015. Beyond that, DSM differencing enabled the characterisation of small-scale features such as pits and excavations. The presented Earth observation (EO)-based monitoring of mineral exploitation aims at a better understanding of the relations between resource extraction and conflict, and thus providing relevant information for potential mitigation strategies and peace building.

Characterisation of Arctic Bacterial Communities in the Air above Svalbard

PubMed Central

Cuthbertson, Lewis; Amores-Arrocha, Herminia; Malard, Lucie A.; Els, Nora; Sattler, Birgit; Pearce, David A.

2017-01-01

Atmospheric dispersal of bacteria is increasingly acknowledged as an important factor influencing bacterial community biodiversity, biogeography and bacteria–human interactions, including those linked to human health. However, knowledge about patterns in microbial aerobiology is still relatively scarce, and this can be attributed, in part, to a lack of consensus on appropriate sampling and analytical methodology. In this study, three different methods were used to investigate aerial biodiversity over Svalbard: impaction, membrane filtration and drop plates. Sites around Svalbard were selected due to their relatively remote location, low human population, geographical location with respect to air movement and the tradition and history of scientific investigation on the archipelago, ensuring the presence of existing research infrastructure. The aerial bacterial biodiversity found was similar to that described in other aerobiological studies from both polar and non-polar environments, with Proteobacteria, Actinobacteria, and Firmicutes being the predominant groups. Twelve different phyla were detected in the air collected above Svalbard, although the diversity was considerably lower than in urban environments elsewhere. However, only 58 of 196 bacterial genera detected were consistently present, suggesting potentially higher levels of heterogeneity. Viable bacteria were present at all sampling locations, showing that living bacteria are ubiquitous in the air around Svalbard. Sampling location influenced the results obtained, as did sampling method. Specifically, impaction with a Sartorius MD8 produced a significantly higher number of viable colony forming units (CFUs) than drop plates alone. PMID:28481257

Characterisation of Liquefaction Effects for Beyond-Design Basis Safety Assessment of Nuclear Power Plants

NASA Astrophysics Data System (ADS)

Bán, Zoltán; Győri, Erzsébet; János Katona, Tamás; Tóth, László

2015-04-01

Preparedness of nuclear power plants to beyond design base external effects became high importance after 11th of March 2011 Great Tohoku Earthquakes. In case of some nuclear power plants constructed at the soft soil sites, liquefaction should be considered as a beyond design basis hazard. The consequences of liquefaction have to be analysed with the aim of definition of post-event plant condition, identification of plant vulnerabilities and planning the necessary measures for accident management. In the paper, the methodology of the analysis of liquefaction effects for nuclear power plants is outlined. The case of Nuclear Power Plant at Paks, Hungary is used as an example for demonstration of practical importance of the presented results and considerations. Contrary to the design, conservatism of the methodology for the evaluation of beyond design basis liquefaction effects for an operating plant has to be limited to a reasonable level. Consequently, applicability of all existing methods has to be considered for the best estimation. The adequacy and conclusiveness of the results is mainly limited by the epistemic uncertainty of the methods used for liquefaction hazard definition and definition of engineering parameters characterizing the consequences of liquefaction. The methods have to comply with controversial requirements. They have to be consistent and widely accepted and used in the practice. They have to be based on the comprehensive database. They have to provide basis for the evaluation of dominating engineering parameters that control the post-liquefaction response of the plant structures. Experience of Kashiwazaki-Kariwa plant hit by Niigata-ken Chuetsu-oki earthquake of 16 July 2007 and analysis of site conditions and plant layout at Paks plant have shown that the differential settlement is found to be the dominating effect in case considered. They have to be based on the probabilistic seismic hazard assessment and allow the integration into logic-tree procedure. Earlier studies have shown that the potentially liquefiable layer at Paks Nuclear Power Plant is situated in relatively large depth. Therefore the applicability and adequacy of the methods at high overburden pressure is important. In case of existing facilities, the geotechnical data gained before construction aren't sufficient for the comprehensive liquefaction analysis. Performance of new geotechnical survey is limited. Consequently, the availability of the data has to be accounted while selection the analysis methods. Considerations have to be made for dealing with aleatory uncertainty related to the knowledge of the soil conditions. It is shown in the paper, a careful comparison and analysis of the results obtained by different methodologies provides the basis of the selection of practicable methods for the safety analysis of nuclear power plant for beyond design basis liquefaction hazard.

Chloroplast parameters differ in wild type and transgenic poplars overexpressing gsh1 in the cytosol.

PubMed

Ivanova, L A; Ronzhina, D A; Ivanov, L A; Stroukova, L V; Peuke, A D; Rennenberg, H

2009-07-01

Poplar mutants overexpressing the bacterial genes gsh1 or gsh2 encoding the enzymes of glutathione biosynthesis are among the best-characterised transgenic plants. However, this characterisation originates exclusively from laboratory studies, and the performance of these mutants under field conditions is largely unknown. Here, we report a field experiment in which the wild-type poplar hybrid Populus tremula x P. alba and a transgenic line overexpressing the bacterial gene gsh1 encoding gamma-glutamylcysteine synthetase in the cytosol were grown for 3 years at a relatively clean (control) field site and a field site contaminated with heavy metals. Aboveground biomass accumulation was slightly smaller in transgenic compared to wild-type plants; soil contamination significantly decreased biomass accumulation in both wild-type and transgenic plants by more than 40%. Chloroplasts parameters, i.e., maximal diameter, projection area and perimeter, surface area and volume, surface/volume ratio and a two-dimensional form coefficient, were found to depend on plant type, leaf tissue and soil contamination. The greatest differences between wild and transgenic poplars were observed at the control site. Under these conditions, chloroplast sizes in palisade tissue of transgenic poplar significantly exceeded those of the wild type. In contrast to the wild type, palisade chloroplast volume exceeded that of spongy chloroplasts in transgenic poplars at both field sites. Chlorophyll content per chloroplast was the same in wild and transgenic poplars. Apparently, the increase in chloroplast volume was not connected to changes in the photosynthetic centres. Chloroplasts of transgenic poplar at the control site were more elongated in palisade cells and close to spherical in spongy mesophyll chloroplasts. At the contaminated site, palisade and spongy cell chloroplasts of leaves from transgenic trees and the wild type were the same shape. Transgenic poplars also had a smaller chloroplast surface/volume ratio, both at the control and the contaminated site. Chloroplast number per cell did not differ between wild and transgenic poplars at the control site. Soil contamination led to suppression of chloroplast replication in wild-type plants. From these results, we assume that overexpressing the bacterial gsh1 gene in the cytosol interacts with processes in the chloroplast and that sequestration of heavy metal phytochelatin complexes into the vacuole may partially counteract this interaction in plants grown at heavy metal-contaminated field sites. Further experiments are required to test these assumptions.

Harmonized clinical trial methodologies for localized cutaneous leishmaniasis and potential for extensive network with capacities for clinical evaluation

PubMed Central

Grogl, Max; Boni, Marina; Carvalho, Edgar M.; Chebli, Houda; Cisse, Mamoudou; Diro, Ermias; Fernandes Cota, Gláucia; Erber, Astrid C.; Gadisa, Endalamaw; Handjani, Farhad; Khamesipour, Ali; Llanos-Cuentas, Alejandro; López Carvajal, Liliana; Grout, Lise; Lmimouni, Badre Eddine; Mokni, Mourad; Nahzat, Mohammad Sami; Ben Salah, Afif; Ozbel, Yusuf; Pascale, Juan Miguel; Rizzo Molina, Nidia; Rode, Joelle; Romero, Gustavo; Ruiz-Postigo, José Antonio; Gore Saravia, Nancy; Soto, Jaime; Uzun, Soner; Mashayekhi, Vahid; Vélez, Ivan Dario; Vogt, Florian; Zerpa, Olga; Arana, Byron

2018-01-01

Introduction Progress with the treatment of cutaneous leishmaniasis (CL) has been hampered by inconsistent methodologies used to assess treatment effects. A sizable number of trials conducted over the years has generated only weak evidence backing current treatment recommendations, as shown by systematic reviews on old-world and new-world CL (OWCL and NWCL). Materials and methods Using a previously published guidance paper on CL treatment trial methodology as the reference, consensus was sought on key parameters including core eligibility and outcome measures, among OWCL (7 countries, 10 trial sites) and NWCL (7 countries, 11 trial sites) during two separate meetings. Results Findings and level of consensus within and between OWCL and NWCL sites are presented and discussed. In addition, CL trial site characteristics and capacities are summarized. Conclusions The consensus reached allows standardization of future clinical research across OWCL and NWCL sites. We encourage CL researchers to adopt and adapt as required the proposed parameters and outcomes in their future trials and provide feedback on their experience. The expertise afforded between the two sets of clinical sites provides the basis for a powerful consortium with potential for extensive, standardized assessment of interventions for CL and faster approval of candidate treatments. PMID:29329311

Incorporating linguistic, probabilistic, and possibilistic information in a risk-based approach for ranking contaminated sites.

PubMed

Zhang, Kejiang; Achari, Gopal; Pei, Yuansheng

2010-10-01

Different types of uncertain information-linguistic, probabilistic, and possibilistic-exist in site characterization. Their representation and propagation significantly influence the management of contaminated sites. In the absence of a framework with which to properly represent and integrate these quantitative and qualitative inputs together, decision makers cannot fully take advantage of the available and necessary information to identify all the plausible alternatives. A systematic methodology was developed in the present work to incorporate linguistic, probabilistic, and possibilistic information into the Preference Ranking Organization METHod for Enrichment Evaluation (PROMETHEE), a subgroup of Multi-Criteria Decision Analysis (MCDA) methods for ranking contaminated sites. The identification of criteria based on the paradigm of comparative risk assessment provides a rationale for risk-based prioritization. Uncertain linguistic, probabilistic, and possibilistic information identified in characterizing contaminated sites can be properly represented as numerical values, intervals, probability distributions, and fuzzy sets or possibility distributions, and linguistic variables according to their nature. These different kinds of representation are first transformed into a 2-tuple linguistic representation domain. The propagation of hybrid uncertainties is then carried out in the same domain. This methodology can use the original site information directly as much as possible. The case study shows that this systematic methodology provides more reasonable results. © 2010 SETAC.

Applying graphs and complex networks to football metric interpretation.

PubMed

Arriaza-Ardiles, E; Martín-González, J M; Zuniga, M D; Sánchez-Flores, J; de Saa, Y; García-Manso, J M

2018-02-01

This work presents a methodology for analysing the interactions between players in a football team, from the point of view of graph theory and complex networks. We model the complex network of passing interactions between players of a same team in 32 official matches of the Liga de Fútbol Profesional (Spain), using a passing/reception graph. This methodology allows us to understand the play structure of the team, by analysing the offensive phases of game-play. We utilise two different strategies for characterising the contribution of the players to the team: the clustering coefficient, and centrality metrics (closeness and betweenness). We show the application of this methodology by analyzing the performance of a professional Spanish team according to these metrics and the distribution of passing/reception in the field. Keeping in mind the dynamic nature of collective sports, in the future we will incorporate metrics which allows us to analyse the performance of the team also according to the circumstances of game-play and to different contextual variables such as, the utilisation of the field space, the time, and the ball, according to specific tactical situations. Copyright © 2017 Elsevier B.V. All rights reserved.

Inventory of geomorphosites with educational purposes in the Province of Málaga (South of Spain).

NASA Astrophysics Data System (ADS)

Martínez-Murillo, Juan F.; Ruiz-Sinoga, José D.; Ferre-Bueno, Emilio

2017-04-01

The geomorphological landscape, as it was defined by Reynard (2004) can be considered a portion of the geomorphological context that is viewed, perceived, (and sometimes ex- ploited) by Man and, when perceived by humans and characterised by certain attributes, it may be considered a wider geomorphosite (Reynard and Panizza, 2005) or a complex of geomorphosites inside of which single geomorphosites can be individuated. Moreover, single geomorphosites belong to a landscape system that is dynamic, and thus the comprehension of a geomorphosite mechanism requires good observations, measurements and quantifications of processes (Reynard 2004). Since 1990s, interest on geomorphosite studies has increased, especially, due to their educational. The aim of this study is to present a complete inventory of the main geomorphosites that can be found in the Province of Málaga, with educational purposes. The Province of Málaga, located in the South of Spain, in the Mediterranean Coast but very close to the Atlantic Ocean, is characterised by a wide range of geomorphological landscape, with many different landforms and very dynamic land uses. The methodology follows that proposed by the Spanish Geological and Mining Institute (IGME, 2014). In total, more than 100-geomorphosites were recognised, inventoried and classified in order to achieve a better comprehension and improve the learning of high academic level students. References IGME, 2014. Documento metodológico para la elaboración del inventario español de lugares de interés geológico (IELIG). Instituto Geológico y Minero de España, Madrid, España, pp. 64. Pelfini, M., Bollati, I. 2014. Landforms and geomorphosites ongoing changes: concepts and implications for geoheritage promotion. Quaestiones Geographicae, 33-1: 131-143. Reynard E., 2004. Géotopes, géo(morpho)sites et paysag- es géomorphologiques. In: E. Reynard, J.P. Pralong (eds), Paysages géomorphologiques, Institut de géographie, Travaux et Recherches, Lausanne 27, pp. 124-136. Reynard E., Panizza M., 2005. Geomorphosites: de nition, assessment and mapping. An introduction. Géomorphologie: relief, processus, environnement, 3: 177-180.

A methodological approach to characterise Landslide Periods based on historical series of rainfall and landslide damage

NASA Astrophysics Data System (ADS)

Petrucci, O.; Pasqua, A. A.

2009-10-01

Landslide Periods (LPs) are defined as periods, shorter than a hydrological year, during which one or more landslide damage events occur in one or more sectors of a study area. In this work, we present a methodological approach, based on the comparative analysis of historical series of landslide damage and daily rainfall data, aiming to characterise the main types of LPs affecting selected areas. Cumulative rainfall preceding landslide activation is assessed for short (1, 2, 3, and 5 days), medium (7, 10, and 30 days) and long (60, 90, and 180 days) durations, and their Return Periods (RPs) are assessed and ranked into three classes (Class 1: RP=5-10 years; Class 2: RP=11-15; Class 3: RP>15 years). To assess landslide damage, the Simplified Damage Index (SDI) is introduced. This represents classified landslide losses and is obtained by multiplying the value of the damaged element and the percentage of damage affecting it. The comparison of the RP of rainfall and the SDI allows us to indentify the different types of LPs that affected the study area in the past and that could affect it again in the future. The results of this activity can be used for practical purposes to define scenarios and strategies for risk management, to suggest priorities in policy towards disaster mitigation and preparedness and to predispose defensive measures and civil protection plans ranked according to the types of LPs that must be managed. We present an application, performed for a 39-year series of rainfall/landslide damage data and concerning a study area located in NE Calabria (Italy); in this case study, we identify four main types of LPs, which are ranked according to damage severity.

Detection and Characterisation of Meteors as a Big Data Citizen Science project

NASA Astrophysics Data System (ADS)

Gritsevich, M.

2017-12-01

Out of a total around 50,000 meteorites currently known to science, the atmospheric passage was recorded instrumentally in only 30 cases with the potential to derive their atmospheric trajectories and pre-impact heliocentric orbits. Similarly, while the observations of meteors, add thousands of new entries per month to existing databases, it is extremely rare they lead to meteorite recovery. Meteor studies thus represent an excellent example of the Big Data citizen science project, where progress in the field largely depends on the prompt identification and characterisation of meteor events as well as on extensive and valuable contributions by amateur observers. Over the last couple of decades technological advancements in observational techniques have yielded drastic improvements in the quality, quantity and diversity of meteor data, while even more ambitious instruments are about to become operational. This empowers meteor science to boost its experimental and theoretical horizons and seek more advanced scientific goals. We review some of the developments that push meteor science into the Big Data era that requires more complex methodological approaches through interdisciplinary collaborations with other branches of physics and computer science. We argue that meteor science should become an integral part of large surveys in astronomy, aeronomy and space physics, and tackle the complexity of micro-physics of meteor plasma and its interaction with the atmosphere. The recent increased interest in meteor science triggered by the Chelyabinsk fireball helps in building the case for technologically and logistically more ambitious meteor projects. This requires developing new methodological approaches in meteor research, with Big Data science and close collaboration between citizen science, geoscience and astronomy as critical elements. We discuss possibilities for improvements and promote an opportunity for collaboration in meteor science within the currently established EU COST BigSkyEarth http://bigskyearth.eu/ network.

Applying linguistic methods to understanding smoking-related conversations on Twitter.

PubMed

Sanders-Jackson, Ashley; Brown, Cati G; Prochaska, Judith J

2015-03-01

Social media, such as Twitter, have become major channels of communication and commentary on popular culture, including conversations on our nation's leading addiction: tobacco. The current study examined Twitter conversations following two tobacco-related events in the media: (1) President Obama's doctor announcing that he had quit smoking and (2) the release of a photograph of Miley Cyrus (a former Disney child star) smoking a cigarette. With a focus on high-profile individuals whose actions can draw public attention, we aimed to characterise tobacco-related conversations as an example of tobacco-related public discourse and to present a novel methodology for studying social media. Tweets were collected 11-13 November 2011 (President Obama) and 1-3 August 2011 (Miley Cyrus) and analysed for relative frequency of terms, a novel application of a linguistic methodology. The President Obama data set (N=2749 tweets) had conversations about him quitting tobacco as well as a preponderance of information on political activity, links to websites, racialised terms and mention of marijuana. Websites and terms about Obama's smoke-free status were most central to the conversation. In the Miley Cyrus data (N=4746 tweets), terms that occurred with the greatest relative frequency were positive, emotional and supportive of quitting (eg, love, and please), with words such as 'love' most central to the conversation. People are talking about tobacco-related issues on Twitter, and semantic network analysis can be used to characterise on-line conversations. Future interventions may be able to harness social media and major current events to raise awareness of smoking-related issues. Published by the BMJ Publishing Group Limited. For permission to use (where not already granted under a licence) please go to http://group.bmj.com/group/rights-licensing/permissions.

SEMINAR PUBLICATION: SITE CHARACTERIZATION FOR SUBSURFACE REMEDIATION

EPA Science Inventory

This seminar publication provides a comprehensive approach to site characterization for subsurface remediation. Chapter 1 describes a methodology for integrating site characterization with subsurface remediation. The rest of the handbook is divided into three parts. Part I covers...

Characterisation and treatment of VOCs in process water from upgrading facilities for compressed biogas (CBG).

PubMed

Nilsson Påledal, S; Arrhenius, K; Moestedt, J; Engelbrektsson, J; Stensen, K

2016-02-01

Compression and upgrading of biogas to vehicle fuel generates process water, which to varying degrees contains volatile organic compounds (VOCs) originating from the biogas. The compostion of this process water has not yet been studied and scientifically published and there is currently an uncertainty regarding content of VOCs and how the process water should be managed to minimise the impact on health and the environment. The aim of the study was to give an overview about general levels of VOCs in the process water. Characterisation of process water from amine and water scrubbers at plants digesting waste, sewage sludge or agricultural residues showed that both the average concentration and composition of particular VOCs varied depending on the substrate used at the biogas plant, but the divergence was high and the differences for total concentrations from the different substrate groups were only significant for samples from plants using waste compared to residues from agriculture. The characterisation also showed that the content of VOCs varied greatly between different sampling points for same main substrate and between sampling occasions at the same sampling point, indicating that site-specific conditions are important for the results which also indicates that a number of analyses at different times are required in order to make an more exact characterisation with low uncertainty. Inhibition of VOCs in the anaerobic digestion (AD) process was studied in biomethane potential tests, but no inhibition was observed during addition of synthetic process water at concentrations of 11.6 mg and 238 mg VOC/L. Copyright © 2015 Elsevier Ltd. All rights reserved.

Wall paintings studied using Raman spectroscopy: a comparative study between various assays of cross sections and external layers.

PubMed

Perez-Rodriguez, Jose Luis; Robador, Maria Dolores; Centeno, Miguel Angel; Siguenza, Belinda; Duran, Adrian

2014-01-01

This work describes a comparative study between in situ applications of portable Raman spectroscopy and direct laboratory measurements using micro-Raman spectroscopy on the surface of small samples and of cross sections. The study was performed using wall paintings from different sites of the Alcazar of Seville. Little information was obtained using a portable Raman spectrometer due to the presence of an acrylic polymer, calcium oxalate, calcite and gypsum that was formed or deposited on the surface. The pigments responsible for different colours, except cinnabar, were not detected by the micro-Raman spectroscopy study of the surface of small samples taken from the wall paintings due to the presence of surface contaminants. The pigments and plaster were characterised using cross sections. The black colour consisted of carbon black. The red layers were formed by cinnabar and white lead or by iron oxides. The green and white colours were composed of green emerald or atacamite and calcite, respectively. Pb3O4 has also been characterised. The white layers (plaster) located under the colour layers consisted of calcite, quartz and feldspars. The fresco technique was used to create the wall paintings. A wall painting located on a gypsum layer was also studied. The Naples yellow in this wall painting was not characterised due to the presence of glue and oils. This study showed the advantage of studying cross sections to completely characterise the pigments and plaster in the studied wall paintings. Copyright © 2013 Elsevier B.V. All rights reserved.

Epigallocatechin-3-gallate preferentially induces aggregation of amyloidogenic immunoglobulin light chains

PubMed Central

Hora, Manuel; Carballo-Pacheco, Martin; Weber, Benedikt; Morris, Vanessa K.; Wittkopf, Antje; Buchner, Johannes; Strodel, Birgit; Reif, Bernd

2017-01-01

Antibody light chain amyloidosis is a rare disease caused by fibril formation of secreted immunoglobulin light chains (LCs). The huge variety of antibody sequences puts a serious challenge to drug discovery. The green tea polyphenol epigallocatechin-3-gallate (EGCG) is known to interfere with fibril formation in general. Here we present solution- and solid-state NMR studies as well as MD simulations to characterise the interaction of EGCG with LC variable domains. We identified two distinct EGCG binding sites, both of which include a proline as an important recognition element. The binding sites were confirmed by site-directed mutagenesis and solid-state NMR analysis. The EGCG-induced protein complexes are unstructured. We propose a general mechanistic model for EGCG binding to a conserved site in LCs. We find that EGCG reacts selectively with amyloidogenic mutants. This makes this compound a promising lead structure, that can handle the immense sequence variability of antibody LCs. PMID:28128355

Transportation technology and methodology reports

DOT National Transportation Integrated Search

1999-12-22

This Internet site sponsored by the Office of Highway Policy Information provides links to a compilation of PDF reports on transportation technology and methodology. Reports include "FHWA Statistical Programs;" "Nonresponse in Household Travel Survey...

Skyscape Archaeology: an emerging interdiscipline for archaeoastronomers and archaeologists

NASA Astrophysics Data System (ADS)

Henty, Liz

2016-02-01

For historical reasons archaeoastronomy and archaeology differ in their approach to prehistoric monuments and this has created a divide between the disciplines which adopt seemingly incompatible methodologies. The reasons behind the impasse will be explored to show how these different approaches gave rise to their respective methods. Archaeology investigations tend to concentrate on single site analysis whereas archaeoastronomical surveys tend to be data driven from the examination of a large number of similar sets. A comparison will be made between traditional archaeoastronomical data gathering and an emerging methodology which looks at sites on a small scale and combines archaeology and astronomy. Silva's recent research in Portugal and this author's survey in Scotland have explored this methodology and termed it skyscape archaeology. This paper argues that this type of phenomenological skyscape archaeology offers an alternative to large scale statistical studies which analyse astronomical data obtained from a large number of superficially similar archaeological sites.

Characterisation of medical-waste sterilisation-plant wastewater and a preliminary study of coagulation-flocculation treatment options.

PubMed

Ozkan, O; Mihçiokur, H; Azgin, S T; Ozdemir, O

2010-01-01

Wastewater from a medical-waste sterilisation plant (MWSP) contains unique pollutants and requires on-site treatment to prevent contamination of the municipal sewage system and receiving water bodies. Therefore, to meet the prescribed discharge standards and comply with the legal regulations, pre-treatment must be applied to MWSP wastewater. In this study, the capabilities of coagulation-flocculation processes were investigated for MWSP wastewater treatment. Processes using ferric chloride, ferrous sulfate and aluminium sulfate as coagulants were characterised. During the coagulation experiments, seven different coagulant dosages and four different pH values were evaluated to determine the optimum coagulant dosage and pH value. The highest removal efficiency of chemical oxygen demand (COD) was obtained using 300 mg/L of ferric chloride at pH 10. A COD removal of about 60% as well as considerable reductions in the amounts of suspended solids, nitrogen and phosphorus were realised.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Edjabou, Maklawe Essonanawe, E-mail: vine@env.dtu.dk; Jensen, Morten Bang; Götze, Ramona

Highlights: • Tiered approach to waste sorting ensures flexibility and facilitates comparison of solid waste composition data. • Food and miscellaneous wastes are the main fractions contributing to the residual household waste. • Separation of food packaging from food leftovers during sorting is not critical for determination of the solid waste composition. - Abstract: Sound waste management and optimisation of resource recovery require reliable data on solid waste generation and composition. In the absence of standardised and commonly accepted waste characterisation methodologies, various approaches have been reported in literature. This limits both comparability and applicability of the results. In thismore » study, a waste sampling and sorting methodology for efficient and statistically robust characterisation of solid waste was introduced. The methodology was applied to residual waste collected from 1442 households distributed among 10 individual sub-areas in three Danish municipalities (both single and multi-family house areas). In total 17 tonnes of waste were sorted into 10–50 waste fractions, organised according to a three-level (tiered approach) facilitating comparison of the waste data between individual sub-areas with different fractionation (waste from one municipality was sorted at “Level III”, e.g. detailed, while the two others were sorted only at “Level I”). The results showed that residual household waste mainly contained food waste (42 ± 5%, mass per wet basis) and miscellaneous combustibles (18 ± 3%, mass per wet basis). The residual household waste generation rate in the study areas was 3–4 kg per person per week. Statistical analyses revealed that the waste composition was independent of variations in the waste generation rate. Both, waste composition and waste generation rates were statistically similar for each of the three municipalities. While the waste generation rates were similar for each of the two housing types (single-family and multi-family house areas), the individual percentage composition of food waste, paper, and glass was significantly different between the housing types. This indicates that housing type is a critical stratification parameter. Separating food leftovers from food packaging during manual sorting of the sampled waste did not have significant influence on the proportions of food waste and packaging materials, indicating that this step may not be required.« less

Aerosol radiative forcing from GEO satellite data over land surfaces

NASA Astrophysics Data System (ADS)

Costa, Maria J.; Silva, Ana M.

2005-10-01

Aerosols direct and indirect effects on the Earth's climate are widely recognized but have yet to be adequately quantified. Difficulties arise due to the very high spatial and temporal variability of aerosols, which is a major cause of uncertainties in radiative forcing studies. The effective monitoring of the global aerosol distribution is only made possible by satellite monitoring and this is the reason why the interest in aerosol observations from satellite passive radiometers is steadily increasing. From the point of view of the study of land surfaces, the atmosphere with its constituents represents an obscurant whose effects should be as much as possible eliminated, being this process sometimes referred to as atmospheric correction. In absence of clouds and using spectral intervals where gas absorption can be avoided to a great extent, only the aerosol effect remains to be corrected. The monitoring of the aerosol particles present in the atmosphere is then crucial to succeed in doing an accurate atmospheric correction, otherwise the surface properties may be inadequately characterised. However, the atmospheric correction over land surfaces turns out to be a difficult task since surface reflection competes with the atmospheric component of the signal. On the other hand, a single mean pre-established aerosol characterisation would not be sufficient for this purpose due to very high spatial and temporal variability of aerosols and their unpredictability, especially what concerns particulary intense "events" such as biomass burning and forest fires, desert dust episodes and volcanic eruptions. In this context, an operational methodology has been developed at the University of Evora - Evora Geophysics Centre (CGE), in the framework of the Satellite Application Facility for Land Surface Analysis - Land SAF, to derive an Aerosol Product from the Spinning Enhanced Visible and Infrared Imager (SEVIRI) data, flying on the Geostationary (GEO) satellite system Meteosat-8. The aerosol characterization obtained is used to calculate the fluxes and estimate the aerosol radiative forcing at the top of the atmosphere. The methodology along with the results of the aerosol properties and radiative forcing using SEVIRI images is presented. The aerosol optical thickness results are compared with ground-based measurements from the Aerosol Robotic NETwork (AERONET), to assess the accuracy of the methodology presented.

Methodology of management of dredging operations II. Applications.

PubMed

Junqua, G; Abriak, N E; Gregoire, P; Dubois, V; Mac Farlane, F; Damidot, D

2006-04-01

This paper presents the new methodology of management of dredging operations. Derived partly from existing methodologies (OECD, PNUE, AIPCN), it aims to be more comprehensive, mixing the qualities and the complementarities of previous methodologies. The application of the methodology has been carried out on the site of the Port of Dunkirk (FRANCE). Thus, a characterization of the sediments of this site has allowed a zoning of the Port to be established in to zones of probable homogeneity of sediments. Moreover, sources of pollution have been identified, with an aim of prevention. Ways of waste improvement have also been developed, to answer regional needs, from a point of view of competitive and territorial intelligence. Their development has required a mutualisation of resources between professionals, research centres and local communities, according to principles of industrial ecology. Lastly, a tool of MultiCriteria Decision-Making Aid (M.C.D.M.A.) has been used to determine the most relevant scenario (or alternative, or action) for a dredging operation intended by the Port of Dunkirk. These applications have confirmed the relevance of this methodology for the management of dredging operations.

Identification and Characterisation of a Hyper-Variable Apoplastic Effector Gene Family of the Potato Cyst Nematodes

PubMed Central

Eves-van den Akker, Sebastian; Lilley, Catherine J.; Jones, John T.; Urwin, Peter E.

2014-01-01

Sedentary endoparasitic nematodes are obligate biotrophs that modify host root tissues, using a suite of effector proteins to create and maintain a feeding site that is their sole source of nutrition. Using assumptions about the characteristics of genes involved in plant-nematode biotrophic interactions to inform the identification strategy, we provide a description and characterisation of a novel group of hyper-variable extracellular effectors termed HYP, from the potato cyst nematode Globodera pallida. HYP effectors comprise a large gene family, with a modular structure, and have unparalleled diversity between individuals of the same population: no two nematodes tested had the same genetic complement of HYP effectors. Individuals vary in the number, size, and type of effector subfamilies. HYP effectors are expressed throughout the biotrophic stages in large secretory cells associated with the amphids of parasitic stage nematodes as confirmed by in situ hybridisation. The encoded proteins are secreted into the host roots where they are detectable by immunochemistry in the apoplasm, between the anterior end of the nematode and the feeding site. We have identified HYP effectors in three genera of plant parasitic nematodes capable of infecting a broad range of mono- and dicotyledon crop species. In planta RNAi targeted to all members of the effector family causes a reduction in successful parasitism. PMID:25255291

Identification and characterisation of a hyper-variable apoplastic effector gene family of the potato cyst nematodes.

PubMed

Eves-van den Akker, Sebastian; Lilley, Catherine J; Jones, John T; Urwin, Peter E

2014-09-01

Sedentary endoparasitic nematodes are obligate biotrophs that modify host root tissues, using a suite of effector proteins to create and maintain a feeding site that is their sole source of nutrition. Using assumptions about the characteristics of genes involved in plant-nematode biotrophic interactions to inform the identification strategy, we provide a description and characterisation of a novel group of hyper-variable extracellular effectors termed HYP, from the potato cyst nematode Globodera pallida. HYP effectors comprise a large gene family, with a modular structure, and have unparalleled diversity between individuals of the same population: no two nematodes tested had the same genetic complement of HYP effectors. Individuals vary in the number, size, and type of effector subfamilies. HYP effectors are expressed throughout the biotrophic stages in large secretory cells associated with the amphids of parasitic stage nematodes as confirmed by in situ hybridisation. The encoded proteins are secreted into the host roots where they are detectable by immunochemistry in the apoplasm, between the anterior end of the nematode and the feeding site. We have identified HYP effectors in three genera of plant parasitic nematodes capable of infecting a broad range of mono- and dicotyledon crop species. In planta RNAi targeted to all members of the effector family causes a reduction in successful parasitism.

Protic ammonium carboxylate ionic liquids: insight into structure, dynamics and thermophysical properties by alkyl group functionalization.

PubMed

Reddy, Th Dhileep N; Mallik, Bhabani S

2017-04-19

This study is aimed at characterising the structure, dynamics and thermophysical properties of five alkylammonium carboxylate ionic liquids (ILs) from classical molecular dynamics simulations. The structural features of these ILs were characterised by calculating the site-site radial distribution functions, g(r), spatial distribution functions and structure factors. The structural properties demonstrate that ILs show greater interaction between cations and anions when alkyl chain length increases on the cation or anion. In all ILs, spatial distribution functions show that the anion is close to the acidic hydrogen atoms of the ammonium cation. We determined the role of alkyl group functionalization of the charged entities, cations and anions, in the dynamical behavior and the transport coefficients of this family of ionic liquids. The dynamics of ILs are described by studying the mean square displacement (MSD) of the centres of mass of the ions, diffusion coefficients, ionic conductivities and hydrogen bonds as well as residence dynamics. The diffusion coefficients and ionic conductivity decrease with an increase in the size of the cation or anion. The effect of alkyl chain length on ionic conductivity calculated in this article is consistent with the findings of other experimental studies. Hydrogen bond lifetimes and residence times along with structure factors were also calculated, and are related to alkyl chain length.

Characterisation of physical environmental factors on an intertidal sandflat, Manukau Harbour, New Zealand

USGS Publications Warehouse

Bell, R.G.; Hume, T.M.; Dolphin, T.J.; Green, M.O.; Walters, R.A.

1997-01-01

Physical environmental factors, including sediment characteristics, inundation time, tidal currents and wind waves, likely to influence the structure of the benthic community at meso-scales (1-100 m) were characterised for a sandflat off Wiroa Island (Manukau Harbour, New Zealand). In a 500 x 250 m study site, sediment characteristics and bed topography were mostly homogenous apart from patches of low-relief ridges and runnels. Field measurements and hydrodynamic modelling portray a complex picture of sediment or particulate transport on the intertidal flat, involving interactions between the larger scale tidal processes and the smaller scale wave dynamics (1-4 s; 1-15 m). Peak tidal currents in isolation are incapable of eroding bottom sediments, but in combination with near-bed orbital currents generated by only very small wind waves, sediment transport can be initiated. Work done on the bed integrated over an entire tidal cycle by prevailing wind waves is greatest on the elevated and flatter slopes of the study site, where waves shoal over a wider surf zone and water depths remain shallow e enough for wave-orbital currents to disturb the bed. The study also provided physical descriptors quantifying static and hydrodynamic (tidal and wave) factors which were used in companion studies on ecological spatial modelling of bivalve distributions and micro-scale sediment reworking and transport.

Development of policies for Natura 2000 sites: a multi-criteria approach to support decision makers.

PubMed

Cortina, Carla; Boggia, Antonio

2014-08-01

The aim of this study is to present a methodology to support decision makers in the choice of Natura 2000 sites needing an appropriate management plan to ensure a sustainable socio-economic development. In order to promote sustainable development in the Natura 2000 sites compatible with nature preservation, conservation measures or management plans are necessary. The main issue is to decide when only conservation measures can be applied and when the sites need an appropriate management plan. We present a case study for the Italian Region of Umbria. The methodology is based on a multi-criteria approach to identify the biodiversity index (BI), and on the development of a human activities index (HAI). By crossing the two indexes for each site on a Cartesian plane, four groups of sites were identified. Each group corresponds to a specific need for an appropriate management plan. Sites in the first group with a high level both of biodiversity and human activities have the most urgent need of an appropriate management plan to ensure sustainable development. The proposed methodology and analysis is replicable in other regions or countries by using the data available for each site in the Natura 2000 standard data form. A multi-criteria analysis is especially suitable for supporting decision makers when they deal with a multidimensional decision process. We found the multi-criteria approach particularly sound in this case, due to the concept of biodiversity itself, which is complex and multidimensional, and to the high number of alternatives (Natura 2000 sites) to be assessed. Copyright © 2014 Elsevier Ltd. All rights reserved.

Uncertainty quantification of fast sodium current steady-state inactivation for multi-scale models of cardiac electrophysiology.

PubMed

Pathmanathan, Pras; Shotwell, Matthew S; Gavaghan, David J; Cordeiro, Jonathan M; Gray, Richard A

2015-01-01

Perhaps the most mature area of multi-scale systems biology is the modelling of the heart. Current models are grounded in over fifty years of research in the development of biophysically detailed models of the electrophysiology (EP) of cardiac cells, but one aspect which is inadequately addressed is the incorporation of uncertainty and physiological variability. Uncertainty quantification (UQ) is the identification and characterisation of the uncertainty in model parameters derived from experimental data, and the computation of the resultant uncertainty in model outputs. It is a necessary tool for establishing the credibility of computational models, and will likely be expected of EP models for future safety-critical clinical applications. The focus of this paper is formal UQ of one major sub-component of cardiac EP models, the steady-state inactivation of the fast sodium current, INa. To better capture average behaviour and quantify variability across cells, we have applied for the first time an 'individual-based' statistical methodology to assess voltage clamp data. Advantages of this approach over a more traditional 'population-averaged' approach are highlighted. The method was used to characterise variability amongst cells isolated from canine epi and endocardium, and this variability was then 'propagated forward' through a canine model to determine the resultant uncertainty in model predictions at different scales, such as of upstroke velocity and spiral wave dynamics. Statistically significant differences between epi and endocardial cells (greater half-inactivation and less steep slope of steady state inactivation curve for endo) was observed, and the forward propagation revealed a lack of robustness of the model to underlying variability, but also surprising robustness to variability at the tissue scale. Overall, the methodology can be used to: (i) better analyse voltage clamp data; (ii) characterise underlying population variability; (iii) investigate consequences of variability; and (iv) improve the ability to validate a model. To our knowledge this article is the first to quantify population variability in membrane dynamics in this manner, and the first to perform formal UQ for a component of a cardiac model. The approach is likely to find much wider applicability across systems biology as current application domains reach greater levels of maturity. Published by Elsevier Ltd.

Characterisation of the Context-Dependence of the Gene Concept in Research Articles. Possible Consequences for Teaching Concepts with Multiple Meanings

NASA Astrophysics Data System (ADS)

Flodin, Veronica S.

2017-03-01

The purpose of this study is to interpret and qualitatively characterise the content in some research articles and evaluate cases of possible difference in meanings of the gene concept used. Using a reformulation of Hirst's criteria of forms of knowledge, articles from five different sub-disciplines in biology (transmission genetic, molecular biology, genomics, developmental biology and population genetics) were characterised according to knowledge project, methods used and conceptual contexts. Depending on knowledge project, the gene may be used as a location of recombination, a target of regulatory proteins, a carrier of regulatory sequences, a cause in organ formation or a basis for a genetic map. Methods used range from catching wild birds and dissecting beetle larvae to growing yeast cells in 94 small wells as well as mapping of recombinants, doing statistical calculations, immunoblotting analysis of protein levels, analysis of gene expression with PCR, immunostaining of embryos and automated constructions of multi-locus linkage maps. The succeeding conceptual contexts focused around concepts as meiosis and chromosome, DNA and regulation, cell fitness and production, development and organ formation, conservation and evolution. These contextual differences lead to certain content leaps in relation to different conceptual schemes. The analysis of the various uses of the gene concept shows how differences in methodologies and questions entail a concept that escapes single definitions and "drift around" in meanings. These findings make it important to ask how science might use concepts as tools of specific inquiries and to discuss possible consequences for biology education.

Modelling the anaerobic digestion of solid organic waste - Substrate characterisation method for ADM1 using a combined biochemical and kinetic parameter estimation approach.

PubMed

Poggio, D; Walker, M; Nimmo, W; Ma, L; Pourkashanian, M

2016-07-01

This work proposes a novel and rigorous substrate characterisation methodology to be used with ADM1 to simulate the anaerobic digestion of solid organic waste. The proposed method uses data from both direct substrate analysis and the methane production from laboratory scale anaerobic digestion experiments and involves assessment of four substrate fractionation models. The models partition the organic matter into a mixture of particulate and soluble fractions with the decision on the most suitable model being made on quality of fit between experimental and simulated data and the uncertainty of the calibrated parameters. The method was tested using samples of domestic green and food waste and using experimental data from both short batch tests and longer semi-continuous trials. The results showed that in general an increased fractionation model complexity led to better fit but with increased uncertainty. When using batch test data the most suitable model for green waste included one particulate and one soluble fraction, whereas for food waste two particulate fractions were needed. With richer semi-continuous datasets, the parameter estimation resulted in less uncertainty therefore allowing the description of the substrate with a more complex model. The resulting substrate characterisations and fractionation models obtained from batch test data, for both waste samples, were used to validate the method using semi-continuous experimental data and showed good prediction of methane production, biogas composition, total and volatile solids, ammonia and alkalinity. Copyright © 2016 The Authors. Published by Elsevier Ltd.. All rights reserved.

Validation of projective mapping as potential sensory screening tool for application by the honeybush herbal tea industry.

PubMed

Moelich, Erika Ilette; Muller, Magdalena; Joubert, Elizabeth; Næs, Tormod; Kidd, Martin

2017-09-01

Honeybush herbal tea is produced from the endemic South African Cyclopia species. Plant material subjected to a high-temperature oxidation step ("fermentation") forms the bulk of production. Production lags behind demand forcing tea merchants to use blends of available material to supply local and international markets. The distinct differences in the sensory profiles of the herbal tea produced from the different Cyclopia species require that special care is given to blending to ensure a consistent, high quality product. Although conventional descriptive sensory analysis (DSA) is highly effective in providing a detailed sensory profile of herbal tea infusions, industry requires a method that is more time- and cost-effective. Recent advances in sensory science have led to the development of rapid profiling methodologies. The question is whether projective mapping can successfully be used for the sensory characterisation of herbal tea infusions. Trained assessors performed global and partial projective mapping to determine the validity of this technique for the sensory characterisation of infusions of five Cyclopia species. Similar product configurations were obtained when comparing results of DSA and global and partial projective mapping. Comparison of replicate sessions showed RV coefficients >0.8. A similarity index, based on multifactor analysis, was calculated to determine assessor repeatability. Global projective mapping, demonstrated to be a valid method for providing a broad sensory characterisation of Cyclopia species, is thus suitable as a rapid quality control method of honeybush infusions. Its application by the honeybush industry could improve the consistency of the sensory profile of blended products. Copyright © 2017 Elsevier Ltd. All rights reserved.

Turbidity monitoring equipment and methodology evaluation at MDOT construction sites.

DOT National Transportation Integrated Search

2014-12-01

State Study 261 is a continuation of State study 225, "Turbidity Monitoring at Select : MDOT Construction Sites", which was successful in establishing baseline stream data : at several active construction sites. State Study 261 focused on the equipme...

Site selection for MSFC operational tests of solar heating and cooling systems

NASA Technical Reports Server (NTRS)

1978-01-01

The criteria, methodology, and sequence aspects of the site selection process are presented. This report organized the logical thought process that should be applied to the site selection process, but final decisions are highly selective.

Impacts of trawling on benthic macro-fauna and -flora of the Spencer Gulf prawn fishing grounds

NASA Astrophysics Data System (ADS)

Svane, Ib; Hammett, Zoe; Lauer, Peter

2009-05-01

The overall effects of trawling on benthic habitats and their assemblages are dependent on the distribution and intensity of trawl effort. The benthic habitats of the Spencer Gulf prawn trawling grounds are subjected to known variable levels of trawling disturbance recorded from fisher's logbooks. These habitats have not been quantitatively investigated. The aim of the study was firstly to characterise the macro-faunal and -floral assemblages and secondly, to comparatively assess trawl impact by testing the null hypothesis of no differences between five sites exposed to different intensity of trawl effort. The distribution and abundance of benthic macro-fauna and -flora were studied at two sampling resolutions by using beam trawl sampling (˜10,000 m 2) and underwater stereophotography (˜4.5 m 2) at five sites with different levels of trawl disturbance (effort). The results showed that the Spencer Gulf prawn trawling grounds are characterised by sandy sediments with a low content of silt and clay, with the exception of one site with very fine gravel. Biomass, abundance and cover of macro-fauna and -flora were generally low throughout, but with large differences among sites. Biomass, abundance and cover were found to be negatively correlated to both trawl hours from 1994-1998 and during the period of study. ANOSIM and SIMPER analyses using biomass, abundance and percentage cover as variables showed significant differences between sites with eight species or taxonomic groups contributing more than 10% to the observed similarity within sites. The two northern sites were dominated by sponges and the bearded mussel, Trichomya hirsutus, and the southern hammer oyster, Malleus meridianus. Other species that contributed to the similarity within sites were the ascidian, Polycarpa viridis, mobile epifauna (the blue swimmer crab, Portunus pelagicus, and the western king prawn, Penaeus (Melicertus) latisulcatus) and demersal fish species (Degens leatherjacket, Thamnaconus degeni, and the Melbourne silver belly, Parequula melbournensis). Simpson's Index of Diversity (1 - λ) and species richness in the beam trawl samples were fairly even across all sites, but a significant effect of site was found in the stereophotographic transect samples. It was concluded that prawn trawling has a strong influence on the structure of the benthic habitats of the Spencer Gulf prawn fishing grounds highlighted by the magnitude of change and the strength of the gradient of effects. Confounding factors linked to the biophysical attributes of the sites are believed to be minor.

Exploring Educational and Cultural Adaptation through Social Networking Sites

ERIC Educational Resources Information Center

Ryan, Sherry D.; Magro, Michael J.; Sharp, Jason H.

2011-01-01

Social networking sites have seen tremendous growth and are widely used around the world. Nevertheless, the use of social networking sites in educational contexts is an under explored area. This paper uses a qualitative methodology, autoethnography, to investigate how social networking sites, specifically Facebook[TM], can help first semester…

A tuneable approach to uniform light distribution for artificial daylight photodynamic therapy.

PubMed

O'Mahoney, Paul; Haigh, Neil; Wood, Kenny; Brown, C Tom A; Ibbotson, Sally; Eadie, Ewan

2018-06-16

Implementation of daylight photodynamic therapy (dPDT) is somewhat limited by variable weather conditions. Light sources have been employed to provide artificial dPDT indoors, with low irradiances and longer treatment times. Uniform light distribution across the target area is key to ensuring effective treatment, particularly for large areas. A novel light source is developed with tuneable direction of light emission in order to meet this challenge. Wavelength composition of the novel light source is controlled such that the protoporphyrin-IX (PpIX) weighed spectra of both the light source and daylight match. The uniformity of the light source is characterised on a flat surface, a model head and a model leg. For context, a typical conventional PDT light source is also characterised. Additionally, the wavelength uniformity across the treatment site is characterised. The PpIX-weighted spectrum of the novel light source matches with PpIX-weighted daylight spectrum, with irradiance values within the bounds for effective dPDT. By tuning the direction of light emission, improvements are seen in the uniformity across large anatomical surfaces. Wavelength uniformity is discussed. We have developed a light source that addresses the challenges in uniform, multiwavelength light distribution for large area artificial dPDT across curved anatomical surfaces. Copyright © 2018. Published by Elsevier B.V.

Isolation and expression profiling of GhNAC transcription factor genes in cotton (Gossypium hirsutum L.) during leaf senescence and in response to stresses.

PubMed

Shah, Syed Tariq; Pang, Chaoyou; Fan, Shuli; Song, Meizhen; Arain, Saima; Yu, Shuxun

2013-12-01

NAC (NAM, ATAF, and CUC) is a plant-specific transcription factor family with diverse roles in plant development and stress regulation. In this report, stress-responsive NAC genes (GhNAC8-GhNAC17) isolated from cotton (Gossypium hirsutum L.) were characterised in the context of leaf senescence and stress tolerance. The characterisation of NAC genes during leaf senescence has not yet been reported for cotton. Based on the sequence characterisation, these GhNACs could be classified into three groups belonging to three known NAC sub-families. Their predicted amino acid sequences exhibited similarities to NAC genes from other plant species. Senescent leaves were the sites of maximum expression for all GhNAC genes except GhNAC10 and GhNAC13, which showed maximum expression in fibres, collected from 25 days post anthesis (DPA) plants. The ten GhNAC genes displayed differential expression patterns and levels during natural and induced leaf senescence. Quantitative RT-PCR and promoter analyses suggest that these genes are induced by ABA, ethylene, drought, salinity, cold, heat, and other hormonal treatments. These results support a role for cotton GhNAC genes in transcriptional regulation of leaf senescence, stress tolerance and other developmental stages of cotton. © 2013.

Discovery and structural characterisation of new fold type IV-transaminases exemplify the diversity of this enzyme fold

PubMed Central

Pavkov-Keller, Tea; Strohmeier, Gernot A.; Diepold, Matthias; Peeters, Wilco; Smeets, Natascha; Schürmann, Martin; Gruber, Karl; Schwab, Helmut; Steiner, Kerstin

2016-01-01

Transaminases are useful biocatalysts for the production of amino acids and chiral amines as intermediates for a broad range of drugs and fine chemicals. Here, we describe the discovery and characterisation of new transaminases from microorganisms which were enriched in selective media containing (R)-amines as sole nitrogen source. While most of the candidate proteins were clearly assigned to known subgroups of the fold IV family of PLP-dependent enzymes by sequence analysis and characterisation of their substrate specificity, some of them did not fit to any of these groups. The structure of one of these enzymes from Curtobacterium pusillum, which can convert d-amino acids and various (R)-amines with high enantioselectivity, was solved at a resolution of 2.4 Å. It shows significant differences especially in the active site compared to other transaminases of the fold IV family and thus indicates the existence of a new subgroup within this family. Although the discovered transaminases were not able to convert ketones in a reasonable time frame, overall, the enrichment-based approach was successful, as we identified two amine transaminases, which convert (R)-amines with high enantioselectivity, and can be used for a kinetic resolution of 1-phenylethylamine and analogues to obtain the (S)-amines with e.e.s >99%. PMID:27905516

A Patient Focused Solution for Enrolling Clinical Trials in Rare and Selective Cancer Indications: A Landscape of Haystacks and Needles

PubMed Central

Lynam, Eric B.; Leaw, Jiin; Wiener, Matthew B.

2013-01-01

Participation of adult cancer patients in US based clinical trials has remained near 3% for decades. Traditional research methodology reaches a small fraction of the target population with a fixed number of predetermined sites. Solutions are needed to ethically increase patient participation and accelerate cancer trial completion. We compared enrollment outcomes of traditional and patient focused research methodologies. A patient prioritized method (Just-In-Time, JIT) was implemented in parallel with traditionally managed sites in three cancer trials. JIT research sites were initiated after candidate patients presented, while traditional sites were initiated in advance. JIT sites enrolled with mean rates no less than, and up to 2.75 fold greater than, traditional sites. Mean patients enrolled per site was comparable (JIT-1.82, traditional-1.78). There were fewer non-enrolling JIT sites (2/28, 7%) compared to traditional sites 19/52, 37%). This retrospective analysis supports JIT as a prospective solution to increase cancer clinical trial enrollment and the efficiency of clinical trial administrative activities. PMID:23990689

Hydrogen bonding in ionic liquids.

PubMed

Hunt, Patricia A; Ashworth, Claire R; Matthews, Richard P

2015-03-07

Ionic liquids (IL) and hydrogen bonding (H-bonding) are two diverse fields for which there is a developing recognition of significant overlap. Doubly ionic H-bonds occur when a H-bond forms between a cation and anion, and are a key feature of ILs. Doubly ionic H-bonds represent a wide area of H-bonding which has yet to be fully recognised, characterised or explored. H-bonds in ILs (both protic and aprotic) are bifurcated and chelating, and unlike many molecular liquids a significant variety of distinct H-bonds are formed between different types and numbers of donor and acceptor sites within a given IL. Traditional more neutral H-bonds can also be formed in functionalised ILs, adding a further level of complexity. Ab initio computed parameters; association energies, partial charges, density descriptors as encompassed by the QTAIM methodology (ρBCP), qualitative molecular orbital theory and NBO analysis provide established and robust mechanisms for understanding and interpreting traditional neutral and ionic H-bonds. In this review the applicability and extension of these parameters to describe and quantify the doubly ionic H-bond has been explored. Estimating the H-bonding energy is difficult because at a fundamental level the H-bond and ionic interaction are coupled. The NBO and QTAIM methodologies, unlike the total energy, are local descriptors and therefore can be used to directly compare neutral, ionic and doubly ionic H-bonds. The charged nature of the ions influences the ionic characteristics of the H-bond and vice versa, in addition the close association of the ions leads to enhanced orbital overlap and covalent contributions. The charge on the ions raises the energy of the Ylp and lowers the energy of the X-H σ* NBOs resulting in greater charge transfer, strengthening the H-bond. Using this range of parameters and comparing doubly ionic H-bonds to more traditional neutral and ionic H-bonds it is clear that doubly ionic H-bonds cover the full range of weak through to very strong H-bonds.

Effects of Following National Committee for Clinical Laboratory Standards and Deutsche Industrie Norm-Medizinische Mikrobiologie Guidelines, Country of Isolate Origin, and Site of Infection on Susceptibility of Escherichia coli to Amoxicillin-Clavulanate (Augmentin)

PubMed Central

Simpson, I.; Durodie, J.; Knott, S.; Shea, B.; Wilson, J.; Machka, K.

1998-01-01

Amoxicillin-clavulanate (Augmentin), as a combination of two active agents, poses extra challenges over single agents in establishing clinically relevant breakpoints for in vitro susceptibility tests. Hence, reported differences in amoxicillin-clavulanate percent susceptibilities among Escherichia coli isolates may reflect localized resistance problems and/or methodological differences in susceptibility testing and breakpoint criteria. The objectives of the present study were to determine the effects of (i) methodology, e.g., those of the National Committee for Clinical Laboratory Standards (NCCLS) and the Deutsche Industrie Norm-Medizinische Mikrobiologie (DIN), (ii) country of origin (Spain, France, and Germany), and (iii) site of infection (urinary tract, intra-abdominal sepsis, or other site[s]) upon the incidence of susceptibility to amoxicillin-clavulanate in 185 clinical isolates of E. coli. Cefuroxime and cefotaxime were included for comparison. The use of NCCLS methodology resulted in different distribution of amoxicillin-clavulanate MICs than that obtained with the DIN methodology, a difference highlighted by the 10% more strains found to be within the 8- to 32-μg/ml MIC range. This difference reflects the differing amounts of clavulanic acid present. NCCLS and DIN methodologies also produce different MIC distributions for cefotaxime but not for cefuroxime. Implementation of NCCLS and DIN breakpoints produced markedly different incidences of strains that were found to be susceptible, intermediate or resistant to amoxicillin-clavulanate. A total of 86.5% strains were found to be susceptible to amoxicillin-clavulanate by the NCCLS methodology, whereas only 43.8% were found to be susceptible by the DIN methodology. Similarly, 4.3% of the strains were found to be resistant by NCCLS guidelines compared to 21.1% by the DIN guidelines. The use of DIN breakpoints resulted in a fivefold-higher incidence of strains categorized as resistant to cefuroxime. There were no marked differences due to country of origin upon the MIC distributions for amoxicillin-clavulanate, cefuroxime, or cefotaxime, as determined with the NCCLS guidelines. Isolates from urinary tract and intra-abdominal infections were generally more resistant to amoxicillin-clavulanate than were isolates from other sites of infection. PMID:9574706

Application of ground-penetrating radar imagery for three-dimensional visualisation of near-surface structures in ice-rich permafrost, Barrow, Alaska

USGS Publications Warehouse

Munroe, Jeffrey S.; Doolittle, James A.; Kanevskiy, Mikhail; Hinkel, Kenneth M.; Nelson, Frederick E.; Jones, Benjamin M.; Shur, Yuri; Kimble, John M.

2007-01-01

Three-dimensional ground-penetrating radar (3D GPR) was used to investigate the subsurface structure of ice-wedge polygons and other features of the frozen active layer and near-surface permafrost near Barrow, Alaska. Surveys were conducted at three sites located on landscapes of different geomorphic age. At each site, sediment cores were collected and characterised to aid interpretation of GPR data. At two sites, 3D GPR was able to delineate subsurface ice-wedge networks with high fidelity. Three-dimensional GPR data also revealed a fundamental difference in ice-wedge morphology between these two sites that is consistent with differences in landscape age. At a third site, the combination of two-dimensional and 3D GPR revealed the location of an active frost boil with ataxitic cryostructure. When supplemented by analysis of soil cores, 3D GPR offers considerable potential for imaging, interpreting and 3D mapping of near-surface soil and ice structures in permafrost environments.

Beyond the conventional: meeting the challenges of landscape governance within the European Landscape Convention?

PubMed

Scott, Alister

2011-10-01

Academics and policy makers seeking to deconstruct landscape face major challenges conceptually, methodologically and institutionally. The meaning(s), identity(ies) and management of landscape are controversial and contested. The European Landscape Convention provides an opportunity for action and change set within new governance agendas addressing interdisciplinarity and spatial planning. This paper critically reviews the complex web of conceptual and methodological frameworks that characterise landscape planning and management and then focuses on emerging landscape governance in Scotland within a mixed method approach involving policy analyses, semi-structured interviews and best practice case studies. Using Dower's (2008) criteria from the Articles of the European Landscape Convention, the results show that whilst some progress has been made in landscape policy and practice, largely through the actions of key individuals and champions, there are significant institutional hurdles and resource limitations to overcome. The need to mainstream positive landscape outcomes requires a significant culture change where a one-size-fits-all approach does not work. Copyright © 2011 Elsevier Ltd. All rights reserved.

Modelling Behaviour of a Carbon Epoxy Composite Exposed to Fire: Part II—Comparison with Experimental Results

PubMed Central

Tranchard, Pauline; Samyn, Fabienne; Duquesne, Sophie; Estèbe, Bruno; Bourbigot, Serge

2017-01-01

Based on a phenomenological methodology, a three dimensional (3D) thermochemical model was developed to predict the temperature profile, the mass loss and the decomposition front of a carbon-reinforced epoxy composite laminate (T700/M21 composite) exposed to fire conditions. This 3D model takes into account the energy accumulation by the solid material, the anisotropic heat conduction, the thermal decomposition of the material, the gas mass flow into the composite, and the internal pressure. Thermophysical properties defined as temperature dependant properties were characterised using existing as well as innovative methodologies in order to use them as inputs into our physical model. The 3D thermochemical model accurately predicts the measured mass loss and observed decomposition front when the carbon fibre/epoxy composite is directly impacted by a propane flame. In short, the model shows its capability to predict the fire behaviour of a carbon fibre reinforced composite for fire safety engineering. PMID:28772836

Infrared spectroscopy as a tool to characterise starch ordered structure--a joint FTIR-ATR, NMR, XRD and DSC study.

PubMed

Warren, Frederick J; Gidley, Michael J; Flanagan, Bernadine M

2016-03-30

Starch has a heterogeneous, semi-crystalline granular structure and the degree of ordered structure can affect its behaviour in foods and bioplastics. A range of methodologies are employed to study starch structure; differential scanning calorimetry, (13)C nuclear magnetic resonance, X-ray diffraction and Fourier transform infrared spectroscopy (FTIR). Despite the appeal of FTIR as a rapid, non-destructive methodology, there is currently no systematically defined quantitative relationship between FTIR spectral features and other starch structural measures. Here, we subject 61 starch samples to structural analysis, and systematically correlate FTIR spectra with other measures of starch structure. A hydration dependent peak position shift in the FTIR spectra of starch is observed, resulting from increased molecular order, but with complex, non-linear behaviour. We demonstrate that FTIR is a tool that can quantitatively probe short range interactions in starch structure. However, the assumptions of linear relationships between starch ordered structure and peak ratios are overly simplistic. Copyright © 2015 Elsevier Ltd. All rights reserved.

Modelling Behaviour of a Carbon Epoxy Composite Exposed to Fire: Part II-Comparison with Experimental Results.

PubMed

Tranchard, Pauline; Samyn, Fabienne; Duquesne, Sophie; Estèbe, Bruno; Bourbigot, Serge

2017-04-28

Based on a phenomenological methodology, a three dimensional (3D) thermochemical model was developed to predict the temperature profile, the mass loss and the decomposition front of a carbon-reinforced epoxy composite laminate (T700/M21 composite) exposed to fire conditions. This 3D model takes into account the energy accumulation by the solid material, the anisotropic heat conduction, the thermal decomposition of the material, the gas mass flow into the composite, and the internal pressure. Thermophysical properties defined as temperature dependant properties were characterised using existing as well as innovative methodologies in order to use them as inputs into our physical model. The 3D thermochemical model accurately predicts the measured mass loss and observed decomposition front when the carbon fibre/epoxy composite is directly impacted by a propane flame. In short, the model shows its capability to predict the fire behaviour of a carbon fibre reinforced composite for fire safety engineering.

Fast and Efficient Drosophila melanogaster Gene Knock-Ins Using MiMIC Transposons

PubMed Central

Vilain, Sven; Vanhauwaert, Roeland; Maes, Ine; Schoovaerts, Nils; Zhou, Lujia; Soukup, Sandra; da Cunha, Raquel; Lauwers, Elsa; Fiers, Mark; Verstreken, Patrik

2014-01-01

Modern molecular genetics studies necessitate the manipulation of genes in their endogenous locus, but most of the current methodologies require an inefficient donor-dependent homologous recombination step to locally modify the genome. Here we describe a methodology to efficiently generate Drosophila knock-in alleles by capitalizing on the availability of numerous genomic MiMIC transposon insertions carrying recombinogenic attP sites. Our methodology entails the efficient PhiC31-mediated integration of a recombination cassette flanked by unique I-SceI and/or I-CreI restriction enzyme sites into an attP-site. These restriction enzyme sites allow for double-strand break−mediated removal of unwanted flanking transposon sequences, while leaving the desired genomic modifications or recombination cassettes. As a proof-of-principle, we mutated LRRK, tau, and sky by using different MiMIC elements. We replaced 6 kb of genomic DNA encompassing the tau locus and 35 kb encompassing the sky locus with a recombination cassette that permits easy integration of DNA at these loci and we also generated a functional LRRKHA knock in allele. Given that ~92% of the Drosophila genes are located within the vicinity (<35 kb) of a MiMIC element, our methodology enables the efficient manipulation of nearly every locus in the fruit fly genome without the need for inefficient donor-dependent homologous recombination events. PMID:25298537

Fast and efficient Drosophila melanogaster gene knock-ins using MiMIC transposons.

PubMed

Vilain, Sven; Vanhauwaert, Roeland; Maes, Ine; Schoovaerts, Nils; Zhou, Lujia; Soukup, Sandra; da Cunha, Raquel; Lauwers, Elsa; Fiers, Mark; Verstreken, Patrik

2014-10-08

Modern molecular genetics studies necessitate the manipulation of genes in their endogenous locus, but most of the current methodologies require an inefficient donor-dependent homologous recombination step to locally modify the genome. Here we describe a methodology to efficiently generate Drosophila knock-in alleles by capitalizing on the availability of numerous genomic MiMIC transposon insertions carrying recombinogenic attP sites. Our methodology entails the efficient PhiC31-mediated integration of a recombination cassette flanked by unique I-SceI and/or I-CreI restriction enzyme sites into an attP-site. These restriction enzyme sites allow for double-strand break-mediated removal of unwanted flanking transposon sequences, while leaving the desired genomic modifications or recombination cassettes. As a proof-of-principle, we mutated LRRK, tau, and sky by using different MiMIC elements. We replaced 6 kb of genomic DNA encompassing the tau locus and 35 kb encompassing the sky locus with a recombination cassette that permits easy integration of DNA at these loci and we also generated a functional LRRK(HA) knock in allele. Given that ~92% of the Drosophila genes are located within the vicinity (<35 kb) of a MiMIC element, our methodology enables the efficient manipulation of nearly every locus in the fruit fly genome without the need for inefficient donor-dependent homologous recombination events. Copyright © 2014 Vilain et al.

Improving applied roughness measurement of involute helical gears

NASA Astrophysics Data System (ADS)

Koulin, G.; Zhang, J.; Frazer, R. C.; Wilson, S. J.; Shaw, B. A.

2017-12-01

With improving gear design and manufacturing technology, improvement in metrology is necessary to provide reliable feedback to the designer and manufacturer. A recommended gear roughness measurement method is applied to a micropitting contact fatigue test gear. The development of wear and micropitting is reliably characterised at the sub-micron roughness level. Changes to the features of the localised surface texture are revealed and are related to key gear meshing positions. The application of the recommended methodology is shown to provide informative feedback to the gear designer in reference to the fundamental gear coordinate system, which is used in gear performance simulations such as tooth contact analysis.

Minimal standards for describing new species belonging to the families Campylobacteraceae and Helicobacteraceae: Campylobacter, Arcobacter, Helicobacter and Wolinella spp.

PubMed Central

On, Stephen L. W.; Miller, William G.; Houf, Kurt; Fox, James G.; Vandamme, Peter

2017-01-01

Ongoing changes in taxonomic methods, and in the rapid development of the taxonomic structure of species assigned to the Epsilonproteobacteria have lead the International Committee of Systematic Bacteriology Subcommittee on the Taxonomy of Campylobacter and Related Bacteria to discuss significant updates to previous minimal standards for describing new species of Campylobacteraceae and Helicobacteraceae. This paper is the result of these discussions and proposes minimum requirements for the description of new species belonging to the families Campylobacteraceae and Helicobacteraceae, thus including species in Campylobacter, Arcobacter, Helicobacter, and Wolinella. The core underlying principle remains the use of appropriate phenotypic and genotypic methods to characterise strains sufficiently so as to effectively and unambiguously determine their taxonomic position in these families, and provide adequate means by which the new taxon can be distinguished from extant species and subspecies. This polyphasic taxonomic approach demands the use of appropriate reference data for comparison to ensure the novelty of proposed new taxa, and the recommended study of at least five strains to enable species diversity to be assessed. Methodological approaches for phenotypic and genotypic (including whole-genome sequence comparisons) characterisation are recommended. PMID:29034857

Electrochemical and genomic analysis of novel electroactive isolates obtained via potentiostatic enrichment from tropical sediment

NASA Astrophysics Data System (ADS)

Doyle, Lucinda E.; Yung, Pui Yi; Mitra, Sumitra D.; Wuertz, Stefan; Williams, Rohan B. H.; Lauro, Federico M.; Marsili, Enrico

2017-07-01

Enrichment of electrochemically-active microorganisms (EAM) to date has mostly relied on microbial fuel cells fed with wastewater. This study aims to enrich novel EAM by exposing tropical sediment, not frequently reported in the literature, to sustained anodic potentials. Voltamperometric techniques and electrochemical impedance spectroscopy, performed over a wide range of potentials, characterise extracellular electron transfer (EET) over time. Applied potential is found to affect biofilm electrochemical signature. Geobacter metallireducens is heavily enriched on the electrodes, as determined by metagenomic and metatranscriptomic analysis, in the first report of the species in a lactate-fed system. Two novel isolates are grown in pure culture from the enrichment, identified by 16S rRNA gene sequencing as Aeromonas and Enterobacter, respectively. The names proposed are Aeromonas sp. CL-1 and Enterobacter sp. EA-1. Both isolates are capable of EET on carbon felt and screen-printed carbon electrodes without the addition of exogenous redox mediators. Enterobacter sp. EA-1 can also perform mediated electron transfer using the soluble redox mediator 2-hydroxy-1,4-naphthoquinone (HNQ). Both isolates are able to use acetate and lactate as electron donors. This work outlines a comprehensive methodology for characterising novel EAM from unconventional inocula.

Pectin characterisation using size exclusion chromatography: A comparison of ELS and RI detection.

PubMed

Muñoz-Almagro, Nerea; Rico-Rodriguez, Fabián; Villamiel, Mar; Montilla, Antonia

2018-06-30

A high-performance size-exclusion chromatography (HPSEC) method coupled to Evaporative Light Scattering (ELS) and Refractive Index (RI) detectors were evaluated and compared for the molecular mass (Mw) estimation of pectin in a wide range (0.342-805 kDa). Instrumental parameters of the ELSD were optimised by Response Surface Methodology (RSM) being 73 °C the evaporator temperature and 0.9 mL/min the air flow rate. The linear range for the ELSD concentration response was wider (10-2250 mg/L) and better (R 2  = 0.985) than RID (10-1500 mg/L; R 2  = 0.875). The limits of detection (LOD) and quantitation (LOQ) for all pullulans hardly changed in ELSD (LOD: 1.22-1.99 mg/L; LOQ: 4.07-6.63 mg/L); however, RID showed huge variations (LOD: 0.49-10.41 mg/L; LOQ: 1.64-34.70 mg/L), which increased with the Mw. In general, responses of both detectors were similar for the Mw estimation, although pectin characterisation with HPSEC-ELSD exhibited better results in the lowest Mw compounds. Copyright © 2018 Elsevier Ltd. All rights reserved.

75 FR 39093 - Proposed Confidentiality Determinations for Data Required Under the Mandatory Greenhouse Gas...

Federal Register 2010, 2011, 2012, 2013, 2014

2010-07-07

... information that is sensitive or proprietary, such as detailed process designs or site plans. Because the... Inputs to Emission Equations X Calculation Methodology and Methodological Tier X Data Elements Reported...

Library Web Sites in Pakistan: An Analysis of Content

ERIC Educational Resources Information Center

Qutab, Saima; Mahmood, Khalid

2009-01-01

Purpose: The purpose of this paper is to investigate library web sites in Pakistan, to analyse their content and navigational strengths and weaknesses and to give recommendations for developing better web sites and quality assessment studies. Design/methodology/approach: Survey of web sites of 52 academic, special, public and national libraries in…

[Cytochemical parameters of myeloperoxidase activity and catecholamine level in blood of postpartum women living in areas near the Semipalatinsk nuclear test site].

PubMed

Kokabaeva, A E; Bazeliuk, L T

2002-01-01

The activity of neitrophil myeloperoxidase and content of blood etyrhrocyte cathecholamines in the blood of women in early postpartum period in dependence on distance of their living area from Semipalatinsk nuclear testing were studied. It was found that women who live closer to Semipalatinsk were characterised by significantly lower neitrophil myeloperoxidase activity and content of cathecholamines in erythrocytes than in control.

Scientific Literature Review on the Topic of Monitoring and Modeling Seabed Evolution Rates

DTIC Science & Technology

2014-11-01

measurement techniques Benthic sea-floor characterisation Coastal Mapping/LIDAR Biomass /benthic habitat Climatology XBeach Policy 1.2.2...http://ed.gdr.nrcan.gc.ca/index_e.php On online data base of “Measurements of biomass and productivity of seabed macrobenthic and megabenthic...unknown origin. At one site, long wavelength ripples are present in what is presumed to be sediment composed of broken shells , tidal velocities exceed

Mission to Malapert

NASA Astrophysics Data System (ADS)

Otten, N. D.; Amoroso, E.; Jones, H. L.; Kitchell, F.; Wettergreen, D. S.; Whittaker, W. L.

2016-11-01

This work presents methodology for evaluating lunar landing site amenability and identifies promising sites for landing on Malapert Mountain, which features shallow slopes, uninterrupted Earth visibility, and ten-plus days of uninterrupted sunlight.

Resting site use of giant pandas in Wanglang Nature Reserve.

PubMed

Kang, Dongwei; Wang, Xiaorong; Li, Junqing

2017-10-23

Little is known about the resting sites used by the giant panda (Ailuropoda melanoleuca), which restricts our understanding of their resting habits and limits conservation efforts. To enhance our understanding of resting site requirements and factors affecting the resting time of giant pandas, we investigated the characteristics of resting sites in the Wanglang Nature Reserve, Sichuan Province, China. The results indicated that the resting sites of giant pandas were characterised by a mean slope of 21°, mean nearest tree size of 53.75 cm, mean nearest shrub size of 2.82 cm, and mean nearest bamboo number of 56. We found that the resting sites were closer to bamboo than to trees and shrubs, suggesting that the resting site use of giant pandas is closely related to the presence of bamboo. Considering that giant pandas typically rest near a large-sized tree, protection of large trees in the forests is of considerable importance for the conservation of this species. Furthermore, slope was found to be an important factor affecting the resting time of giant pandas, as they tended to rest for a relatively longer time in sites with a smaller degree of slope.

Influence of near-bottom environmental conditions on the structure of bathyal macrobenthic crustacean assemblages from the Capbreton canyon (Bay of Biscay, NE Atlantic)

NASA Astrophysics Data System (ADS)

Marquiegui, Mikel A.; Sorbe, Jean Claude

1999-07-01

Sled and box-corer samplings were performed at two sites in the Capbreton canyon in order to appreciate the influence of near-bottom environmental conditions on the structure of their macrobenthic communities (crustaceans). Although located at similar depths (ca. 1 000 m), these two sites were characterised by different physicochemical conditions at the sediment-water interface, probably related with the morphology of the submarine valley (reduced environment, oxygen depletion and stagnation of bottom water at site A; normal oceanic conditions on the near-bottom environment of site B). The analysis of the collected fauna revealed a low similarity between the two sites, mainly due to the unusual dominance of three epibenthic species in sled samples from site A: the amphipod Bonnierella abyssorum, the tanaid Apseudes spinosus and the isopod Arcturopsis giardi. Due to their apparent rarity or absence in adjacent non-canyon communities, such epibenthic crustaceans may be considered as `canyon indicator species' able to exhibit abundant populations within the peculiar confinement area of this canyon.

Methodology to Assess No Touch Audit Software Using Field Data

DOE Office of Scientific and Technical Information (OSTI.GOV)

Cai, Jie; Braun, James E.; Langner, M. Rois

The research presented in this report builds upon these previous efforts and proposes a set of tests to assess no touch audit tools using real utility bill and on-site data. The proposed assessment methodology explicitly investigates the behaviors of the monthly energy end uses with respect to outdoor temperature, i.e., the building energy signature, to help understand the Tool's disaggregation accuracy. The project team collaborated with Field Diagnosis Services, Inc. (FDSI) to identify appropriate test sites for the evaluation.

Effect of Methodological and Ecological Approaches on Heterogeneity of Nest-Site Selection of a Long-Lived Vulture

PubMed Central

Moreno-Opo, Rubén; Fernández-Olalla, Mariana; Margalida, Antoni; Arredondo, Ángel; Guil, Francisco

2012-01-01

The application of scientific-based conservation measures requires that sampling methodologies in studies modelling similar ecological aspects produce comparable results making easier their interpretation. We aimed to show how the choice of different methodological and ecological approaches can affect conclusions in nest-site selection studies along different Palearctic meta-populations of an indicator species. First, a multivariate analysis of the variables affecting nest-site selection in a breeding colony of cinereous vulture (Aegypius monachus) in central Spain was performed. Then, a meta-analysis was applied to establish how methodological and habitat-type factors determine differences and similarities in the results obtained by previous studies that have modelled the forest breeding habitat of the species. Our results revealed patterns in nesting-habitat modelling by the cinereous vulture throughout its whole range: steep and south-facing slopes, great cover of large trees and distance to human activities were generally selected. The ratio and situation of the studied plots (nests/random), the use of plots vs. polygons as sampling units and the number of years of data set determined the variability explained by the model. Moreover, a greater size of the breeding colony implied that ecological and geomorphological variables at landscape level were more influential. Additionally, human activities affected in greater proportion to colonies situated in Mediterranean forests. For the first time, a meta-analysis regarding the factors determining nest-site selection heterogeneity for a single species at broad scale was achieved. It is essential to homogenize and coordinate experimental design in modelling the selection of species' ecological requirements in order to avoid that differences in results among studies would be due to methodological heterogeneity. This would optimize best conservation and management practices for habitats and species in a global context. PMID:22413023

A Methodological Framework to Estimate the Site Fidelity of Tagged Animals Using Passive Acoustic Telemetry

PubMed Central

Capello, Manuela; Robert, Marianne; Soria, Marc; Potin, Gael; Itano, David; Holland, Kim; Deneubourg, Jean-Louis; Dagorn, Laurent

2015-01-01

The rapid expansion of the use of passive acoustic telemetry technologies has facilitated unprecedented opportunities for studying the behavior of marine organisms in their natural environment. This technological advance would greatly benefit from the parallel development of dedicated methodologies accounting for the variety of timescales involved in the remote detection of tagged animals related to instrumental, environmental and behavioral events. In this paper we propose a methodological framework for estimating the site fidelity (“residence times”) of acoustic tagged animals at different timescales, based on the survival analysis of continuous residence times recorded at multiple receivers. Our approach is validated through modeling and applied on two distinct datasets obtained from a small coastal pelagic species (bigeye scad, Selar crumenophthalmus) and a large, offshore pelagic species (yellowfin tuna, Thunnus albacares), which show very distinct spatial scales of behavior. The methodological framework proposed herein allows estimating the most appropriate temporal scale for processing passive acoustic telemetry data depending on the scientific question of interest. Our method provides residence times free of the bias inherent to environmental and instrumental noise that can be used to study the small scale behavior of acoustic tagged animals. At larger timescales, it can effectively identify residence times that encompass the diel behavioral excursions of fish out of the acoustic detection range. This study provides a systematic framework for the analysis of passive acoustic telemetry data that can be employed for the comparative study of different species and study sites. The same methodology can be used each time discrete records of animal detections of any nature are employed for estimating the site fidelity of an animal at different timescales. PMID:26261985

A Methodological Framework to Estimate the Site Fidelity of Tagged Animals Using Passive Acoustic Telemetry.

PubMed

Capello, Manuela; Robert, Marianne; Soria, Marc; Potin, Gael; Itano, David; Holland, Kim; Deneubourg, Jean-Louis; Dagorn, Laurent

2015-01-01

The rapid expansion of the use of passive acoustic telemetry technologies has facilitated unprecedented opportunities for studying the behavior of marine organisms in their natural environment. This technological advance would greatly benefit from the parallel development of dedicated methodologies accounting for the variety of timescales involved in the remote detection of tagged animals related to instrumental, environmental and behavioral events. In this paper we propose a methodological framework for estimating the site fidelity ("residence times") of acoustic tagged animals at different timescales, based on the survival analysis of continuous residence times recorded at multiple receivers. Our approach is validated through modeling and applied on two distinct datasets obtained from a small coastal pelagic species (bigeye scad, Selar crumenophthalmus) and a large, offshore pelagic species (yellowfin tuna, Thunnus albacares), which show very distinct spatial scales of behavior. The methodological framework proposed herein allows estimating the most appropriate temporal scale for processing passive acoustic telemetry data depending on the scientific question of interest. Our method provides residence times free of the bias inherent to environmental and instrumental noise that can be used to study the small scale behavior of acoustic tagged animals. At larger timescales, it can effectively identify residence times that encompass the diel behavioral excursions of fish out of the acoustic detection range. This study provides a systematic framework for the analysis of passive acoustic telemetry data that can be employed for the comparative study of different species and study sites. The same methodology can be used each time discrete records of animal detections of any nature are employed for estimating the site fidelity of an animal at different timescales.

Environmental characterisation of coal mine waste rock in the field: an example from New Zealand

NASA Astrophysics Data System (ADS)

Hughes, J.; Craw, D.; Peake, B.; Lindsay, P.; Weber, P.

2007-08-01

Characterisation of mine waste rock with respect to acid generation potential is a necessary part of routine mine operations, so that environmentally benign waste rock stacks can be constructed for permanent storage. Standard static characterisation techniques, such as acid neutralisation capacity (ANC), maximum potential acidity, and associated acid-base accounting, require laboratory tests that can be difficult to obtain rapidly at remote mine sites. We show that a combination of paste pH and a simple portable carbonate dissolution test, both techniques that can be done in the field in a 15 min time-frame, is useful for distinguishing rocks that are potentially acid-forming from those that are acid-neutralising. Use of these techniques could allow characterisation of mine wastes at the metre scale during mine excavation operations. Our application of these techniques to pyrite-bearing (total S = 1-4 wt%) but variably calcareous coal mine overburden shows that there is a strong correlation between the portable carbonate dissolution technique and laboratory-determined ANC measurements (range of 0-10 wt% calcite equivalent). Paste pH measurements on the same rocks are bimodal, with high-sulphur, low-calcite rocks yielding pH near 3 after 10 min, whereas high-ANC rocks yield paste pH of 7-8. In our coal mine example, the field tests were most effective when used in conjunction with stratigraphy. However, the same field tests have potential for routine use in any mine in which distinction of acid-generating rocks from acid-neutralising rocks is required. Calibration of field-based acid-base accounting characteristics of the rocks with laboratory-based static and/or kinetic tests is still necessary.

Improved characterisation and modelling of measurement errors in electrical resistivity tomography (ERT) surveys

NASA Astrophysics Data System (ADS)

Tso, Chak-Hau Michael; Kuras, Oliver; Wilkinson, Paul B.; Uhlemann, Sebastian; Chambers, Jonathan E.; Meldrum, Philip I.; Graham, James; Sherlock, Emma F.; Binley, Andrew

2017-11-01

Measurement errors can play a pivotal role in geophysical inversion. Most inverse models require users to prescribe or assume a statistical model of data errors before inversion. Wrongly prescribed errors can lead to over- or under-fitting of data; however, the derivation of models of data errors is often neglected. With the heightening interest in uncertainty estimation within hydrogeophysics, better characterisation and treatment of measurement errors is needed to provide improved image appraisal. Here we focus on the role of measurement errors in electrical resistivity tomography (ERT). We have analysed two time-lapse ERT datasets: one contains 96 sets of direct and reciprocal data collected from a surface ERT line within a 24 h timeframe; the other is a two-year-long cross-borehole survey at a UK nuclear site with 246 sets of over 50,000 measurements. Our study includes the characterisation of the spatial and temporal behaviour of measurement errors using autocorrelation and correlation coefficient analysis. We find that, in addition to well-known proportionality effects, ERT measurements can also be sensitive to the combination of electrodes used, i.e. errors may not be uncorrelated as often assumed. Based on these findings, we develop a new error model that allows grouping based on electrode number in addition to fitting a linear model to transfer resistance. The new model explains the observed measurement errors better and shows superior inversion results and uncertainty estimates in synthetic examples. It is robust, because it groups errors together based on the electrodes used to make the measurements. The new model can be readily applied to the diagonal data weighting matrix widely used in common inversion methods, as well as to the data covariance matrix in a Bayesian inversion framework. We demonstrate its application using extensive ERT monitoring datasets from the two aforementioned sites.

Rosetta mission operations for landing

NASA Astrophysics Data System (ADS)

Accomazzo, Andrea; Lodiot, Sylvain; Companys, Vicente

2016-08-01

The International Rosetta Mission of the European Space Agency (ESA) was launched on 2nd March 2004 on its 10 year journey to comet Churyumov-Gerasimenko and has reached it early August 2014. The main mission objectives were to perform close observations of the comet nucleus throughout its orbit around the Sun and deliver the lander Philae to its surface. This paper describers the activities at mission operations level that allowed the landing of Philae. The landing preparation phase was mainly characterised by the definition of the landing selection process, to which several parties contributed, and by the definition of the strategy for comet characterisation, the orbital strategy for lander delivery, and the definition and validation of the operations timeline. The definition of the landing site selection process involved almost all components of the mission team; Rosetta has been the first, and so far only mission, that could not rely on data collected by previous missions for the landing site selection. This forced the teams to include an intensive observation campaign as a mandatory part of the process; several science teams actively contributed to this campaign thus making results from science observations part of the mandatory operational products. The time allocated to the comet characterisation phase was in the order of a few weeks and all the processes, tools, and interfaces required an extensive planning an validation. Being the descent of Philae purely ballistic, the main driver for the orbital strategy was the capability to accurately control the position and velocity of Rosetta at Philae's separation. The resulting operations timeline had to merge this need of frequent orbit determination and control with the complexity of the ground segment and the inherent risk of problems when doing critical activities in short times. This paper describes the contribution of the Mission Control Centre (MOC) at the European Space Operations Centre (ESOC) to this mission phase and the lessons learned that can be derived from this experience.

Isolation, cloning and structural characterisation of boophilin, a multifunctional Kunitz-type proteinase inhibitor from the cattle tick.

PubMed

Macedo-Ribeiro, Sandra; Almeida, Carla; Calisto, Bárbara M; Friedrich, Thomas; Mentele, Reinhard; Stürzebecher, Jörg; Fuentes-Prior, Pablo; Pereira, Pedro José Barbosa

2008-02-20

Inhibitors of coagulation factors from blood-feeding animals display a wide variety of structural motifs and inhibition mechanisms. We have isolated a novel inhibitor from the cattle tick Boophilus microplus, one of the most widespread parasites of farm animals. The inhibitor, which we have termed boophilin, has been cloned and overexpressed in Escherichia coli. Mature boophilin is composed of two canonical Kunitz-type domains, and inhibits not only the major procoagulant enzyme, thrombin, but in addition, and by contrast to all other previously characterised natural thrombin inhibitors, significantly interferes with the proteolytic activity of other serine proteinases such as trypsin and plasmin. The crystal structure of the bovine alpha-thrombin.boophilin complex, refined at 2.35 A resolution reveals a non-canonical binding mode to the proteinase. The N-terminal region of the mature inhibitor, Q16-R17-N18, binds in a parallel manner across the active site of the proteinase, with the guanidinium group of R17 anchored in the S(1) pocket, while the C-terminal Kunitz domain is negatively charged and docks into the basic exosite I of thrombin. This binding mode resembles the previously characterised thrombin inhibitor, ornithodorin which, unlike boophilin, is composed of two distorted Kunitz modules. Unexpectedly, both boophilin domains adopt markedly different orientations when compared to those of ornithodorin, in its complex with thrombin. The N-terminal boophilin domain rotates 9 degrees and is displaced by 6 A, while the C-terminal domain rotates almost 6 degrees accompanied by a 3 A displacement. The reactive-site loop of the N-terminal Kunitz domain of boophilin with its P(1) residue, K31, is fully solvent exposed and could thus bind a second trypsin-like proteinase without sterical restraints. This finding explains the formation of a ternary thrombin.boophilin.trypsin complex, and suggests a mechanism for prothrombinase inhibition in vivo.

Identification and characterisation of local aerosol sources using high temporal resolution measurements.

PubMed

Contini, D; Donateo, A; Cesari, D; Belosi, F; Francioso, S

2010-09-01

Aerosol and gaseous pollution measurements were carried out at an urban background site in the south of Italy located near an industrial complex. Collection of 24 h samples of PM10 and PM2.5 and successive chemical quantification of metals were performed. Data were compared with measurements taken at a suburban background site, located at 25 km distance. The comparison showed the presence of an industrial contribution with a well defined chemical emission profile, similar, in terms of metals content, to urban emissions. As this made difficult the quantitative characterisation of the contribution of the two sources to atmospheric PM, a statistical method based on the treatment of data arising from high temporal resolution measurements was developed. Data were taken with a micrometeorological station based on an integrating nephelometer (Mie pDR-1200) for optical detection of PM2.5 concentration, with successive evaluation of vertical turbulent fluxes using the eddy-correlation method. Results show that the contribution from the two sources (urban emissions and industrial releases) have a very different behaviour, with the industrial contribution being present at high wind velocity with short concentration peaks (average duration 4 min) associated to strong positive and negative vertical fluxes. The estimated contribution to PM2.5 is 2.3% over long-term averages. The urban emissions are mainly present at low wind velocity, with longer concentration peaks in the morning and late evening hours, generally associated to small positive vertical fluxes. The characterisation of the contribution was performed using deposition velocity V(d) that is on average -3.5 mm s(-1) and has a diurnal pattern, with negligible values during the night and a minimum value of around -9 mm s(-1) late in the afternoon. Results show a correlation between V(d), friction velocity and wind velocity that could be the basis for a parameterisation of V(d) to be used in dispersion codes.

Predominance of influenza A(H3N2) viruses during the 2016/2017 season in Bulgaria.

PubMed

Korsun, Neli; Angelova, Svetla; Trifonova, Ivelina; Tzotcheva, Iren; Mileva, Sirma; Voleva, Silvia; Georgieva, Irina; Perenovska, Penka

2018-02-01

Influenza viruses are characterised by high variability, which makes them able to cause annual epidemics. The aim of this study is to determine the antigenic and genetic characteristics of influenza viruses circulating in Bulgaria during the 2016/2017 season. The detection and typing/subtyping of influenza viruses were performed using real time RT-PCR. Results of antigenic characterisation, phylogenetic and amino acid sequence analyses of representative influenza strains are presented herein. The 2016/2017 season was characterised by an early start, an exclusive dominance of A(H3N2) viruses accounting for 93 % of total influenza virus detections, and a low circulation of A(H1N1)pdm09 (4.2 %) and type B (2.5 %) viruses. The analysed A(H3N2) viruses belonged to subclades 3C.2a (52 %) and 3C.2a1 (48 %); all studied A(H1N1)pdm09 and B/Victoria-lineage viruses belonged to subclades 6B.1 and 1A, respectively. The amino acid sequence analysis of 56 A(H3N2) isolates revealed the presence of substitutions in 18 positions in haemagglutinin (HA) as compared to the A/Hong Kong/4801/2014 vaccine virus, seven of which occurred in four antigenic sites, together with changes in 23 positions in neuraminidase (NA), and a number of substitutions in internal proteins PB2, PB1, PB1-F2, PA, NP and NS1. Despite the many amino acid substitutions, A(H3N2) viruses remained antigenically similar to the vaccine strain. Substitutions in HA and NA sequences of A(H1N1)pdm09 and B/Victoria-lineage strains were also identified, including in antigenic sites. The results of this study confirm the genetic variability of circulating influenza viruses, particularly A(H3N2), and the need for continued antigenic and molecular surveillance.

The influence of micro-topography and external bioerosion on coral-reef-building organisms: recruitment, community composition and carbonate production over time

NASA Astrophysics Data System (ADS)

Mallela, Jennie

2018-03-01

The continued health and function of tropical coral reefs is highly dependent on the ability of reef-building organisms to build large, complex, three-dimensional structures that continue to accrete and evolve over time. The recent deterioration of reef health globally, including loss of coral cover, has resulted in significant declines in architectural complexity at a large, reef-scape scale. Interestingly, the fine-scale role of micro-structure in initiating and facilitating future reef development and calcium carbonate production has largely been overlooked. In this study, experimental substrates with and without micro-ridges were deployed in the lagoon at One Tree Island for 34 months. This study assessed how the presence or absence of micro-ridges promoted recruitment by key reef-building sclerobionts (corals and encrusters) and their subsequent development at micro (mm) and macro (cm) scales. Experimental plates were examined after 11 and 34 months to assess whether long-term successional and calcification processes on different micro-topographies led to convergent or divergent communities over time. Sclerobionts were most prevalent in micro-grooves when they were available. Interestingly, in shallow lagoon reef sites characterised by shoals of small parrotfish and low urchin abundance, flat substrates were also successfully recruited to. Mean rates of carbonate production were 374 ± 154 (SD) g CaCO3 m-2 yr-1 within the lagoon. Substrates with micro-ridges were characterised by significantly greater rates of carbonate production than smooth substrates. The orientation of the substrate and period of immersion also significantly impacted rates of carbonate production, with CaCO3 on cryptic tiles increasing by 28% between 11 and 34 months. In contrast, rates on exposed tiles declined by 35% over the same time. In conclusion, even at sites characterised by small-sized parrotfish and low urchin density, micro-topography is an important settlement niche clearly favouring sclerobiont early life-history processes and subsequent carbonate production.

Greener synthesis of Cu-MOF-74 and its catalytic use for the generation of vanillin.

PubMed

Flores, J Gabriel; Sánchez-González, Elí; Gutiérrez-Alejandre, Aída; Aguilar-Pliego, Julia; Martínez, Ana; Jurado-Vázquez, Tamara; Lima, Enrique; González-Zamora, Eduardo; Díaz-García, Manuel; Sánchez-Sánchez, Manuel; Ibarra, Ilich A

2018-03-26

A greener synthesis of Cu-MOF-74 was obtained, for the first time, in methanol as the unique solvent and at room temperature. Full characterisation of the MOF material showed its purity and also its nanocrystalline nature. Complete activation (150 °C for 1 h and 10-3 bar) of Cu-MOF-74 afforded unsaturated Cu metal sites and this was corroborated by in situ DRIFT spectroscopy. The access to these Cu open metal sites was tested for the catalytic transformation of trans-ferulic acid to vanillin (yield of 71% and 97% selectivity) and a plausible catalytic reaction mechanism was postulated based on quantum chemical calculations.

FIELD EVALUATION OF IN-SITU BIODEGRADATION OF CHLORINATED ETHENES: PART I, METHODOLOGY AND FIELD SITE CHARACTERIZATION

EPA Science Inventory

Careful site characterization and implementation of quantitative monitoring methods are prerequisites for a convincing evaluation of enhanced biostimulation for aquifer restoration. his paper describes the characterization of a site at Moffett Naval Air Station, Mountain View, Ca...

Assessment of methodologies for analysis of the dungeness B accidental aircraft crash risk.

DOE Office of Scientific and Technical Information (OSTI.GOV)

LaChance, Jeffrey L.; Hansen, Clifford W.

2010-09-01

The Health and Safety Executive (HSE) has requested Sandia National Laboratories (SNL) to review the aircraft crash methodology for nuclear facilities that are being used in the United Kingdom (UK). The scope of the work included a review of one method utilized in the UK for assessing the potential for accidental airplane crashes into nuclear facilities (Task 1) and a comparison of the UK methodology against similar International Atomic Energy Agency (IAEA), United States (US) Department of Energy (DOE), and the US Nuclear Regulatory Commission (NRC) methods (Task 2). Based on the conclusions from Tasks 1 and 2, an additionalmore » Task 3 would provide an assessment of a site-specific crash frequency for the Dungeness B facility using one of the other methodologies. This report documents the results of Task 2. The comparison of the different methods was performed for the three primary contributors to aircraft crash risk at the Dungeness B site: airfield related crashes, crashes below airways, and background crashes. The methods and data specified in each methodology were compared for each of these risk contributors, differences in the methodologies were identified, and the importance of these differences was qualitatively and quantitatively assessed. The bases for each of the methods and the data used were considered in this assessment process. A comparison of the treatment of the consequences of the aircraft crashes was not included in this assessment because the frequency of crashes into critical structures is currently low based on the existing Dungeness B assessment. Although the comparison found substantial differences between the UK and the three alternative methodologies (IAEA, NRC, and DOE) this assessment concludes that use of any of these alternative methodologies would not change the conclusions reached for the Dungeness B site. Performance of Task 3 is thus not recommended.« less

DOE Office of Scientific and Technical Information (OSTI.GOV)

Foley, M.G.; Zimmerman, D.A.; Doesburg, J.M.

A literature review was conducted to identify methodologies that could be used to interpret paleohydrologic environments. Paleohydrology is the study of past hydrologic systems or of the past behavior of an existing hydrologic system. The purpose of the review was to evaluate how well these methodologies could be applied to the siting of low-level radioactive waste facilities. The computer literature search queried five bibliographical data bases containing over five million citations of technical journals, books, conference papers, and reports. Two data-base searches (United States Geological Survey - USGS) and a manual search were also conducted. The methodologies were examined formore » data requirements and sensitivity limits. Paleohydrologic interpretations are uncertain because of the effects of time on hydrologic and geologic systems and because of the complexity of fluvial systems. Paleoflow determinations appear in many cases to be order-of-magnitude estimates. However, the methodologies identified in this report mitigate this uncertainty when used collectively as well as independently. That is, the data from individual methodologies can be compared or combined to corroborate hydrologic predictions. In this manner, paleohydrologic methodologies are viable tools to assist in evaluating the likely future hydrology of low-level radioactive waste sites.« less

Conducting a Surgical Site Infection Prevention Tracer.

PubMed

Padgette, Polly; Wood, Brittain

2018-05-01

Surgical site infections (SSIs) are the most common health care-associated infections in patients. Approximately half of SSIs are preventable when using evidence-based strategies; however, deviations from evidence-based practice can occur over time. Infection preventionists and perioperative staff members can help prevent these deviations by observing staff member practices using tracer methodology. Tracer methodology uses clinical information to follow patient care, treatment, or services provided throughout the care delivery system. The goal of tracer methodology for SSI prevention is to validate that organizational processes are promoting safer patient care. Using tracers, perioperative and infection prevention staff members can develop strategies to eliminate deviations from evidence-based practice, thereby helping to prevent SSIs and improve patient outcomes. © AORN, Inc, 2018.

Spatial terrain analysis for matching native tree species to sites: a methodology

Treesearch

Robin N. Thwaites

2000-01-01

Predicting the distribution of preferable biophysical sites for three of the favored plantation species - Araucaria cunninghamii, Eucalyptus cloeziana, and Flindersia brayleyana is necessary for private land rehabilitation in tropical north Queensland. The distribution of these predicted sites is expressed in a spatial and...

METHODOLOGY FOR SITING AMBIENT AIR MONITORS AT THE NEIGHBORHOOD SCALE

EPA Science Inventory

In siting a monitor to measure compliance with U.S. National Ambient Air Quality Standards for particulate matter (PM), there is a need to characterize variations in PM concentration within a neighborhood-scale region in order to achieve monitor siting objectives.

We p...

A FIELD EVALUATION OF IN-SITU BIODEGRADATION OF CHLORINATED ETHENES: PART I, METHODOLOGY AND FIELD SITE CHARACTERIZATION

EPA Science Inventory

Careful site characterization and implementation of quantitative monitoring methods are prerequisites for a convincing evaluation of enhanced biostimulation for aquifer restoration. This paper describes the characterization of a site at Moffett Naval Air Station, Mountain View, C...

A review of the current state-of-the-art methodology for handling bias and uncertainty in performing criticality safety evaluations. Final report

DOE Office of Scientific and Technical Information (OSTI.GOV)

Disney, R.K.

1994-10-01

The methodology for handling bias and uncertainty when calculational methods are used in criticality safety evaluations (CSE`s) is a rapidly evolving technology. The changes in the methodology are driven by a number of factors. One factor responsible for changes in the methodology for handling bias and uncertainty in CSE`s within the overview of the US Department of Energy (DOE) is a shift in the overview function from a ``site`` perception to a more uniform or ``national`` perception. Other causes for change or improvement in the methodology for handling calculational bias and uncertainty are; (1) an increased demand for benchmark criticalsmore » data to expand the area (range) of applicability of existing data, (2) a demand for new data to supplement existing benchmark criticals data, (3) the increased reliance on (or need for) computational benchmarks which supplement (or replace) experimental measurements in critical assemblies, and (4) an increased demand for benchmark data applicable to the expanded range of conditions and configurations encountered in DOE site restoration and remediation.« less

The subjective experience and phenomenology of depression following first episode psychosis: a qualitative study using photo-elicitation.

PubMed

Sandhu, Amrita; Ives, Jonathan; Birchwood, Max; Upthegrove, Rachel

2013-07-01

Depression following first episode psychosis (FEP) is a frequent occurrence, with profound impact on recovery and outcome. Whilst many theories exist about the causes of depression here, research to date has been based on nosology imported wholesale from affective disorder, with little primary research on the subjective experience. This study aimed to explore the subjective experience and phenomenological features of post-psychotic depression in FEP. A qualitative methodology, photo-elicitation, together with unstructured interviews, was used to characterise aspects of depression following FEP and analysed using contemporary framework analysis. Depression was reported by participants as linked to the experience of and recovery from psychosis. The psychotic episode was a traumatic event followed by subjective doubt, shame and embarrassment. Loss and social isolation were central. Core biological symptoms did not feature. Despite the relatively small sample size, this study was able to generate in-depth data that provides useful and novel insight. Whilst generalisability is incompatible with qualitative methodology, further research using the same methodology would generate a wider range of experiences and perspectives. Understanding this dimension of psychosis in and of itself has the potential to improve and aid development of more effective and appropriately targeted interventions and associated outcomes. Crown Copyright © 2013. Published by Elsevier B.V. All rights reserved.

Risk-based economic decision analysis of remediation options at a PCE-contaminated site.

PubMed

Lemming, Gitte; Friis-Hansen, Peter; Bjerg, Poul L

2010-05-01

Remediation methods for contaminated sites cover a wide range of technical solutions with different remedial efficiencies and costs. Additionally, they may vary in their secondary impacts on the environment i.e. the potential impacts generated due to emissions and resource use caused by the remediation activities. More attention is increasingly being given to these secondary environmental impacts when evaluating remediation options. This paper presents a methodology for an integrated economic decision analysis which combines assessments of remediation costs, health risk costs and potential environmental costs. The health risks costs are associated with the residual contamination left at the site and its migration to groundwater used for drinking water. A probabilistic exposure model using first- and second-order reliability methods (FORM/SORM) is used to estimate the contaminant concentrations at a downstream groundwater well. Potential environmental impacts on the local, regional and global scales due to the site remediation activities are evaluated using life cycle assessments (LCA). The potential impacts on health and environment are converted to monetary units using a simplified cost model. A case study based upon the developed methodology is presented in which the following remediation scenarios are analyzed and compared: (a) no action, (b) excavation and off-site treatment of soil, (c) soil vapor extraction and (d) thermally enhanced soil vapor extraction by electrical heating of the soil. Ultimately, the developed methodology facilitates societal cost estimations of remediation scenarios which can be used for internal ranking of the analyzed options. Despite the inherent uncertainties of placing a value on health and environmental impacts, the presented methodology is believed to be valuable in supporting decisions on remedial interventions. Copyright 2010 Elsevier Ltd. All rights reserved.

Investigating vegetation spectral reflectance for detecting hydrocarbon pipeline leaks from multispectral data

NASA Astrophysics Data System (ADS)

Adamu, Bashir; Tansey, Kevin; Bradshaw, Michael J.

2013-10-01

The aim of this paper is to analyse spectral reflectance data from Landsat TM of vegetation that has been exposed to hydrocarbon contamination from oil spills from pipelines. The study is undertaken in an area of mangrove and swamp vegetation where the detection of an oil spill is traditionally difficult to make. We used a database of oil spill records to help identify candidate sites for spectral analysis. Extracted vegetation spectra were compared between polluted and nonpolluted sites and supervised (neural network) classification was carried out to map hydrocarbon (HC) contaminated sites from the sample areas. Initial results show that polluted sites are characterised by high reflectance in the visible (VIS) 0.4μm - 0.7μm, and a lower reflectance in the near-infrared (NIR) 0.7μm - 1.1μm. This suggests that the vegetation is in a stressed state. Samples taken from pixels surrounding polluted sites show similar spectral reflectance values to that of polluted sites suggesting possible migration of HC to the wider environment. Further work will focus on increasing the sample size and investigating the impact of an oil spill on a wider buffer zone around the spill site.

Semi-Metric Topology of the Human Connectome: Sensitivity and Specificity to Autism and Major Depressive Disorder.

PubMed

Simas, Tiago; Chattopadhyay, Shayanti; Hagan, Cindy; Kundu, Prantik; Patel, Ameera; Holt, Rosemary; Floris, Dorothea; Graham, Julia; Ooi, Cinly; Tait, Roger; Spencer, Michael; Baron-Cohen, Simon; Sahakian, Barbara; Bullmore, Ed; Goodyer, Ian; Suckling, John

2015-01-01

The human functional connectome is a graphical representation, consisting of nodes connected by edges, of the inter-relationships of blood oxygenation-level dependent (BOLD) time-series measured by MRI from regions encompassing the cerebral cortices and, often, the cerebellum. Semi-metric analysis of the weighted, undirected connectome distinguishes an edge as either direct (metric), such that there is no alternative path that is accumulatively stronger, or indirect (semi-metric), where one or more alternative paths exist that have greater strength than the direct edge. The sensitivity and specificity of this method of analysis is illustrated by two case-control analyses with independent, matched groups of adolescents with autism spectrum conditions (ASC) and major depressive disorder (MDD). Significance differences in the global percentage of semi-metric edges was observed in both groups, with increases in ASC and decreases in MDD relative to controls. Furthermore, MDD was associated with regional differences in left frontal and temporal lobes, the right limbic system and cerebellum. In contrast, ASC had a broadly increased percentage of semi-metric edges with a more generalised distribution of effects and some areas of reduction. In summary, MDD was characterised by localised, large reductions in the percentage of semi-metric edges, whilst ASC is characterised by more generalised, subtle increases. These differences were corroborated in greater detail by inspection of the semi-metric backbone for each group; that is, the sub-graph of semi-metric edges present in >90% of participants, and by nodal degree differences in the semi-metric connectome. These encouraging results, in what we believe is the first application of semi-metric analysis to neuroimaging data, raise confidence in the methodology as potentially capable of detection and characterisation of a range of neurodevelopmental and psychiatric disorders.

Use of in situ and confocal Raman spectroscopy to study the nature and distribution of carotenoids in brown patinas from a deteriorated wall painting in Marcus Lucretius House (Pompeii).

PubMed

Maguregui, M; Knuutinen, U; Trebolazabala, J; Morillas, H; Castro, K; Martinez-Arkarazo, I; Madariaga, J M

2012-02-01

Colonisation of wall paintings by microorganisms and other organisms is a well-known problematic phenomenon. Besides taxonomic identification of the biodeteriogen, it is essential to evaluate the consequences of the colonisation, e.g., unsightly coloured patinas. This work proposes new methodology for characterisation of the nature of the main carotenoids and their distribution in brown stains or patinas of a deteriorated wall painting on the north wall of the atrium of Marcus Lucretius House (Pompeii, Italy). Characterisation of the brown patinas and surrounding areas (plaster and polychromy) from the wall painting started with in situ screening using, mainly, a portable Raman instrument with a handheld FTIR (DRIFTS sampling interface) in order to select the sampling areas suitable for further analysis in the laboratory. Two wall painting fragments were then analysed in the laboratory in two steps. First, microscopic observations (SEM and phase-contrast microscopy) were used to determine whether biodeteriogens were present in the samples. In a second step, confocal Raman microscopy (785 and 514 nm excitation lasers) was used to characterise the main biogenic compounds of the brown stains. Because of the resonance Raman effect (514 nm excitation laser), it was possible to obtain reliable Raman features to assign not only the nature of the main biogenic pigments (carotenoids) present in the stains, but also their spatial conformation. Moreover, Raman confocal applications, for example, Raman imaging and depth profiling were also used in a first attempt to determine the distribution of biosynthesised carotenoids in the stains, and to determine the thickness of the brown patinas.

Neuroethological validation of an experimental apparatus to evaluate oriented and non-oriented escape behaviours: Comparison between the polygonal arena with a burrow and the circular enclosure of an open-field test.

PubMed

Biagioni, Audrey Francisco; dos Anjos-Garcia, Tayllon; Ullah, Farhad; Fisher, Isaac René; Falconi-Sobrinho, Luiz Luciano; de Freitas, Renato Leonardo; Felippotti, Tatiana Tocchini; Coimbra, Norberto Cysne

2016-02-01

Inhibition of GABAergic neural inputs to dorsal columns of the periaqueductal grey matter (dPAG), posterior (PH) and dorsomedial (DMH) hypothalamic nuclei elicits distinct types of escape behavioural reactions. To differentiate between the variety and intensity of panic-related behaviours, the pattern of defensive behaviours evoked by blockade of GABAA receptors in the DMH, PH and dPAG were compared in a circular open-field test and in a recently designed polygonal arena. In the circular open-field, the defensive behaviours induced by microinjection of bicuculline into DMH and PH were characterised by defensive alertness behaviour and vertical jumps preceded by rearing exploratory behaviour. On the other hand, explosive escape responses interspersed with horizontal jumps and freezing were observed after the blockade of GABAA receptors on dPAG neurons. In the polygonal arena apparatus, the escape response produced by GABAergic inhibition of DMH and PH neurons was directed towards the burrow. In contrast, the blockade of GABAA receptors in dPAG evoked non-oriented escape behaviour characterised by vigorous running and horizontal jumps in the arena. Our findings support the hypothesis that the hypothalamic nuclei organise oriented escape behavioural responses whereas non-oriented escape is elaborated by dPAG neurons. Additionally, the polygonal arena with a burrow made it easy to discriminate and characterise these two different patterns of escape behavioural responses. In this sense, the polygonal arena with a burrow can be considered a good methodological tool to discriminate between these two different patterns of escape behavioural responses and is very useful as a new experimental animal model of panic attacks. Copyright © 2015 Elsevier B.V. All rights reserved.

Biomimetic routes to nanoscale-toughened oxide ceramics

NASA Astrophysics Data System (ADS)

Deschaume, Olivier

In this work, a novel anion exchange technique has been developed and optimised in order to prepare extra-pure, hydroxide-free solutions of aluminium polyoxocations (A113 and A130) as well as for the preparation of nanosized, highly monodisperse aluminium hydroxide particles in the particle size range 20-200nm. In order for the evolution and composition of the resulting systems to be monitored, an array of characterisation techniques including 27A1 NMR, dynamic light scattering, po-tentiometry, conductometry and UV-Vis spectroscopy, have been implemented and complemented with successful data treatment strategies. The quantitative data obtained indicates that the static anion exchange method is a soft, environmentally friendly, low-cost, energy-saving and convenient procedure for the preparation of Al- containing model systems. The A1 species obtained can be used for high-precision model studies on A1 speciation, and serve as nanosize precursors to a variety of Al-containing materials. The use of these pure A1 precursors has a clear advantage in materials synthesis arising from an improved understanding and better control of A1 speciation. In a second development of the project, the model systems have been used in a nanotectonic approach to biomimetic materials synthesis, with possible applications to the optimisation of Al-containing materials such as ceramics or composite films. Bearing this aim in mind, the interactions of the prepared aluminium species with the model protein BSA and a bioelastomer, elastin, were monitored and the resulting composite materials characterised. The methodology developed for the synthesis and characterisation of pure A1 species and A1 species/biomolecule systems is a robust base for further studies spanning research fields such as Chemistry, Biology or Environmental sciences, and possess a large potential for application to industrial products and processes.

Semi-Metric Topology of the Human Connectome: Sensitivity and Specificity to Autism and Major Depressive Disorder

PubMed Central

Simas, Tiago; Chattopadhyay, Shayanti; Hagan, Cindy; Kundu, Prantik; Patel, Ameera; Holt, Rosemary; Floris, Dorothea; Graham, Julia; Ooi, Cinly; Tait, Roger; Spencer, Michael; Baron-Cohen, Simon; Sahakian, Barbara; Bullmore, Ed; Goodyer, Ian; Suckling, John

2015-01-01

Introduction The human functional connectome is a graphical representation, consisting of nodes connected by edges, of the inter-relationships of blood oxygenation-level dependent (BOLD) time-series measured by MRI from regions encompassing the cerebral cortices and, often, the cerebellum. Semi-metric analysis of the weighted, undirected connectome distinguishes an edge as either direct (metric), such that there is no alternative path that is accumulatively stronger, or indirect (semi-metric), where one or more alternative paths exist that have greater strength than the direct edge. The sensitivity and specificity of this method of analysis is illustrated by two case-control analyses with independent, matched groups of adolescents with autism spectrum conditions (ASC) and major depressive disorder (MDD). Results Significance differences in the global percentage of semi-metric edges was observed in both groups, with increases in ASC and decreases in MDD relative to controls. Furthermore, MDD was associated with regional differences in left frontal and temporal lobes, the right limbic system and cerebellum. In contrast, ASC had a broadly increased percentage of semi-metric edges with a more generalised distribution of effects and some areas of reduction. In summary, MDD was characterised by localised, large reductions in the percentage of semi-metric edges, whilst ASC is characterised by more generalised, subtle increases. These differences were corroborated in greater detail by inspection of the semi-metric backbone for each group; that is, the sub-graph of semi-metric edges present in >90% of participants, and by nodal degree differences in the semi-metric connectome. Conclusion These encouraging results, in what we believe is the first application of semi-metric analysis to neuroimaging data, raise confidence in the methodology as potentially capable of detection and characterisation of a range of neurodevelopmental and psychiatric disorders. PMID:26308854

Genomic characterisation of Arachis porphyrocalyx (Valls & C.E. Simpson, 2005) (Leguminosae): multiple origin of Arachis species with x = 9.

PubMed

Celeste, Silvestri María; Ortiz, Alejandra Marcela; Robledo, Germán Ariel; Valls, José Francisco Montenegro; Lavia, Graciela Inés

2017-01-01

The genus Arachis Linnaeus, 1753 comprises four species with x = 9, three belong to the section Arachis: Arachis praecox (Krapov. W.C. Greg. & Valls, 1994), Arachis palustris (Krapov. W.C. Greg. & Valls, 1994) and Arachis decora (Krapov. W.C. Greg. & Valls, 1994) and only one belongs to the section Erectoides: Arachis porphyrocalyx (Valls & C.E. Simpson, 2005). Recently, the x = 9 species of section Arachis have been assigned to G genome, the latest described so far. The genomic relationship of Arachis porphyrocalyx with these species is controversial. In the present work, we carried out a karyotypic characterisation of Arachis porphyrocalyx to evaluate its genomic structure and analyse the origin of all x = 9 Arachis species. Arachis porphyrocalyx showed a karyotype formula of 14m+4st, one pair of A chromosomes, satellited chromosomes type 8, one pair of 45S rDNA sites in the SAT chromosomes, one pair of 5S rDNA sites and pericentromeric C-DAPI+ bands in all chromosomes. Karyotype structure indicates that Arachis porphyrocalyx does not share the same genome type with the other three x = 9 species and neither with the remaining Erectoides species. Taking into account the geographic distribution, morphological and cytogenetic features, the origin of species with x = 9 of the genus Arachis cannot be unique; instead, they originated at least twice in the evolutionary history of the genus.

A Computational Tool for Evaluating THz Imaging Performance in Brownout Conditions at Land Sites Throughout the World

DTIC Science & Technology

2009-03-01

III. Methodology ...............................................................................................................26 Overview...applications relating to this research and the results they have obtained, as well as the background on LEEDR. Chapter 3 will detail the methodology ...different in that the snow dissipates faster and it is better to descend slower, at rates of 200 – 300 ft/min. 26 III. Methodology This chapter

Characterising variation in wheat traits under hostile soil conditions in India

PubMed Central

Khokhar, Jaswant S.; Sareen, Sindhu; Tyagi, Bhudeva S.; Singh, Gyanendra; Chowdhury, Apurba K.; Dhar, Tapamay; Singh, Vinod; King, Ian P.; Young, Scott D.

2017-01-01

Intensive crop breeding has increased wheat yields and production in India. Wheat improvement in India typically involves selecting yield and component traits under non-hostile soil conditions at regional scales. The aim of this study is to quantify G*E interactions on yield and component traits to further explore site-specific trait selection for hostile soils. Field experiments were conducted at six sites (pH range 4.5–9.5) in 2013–14 and 2014–15, in three agro-climatic regions of India. At each site, yield and component traits were measured on 36 genotypes, representing elite varieties from a wide genetic background developed for different regions. Mean grain yields ranged from 1.0 to 5.5 t ha-1 at hostile and non-hostile sites, respectively. Site (E) had the largest effect on yield and component traits, however, interactions between genotype and site (G*E) affected most traits to a greater extent than genotype alone. Within each agro-climatic region, yield and component traits correlated positively between hostile and non-hostile sites. However, some genotypes performed better under hostile soils, with site-specific relationships between yield and component traits, which supports the value of ongoing site-specific selection activities. PMID:28604800

The ASCD Healthy School Communities Project: Formative Evaluation Results

ERIC Educational Resources Information Center

Valois, Robert F.; Lewallen, Theresa C.; Slade, Sean; Tasco, Adriane N.

2015-01-01

Purpose: The purpose of this paper is to report the formative evaluation results from the Association for Supervision and Curriculum Development Healthy School Communities (HSC) pilot project. Design/methodology/approach: This study utilized 11 HSC pilot sites in the USA (eight sites) and Canada (three sites). The evaluation question was…

Validation of SMAP surface soil moisture products with core validation sites

USDA-ARS?s Scientific Manuscript database

The NASA Soil Moisture Active Passive (SMAP) mission has utilized a set of core validation sites as the primary methodology in assessing the soil moisture retrieval algorithm performance. Those sites provide well-calibrated in situ soil moisture measurements within SMAP product grid pixels for diver...

Role of magnetic resonance imaging and scintigraphy in the diagnosis and follow-up of osteomyelitis in cat-scratch disease.

PubMed

Rozmanic, Vojko; Banac, Srdjan; Miletic, Damir; Manestar, Koraljka; Kamber, Silvija; Paparic, Sime

2007-01-01

Cat-scratch disease (CSD) is a self-limiting infectious disease characterised with lymphadenopathy in a patient with a history of cat contact. Cases of bone involvement in patients with CSD are rare. We reported a case of 11-year-old boy with prolonged intermittent fever, inguinal lymphadenopathy and osteomyelitis. He had a history of exposure to kittens. The physical examination revealed a febrile boy without an apparent site of infection except an enlarged inguinal lymph node. Its histopathology demonstrated granulomatous lesion with no presence of acid-fast bacilli. Serum titers for Bartonella henselae were positive. Multiple bone lesions were detected by skeletal scintigraphy. Magnetic resonance imaging (MRI) confirmed and characterised osteolytic masses. The oral combination of azithromycin and rifampicin were given for 6 weeks with a good clinical response. At follow-up, the boy was without symptoms or signs of the disease. Successive MRI controls showed gradual regression of the bone lesions together with significant decrease of acute-phase reactants. In conclusion, CSD should be considered in the differential diagnosis of osteomyelitis. MRI is more reliable for the characterisation, evaluation of soft-tissue extension and follow-up of the bone lesions than scintigraphy. However, the later method permits an overview of the multiple osseous lesions. Therefore, standard MRI equipment may not exclude bone scintigraphy. Both methods are required until whole-body MRI units become routine.

Characterising the spatial variability of the tidal stream energy resource from floating turbines

NASA Astrophysics Data System (ADS)

Ward, Sophie; Neill, Simon; Robins, Peter

2017-04-01

The shelf seas, in particular the northwest European shelf seas surrounding the UK, contain significant tidal power potential. Tidal stream energy is both predictable and reliable providing that sites are well-selected based upon the hydrodynamic regime and the device specifics. In this high resolution three-dimensional tidal modelling study, we investigate how the tidal stream resource around the Welsh coast (UK) varies with water depth and location, with particular focus on the Pembrokeshire region. The potential extractable energy for a floating tidal stream energy converter is compared with that for a bottom-fixed device, highlighting the need to vary the resource characterisation criteria based on device specifics. We demonstrate how small variations in the tidal current speeds - with hub depth or due to tidal asymmetry - can lead to substantial variations in potential power output. Further, the results indicate that power generation from floating tidal energy converters will be more significantly influenced by tidal elevations in regions characterised by a lower tidal range (more progressive waves) than regions that experience a high tidal range (standing waves). As numerical modelling capacity improves and tidal stream energy converter technologies develop, ongoing improved quantification of the tidal resource is needed, as well as consideration of the possible feedbacks of the devices and energy extraction on the hydrodynamic regime and the surrounding area.

Demonstrating the Value of Fine-resolution Optical Data for Minimising Aliasing Impacts on Biogeochemical Models of Surface Waters

NASA Astrophysics Data System (ADS)

Chappell, N. A.; Jones, T.; Young, P.; Krishnaswamy, J.

2015-12-01

There is increasing awareness that under-sampling may have resulted in the omission of important physicochemical information present in water quality signatures of surface waters - thereby affecting interpretation of biogeochemical processes. For dissolved organic carbon (DOC) and nitrogen this under-sampling can now be avoided using UV-visible spectroscopy measured in-situ and continuously at a fine-resolution e.g. 15 minutes ("real time"). Few methods are available to extract biogeochemical process information directly from such high-frequency data. Jones, Chappell & Tych (2014 Environ Sci Technol: 13289-97) developed one such method using optically-derived DOC data based upon a sophisticated time-series modelling tool. Within this presentation we extend the methodology to quantify the minimum sampling interval required to avoid distortion of model structures and parameters that describe fundamental biogeochemical processes. This shifting of parameters which results from under-sampling is called "aliasing". We demonstrate that storm dynamics at a variety of sites dominate over diurnal and seasonal changes and that these must be characterised by sampling that may be sub-hourly to avoid aliasing. This is considerably shorter than that used by other water quality studies examining aliasing (e.g. Kirchner 2005 Phys Rev: 069902). The modelling approach presented is being developed into a generic tool to calculate the minimum sampling for water quality monitoring in systems driven primarily by hydrology. This is illustrated with fine-resolution, optical data from watersheds in temperate Europe through to the humid tropics.

Functional cooperation between exonucleases and endonucleases—basis for the evolution of restriction enzymes

PubMed Central

Raghavendra, Nidhanapathi K.; Rao, Desirazu N.

2003-01-01

Many types of restriction enzymes cleave DNA away from their recognition site. Using the type III restriction enzyme, EcoP15I, which cleaves DNA 25–27 bp away from its recognition site, we provide evidence to show that an intact recognition site on the cleaved DNA sequesters the restriction enzyme and decreases the effective concentration of the enzyme. EcoP15I restriction enzyme is shown here to perform only a single round of DNA cleavage. Significantly, we show that an exonuclease activity is essential for EcoP15I restriction enzyme to perform multiple rounds of DNA cleavage. This observation may hold true for all restriction enzymes cleaving DNA sufficiently far away from their recognition site. Our results highlight the importance of functional cooperation in the modulation of enzyme activity. Based on results presented here and other data on well-characterised restriction enzymes, a functional evolutionary hierarchy of restriction enzymes is discussed. PMID:12655005

Impacts of maintenance dredged material disposal on macrobenthic structure and secondary productivity.

PubMed

Bolam, S G; Barry, J; Bolam, T; Mason, C; Rumney, H S; Thain, J E; Law, R J

2011-10-01

The results of a monitoring programme to assess the spatial impacts associated with ongoing dredged material disposal activity at a dispersive, coastal disposal site (southwest UK) are described. Benthic impacts were assessed using benthic community structure and secondary productivity estimates. Analyses of univariate indices (including secondary production) and multivariate community structure revealed differences between stations inside and those outside the disposal site were minimal. Generally, stations within and outside the disposal site were characterised by the same species. Regression models indicated that the variability in biological structure and secondary production was predominantly accounted for by natural variables (e.g., depth, sediment granulometry) with only a small amount of residual variability being due to contaminant variables. Thus, the elevated levels of certain contaminants in the vicinity of the disposal area were not sufficient to result in significant ecological or ecotoxicological changes. We ascribe such findings partly to the dispersive nature of the disposal site. Crown Copyright © 2011. Published by Elsevier Ltd. All rights reserved.

A Bayesian-Based Novel Methodology to Generate Reliable Site Response Mapping Sensitive to Data Uncertainties

NASA Astrophysics Data System (ADS)

Chakraborty, A.; Goto, H.

2017-12-01

The 2011 off the Pacific coast of Tohoku earthquake caused severe damage in many areas further inside the mainland because of site-amplification. Furukawa district in Miyagi Prefecture, Japan recorded significant spatial differences in ground motion even at sub-kilometer scales. The site responses in the damage zone far exceeded the levels in the hazard maps. A reason why the mismatch occurred is that mapping follow only the mean value at the measurement locations with no regard to the data uncertainties and thus are not always reliable. Our research objective is to develop a methodology to incorporate data uncertainties in mapping and propose a reliable map. The methodology is based on a hierarchical Bayesian modeling of normally-distributed site responses in space where the mean (μ), site-specific variance (σ2) and between-sites variance(s2) parameters are treated as unknowns with a prior distribution. The observation data is artificially created site responses with varying means and variances for 150 seismic events across 50 locations in one-dimensional space. Spatially auto-correlated random effects were added to the mean (μ) using a conditionally autoregressive (CAR) prior. The inferences on the unknown parameters are done using Markov Chain Monte Carlo methods from the posterior distribution. The goal is to find reliable estimates of μ sensitive to uncertainties. During initial trials, we observed that the tau (=1/s2) parameter of CAR prior controls the μ estimation. Using a constraint, s = 1/(k×σ), five spatial models with varying k-values were created. We define reliability to be measured by the model likelihood and propose the maximum likelihood model to be highly reliable. The model with maximum likelihood was selected using a 5-fold cross-validation technique. The results show that the maximum likelihood model (μ*) follows the site-specific mean at low uncertainties and converges to the model-mean at higher uncertainties (Fig.1). This result is highly significant as it successfully incorporates the effect of data uncertainties in mapping. This novel approach can be applied to any research field using mapping techniques. The methodology is now being applied to real records from a very dense seismic network in Furukawa district, Miyagi Prefecture, Japan to generate a reliable map of the site responses.

An Enzyme-Mediated Methodology for the Site-Specific Radiolabeling of Antibodies Based on Catalyst-Free Click Chemistry

PubMed Central

Zeglis, Brian M.; Davis, Charles B.; Aggeler, Robert; Kang, Hee Chol; Chen, Aimei; Agnew, Brian J.; Lewis, Jason S.

2013-01-01

An enzyme- and click chemistry-mediated methodology for the site-selective radiolabeling of antibodies on the heavy chain glycans has been developed and validated. To this end, a model system based on the prostate specific membrane antigen-targeting antibody J591, the positron-emitting radiometal 89Zr, and the chelator desferrioxamine has been employed. The methodology consists of four steps: (1) the removal of sugars on the heavy chain region of the antibody to expose terminal N-acetylglucosamine residues; (2) the incorporation of azide-modified N-acetylgalactosamine monosaccharides into the glycans of the antibody; (3) the catalyst-free click conjugation of desferrioxamine-modified dibenzocyclooctynes to the azide-bearing sugars; and (4) the radiolabeling of the chelator-modified antibody with 89Zr. The site-selective labeling methodology has proven facile, reproducible, and robust, producing 89Zr-labeled radioimmunoconjguates that display high stability and immunoreactivity in vitro (>95%) in addition to high selective tumor uptake (67.5 ± 5.0 %ID/g) and tumor-to-background contrast in athymic nude mice bearing PSMA-expressing subcutaneous LNCaP xenografts. Ultimately, this strategy could play a critical role in the development of novel well-defined and highly immunoreactive radioimmunoconjugates for both the laboratory and clinic. PMID:23688208

Ground penetrating radar examination of thin tsunami beds - A case study from Phra Thong Island, Thailand

NASA Astrophysics Data System (ADS)

Gouramanis, Chris; Switzer, Adam D.; Polivka, Peter M.; Bristow, Charles S.; Jankaew, Kruawun; Dat, Pham T.; Pile, Jeremy; Rubin, Charles M.; Yingsin, Lee; Ildefonso, Sorvigenaleon R.; Jol, Harry M.

2015-11-01

Coastal overwash deposits from tsunamis and storms have been identified and characterised from many coastal environments. To date, these investigations have utilised ad-hoc time, energy and cost intensive invasive techniques, such as, pits and trenches or taking core samples. Here, we present the application of high-frequency ground penetrating radar (GPR) to identify and characterise the 2004 Indian Ocean Tsunami (IOT) and palaeotsunami deposits from Phra Thong Island, Thailand. This site is one of the most intensively studied palaeotsunami sites globally and preserves a series of late-Holocene stacked sandy tsunami deposits within an organic, muddy low-energy backbeach environment. Using 100, 500 and 1000 MHz GPR antennas, 29 reflection profiles were collected from two swales (X and Y) inland of the modern beach, and two common mid-point (CMP) profiles using the 200 MHz antennas were collected from Swale Y. Detailed examination of the CMPs allowed accurate velocity estimates to be applied to each profile. The reflection profiles included across-swale profiles and a high-resolution grid in Swale X, and were collected to investigate the feasibility of GPR to image the palaeotsunami deposits, and two profiles from Swale Y where the tsunami deposits are poorly known. The 500 MHz antennas provided the best stratigraphic resolution which was independently validated from the stratigraphy and sedimentology recovered from 17 auger cores collected along the profiles. It is clear from the augers and GPR data, that the different dielectric properties of the individual layers allow the identification of the IOT and earlier tsunami deposits on Phra Thong Island. Although applied in a coastal setting here, this technique can be applied to other environments where thin sand beds are preserved, in order to prioritise sites for detailed examination.

Genetic signatures coupled with lineage shift characterise endemic evolution of Dengue virus serotype 2 during 2015 outbreak in Delhi, India.

PubMed

Choudhary, Manish Chandra; Gupta, Ekta; Sharma, Shvetank; Hasnain, Nadeem; Agarwala, Pragya

2017-07-01

In 2015, New Delhi witnessed a massive outbreak of Dengue virus (DENV) resulting in high morbidity and mortality. We report the molecular characterisation of the dominant circulating DENV strain to understand its evolution and dispersal. DENV infections were diagnosed by detection of IgM/NS1 antigen, and serotyping was performed by C-PrM PCR. Envelope gene was amplified, and variation(s) in envelope gene were analysed. Phylogenetic tree construction, time-based phylogeny and origin of DENV were analysed. Site-specific selection pressure of envelope gene variants was analysed. Confirmed DENV infection was observed in 11.34% (32 of 282) cases, while PCR positivity for C-PrM region was observed in 54.16% (13 of 24) of NS1 antigen-positive cases. All samples belonged to serotype 2 and cosmopolitan genotype. Phylogenetic analysis using envelope gene revealed segregation of cosmopolitan genotype strains into specific lineages. The Indian strains clustered separately forming a distinct monophyletic lineage (lineage III) with a signature amino acid substitution viz., I162V and R288K. Selection pressure analysis revealed that 215D, 288R and 304K were positively selected sites. The rate of nucleotide substitution was 6.93 × 10 -4 substitutions site-1 year-1 with time to most common ancestor was around 10 years with JX475906 (Hyderabad strain) and JN030345 (Singapore strain) as its most probable ancestor. We observed evolution of a distinct lineage of DENV-2 strains on the Indian subcontinent with possible changes in endemic circulating dengue strains that might give rise to more pathogenic strains. © 2017 John Wiley & Sons Ltd.

An experimental investigation to characterise soil macroporosity under different land use and land covers of northeast India

NASA Astrophysics Data System (ADS)

Shougrakpam, Sangeeta; Sarkar, Rupak; Dutta, Subashisa

2010-10-01

Saturated macropore flow is the dominant hydrological process in tropical and subtropical hilly watersheds of northeast India. The process of infiltration into saturated macroporous soils is primarily controlled by size, network, density, connectivity, saturation of surrounding soil matrix, and depthwise distribution of macropores. To understand the effects of local land use, land cover and management practices on soil macroporosity, colour dye infiltration experiments were conducted with ten soil columns (25 × 25 × 50 cm) collected from different watersheds of the region under similar soil and agro-climatic zones. The sampling sites included two undisturbed forested hillslopes, two conventionally cultivated paddy fields, two forest lands abandoned after Jhum cultivation, and two paddy fields, one pineapple plot and one banana plot presently under active cultivation stage of the Jhum cycle. Digital image analyses of the obtained dye patterns showed that the infiltration patterns differed significantly for different sites with varying land use, land cover, and cultivation practices. Undisturbed forest soils showed high degree of soil macroporosity throughout the soil profile, paddy fields revealed sealing of macropores at the topsoil due to hard pan formation, and Jhum cultivated plots showed disconnected subsoil macropores. The important parameters related to soil macropores such as maximum and average size of macropores, number of active macropores, and depthwise distribution of macropores were estimated to characterise the soil macroporosity for the sites. These experimentally derived quantitative data of soil macroporosity can have wide range of applications in the region such as water quality monitoring and groundwater pollution assessment due to preferential leaching of solutes and pesticides, study of soil structural properties and infiltration behaviour of soils, investigation of flash floods in rivers, and hydrological modelling of the watersheds.

Assessing Perceived Credibility of Web Sites in a Terrorism Context: The PFLP, Tamil Tigers, Hamas, and Hezbollah

ERIC Educational Resources Information Center

Spinks, Brandon Todd

2009-01-01

The purpose of the study was to contribute to the overall understanding of terrorist organizations' use of the Internet and to increase researchers' knowledge of Web site effectiveness. The methodological approach was evaluation of the perceived credibility of Web sites based on existing criteria derived from information users. The Web sites of…

Biodiversity characterisation and hydrodynamic consequences of marine fouling communities on marine renewable energy infrastructure in the Orkney Islands Archipelago, Scotland, UK.

PubMed

Want, Andrew; Crawford, Rebecca; Kakkonen, Jenni; Kiddie, Greg; Miller, Susan; Harris, Robert E; Porter, Joanne S

2017-08-01

As part of ongoing commitments to produce electricity from renewable energy sources in Scotland, Orkney waters have been targeted for potential large-scale deployment of wave and tidal energy converting devices. Orkney has a well-developed infrastructure supporting the marine energy industry; recently enhanced by the construction of additional piers. A major concern to marine industries is biofouling on submerged structures, including energy converters and measurement instrumentation. In this study, the marine energy infrastructure and instrumentation were surveyed to characterise the biofouling. Fouling communities varied between deployment habitats; key species were identified allowing recommendations for scheduling device maintenance and preventing spread of invasive organisms. A method to measure the impact of biofouling on hydrodynamic response is described and applied to data from a wave-monitoring buoy deployed at a test site in Orkney. The results are discussed in relation to the accuracy of the measurement resources for power generation. Further applications are suggested for future testing in other scenarios, including tidal energy.

Detection of quantum well induced single degenerate-transition-dipoles in ZnO nanorods.

PubMed

Ghosh, Siddharth; Ghosh, Moumita; Seibt, Michael; Rao, G Mohan

2016-02-07

Quantifying and characterising atomic defects in nanocrystals is difficult and low-throughput using the existing methods such as high resolution transmission electron microscopy (HRTEM). In this article, using a defocused wide-field optical imaging technique, we demonstrate that a single ultrahigh-piezoelectric ZnO nanorod contains a single defect site. We model the observed dipole-emission patterns from optical imaging with a multi-dimensional dipole and find that the experimentally observed dipole pattern and model-calculated patterns are in excellent agreement. This agreement suggests the presence of vertically oriented degenerate-transition-dipoles in vertically aligned ZnO nanorods. The HRTEM of the ZnO nanorod shows the presence of a stacking fault, which generates a localised quantum well induced degenerate-transition-dipole. Finally, we elucidate that defocused wide-field imaging can be widely used to characterise defects in nanomaterials to answer many difficult questions concerning the performance of low-dimensional devices, such as in energy harvesting, advanced metal-oxide-semiconductor storage, and nanoelectromechanical and nanophotonic devices.

Controllably annealed CuO-nanoparticle modified ITO electrodes: Characterisation and electrochemical studies

NASA Astrophysics Data System (ADS)

Wang, Tong; Su, Wen; Fu, Yingyi; Hu, Jingbo

2016-12-01

In this paper, we report a facile and controllable two-step approach to produce indium tin oxide electrodes modified by copper(II) oxide nanoparticles (CuO/ITO) through ion implantation and annealing methods. After annealing treatment, the surface morphology of the CuO/ITO substrate changed remarkably and exhibited highly electroactive sites and a high specific surface area. The effects of annealing treatment on the synthesis of CuO/ITO were discussed based on various instruments' characterisations, and the possible mechanism by which CuO nanoparticles were generated was also proposed in this work. Cyclic voltammetric results indicated that CuO/ITO electrodes exhibited effective catalytic responses toward glucose in alkaline solution. Under optimal experimental conditions, the proposed CuO/ITO electrode showed sensitivity of 450.2 μA cm-2 mM-1 with a linear range of up to ∼4.4 mM and a detection limit of 0.7 μM (S/N = 3). Moreover, CuO/ITO exhibited good poison resistance, reproducibility, and stability properties.

Leucoencephalomyelitis of goat kids.

PubMed

O'Sullivan, B M; Eaves, F W; Baxendell, S A; Rowan, K J

1978-10-01

A leucoencephalomyelitis in 6 goat kids 2 to 5 months old is described. The disease was characterised by fever, ataxia, posterior paresis, circling and hyperaesthesia progressing to prostration. The neural lesion was confined to the white matter of the cerebellum and posterior brain stem in 4 kids, but in 2 others the cervical spinal cord was the main site affected. The lesion was characterised microscopically by dense perivascular cuffing with mononuclear cells, infiltration of the parenchyma with macrophages and a proliferation of glial cells and by a marked primary demyelination. In more advanced lesions, areas of the neurophil were replaced by a loose glial scar. There were associated pulmonary lesions of interstitial pneumonitis and hyperplasia of the peribronchiolar lymphoid tissue. Attempts to isolate an aetiological agent and to transmit the disease to young goat kids and lambs were unsuccessful. The disease has not been reported before in Australia but has distinct similarities to an infectious leucoencephalomyelitis of young goats which has been described in North America.

Functional characterisation of ganglioside-induced differentiation-associated protein 1 as a glutathione transferase.

PubMed

Shield, Alison J; Murray, Tracy P; Board, Philip G

2006-09-08

Mutations in the ganglioside-induced differentiation-associated protein 1 (GDAP1) gene have been linked with Charcot-Marie-Tooth (CMT) disease. This protein, and its paralogue GDAP1L1, appear to be structurally related to the cytosolic glutathione S-transferases (GST) including an N-terminal thioredoxin fold domain with conserved active site residues. The specific function, of GDAP1 remains unknown. To further characterise their structure and function we purified recombinant human GDAP1 and GDAP1L1 proteins using bacterial expression and immobilised metal affinity chromatography. Like other cytosolic GSTs, GDAP1 protein has a dimeric structure. Although the full-length proteins were largely insoluble, the deletion of a proposed C-terminal transmembrane domain allowed the preparation of soluble protein. The purified proteins were assayed for glutathione-dependent activity against a library of 'prototypic' GST substrates. No evidence of glutathione-dependent activity or an ability to bind glutathione immobilised on agarose was found.

CO2 sensing properties of electro-spun Ca-doped ZnO fibres.

PubMed

Pantò, Fabiola; Leonardi, Salvatore Gianluca; Fazio, Enza; Frontera, Patrizia; Bonavita, Anna; Neri, Giovanni; Antonucci, Pierluigi; Neri, Fortunato; Santangelo, Saveria

2018-07-27

The availability of low-cost, high-performing sensors for carbon dioxide detection in the environment may play a crucial role for reducing CO 2 emissions and limiting global warming. In this study, calcium-doped zinc oxide nanofibres with different Ca to Zn loading ratios (1:40 or 1:20) are synthesised via electro-spinning, thoroughly characterised and, for the first time, tested as an active material for the detection of carbon dioxide. The results of their characterisation show that the highly porous fibres consist of interconnected grains of oxide with the hexagonal wurtzite structure of zincite. Depending on the Ca:Zn loading ratio, calcium fully or partly segregates to form calcite on the fibre surface. The high response of the sensor based on the fibres with the highest Ca-doping level can be attributed to the synergy between the fibre morphology and the basicity of Ca-ion sites, which favour the diffusion of the gas molecules within the sensing layer and the CO 2 adsorption, respectively.

[One decade of functional imaging in schizophrenia research. From visualisation of basic information processing steps to molecular-genetic oriented imaging].

PubMed

Tost, H; Meyer-Lindenberg, A; Ruf, M; Demirakça, T; Grimm, O; Henn, F A; Ende, G

2005-02-01

Modern neuroimaging techniques such as magnetic resonance imaging (MRI) and positron emission tomography (PET) have contributed tremendously to our current understanding of psychiatric disorders in the context of functional, biochemical and microstructural alterations of the brain. Since the mid-nineties, functional MRI has provided major insights into the neurobiological correlates of signs and symptoms in schizophrenia. The current paper reviews important fMRI studies of the past decade in the domains of motor, visual, auditory, attentional and working memory function. Special emphasis is given to new methodological approaches, such as the visualisation of medication effects and the functional characterisation of risk genes.

Form measurement of a 0.1 mm diameter wire with a chromatic confocal sensor, with associated uncertainty evaluation

NASA Astrophysics Data System (ADS)

Sanz, Claude; Giusca, Claudiu; Morantz, Paul; Marin, Antonio; Chérif, Ahmed; Schneider, Jürgen; Mainaud-Durand, Hélène; Shore, Paul; Steffens, Norbert

2018-07-01

The accurate characterisation of a copper–beryllium wire with a diameter of 0.1 mm is one of the steps to increase the precision of future accelerators’ pre-alignment. Novelties in measuring the wire properties were found in order to overcome the difficulties brought by its small size. This paper focuses on an implementation of a chromatic-confocal sensor leading to a sub-micrometric uncertainty on the form measurements. Hence, this text reveals a high-accuracy metrology technique applicable to objects with small diameters: it details the methodology, describes a validation by comparison with a reference and specifies the uncertainty budget of this technique.

EPR parameters of L-α-alanine radicals in aqueous solution: a first-principles study

NASA Astrophysics Data System (ADS)

Janbazi, Mehdi; T. Azar, Yavar; Ziaie, Farhood

2018-07-01

EPR (electron paramagnetic resonance) response for a wide range of possible alanine radicals has been analysed employing quantum chemical methods. The strong correlation between geometry and EPR parameter structure of these radicals has been shown in this research work. Significant solvent effect on EPR parameters has been shown employing both explicit and implicit solvent models. In a relatively good agreement with the experiment, stable conformation of these radicals in acidic and basic conditions was determined, and a new conformation was suggested based on possible proton transfer in the intermediate pH range. The employed methodology along with experimental results may be used for the characterisation of different radiation-induced amino acid radicals.

Capillary electrophoresis with electrospray ionisation-mass spectrometry for the characterisation of degradation products in aged papers.

PubMed

Dupont, Anne-Laurence; Seemann, Agathe; Lavédrine, Bertrand

2012-01-30

A methodology for capillary electrophoresis/electrospray ionisation mass spectrometry (CE/ESI-MS) was developed for the simultaneous analysis of degradation products from paper among two families of compounds: low molar mass aliphatic organic acids, and aromatic (phenolic and furanic) compounds. The work comprises the optimisation of the CE separation and the ESI-MS parameters for improved sensitivity with model compounds using two successive designs of experiments. The method was applied to the analysis of lignocellulosic paper at different stages of accelerated hygrothermal ageing. The compounds of interest were identified. Most of them could be quantified and several additional analytes were separated. Copyright © 2011 Elsevier B.V. All rights reserved.

The Neighbourhood Effects on Health and Well-being (NEHW) study.

PubMed

O'Campo, Patricia; Wheaton, Blair; Nisenbaum, Rosane; Glazier, Richard H; Dunn, James R; Chambers, Catharine

2015-01-01

Many cross-sectional studies of neighbourhood effects on health do not employ strong study design elements. The Neighbourhood Effects on Health and Well-being (NEHW) study, a random sample of 2412 English-speaking Toronto residents (age 25-64), utilises strong design features for sampling neighbourhoods and individuals, characterising neighbourhoods using a variety of data sources, measuring a wide range of health outcomes, and for analysing cross-level interactions. We describe here methodological issues that shaped the design and analysis features of the NEHW study to ensure that, while a cross-sectional sample, it will advance the quality of evidence emerging from observational studies. Copyright © 2014 The Authors. Published by Elsevier Ltd.. All rights reserved.

Gravel seeding - A suitable technique for restoring the seabed following marine aggregate dredging?

NASA Astrophysics Data System (ADS)

Cooper, Keith; Ware, Suzanne; Vanstaen, Koen; Barry, Jon

2011-01-01

Restoration of offshore marine habitats is a relatively new concept, with attempts in the European Union being largely instigated by requirements of various strategic directives. In this experiment, we investigate the practicality and effectiveness of gravel seeding, using a commercial aggregate dredging vessel, in order to recreate a gravel habitat. The experimental design consisted of a Treatment and Control site, both within an area of historic dredging characterised by an overburden of sand, and a gravel dominated Reference site. All sites were surveyed, using a combination of acoustic, camera and grab techniques, 2 months before, and then at 0, 12 and 22 months after the deposition of 4444 m 3 of gravel dominated sediments within the Treatment site. Although financial and practical constraints limited replication of the Treatment to one area, and so precluded strong statistical conclusions, our results suggested that the technique was both practically feasible, and successful in terms of returning the physical and biological attributes at the Treatment site to a state more representative of gravelly substrata in the wider, un-impacted environment.

Lead and cadmium concentrations in seawater and algae of the Tunisian coast.

PubMed

El Ati-Hellal, M; Hedhili, A; Hellal, F; Boujlel, K; Dachraoui, M; Bousnina, M; Ghorbel, H; Ndhif, M

2005-01-01

Both lead and cadmium are toxic trace metals, even in very weak concentrations. The aim of this study was to estimate lead and cadmium pollution in various sites of the Tunisian coast and to verify the possibility of modification of the algae bioconcentration power according to water physico-chemical conditions. Our study concerned 99 samples of algae and 99 samples of seawater, taken in different sites of the Tunisian littoral. The analysis was realized by atomic absorption spectrophotometry (oven graphite). In algae, Sfax site presented the highest concentrations of lead when Sousse site showed the lowest ones. In seawater, the most amounts of lead were observed in Bizerte, Mahdia and Sfax sites, and those of cadmium in Bizerte and Medenine coasts. Bizerte's coast seems to be the most exposed zone to pollution. Indeed, the intensification of sea traffic may take place on this pollution because hydrocarbons derived from petroleum contain some tetraethylic lead characterised by its great toxicity. Sousse's region is the least polluted zone; it might be due to the development of tourism and a strict regulation of pollution in this district.

A method to characterise site, urban and regional ambient background radiation.

PubMed

Passmore, C; Kirr, M

2011-03-01

Control dosemeters are routinely provided to customers to monitor the background radiation so that it can be subtracted from the gross response of the dosemeter to arrive at the occupational dose. Landauer, the largest dosimetry processor in the world with subsidiaries in Australia, Brazil, China, France, Japan, Mexico and the UK, has clients in approximately 130 countries. The Glenwood facility processes over 1.1 million controls per year. This network of clients around the world provides a unique ability to monitor the world's ambient background radiation. Control data can be mined to provide useful historical information regarding ambient background rates and provide a historical baseline for geographical areas. Historical baseline can be used to provide site or region-specific background subtraction values, document the variation in ambient background radiation around a client's site or provide a baseline for measuring the efficiency of clean-up efforts in urban areas after a dirty bomb detonation.

Identification of new allosteric sites and modulators of AChE through computational and experimental tools.

PubMed

Roca, Carlos; Requena, Carlos; Sebastián-Pérez, Víctor; Malhotra, Sony; Radoux, Chris; Pérez, Concepción; Martinez, Ana; Antonio Páez, Juan; Blundell, Tom L; Campillo, Nuria E

2018-12-01

Allosteric sites on proteins are targeted for designing more selective inhibitors of enzyme activity and to discover new functions. Acetylcholinesterase (AChE), which is most widely known for the hydrolysis of the neurotransmitter acetylcholine, has a peripheral allosteric subsite responsible for amyloidosis in Alzheimer's disease through interaction with amyloid β-peptide. However, AChE plays other non-hydrolytic functions. Here, we identify and characterise using computational tools two new allosteric sites in AChE, which have allowed us to identify allosteric inhibitors by virtual screening guided by structure-based and fragment hotspot strategies. The identified compounds were also screened for in vitro inhibition of AChE and three were observed to be active. Further experimental (kinetic) and computational (molecular dynamics) studies have been performed to verify the allosteric activity. These new compounds may be valuable pharmacological tools in the study of non-cholinergic functions of AChE.

Sidescan backscatter variations of cold seeps on the Hikurangi Margin (New Zealand): indications for different stages in seep development

NASA Astrophysics Data System (ADS)

Dumke, Ines; Klaucke, Ingo; Berndt, Christian; Bialas, Jörg

2014-06-01

Cold seeps on the Hikurangi Margin off New Zealand exhibit various seabed morphologies producing different intensity patterns in sidescan backscatter images. Acoustic backscatter characteristics of 25 investigated seep sites fall into four distinct types characterised by variations in backscatter intensity, distribution and inferred structural heights. The types reflect different carbonate morphologies including up to 20-m-high structures (type 1), low-relief crusts (type 2), scattered blocks (type 3) and carbonate-free sites (type 4). Each seep corresponds to a single type; intermediates were not observed. This correlates well with published data on seep fauna at each site, with the four types representing three different faunal habitats of successive stages of seep development. Backscatter signatures in sidescan sonar images of cold seeps may therefore serve as a convenient proxy for variations in faunal habitats.

Reducing risk and increasing confidence of decision making at a lower cost: In-situ pXRF assessment of metal-contaminated sites.

PubMed

Rouillon, Marek; Taylor, Mark P; Dong, Chenyin

2017-10-01

This study evaluates the in-situ use of field portable X-ray Fluorescence (pXRF) for metal-contaminated site assessments, and assesses the advantages of increased sampling to reduce risk, and increase confidence of decision making at a lower cost. Five metal-contaminated sites were assessed using both in-situ pXRF and ex-situ inductively coupled plasma mass spectrometry (ICP-MS) analyses at various sampling resolutions. Twenty second in-situ pXRF measurements of Mn, Zn and Pb were corrected using a subset of parallel ICP-MS measurements taken at each site. Field and analytical duplicates revealed sampling as the major contributor (>95% variation) to measurement uncertainties. This study shows that increased sampling led to several benefits including more representative site characterisation, higher soil-metal mapping resolution, reduced uncertainty around the site mean, and reduced sampling uncertainty. Real time pXRF data enabled efficient, on-site decision making for further judgemental sampling, without the need to return to the site. Additionally, in-situ pXRF was more cost effective than the current approach of ex-situ sampling and ICP-MS analysis, even with higher sampling at each site. Lastly, a probabilistic site assessment approach was applied to demonstrate the advantages of integrating estimated measurement uncertainties into site reporting. Copyright © 2017 Elsevier Ltd. All rights reserved.

Studying the Education of Educators: Methodology.

ERIC Educational Resources Information Center

Sirotnik, Kenneth A.

1988-01-01

Describes the methodology and research design of SEE, the study of the Education of Educators. The approach is multimethodological, exploratory, descriptive, and evaluative. The research design permits examination of working assumptions and concentration on the individual site--the college, the education departments, and specific programs within…

Factors Contributing to Institutions Achieving Environmental Sustainability

ERIC Educational Resources Information Center

James, Matthew; Card, Karen

2012-01-01

Purpose: The purpose of this paper is to determine what factors contributed to three universities achieving environmental sustainability. Design/methodology/approach: A case study methodology was used to determine how each factor contributed to the institutions' sustainability. Site visits, fieldwork, document reviews, and interviews with…

Collaborative Initiative on Fetal Alcohol Spectrum Disorders: Methodology of Clinical Projects

PubMed Central

Mattson, Sarah N.; Foroud, Tatiana; Sowell, Elizabeth R.; Jones, Kenneth Lyons; Coles, Claire D.; Fagerlund, Åse; Autti-Rämö, Ilona; May, Philip A.; Adnams, Colleen M.; Konovalova, Valentina; Wetherill, Leah; Arenson, Andrew D.; Barnett, William K.; Riley, Edward P.

2009-01-01

The Collaborative Initiative on Fetal Alcohol Spectrum Disorders (CIFASD) was created in 2003 to further understanding of fetal alcohol spectrum disorders. Clinical and basic science projects collect data across multiple sites using standardized methodology. This paper describes the methodology being used by the clinical projects that pertain to assessment of children and adolescents. Domains being addressed are dysmorphology, neurobehavior, 3D facial imaging, and brain imaging. PMID:20036488

Investigation of the Interaction of Naringin Palmitate with Bovine Serum Albumin: Spectroscopic Analysis and Molecular Docking

PubMed Central

Zhang, Xia; Li, Lin; Xu, Zhenbo; Liang, Zhili; Su, Jianyu; Huang, Jianrong; Li, Bing

2013-01-01

Background Bovine serum albumin (BSA) contains high affinity binding sites for several endogenous and exogenous compounds and has been used to replace human serum albumin (HSA), as these two compounds share a similar structure. Naringin palmitate is a modified product of naringin that is produced by an acylation reaction with palmitic acid, which is considered to be an effective substance for enhancing naringin lipophilicity. In this study, the interaction of naringin palmitate with BSA was characterised by spectroscopic and molecular docking techniques. Methodology/Principal Findings The goal of this study was to investigate the interactions between naringin palmitate and BSA under physiological conditions, and differences in naringin and naringin palmitate affinities for BSA were further compared and analysed. The formation of naringin palmitate-BSA was revealed by fluorescence quenching, and the Stern-Volmer quenching constant (KSV) was found to decrease with increasing temperature, suggesting that a static quenching mechanism was involved. The changes in enthalpy (ΔH) and entropy (ΔS) for the interaction were detected at −4.11±0.18 kJ·mol−1 and −76.59±0.32 J·mol−1·K−1, respectively, which indicated that the naringin palmitate-BSA interaction occurred mainly through van der Waals forces and hydrogen bond formation. The negative free energy change (ΔG) values of naringin palmitate at different temperatures suggested a spontaneous interaction. Circular dichroism studies revealed that the α-helical content of BSA decreased after interacting with naringin palmitate. Displacement studies suggested that naringin palmitate was partially bound to site I (subdomain IIA) of the BSA, which was also substantiated by the molecular docking studies. Conclusions/Significance In conclusion, naringin palmitate was transported by BSA and was easily removed afterwards. As a consequence, an extension of naringin applications for use in food, cosmetic and medicinal preparations may be clinically and practically significant, especially in the design of new naringin palmitate-inspired drugs. PMID:23527100

Migration Patterns of Subgenus Alnus in Europe since the Last Glacial Maximum: A Systematic Review

PubMed Central

Douda, Jan; Doudová, Jana; Drašnarová, Alena; Kuneš, Petr; Hadincová, Věroslava; Krak, Karol; Zákravský, Petr; Mandák, Bohumil

2014-01-01

Background/Aims Recently, new palaeoecological records supported by molecular analyses and palaeodistributional modelling have provided more comprehensive insights into plant behaviour during the last Quaternary cycle. We reviewed the migration history of species of subgenus Alnus during the last 50,000 years in Europe with a focus on (1) a general revision of Alnus history since the Last Glacial Maximum (LGM), (2) evidence of northern refugia of Alnus populations during the LGM and (3) the specific history of Alnus in particular European regions. Methodology We determined changes in Alnus distribution on the basis of 811 and 68 radiocarbon-dated pollen and macrofossil sites, respectively. We compiled data from the European Pollen Database, the Czech Quaternary Palynological Database, the Eurasian Macrofossil Database and additional literature. Pollen percentage thresholds indicating expansions or retreats were used to describe patterns of past Alnus occurrence. Principal Findings An expansion of Alnus during the Late Glacial and early Holocene periods supports the presence of alders during the LGM in southern peninsulas and northerly areas in western Europe, the foothills of the Alps, the Carpathians and northeastern Europe. After glaciers withdrew, the ice-free area of Europe was likely colonized from several regional refugia; the deglaciated area of Scandinavia was likely colonized from a single refugium in northeastern Europe. In the more northerly parts of Europe, we found a scale-dependent pattern of Alnus expansion characterised by a synchronous increase of Alnus within individual regions, though with regional differences in the times of the expansion. In southern peninsulas, the Alps and the Carpathians, by contrast, it seems that Alnus expanded differently at individual sites rather than synchronously in whole regions. Conclusions Our synthesis supports the idea that northern LGM populations were important sources of postglacial Alnus expansion. The delayed Alnus expansion apparent in some regions was likely a result of environmental limitations. PMID:24586374

Developing a data life cycle for carbon and greenhouse gas measurements: challenges, experiences and visions

NASA Astrophysics Data System (ADS)

Kutsch, W. L.

2015-12-01

Environmental research infrastructures and big data integration networks require common data policies, standardized workflows and sophisticated e-infrastructure to optimise the data life cycle. This presentation summarizes the experiences in developing the data life cycle for the Integrated Carbon Observation System (ICOS), a European Research Infrastructure. It will also outline challenges that still exist and visions for future development. As many other environmental research infrastructures ICOS RI built on a large number of distributed observational or experimental sites. Data from these sites are transferred to Thematic Centres and quality checked, processed and integrated there. Dissemination will be managed by the ICOS Carbon Portal. This complex data life cycle has been defined in detail by developing protocols and assigning responsibilities. Since data will be shared under an open access policy there is a strong need for common data citation tracking systems that allow data providers to identify downstream usage of their data so as to prove their importance and show the impact to stakeholders and the public. More challenges arise from interoperating with other infrastructures or providing data for global integration projects as done e.g. in the framework of GEOSS or in global integration approaches such as fluxnet or SOCAt. Here, common metadata systems are the key solutions for data detection and harvesting. The metadata characterises data, services, users and ICT resources (including sensors and detectors). Risks may arise when data of high and low quality are mixed during this process or unexperienced data scientists without detailed knowledge on the data aquisition derive scientific theories through statistical analyses. The vision of fully open data availability is expressed in a recent GEO flagship initiative that will address important issues needed to build a connected and interoperable global network for carbon cycle and greenhouse gas observations and aims to meet the most urgent needs for integration between different information sources and methodologies, between different regional networks and from data providers to users.

Green Remediation Best Management Practices: Overview of EPA's Methodology to Address the Environmental Footprint of Site Cleanup

EPA Pesticide Factsheets

Contaminated site cleanups involving complex activities may benefit from a detailed environmental footprint analysis to inform decision-making about application of suitable best management practices for greener cleanups.

Ecological sites: A useful tool for land management

Treesearch

Alicia N. Struckhoff; Douglas Wallace; Fred Young

2017-01-01

Developing ecological sites in Missouri is a multiagency, multidiscipline effort led by the Missouri Department of Conservation and the U.S. Department of Agriculture (USDA) Natural Resources Conservation Service. The methodology developed in Missouri has recently served as a model for ecological site development across the country and has aided in an initiative to...

The Connectivity Between Site-Specific Life Cycle Impact Assessment and Site-Specific Weighting

EPA Science Inventory

The goal of many LCIAs is to come to a single score with all of the impacts from a wide variety of impact assessments weighted to form this single score. My past experiences with developing site-specific impact assessment methodologies and how this can change the valuation porti...

Exploiting Multisite Gateway and pENFRUIT plasmid collection for fruit genetic engineering.

PubMed

Estornell, Leandro H; Granell, Antonio; Orzaez, Diego

2012-01-01

MultiSite Gateway cloning techniques based on homologous recombination facilitate the combinatorial assembly of basic genetic pieces (i.e., promoters, CDS, and terminators) into gene expression or gene silencing cassettes. pENFRUIT is a collection of MultiSite Triple Gateway Entry vectors dedicated to genetic engineering in fruits. It comprises a number of fruit-operating promoters as well as C-terminal tags adapted to the Gateway standard. In this way, flanking regulatory/labeling sequences can be easily Gateway-assembled with a given gene of interest for its ectopic expression or silencing in fruits. The resulting gene constructs can be analyzed in stable transgenic plants or in transient expression assays, the latter allowing fast testing of the increasing number of combinations arising from MultiSite methodology. A detailed description of the use of MultiSite cloning methodology for the assembly of pENFRUIT elements is presented.

Site characterization methodology for aquifers in support of bioreclamation activities. Volume 2: Borehole flowmeter technique, tracer tests, geostatistics and geology. Final report, August 1987-September 1989

DOE Office of Scientific and Technical Information (OSTI.GOV)

Young, S.C.

1993-08-01

This report discusses a field demonstration of a methodology for characterizing an aquifer's geohydrology in the detail required to design an optimum network of wells and/or infiltration galleries for bioreclamation systems. The project work was conducted on a 1-hectare test site at Columbus AFB, Mississippi. The technical report is divided into two volumes. Volume I describes the test site and the well network, the assumptions, and the application of equations that define groundwater flow to a well, the results of three large-scale aquifer tests, and the results of 160 single-pump tests. Volume II describes the bore hole flowmeter tests, themore » tracer tests, the geological investigations, the geostatistical analysis and the guidelines for using groundwater models to design bioreclamation systems. Site characterization, Hydraulic conductivity, Groundwater flow, Geostatistics, Geohydrology, Monitoring wells.« less

Highlights from the SoilCAM project: Soil Contamination, Advanced integrated characterisation and time-lapse Monitoring

NASA Astrophysics Data System (ADS)

French, H. K.; van der Zee, S. E. A. T. M.; Wehrer, M.; Godio, A.; Pedersen, L. B.; Toscano, G.

2012-04-01

The SoilCAM project (Soil Contamination, Advanced integrated characterisation and time-lapse Monitoring 2008-2012, EU-FP7-212663) is aimed at improving current methods for monitoring contaminant distribution and biodegradation in the subsurface. At two test sites, Oslo airport Gardermoen in Norway and the Trecate site in Italy, a number of geophysical techniques, lysimeter and other soil and water sampling techniques as well as numerical flow and transport modelling have been combined at different scales in order to characterise flow transport processes in the unsaturated and saturated zones. Laboratory experiments have provided data on physical and bio-geo-chemical parameters for use in models and to select remediation methods. The geophysical techniques were used to map geological heterogeneities and also conduct time-lapse measurements of processes in the unsaturated zone. Both cross borehole and surface electrodes were used for electrical resistivity and induced polarisation surveys. The geophysical surveys showed clear indications of areas highly affected by de-icing chemicals along the runway at Oslo airport. The time lapse measurements along the runway at the airport show infiltration patterns during snowmelt and are used to validate 2D unsaturated flow and transport simulations using SUTRA. The Orchestra model is used to describe the complex interaction between bio-geo-chemical processes in a 1D profile along the runway. The presence of installations such as a membrane along the runway highly affects the flow pattern and challenges the capacity of the numerical code. Smaller scale field site measurements have revealed the increase of iron and manganese during degradation of de-icing chemicals. The use of Nitrate to increase red-ox potential was tested, but results have not been analysed yet. So far it cannot be concluded that degradation process can be quantified indirectly by geophysical monitoring. At the Trecate site a combination of georadar, electrical resistivity and radio magneto telluric provided a broad outline of the geology down to 50 m, there is a good consistency in the data in the overlapping part, and more deep samples would be required to validate the geological interpretation of the data. Anomalies in the Induced polarisation and electrical resistivity data from the cross borehole measurements indicate where the remaining crude oil can be found. Water samples from multilevel samplers reveal crude oil present in emulsion in the zone of groundwater fluctuations, highlighting the importance of colloidal transport. Geochemistry of the groundwater clearly indicates degradation of hydrocarbons under iron- and sulphate reducing conditions. Modflow has been used to simulate the regional groundwater flow and transport in the area. An overview of the work that has been conducted and main highlights of the results so far will be presented.

Element mobility studies of two drill-cores from the Götemar Granite (Kråkemåla test site), southeast Sweden

USGS Publications Warehouse

Smellie, John A.T.; Stuckless, John S.

1985-01-01

The pervasive alteration and the more recent mobilisation of U are evident to a depth of at least 600 m. The effects are most prevalent along major fracture zones and within the upper 250–300 m of one drill-hole where a high frequency of crush zones has been noted. Higher Fe oxidation ratios, higher Rb contents, lower U contents and correspondingly higher Th/U ratios, all characterise this zone.

Celebrating 50 years of SWIMs (Salt Water Intrusion Meetings)

NASA Astrophysics Data System (ADS)

Post, Vincent E. A.; Essink, Gualbert Oude; Szymkiewicz, Adam; Bakker, Mark; Houben, Georg; Custodio, Emilio; Voss, Clifford

2018-06-01

The Salt Water Intrusion Meetings, or SWIMs, are a series of meetings that focus on seawater intrusion in coastal aquifers and other salinisation processes. 2018 marks the 50th year of the SWIM and the 25th biennial meeting. The SWIM proceedings record half a century of research progress on site characterisation, geophysical and geochemical techniques, variable-density flow, modelling, and water management. The SWIM is positioning itself to remain a viable platform for discussing the coastal aquifer management challenges of the next 50 years.

Atypical presentation of macrophagic myofasciitis 10 years post vaccination.

PubMed

Ryan, Aisling M; Bermingham, Niamh; Harrington, Hugh J; Keohane, Catherine

2006-12-01

Macrophagic myofasciitis (MMF) is an uncommon inflammatory disorder of muscle believed to be due to persistence of vaccine-derived aluminium hydroxide at the site of injection. The condition is characterised by diffuse myalgias, arthralgia and fatigue. We describe a patient with histologically confirmed MMF whose presentation was atypical with left chest and upper limb pain beginning more than 10 years post vaccination. Treatment with steroids led to symptomatic improvement. Although rare, clinicians should consider MMF in cases of atypical myalgia.

Determining rotational dynamics of the guanidino group of arginine side chains in proteins by carbon-detected NMR† †Electronic supplementary information (ESI) available. See DOI: 10.1039/c7cc04821a

PubMed Central

Gerecht, Karola; Figueiredo, Angelo Miguel

2017-01-01

Arginine residues are imperative for many active sites and protein-interaction interfaces. A new NMR-based method is presented to determine the rotational dynamics around the Nε–Cζ bond of arginine side chains. An application to a 19 kDa protein shows that the strengths of interactions involving arginine side chains can be characterised. PMID:28840203

Analysis of currently available data for characterising the risk of engineered nanomaterials to the environment and human health--lessons learned from four case studies.

PubMed

Aschberger, Karin; Micheletti, Christian; Sokull-Klüttgen, Birgit; Christensen, Frans M

2011-08-01

Production volumes and the use of engineered nanomaterials in many innovative products are continuously increasing, however little is known about their potential risk for the environment and human health. We have reviewed publicly available hazard and exposure data for both, the environment and human health and attempted to carry out a basic risk assessment appraisal for four types of nanomaterials: fullerenes, carbon nanotubes, metals, and metal oxides (ENRHES project 2009(1)). This paper presents a summary of the results of the basic environmental and human health risk assessments of these case studies, highlighting the cross cutting issues and conclusions about fate and behaviour, exposure, hazard and methodological considerations. The risk assessment methodology being the basis for our case studies was that of a regulatory risk assessment under REACH (ECHA, 2008(2)), with modifications to adapt to the limited available data. If possible, environmental no-effect concentrations and human no-effect levels were established from relevant studies by applying assessment factors in line with the REACH guidance and compared to available exposure data to discuss possible risks. When the data did not allow a quantitative assessment, the risk was assessed qualitatively, e.g. for the environment by evaluating the information in the literature to describe the potential to enter the environment and to reach the potential ecological targets. Results indicate that the main risk for the environment is expected from metals and metal oxides, especially for algae and Daphnia, due to exposure to both, particles and ions. The main risks for human health may arise from chronic occupational inhalation exposure, especially during the activities of high particle release and uncontrolled exposure. The information on consumer and environmental exposure of humans is too scarce to attempt a quantitative risk characterisation. It is recognised that the currently available database for both, hazard and exposure is limited and there are high uncertainties in any conclusion on a possible risk. The results should therefore not be used for any regulatory decision making. Likewise, it is recognised that the REACH guidance was developed without considering the specific behaviour and the mode of action of nanomaterials and further work in the generation of data but also in the development of methodologies is required. Copyright © 2011 Elsevier Ltd. All rights reserved.

Macroinvertebrate assemblages in agricultural, mining, and urban tropical streams: implications for conservation and management.

PubMed

Mwedzi, Tongayi; Bere, Taurai; Mangadze, Tinotenda

2016-06-01

The study evaluated the response of macroinvertebrate assemblages to changes in water quality in different land-use settings in Manyame catchment, Zimbabwe. Four land-use categories were identified: forested commercial farming, communal farming, Great Dyke mining (GDM) and urban areas. Macroinvertebrate community structure and physicochemical variables data were collected in two seasons from 41 sites following standard methods. Although not environmentally threatening, urban and GDM areas were characterised by higher conductivity, total dissolved solids, salinity, magnesium and hardness. Chlorides, total phosphates, total nitrogen, calcium, potassium and sodium were significantly highest in urban sites whilst dissolved oxygen (DO) was significantly higher in the forested commercial faming and GDM sites. Macroinvertebrate communities followed the observed changes in water quality. Macroinvertebrates in urban sites indicated severe pollution (e.g. Chironomidae) whilst those in forested commercial farming sites and GDM sites indicated relatively clean water (e.g. Notonemouridae). Forested watersheds together with good farm management practices are important in mitigating impacts of urbanisation and agriculture. Strategies that reduce oxygen-depleting substances must be devised to protect the health of Zimbabwean streams. The study affirms the wider applicability of the South African Scoring System in different land uses.

Characterisation of Organic Matter Preserved in Earths Using Micromorphological and Chemical Analysis. Initial Results from Two Prehistoric French Sites : Les Bossats and Régismont-le-Haut.

NASA Astrophysics Data System (ADS)

Lejay, Mathieu; Alexis, Marie; Quenea, Katell; Sellami, Farid; Bodu, Pierre; Naton, Henri-Georges; Vassiliu, Ligia; Dumarçay, Gaëlle; Bon, François; Mensan, Romain

2014-05-01

The Upper Paleolithic (ca. 40 - 10 Ka BP) of Western Europe coincides with the emergence of what are often termed "fully modern" human cultures in a glacial environment (Late Pleistocene, Weichselian glaciation). During this period the increasing structuration of living-spaces, as well as favorable preservational contexts, allows for the investigation of the spatial organization of habitats. Within this field of research hearths have traditionally played a key interpretational role through the use of ethnographic analogy. While such analyses do provide reasonable hypotheses little is known about the precise use and function of hearths during remote prehistory and thus such analogies should be treated prudently.. Using two open-air sites currently being excavated in France, Régismont-le-Haut (Aurignacian) and Les Bossats (Gravettian), we applied a multi-scale and multi-step analysis to a sample of prehistoric hearths. The main objectives of this study were to underline mechanisms involved in the conservation (taphonomic processes) and the operation (anthropogenic technical processes) of these structures. Ultimately, the aim is both a chronological and evidence based palethnological interpretation of these remains through the integration of our results with ongoing research at sites. As hearths are a ubiquitous archaeological feature spanning a multiplicity of contexts and variables, we concentrated here only on those affected by organic matter conservation in the hopes of revealing activities previously invisible to standard archaeological investigation. Field observations of these hearths show the preservation of structured organic matter (eg. charcoal, burned bones) and in some cases a darkening of the associated sediments.. Micromorphological and experimental investigations led to the attribution of this to an impregnation by amorphous organic matter in a semi-liquid state as it percolates through sediments. Microcontextual observations confirm the in-situ character of this feature and its direct association with hearth use. Following these observations we sampled several structures and facies in order to characterize this amorphous organic matter at the molecular scale. We first used C/N Elemental Analysis to quantify the organic carbon contained. The most promising samples have been selected for further detailed analyses (including pyrolysis, gas chromatography, mass spectrometry, and lipid analysis) in the hopes determining their exact molecular composition. Preliminary results indicate the conservation of long chain fatty acids, probably linked to higher plants, and cholesterol, so of animal origin. While the former can probably be explained by the nature of the fuel used (wood), the latter may in fact be implicated in the impregnation of sediments by amorphous organic matter. Although this research is still in its early stages, preliminary results are extremely encouraging. Our methodology seems effective as analysis at multiple scales allows us to trace features from the field to the lab and avoid on-site contamination issues. The flexibility of this methodology is also extremely positive, as analyses can be modified in view of the preceding step's results. Keywords : Micromorphology ; Organic chemistry ; Organic matter preservation ; Prehistoric hearths ; Upper Palaeolithic

FTIR microspectroscopy for rapid screening and monitoring of polyunsaturated fatty acid production in commercially valuable marine yeasts and protists.

PubMed

Vongsvivut, Jitraporn; Heraud, Philip; Gupta, Adarsha; Puri, Munish; McNaughton, Don; Barrow, Colin J

2013-10-21

The increase in polyunsaturated fatty acid (PUFA) consumption has prompted research into alternative resources other than fish oil. In this study, a new approach based on focal-plane-array Fourier transform infrared (FPA-FTIR) microspectroscopy and multivariate data analysis was developed for the characterisation of some marine microorganisms. Cell and lipid compositions in lipid-rich marine yeasts collected from the Australian coast were characterised in comparison to a commercially available PUFA-producing marine fungoid protist, thraustochytrid. Multivariate classification methods provided good discriminative accuracy evidenced from (i) separation of the yeasts from thraustochytrids and distinct spectral clusters among the yeasts that conformed well to their biological identities, and (ii) correct classification of yeasts from a totally independent set using cross-validation testing. The findings further indicated additional capability of the developed FPA-FTIR methodology, when combined with partial least squares regression (PLSR) analysis, for rapid monitoring of lipid production in one of the yeasts during the growth period, which was achieved at a high accuracy compared to the results obtained from the traditional lipid analysis based on gas chromatography. The developed FTIR-based approach when coupled to programmable withdrawal devices and a cytocentrifugation module would have strong potential as a novel online monitoring technology suited for bioprocessing applications and large-scale production.

Development of acute and chronic sediment bioassays with the harpacticoid copepod Quinquelaophonte sp.

PubMed

Stringer, Tristan J; Glover, Chris N; Keesing, Vaughan; Northcott, Grant L; Gaw, Sally; Tremblay, Louis A

2014-01-01

Reliable environmentally realistic bioassay methodologies are increasingly needed to assess the effects of environmental pollution. This study describes two estuarine sediment bioassays, one acute (96 h) and one chronic (14 d), with the New Zealand harpacticoid copepod Quinquelaophonte sp. utilising behavioural and reproductive endpoints. Spiked sediments were used to expose Quinquelaophonte sp. to three reference compounds representing important categories of estuarine chemical stressors: zinc (a metal), atrazine (a pesticide), and phenanthrene (a polycyclic aromatic hydrocarbon). Acute-to-chronic ratios (ACR) were used to further characterise species responses. Acute sediment (sandy and low total organic content) 96 h EC50 values for the sublethal inhibition of mobility for zinc, atrazine and phenanthrene were 137, 5.4, and 2.6 µg/g, respectively. The chronic EC50 values for inhibition of reproduction (total offspring) were 54.5, 0.0083, and 0.067 µg/g for zinc, atrazine, and phenanthrene, respectively. For phenanthrene, a potentially novel mode of action was identified on reproduction. Quinquelaophonte sp. was found to be more sensitive than several other estuarine species indicating choice of test organism is important to characterising the effects of environmentally relevant levels of contamination. The bioassay sediment results demonstrate the sensitivity and suitability of Quinquelaophonte sp. as a tool for the assessment use of estuarine health. © 2013 Published by Elsevier Inc.

Online epistemic communities: theoretical and methodological directions for understanding knowledge co-elaboration in new digital spaces.

PubMed

Détienne, Françoise; Barcellini, Flore; Baker, Michael; Burkhardt, Jean-Marie; Fréard, Dominique

2012-01-01

This paper presents, illustrates and discusses a generic framework for studying knowledge co-elaboration in online epistemic communities ("OECs"). Our approach is characterised by: considering knowledge co-elaboration as a design activity; distinguishing discussion and production spaces in OECs; characterising participation via the notion of role; fine-grained analyses of meaning, content and communicative functions in interactions. On this basis, three key issues for ergonomics research on OECs are discussed and illustrated by results from our previous studies on OSS and Wikipedia. One issue concerns the interrelation between design (task) and regulation. Whereas design task-oriented activity is distributed among participants, we illustrate that OCEs function with specialised emerging roles of group regulation. However, the task-oriented activity also functions at an interpersonal level, as an interplay of knowledge-based discussion with negotiation of competencies. Another issue concerns the foci of activity on the (designed) knowledge object. Based on a generic task model, we illustrate asymmetry and distinctiveness in tasks' foci of participants. The last issue concerns how design-use mediation is ensured by specific forms of mediation roles in OECs. Finally we discuss the degree of generality of our framework and draw some perspectives for extending our framework to other OECs.

First Characterisation of Volatile Organic Compounds Emitted by Banana Plants.

PubMed

Berhal, Chadi; De Clerck, Caroline; Fauconnier, Marie-Laure; Levicek, Carolina; Boullis, Antoine; Kaddes, Amine; Jijakli, Haïssam M; Verheggen, François; Massart, Sébastien

2017-05-16

Banana (Musa sp.) ranks fourth in term of worldwide fruit production, and has economical and nutritional key values. The Cavendish cultivars correspond to more than 90% of the production of dessert banana while cooking cultivars are widely consumed locally around the banana belt production area. Many plants, if not all, produce Volatile Organic Compounds (VOCs) as a means of communication with their environment. Although flower and fruit VOCs have been studied for banana, the VOCs produced by the plant have never been identified despite their importance in plant health and development. A volatile collection methodology was optimized to improve the sensitivity and reproducibility of VOCs analysis from banana plants. We have identified 11 VOCs for the Cavendish, mainly (E,E)-α-farnesene (87.90 ± 11.28 ng/μl), methyl salicylate (33.82 ± 14.29) and 6-methyl-5-hepten-2-one (29.60 ± 11.66), and 14 VOCs for the Pacific Plantain cultivar, mainly (Z,E)-α-farnesene (799.64 ± 503.15), (E,E)-α-farnesene (571.24 ± 381.70) and (E) β ocimene (241.76 ± 158.49). This exploratory study paves the way for an in-depth characterisation of VOCs emitted by Musa plants.

Characterisation of chlorophyll oxidation mediated by peroxidative activity in olives (Olea europaea L.) cv. Hojiblanca.

PubMed

Vergara-Domínguez, Honorio; Roca, María; Gandul-Rojas, Beatriz

2013-08-15

The oxidation of chlorophyll a (chl a) catalysed by peroxidase (POD) from mesocarp of the olive fruit (Olea europaea L., cv Hojiblanca) in the presence of H2O2 and 2,4-dichlorophenol (2,4-DCP), is characterised via the individualised quantification of the products of the enzymatic reaction using a new methodology of HPLC-UV spectrometry. This innovation has allowed the discovery that, in addition to 13(2) OH chl a and 15(1) OH lactone chl a, which are the first products of POD on chl a, the reaction process sequentially creates another series of oxidised chlorophyll derivatives which have not been previously described. Their origins have been linked to POD activity in the presence of 2,4-DCP. Likewise, a study of the effect of the concentration of the various cosubstrates on the POD reaction rate demonstrated that the correct establishment of the relative concentrations of the same ([H2O2]/[2,4-DCP]/[Chl]=1:3:0.02) is crucial to explaining inhibition effects by substrates and carrying out optimum measurements. Therefore, new essential parameters for the determination of POD activity on a chlorophyll substrate are established. Copyright © 2013 Elsevier Ltd. All rights reserved.

Key site abandonment steps in CO2 storage

NASA Astrophysics Data System (ADS)

Kühn, M.; Wipki, M.; Durucan, S.; Deflandre, J.-P.; Lüth, S.; Wollenweber, J.; Chadwick, A.; Böhm, G.

2012-04-01

CO2CARE is an EU funded project within FP7-research, which started in January 2011 with a funding period of three years. The project objectives will be achieved through an international consortium consisting of 23 partners from Europe, USA, Canada, Japan, and Australia, belonging to universities, research institutes, and energy companies. According to the EC Guidance Document 3, the lifetime of a CO2 storage site can be generally subdivided into 6 phases: 1. assessment, 2. characterisation, 3. development, 4. operation, 5. post-closure/pre-transfer, and 6. post transfer. CO2CARE deals with phases 5 and 6. The main goals of the project are closely linked to the three high-level requirements of the EU Directive 2009/31/EC, Article 18 for CO2 storage which are: (i) absence of any detectable leakage, (ii) conformity of actual behaviour of the injected CO2 with the modelled behaviour, and (iii) the storage site is evolving towards a situation of long-term stability. These criteria have to be fulfilled prior to subsequent transfer of responsibility to the competent authorities, typically 20 or 30 years after site closure. CO2CARE aims to formulate robust procedures for site abandonment which will meet the regulatory requirements and ensure long-term integrity of the storage complex. We present key results from the first year of the project via a report on international regulatory requirements on CO2 geological storage and site abandonment that includes a general overview on the current state-of-the art in abandonment methodologies in the oil and gas industry worldwide. Due to the long time-frames involved in CO2 storage (in the range of several thousands of years), the behaviour of a system with respect to, for example, long-term well stability can be demonstrated only by using long-term predictive modelling tools to study potential leakage pathways. Trapping mechanisms for CO2 are of high interest concerning a quantitative estimation of physically captured, capillary bound, dissolved, and precipitated CO2 in form of specific mineral phases. Useful results, partly supported by laboratory and field experiments, can be gained by process simulations considering periods of hundreds or thousands of years. Risk management for the post-operational phases is another essential part of the workflow. A first version of a decision support system has been created by means of a number of high-level and low-level criteria, most of which had to be defined in advance. The system provides instructions for the operators on how to act in case of irregularities after site closure. A compilation of all relevant results will be available at the end of the project in form of best practice guidelines. However, dissemination of information about the latest results and developments in the field of site abandonment are given via the CO2CARE-website (www.co2care.org) and also in conferences, workshops or radio and TV interviews.

Increasing Resiliency Through Renewable Energy Microgrids

DOE Office of Scientific and Technical Information (OSTI.GOV)

Anderson, Katherine H; DiOrio, Nicholas A; Cutler, Dylan S

This paper describes a methodology to quantify the economic and resiliency benefit provided by renewable energy (RE) in a hybrid RE-storage-diesel microgrid. We present a case study to show how this methodology is applied to a multi-use/ multi-function telecommunications facility in southern California. In the case study, we first identify photovoltaic (PV) and battery energy storage system (BESS) technologies that minimize the lifecycle cost of energy at the site under normal, grid-connected operation. We then evaluate how those technologies could be incorporated alongside existing diesel generators in a microgrid to increase resiliency at the site, where resiliency is quantified inmore » terms of the amount of time that the microgrid can sustain the critical load during a grid outage. We find that adding PV and BESS to the existing backup diesel generators with a fixed fuel supply extends the amount of time the site could survive an outage by 1.8 days, from 1.7 days for the existing diesel-only backup system to 3.5 days for the PV/diesel/BESS hybrid system. Furthermore, even after diesel fuel supplies are exhausted, the site can continue to operate critical loads during daytime hours using just the PV/BESS when there is sufficient solar resource. We find that the site can save approximately $100,000 in energy costs over the 25-year lifecycle while doubling the amount of time they can survive an outage. The methodology presented here provides a template for increasing resiliency at telecomm sites by implementing renewable energy solutions, which provide additional benefits of carbon emission reduction and energy cost savings.« less

Prioritization methodology for the decommissioning of nuclear facilities: a study case on the Iraq former nuclear complex.

PubMed

Jarjies, Adnan; Abbas, Mohammed; Monken Fernandes, Horst; Wong, Melanie; Coates, Roger

2013-05-01

There are a number of sites in Iraq which have been used for nuclear activities and which contain potentially significant amounts of radioactive waste. The principal nuclear site being Al-Tuwaitha. Many of these sites suffered substantial physical damage during the Gulf Wars and have been subjected to subsequent looting. All require decommissioning in order to ensure both radiological and non-radiological safety. However, it is not possible to undertake the decommissioning of all sites and facilities at the same time. Therefore, a prioritization methodology has been developed in order to aid the decision-making process. The methodology comprises three principal stages of assessment: i) a quantitative surrogate risk assessment ii) a range of sensitivity analyses and iii) the inclusion of qualitative modifying factors. A group of Tuwaitha facilities presented the highest risk among the evaluated ones, followed by a middle ranking grouping of Tuwaitha facilities and some other sites, and a relatively large group of lower risk facilities and sites. The initial order of priority is changed when modifying factors are taken into account. It has to be considered the Iraq's isolation from the international nuclear community over the last two decades and the lack of experienced personnel. Therefore it is appropriate to initiate decommissioning operations on selected low risk facilities at Tuwaitha in order to build capacity and prepare for work to be carried out in more complex and potentially high hazard facilities. In addition it is appropriate to initiate some prudent precautionary actions relating to some of the higher risk facilities. Copyright © 2012 Elsevier Ltd. All rights reserved.

Integrated Design of Basic Training, Practicum and End-of-Course Assignment Modules in the Teacher Training Degree: Perception of University Teachers, Students, and School Teachers

NASA Astrophysics Data System (ADS)

Torremorell, Maria Carme Boqué; de Nicolás, Montserrat Alguacil; Valls, Mercè Pañellas

Teacher training at the Blanquerna Faculty of Psychology and Educational and Sports Sciences (FPCEE), in Barcelona, has a long pedagogical tradition based on teaching innovation. Its educational style is characterised by methods focused on the students' involvement and on close collaboration with teaching practice centres. Within a core subject in the Teacher Training diploma course, students were asked to assess different methodological proposals aimed at promoting the development of their personal, social, and professional competences. In the assessment surveys, from a sample of 145 students, scores for variables very satisfactory or satisfactory ranged from 95.8 % to 83.4 % for the entire set of methodological actions under analysis. Data obtained in this first research phase were very useful to design basic training modules for the new Teacher Training Degree. In the second phase (in process), active teachers are asked for their perception on the orientation of the practicum, its connection with the end-of-course assignment, and the in-service student's incidence on innovation processes at school.

Ultrasonic sensor based defect detection and characterisation of ceramics.

PubMed

Kesharaju, Manasa; Nagarajah, Romesh; Zhang, Tonzhua; Crouch, Ian

2014-01-01

Ceramic tiles, used in body armour systems, are currently inspected visually offline using an X-ray technique that is both time consuming and very expensive. The aim of this research is to develop a methodology to detect, locate and classify various manufacturing defects in Reaction Sintered Silicon Carbide (RSSC) ceramic tiles, using an ultrasonic sensing technique. Defects such as free silicon, un-sintered silicon carbide material and conventional porosity are often difficult to detect using conventional X-radiography. An alternative inspection system was developed to detect defects in ceramic components using an Artificial Neural Network (ANN) based signal processing technique. The inspection methodology proposed focuses on pre-processing of signals, de-noising, wavelet decomposition, feature extraction and post-processing of the signals for classification purposes. This research contributes to developing an on-line inspection system that would be far more cost effective than present methods and, moreover, assist manufacturers in checking the location of high density areas, defects and enable real time quality control, including the implementation of accept/reject criteria. Copyright © 2013 Elsevier B.V. All rights reserved.

Statistical analysis of atom probe data: detecting the early stages of solute clustering and/or co-segregation.

PubMed

Hyde, J M; Cerezo, A; Williams, T J

2009-04-01

Statistical analysis of atom probe data has improved dramatically in the last decade and it is now possible to determine the size, the number density and the composition of individual clusters or precipitates such as those formed in reactor pressure vessel (RPV) steels during irradiation. However, the characterisation of the onset of clustering or co-segregation is more difficult and has traditionally focused on the use of composition frequency distributions (for detecting clustering) and contingency tables (for detecting co-segregation). In this work, the authors investigate the possibility of directly examining the neighbourhood of each individual solute atom as a means of identifying the onset of solute clustering and/or co-segregation. The methodology involves comparing the mean observed composition around a particular type of solute with that expected from the overall composition of the material. The methodology has been applied to atom probe data obtained from several irradiated RPV steels. The results show that the new approach is more sensitive to fine scale clustering and co-segregation than that achievable using composition frequency distribution and contingency table analyses.

Design and Verification of Critical Pressurised Windows for Manned Spaceflight

NASA Astrophysics Data System (ADS)

Lamoure, Richard; Busto, Lara; Novo, Francisco; Sinnema, Gerben; Leal, Mendes M.

2014-06-01

The Window Design for Manned Spaceflight (WDMS) project was tasked with establishing the state-of-art and explore possible improvements to the current structural integrity verification and fracture control methodologies for manned spacecraft windows.A critical review of the state-of-art in spacecraft window design, materials and verification practice was conducted. Shortcomings of the methodology in terms of analysis, inspection and testing were identified. Schemes for improving verification practices and reducing conservatism whilst maintaining the required safety levels were then proposed.An experimental materials characterisation programme was defined and carried out with the support of the 'Glass and Façade Technology Research Group', at the University of Cambridge. Results of the sample testing campaign were analysed, post-processed and subsequently applied to the design of a breadboard window demonstrator.Two Fused Silica glass window panes were procured and subjected to dedicated analyses, inspection and testing comprising both qualification and acceptance programmes specifically tailored to the objectives of the activity.Finally, main outcomes have been compiled into a Structural Verification Guide for Pressurised Windows in manned spacecraft, incorporating best practices and lessons learned throughout this project.

Integrated mixed methods policy analysis for sustainable food systems: trends, challenges and future research.

PubMed

Cuevas, Soledad

Agriculture is a major contributor to greenhouse gas emissions, an important part of which is associated to deforestation and indirect land use change. Appropriate and coherent food policies can play an important role in aligning health, economic and environmental goals. From the point of view of policy analysis, however, this requires multi-sectoral, interdisciplinary approaches which can be highly complex. Important methodological advances in the area are not exempted from limitations and criticism. We argue that there is scope for further developments in integrated quantitative and qualitative policy analysis combining existing methods, including mathematical modelling and stakeholder analysis. We outline methodological trends in the field, briefly characterise integrated mixed methods policy analysis and identify contributions, challenges and opportunities for future research. In particular, this type of approach can help address issues of uncertainty and context-specific validity, incorporate multiple perspectives and help advance meaningful interdisciplinary collaboration in the field. Substantial challenges remain, however, such as the integration of key issues related to non-communicable disease, or the incorporation of a broader range of qualitative approaches that can address important cultural and ethical dimensions of food.

A novel integrated assessment methodology of urban water reuse.

PubMed

Listowski, A; Ngo, H H; Guo, W S; Vigneswaran, S

2011-01-01

Wastewater is no longer considered a waste product and water reuse needs to play a stronger part in securing urban water supply. Although treatment technologies for water reclamation have significantly improved the question that deserves further analysis is, how selection of a particular wastewater treatment technology relates to performance and sustainability? The proposed assessment model integrates; (i) technology, characterised by selected quantity and quality performance parameters; (ii) productivity, efficiency and reliability criteria; (iii) quantitative performance indicators; (iv) development of evaluation model. The challenges related to hierarchy and selections of performance indicators have been resolved through the case study analysis. The goal of this study is to validate a new assessment methodology in relation to performance of the microfiltration (MF) technology, a key element of the treatment process. Specific performance data and measurements were obtained at specific Control and Data Acquisition Points (CP) to satisfy the input-output inventory in relation to water resources, products, material flows, energy requirements, chemicals use, etc. Performance assessment process contains analysis and necessary linking across important parametric functions leading to reliable outcomes and results.

Life-Cycle Cost/Benefit Assessment of Expedite Departure Path (EDP)

NASA Technical Reports Server (NTRS)

Wang, Jianzhong Jay; Chang, Paul; Datta, Koushik

2005-01-01

This report presents a life-cycle cost/benefit assessment (LCCBA) of Expedite Departure Path (EDP), an air traffic control Decision Support Tool (DST) currently under development at NASA. This assessment is an update of a previous study performed by bd Systems, Inc. (bd) during FY01, with the following revisions: The life-cycle cost assessment methodology developed by bd for the previous study was refined and calibrated using Free Flight Phase 1 (FFP1) cost information for Traffic Management Advisor (TMA, or TMA-SC in the FAA's terminology). Adjustments were also made to the site selection and deployment scheduling methodology to include airspace complexity as a factor. This technique was also applied to the benefit extrapolation methodology to better estimate potential benefits for other years, and at other sites. This study employed a new benefit estimating methodology because bd s previous single year potential benefit assessment of EDP used unrealistic assumptions that resulted in optimistic estimates. This methodology uses an air traffic simulation approach to reasonably predict the impacts from the implementation of EDP. The results of the costs and benefits analyses were then integrated into a life-cycle cost/benefit assessment.

The impact of temporal sampling resolution on parameter inference for biological transport models.

PubMed

Harrison, Jonathan U; Baker, Ruth E

2018-06-25

Imaging data has become an essential tool to explore key biological questions at various scales, for example the motile behaviour of bacteria or the transport of mRNA, and it has the potential to transform our understanding of important transport mechanisms. Often these imaging studies require us to compare biological species or mutants, and to do this we need to quantitatively characterise their behaviour. Mathematical models offer a quantitative description of a system that enables us to perform this comparison, but to relate mechanistic mathematical models to imaging data, we need to estimate their parameters. In this work we study how collecting data at different temporal resolutions impacts our ability to infer parameters of biological transport models; performing exact inference for simple velocity jump process models in a Bayesian framework. The question of how best to choose the frequency with which data is collected is prominent in a host of studies because the majority of imaging technologies place constraints on the frequency with which images can be taken, and the discrete nature of observations can introduce errors into parameter estimates. In this work, we mitigate such errors by formulating the velocity jump process model within a hidden states framework. This allows us to obtain estimates of the reorientation rate and noise amplitude for noisy observations of a simple velocity jump process. We demonstrate the sensitivity of these estimates to temporal variations in the sampling resolution and extent of measurement noise. We use our methodology to provide experimental guidelines for researchers aiming to characterise motile behaviour that can be described by a velocity jump process. In particular, we consider how experimental constraints resulting in a trade-off between temporal sampling resolution and observation noise may affect parameter estimates. Finally, we demonstrate the robustness of our methodology to model misspecification, and then apply our inference framework to a dataset that was generated with the aim of understanding the localization of RNA-protein complexes.

77 FR 33729 - Disability and Rehabilitation Research Projects and Centers Program-National Data and Statistical...

Federal Register 2010, 2011, 2012, 2013, 2014

2012-06-07

... statistical and other methodological consultation to this collaborative project. Discussion: Grantees under... and technical assistance must be designed to contribute to the following outcomes: (a) Maintenance of... methodological consultation available for research projects that use the BMS Database, as well as site- specific...

DEVELOPMENT OF A SUB-SLAB AIR SAMPLING PROTOCOL TO SUPPORT ASSESSMENT OF VAPOR INTRUSION

EPA Science Inventory

The primary purpose of this research effort is to develop a methodology for sub-slab sampling to support the EPA guidance and vapor intrusion investigations after vapor intrusion has been established at a site. Methodologies for sub-slab air sampling are currently lacking in ref...

The Impact of E-Skills on the Settlement of Iranian Refugees in Australia

ERIC Educational Resources Information Center

Shariati, Saeed; Armarego, Jocelyn; Sudweeks, Fay

2017-01-01

Aim/Purpose: The research investigates the impact of Information and Communication Technologies (ICT) on Iranian refugees' settlement in Australia. Background: The study identifies the issues of settlement, such as language, cultural and social differences. Methodology: The Multi-Sited Ethnography (MSE), which is a qualitative methodology, has…

Employees' Perceptions of Barriers to Participation in Training and Development in Small Engineering Businesses

ERIC Educational Resources Information Center

Susomrith, Pattanee; Coetzer, Alan

2015-01-01

Purpose: This paper aims to investigate barriers to employee participation in voluntary formal training and development opportunities from the perspective of employees in small engineering businesses. Design/methodology/approach: An exploratory qualitative methodology involving data collection via site visits and in-depth semi-structured…

Session: Pre-development project risk assessment

DOE Office of Scientific and Technical Information (OSTI.GOV)

Curry, Richard; Linehan, Andy

This second session at the Wind Energy and Birds/Bats workshop consisted of two presentations followed by a discussion/question and answer period. The focus of the presentations was on the practices and methodologies used in the wind energy industry for assessing risk to birds and bats at candidate project sites. Presenters offered examples of pre-development siting evaluation requirements set by certain states. Presentation one was titled ''Practices and Methodologies and Initial Screening Tools'' by Richard Curry of Curry and Kerlinger, LLC. Presentation two was titled ''State of the Industry in the Pacific Northwest'' by Andy Linehan, CH2MHILL.

Review of Natural Phenomena Hazard (NPH) Assessments for the Hanford 200 Areas (Non-Seismic)

DOE Office of Scientific and Technical Information (OSTI.GOV)

Snow, Robert L.; Ross, Steven B.; Sullivan, Robin S.

2010-09-24

The purpose of this review is to assess the need for updating Natural Phenomena Hazard (NPH) assessments for the Hanford 200 Areas, as required by DOE Order 420.1B Chapter IV, Natural Phenomena Hazards Mitigation, based on significant changes in state-of-the-art NPH assessment methodology or site-specific information. The review includes all natural phenomena hazards with the exception of seismic/earthquake hazards, which are being addressed under a separate effort. It was determined that existing non-seismic NPH assessments are consistent with current design methodology and site specific data.

(Semi-)Automated landform mapping of the alpine valley Gradental (Austria) based on LiDAR data

NASA Astrophysics Data System (ADS)

Strasser, T.; Eisank, C.

2012-04-01

Alpine valleys are typically characterised as complex, hierarchical structured systems with rapid landform changes. Detection of landform changes can be supported by automated geomorphological mapping. Especially, the analysis over short time scales require a method for standardised, unbiased geomorphological map reproduction, which is delivered by automated mapping techniques. In general, digital geomorphological mapping is a challenging task, since knowledge about landforms with respect to their natural boundaries as well as their hierarchical and scaling relationships, has to be integrated in an objective way. A combination of very-high spatial resolution data (VHSR) such as LiDAR and new methods like object based image analysis (OBIA) allow for a more standardised production of geomorphological maps. In OBIA the processing units are spatially configured objects that are created by multi-scale segmentation. Therefore, not only spectral information can be used for assigning the objects to geomorphological classes, but also spatial and topological properties can be exploited. In this study we focus on the detection of landforms, especially bedrock sediment deposits (alluvion, debris cone, talus, moraine, rockglacier), as well as glaciers. The study site Gradental [N 46°58'29.1"/ E 12°48'53.8"] is located in the Schobergruppe (Austria, Carinthia) and is characterised by heterogenic geology conditions and high process activity. The area is difficult to access and dominated by steep slopes, thus hindering a fast and detailed geomorphological field mapping. Landforms are identified using aerial and terrestrial LiDAR data (1 m spatial resolution). These DEMs are analysed by an object based hierarchical approach, which is structured in three main steps. The first step is to define occurring landforms by basic land surface parameters (LSPs), topology and hierarchy relations. Based on those definitions a semantic model is created. Secondly, a multi-scale segmentation is performed on a three-band LSP that integrates slope, aspect and plan curvature, which expresses the driving forces of geomorphological processes. In the third step, the generated multi-level object structures are classified in order to produce the geomorphological map. The classification rules are derived from the semantic model. Due to landform type-specific scale dependencies of LSPs, the values of LSPs used in the classification are calculated in a multi-scale manner by constantly enlarging the size of the moving window. In addition, object form properties (density, compactness, rectangular fit) are utilised as additional information for landform characterisation. Validation of classification is performed by intersecting a visually interpreted reference map with the classification output map and calculating accuracy matrices. Validation shows an overall accuracy of 78.25 % and a Kappa of 0.65. The natural borders of landforms can be easily detected by the use of slope, aspect and plan curvature. This study illustrates the potential of OBIA for a more standardised and automated mapping of surface units (landforms, landcover). Therefore, the presented methodology features a prospective automated geomorphological mapping approach for alpine regions.

Why Do You Adopt Social Networking Sites? Investigating the Driving Factors through Structural Equation Modelling

ERIC Educational Resources Information Center

Jan, Muhammad Tahir

2017-01-01

Purpose: The purpose of this paper is to investigate those factors that are associated with the adoption of social networking sites from the perspective of Muslim users residing in Malaysia. Design/methodology/approach: A complete self-administered questionnaire was collected from 223 Muslim users of social networking sites in Malaysia. Both…

Evaluating IPv6 Adoption in the Internet

NASA Astrophysics Data System (ADS)

Colitti, Lorenzo; Gunderson, Steinar H.; Kline, Erik; Refice, Tiziana

As IPv4 address space approaches exhaustion, large networks are deploying IPv6 or preparing for deployment. However, there is little data available about the quantity and quality of IPv6 connectivity. We describe a methodology to measure IPv6 adoption from the perspective of a Web site operator and to evaluate the impact that adding IPv6 to a Web site will have on its users. We apply our methodology to the Google Web site and present results collected over the last year. Our data show that IPv6 adoption, while growing significantly, is still low, varies considerably by country, and is heavily influenced by a small number of large deployments. We find that native IPv6 latency is comparable to IPv4 and provide statistics on IPv6 transition mechanisms used.

A multicriteria-based methodology for site prioritisation in sediment management.

PubMed

Alvarez-Guerra, Manuel; Viguri, Javier R; Voulvoulis, Nikolaos

2009-08-01

Decision-making for sediment management is a complex task that incorporates the selections of areas for remediation and the assessment of options for any mitigation required. The application of Multicriteria Analysis (MCA) to rank different areas, according to their need for sediment management, provides a great opportunity for prioritisation, a first step in an integrated methodology that finally aims to assess and select suitable alternatives for managing the identified priority sites. This paper develops a methodology that starts with the delimitation of management units within areas of study, followed by the application of MCA methods that allows ranking of these management units, according to their need for remediation. This proposed process considers not only scientific evidence on sediment quality, but also other relevant aspects such as social and economic criteria associated with such decisions. This methodology is illustrated with its application to the case study area of the Bay of Santander, in northern Spain, highlighting some of the implications of utilising different MCA methods in the process. It also uses site-specific data to assess the subjectivity in the decision-making process, mainly reflected through the assignment of the criteria weights and uncertainties in the criteria scores. Analysis of the sensitivity of the results to these factors is used as a way to assess the stability and robustness of the ranking as a first step of the sediment management decision-making process.

Highway runoff stormwater management potential (HRSMP) site characterization using NASA public domain imagery.

DOT National Transportation Integrated Search

2016-04-01

The focus of this research project was the development of geospatial technology (GST) methodology to : characterize and evaluate highway runoff stormwater management potential (HRSMP) sites in order to : reduce their impact on properties, save lives ...

The Ohio River Basin energy facility siting model. Volume 1: Methodology

NASA Astrophysics Data System (ADS)

Fowler, G. L.; Bailey, R. E.; Gordon, S. I.; Jansen, S. D.; Randolph, J. C.; Jones, W. W.

1981-04-01

The siting model developed for ORBES is specifically designed for regional policy analysis. The region includes 423 counties in an area that consists of all of Kentucky and substantial portions of Illinois, Indiana, Ohio, Pennsylvania, and West Virginia.

Genomic characterisation of Arachis porphyrocalyx (Valls & C.E. Simpson, 2005) (Leguminosae): multiple origin of Arachis species with x = 9

PubMed Central

Celeste, Silvestri María; Ortiz, Alejandra Marcela; Robledo, Germán Ariel; Valls, José Francisco Montenegro; Lavia, Graciela Inés

2017-01-01

Abstract The genus Arachis Linnaeus, 1753 comprises four species with x = 9, three belong to the section Arachis: Arachis praecox (Krapov. W.C. Greg. & Valls, 1994), Arachis palustris (Krapov. W.C. Greg. & Valls, 1994) and Arachis decora (Krapov. W.C. Greg. & Valls, 1994) and only one belongs to the section Erectoides: Arachis porphyrocalyx (Valls & C.E. Simpson, 2005). Recently, the x = 9 species of section Arachis have been assigned to G genome, the latest described so far. The genomic relationship of Arachis porphyrocalyx with these species is controversial. In the present work, we carried out a karyotypic characterisation of Arachis porphyrocalyx to evaluate its genomic structure and analyse the origin of all x = 9 Arachis species. Arachis porphyrocalyx showed a karyotype formula of 14m+4st, one pair of A chromosomes, satellited chromosomes type 8, one pair of 45S rDNA sites in the SAT chromosomes, one pair of 5S rDNA sites and pericentromeric C-DAPI+ bands in all chromosomes. Karyotype structure indicates that Arachis porphyrocalyx does not share the same genome type with the other three x = 9 species and neither with the remaining Erectoides species. Taking into account the geographic distribution, morphological and cytogenetic features, the origin of species with x = 9 of the genus Arachis cannot be unique; instead, they originated at least twice in the evolutionary history of the genus. PMID:28919947

Assessment and Characterisation of Ireland's Green Tides (Ulva Species)

PubMed Central

Wilkes, Robert J.; Heesch, Svenja; Bermejo, Ricardo; Johnson, Mark P.; Morrison, Liam

2017-01-01

Enrichment of nutrients and metals in seawater associated with anthropogenic activities can threaten aquatic ecosystems. Consequently, nutrient and metal concentrations are parameters used to define water quality. The European Union’s Water Framework Directive (WFD) goes further than a contaminant-based approach and utilises indices to assess the Ecological Status (ES) of transitional water bodies (e.g. estuaries and lagoons). One assessment is based upon the abundance of opportunistic Ulva species, as an indication of eutrophication. The objective of this study was to characterise Ireland’s Ulva blooms through the use of WFD assessment, metal concentrations and taxonomic identity. Furthermore, the study assessed whether the ecological assessment is related to the metal composition in the Ulva. WFD algal bloom assessment revealed that the largest surveyed blooms had an estimated biomass of 2164 metric tonnes (w/w). DNA sequences identified biomass from all locations as Ulva rigida, with the exception of New Quay, which was Ulva rotundata. Some blooms contained significant amounts of As, Cu, Cr, Pb and Sn. The results showed that all metal concentrations had a negative relationship (except Se) with the Ecological Quality Ratio (EQR). However, only in the case of Mn were these differences significant (p = 0.038). Overall, the metal composition and concentrations found in Ulva were site dependent, and not clearly related to the ES. Nevertheless, sites with a moderate or poor ES had a higher variability in the metals levels than in estuaries with a high ES. PMID:28045947

Dynamic semantic cognition: Characterising coherent and controlled conceptual retrieval through time using magnetoencephalography and chronometric transcranial magnetic stimulation.

PubMed

Teige, Catarina; Mollo, Giovanna; Millman, Rebecca; Savill, Nicola; Smallwood, Jonathan; Cornelissen, Piers L; Jefferies, Elizabeth

2018-06-01

Distinct neural processes are thought to support the retrieval of semantic information that is (i) coherent with strongly-encoded aspects of knowledge, and (ii) non-dominant yet relevant for the current task or context. While the brain regions that support readily coherent and more controlled patterns of semantic retrieval are relatively well-characterised, the temporal dynamics of these processes are not well-understood. This study used magnetoencephalography (MEG) and dual-pulse chronometric transcranial magnetic stimulation (cTMS) in two separate experiments to examine temporal dynamics during the retrieval of strong and weak associations. MEG results revealed a dissociation within left temporal cortex: anterior temporal lobe (ATL) showed greater oscillatory response for strong than weak associations, while posterior middle temporal gyrus (pMTG) showed the reverse pattern. Left inferior frontal gyrus (IFG), a site associated with semantic control and retrieval, showed both patterns at different time points. In the cTMS experiment, stimulation of ATL at ∼150 msec disrupted the efficient retrieval of strong associations, indicating a necessary role for ATL in coherent conceptual activations. Stimulation of pMTG at the onset of the second word disrupted the retrieval of weak associations, suggesting this site may maintain information about semantic context from the first word, allowing efficient engagement of semantic control. Together these studies provide converging evidence for a functional dissociation within the temporal lobe, across both tasks and time. Copyright © 2018 The Authors. Published by Elsevier Ltd.. All rights reserved.

Relevance of magnetic properties for the characterisation of burnt clays and archaeological tiles

NASA Astrophysics Data System (ADS)

Beatrice, C.; Coïsson, M.; Ferrara, E.; Olivetti, E. S.

The archaeomagnetism of pottery, bricks and tiles is typically employed for dating inferences, yet the magnetic properties of ancient ceramics can also be convenient for their characterisation, to evaluate the technological conditions applied for their production (temperature, atmosphere, and duration of firing), as well as to distinguish groups of sherds having different provenance. In this work, the measurement of hysteresis loops has been applied and combined with colour survey to characterise the magnetic properties of burnt clays and archaeological tiles. Four calcareous and non-calcareous clays, along with seventeen tile fragments excavated from the sites of the ancient Roman towns of Pompeii and Gravina di Puglia, in Southern Italy, are examined. The ferrimagnetic character of the clays, in general, enhances with increasing firing temperatures until vitrification processes occur (900-1000 °C) dissolving iron oxides and dispersing the colour and magnetic properties they provide. High values of saturation magnetization are observed in clays with relevant calcareous content after firing above 900 °C, which results in the formation of Ca-silicates able to delay the onset of the vitrification processes. Magnetic properties of the tiles have been evaluated in terms of the high coercivity (i.e. mainly ferrimagnetic) or low coercivity behaviour (i.e. including relevant paramagnetic and superparamagnetic contributions). Enhanced ferrimagnetic character, mostly depending on the growth in number and volume of iron oxide particles, is associated with the development of an intense reddish hue.

Characterisation of the atmospheric surface layer over a debris cover glacier in the Nepal Himalayas.

NASA Astrophysics Data System (ADS)

Litt, M.; Steiner, J. F.; Stigter, E.; Bierkens, M. F.; Shea, J. M.; Immerzeel, W. W.

2017-12-01

A significant area of Himalayan glaciers tongues is covered by debris. Turbulent exchanges of sensible and latent heat at the debris surface directly act on its surface energy balance (SEB). At the same time, the large turbulent water vapour exchanges at high altitude modify the debris water content and thus its thermal properties. These must be correctly accounted for in SEB models and a proper characterisation of the atmospheric surface layer (ASL) is therefore needed. We installed an eddy-correlation system (Campbell IRGASON) during a period of 15 days over the Lirung glacier in the Langtang Valley in Nepal in the Nepal Himalaya, during the transition period between the monsoon and the dry season. We present the main characteristics of our set-up and the implication of our ASL characterisation on the parameterisation of the turbulent fluxes. During the day, moderate winds blow up-valley and the ASL is mostly unstable. Latent (sensible) heat fluxes scale between 50 and 150 (50 and 250) Wm-2 during the day, thus drying and cooling the debris and playing a significant role in the SEB. During the night, weak down-glacier winds are observed and fluxes remain weak. Spectral analysis of the turbulent data indicate that flow characteristics do not fulfil theoretical requirements needed to estimate turbulent fluxes using bulk methods and at this site our data show they would work only for the sensible heat flux evaluation.

Geoelectrical characterisation of basement aquifers: the case of Iberekodo, southwestern Nigeria

NASA Astrophysics Data System (ADS)

Aizebeokhai, Ahzegbobor P.; Oyeyemi, Kehinde D.

2018-03-01

Basement aquifers, which occur within the weathered and fractured zones of crystalline bedrocks, are important groundwater resources in tropical and subtropical regions. The development of basement aquifers is complex owing to their high spatial variability. Geophysical techniques are used to obtain information about the hydrologic characteristics of the weathered and fractured zones of the crystalline basement rocks, which relates to the occurrence of groundwater in the zones. The spatial distributions of these hydrologic characteristics are then used to map the spatial variability of the basement aquifers. Thus, knowledge of the spatial variability of basement aquifers is useful in siting wells and boreholes for optimal and perennial yield. Geoelectrical resistivity is one of the most widely used geophysical methods for assessing the spatial variability of the weathered and fractured zones in groundwater exploration efforts in basement complex terrains. The presented study focuses on combining vertical electrical sounding with two-dimensional (2D) geoelectrical resistivity imaging to characterise the weathered and fractured zones in a crystalline basement complex terrain in southwestern Nigeria. The basement aquifer was delineated, and the nature, extent and spatial variability of the delineated basement aquifer were assessed based on the spatial variability of the weathered and fractured zones. The study shows that a multiple-gradient array for 2D resistivity imaging is sensitive to vertical and near-surface stratigraphic features, which have hydrological implications. The integration of resistivity sounding with 2D geoelectrical resistivity imaging is efficient and enhances near-surface characterisation in basement complex terrain.

Evaluation and implementation of an improved methodology for earthquake ground response analysis : uniform treatment source, path and site effects.

DOT National Transportation Integrated Search

2008-12-01

Shortly after the 1994 Northridge Earthquake, Caltrans geotechnical engineers charged with developing site-specific : response spectra for high priority California bridges initiated a research project aimed at broadening their perspective : from simp...

Weigh-in-motion (WIM) data for site-specific LRFR bridge load rating.

DOT National Transportation Integrated Search

2011-08-12

The live load factors in the Load and Resistant Factor Rating (LRFR) Manual are based on load data from Ontario : thought to be representative of traffic volumes nationwide. However, in accordance with the methodology for : developing site-specific l...

A Methodology to Evaluate Ecological Resources and Risk Using Two Case Studies at the Department of Energy's Hanford Site

NASA Astrophysics Data System (ADS)

Burger, Joanna; Gochfeld, Michael; Bunn, Amoret; Downs, Janelle; Jeitner, Christian; Pittfield, Taryn; Salisbury, Jennifer; Kosson, David

2017-03-01

An assessment of the potential risks to ecological resources from remediation activities or other perturbations should involve a quantitative evaluation of resources on the remediation site and in the surrounding environment. We developed a risk methodology to rapidly evaluate potential impact on ecological resources for the U.S. Department of Energy's Hanford Site in southcentral Washington State. We describe the application of the risk evaluation for two case studies to illustrate its applicability. The ecological assessment involves examining previous sources of information for the site, defining different resource levels from 0 to 5. We also developed a risk rating scale from non-discernable to very high. Field assessment is the critical step to determine resource levels or to determine if current conditions are the same as previously evaluated. We provide a rapid assessment method for current ecological conditions that can be compared to previous site-specific data, or that can be used to assess resource value on other sites where ecological information is not generally available. The method is applicable to other Department of Energy's sites, where its development may involve a range of state regulators, resource trustees, Tribes and other stakeholders. Achieving consistency across Department of Energy's sites for valuation of ecological resources on remediation sites will assure Congress and the public that funds and personnel are being deployed appropriately.

A Methodology to Evaluate Ecological Resources and Risk Using Two Case Studies at the Department of Energy's Hanford Site.

PubMed

Burger, Joanna; Gochfeld, Michael; Bunn, Amoret; Downs, Janelle; Jeitner, Christian; Pittfield, Taryn; Salisbury, Jennifer; Kosson, David

2017-03-01

An assessment of the potential risks to ecological resources from remediation activities or other perturbations should involve a quantitative evaluation of resources on the remediation site and in the surrounding environment. We developed a risk methodology to rapidly evaluate potential impact on ecological resources for the U.S. Department of Energy's Hanford Site in southcentral Washington State. We describe the application of the risk evaluation for two case studies to illustrate its applicability. The ecological assessment involves examining previous sources of information for the site, defining different resource levels from 0 to 5. We also developed a risk rating scale from non-discernable to very high. Field assessment is the critical step to determine resource levels or to determine if current conditions are the same as previously evaluated. We provide a rapid assessment method for current ecological conditions that can be compared to previous site-specific data, or that can be used to assess resource value on other sites where ecological information is not generally available. The method is applicable to other Department of Energy's sites, where its development may involve a range of state regulators, resource trustees, Tribes and other stakeholders. Achieving consistency across Department of Energy's sites for valuation of ecological resources on remediation sites will assure Congress and the public that funds and personnel are being deployed appropriately.

Characterization of nutraceuticals and functional foods by innovative HPLC methods.

PubMed

Corradini, Claudio; Galanti, Roberta; Nicoletti, Isabella

2002-04-01

In recent years there is a growing interest in food and food ingredient which may provide health benefits. Food as well as food ingredients containing health-preserving components, are not considered conventional food, but can be defined as functional food. To characterise such foods, as well as nutraceuticals specific, high sensitive and reproducible analytical methodologies are needed. In light of this importance we set out to develop innovative HPLC methods employing reversed phase narrow bore column and high-performance anion-exchange chromatographic methods coupled with pulsed amperometric detection (HPAEC-PAD), which are specific for carbohydrate analysis. The developed methods were applied for the separation and quantification of citrus flavonoids and to characterize fructooligosaccharide (FOS) and fructans added to functional foods and nutraceuticals.

40 CFR 132.4 - State adoption and application of methodologies, policies and procedures.

Code of Federal Regulations, 2011 CFR

2011-07-01

.... (2) The chronic water quality criteria and values for the protection of aquatic life, or site... AGENCY (CONTINUED) WATER PROGRAMS WATER QUALITY GUIDANCE FOR THE GREAT LAKES SYSTEM § 132.4 State...) The Methodologies for Development of Aquatic Life Criteria and Values in appendix A of this part; (3...

40 CFR 132.4 - State adoption and application of methodologies, policies and procedures.

Code of Federal Regulations, 2010 CFR

2010-07-01

.... (2) The chronic water quality criteria and values for the protection of aquatic life, or site... AGENCY (CONTINUED) WATER PROGRAMS WATER QUALITY GUIDANCE FOR THE GREAT LAKES SYSTEM § 132.4 State...) The Methodologies for Development of Aquatic Life Criteria and Values in appendix A of this part; (3...

40 CFR 132.4 - State adoption and application of methodologies, policies and procedures.

Code of Federal Regulations, 2014 CFR

2014-07-01

.... (2) The chronic water quality criteria and values for the protection of aquatic life, or site... AGENCY (CONTINUED) WATER PROGRAMS WATER QUALITY GUIDANCE FOR THE GREAT LAKES SYSTEM § 132.4 State...) The Methodologies for Development of Aquatic Life Criteria and Values in appendix A of this part; (3...

40 CFR 132.4 - State adoption and application of methodologies, policies and procedures.

Code of Federal Regulations, 2012 CFR

2012-07-01

.... (2) The chronic water quality criteria and values for the protection of aquatic life, or site... AGENCY (CONTINUED) WATER PROGRAMS WATER QUALITY GUIDANCE FOR THE GREAT LAKES SYSTEM § 132.4 State...) The Methodologies for Development of Aquatic Life Criteria and Values in appendix A of this part; (3...

40 CFR 132.4 - State adoption and application of methodologies, policies and procedures.

Code of Federal Regulations, 2013 CFR

2013-07-01

.... (2) The chronic water quality criteria and values for the protection of aquatic life, or site... AGENCY (CONTINUED) WATER PROGRAMS WATER QUALITY GUIDANCE FOR THE GREAT LAKES SYSTEM § 132.4 State...) The Methodologies for Development of Aquatic Life Criteria and Values in appendix A of this part; (3...

Knock-in/Knock-out (KIKO) vectors for rapid integration of large DNA sequences, including whole metabolic pathways, onto the Escherichia coli chromosome at well-characterised loci.

PubMed

Sabri, Suriana; Steen, Jennifer A; Bongers, Mareike; Nielsen, Lars K; Vickers, Claudia E

2013-06-24

Metabolic engineering projects often require integration of multiple genes in order to control the desired phenotype. However, this often requires iterative rounds of engineering because many current insertion approaches are limited by the size of the DNA that can be transferred onto the chromosome. Consequently, construction of highly engineered strains is very time-consuming. A lack of well-characterised insertion loci is also problematic. A series of knock-in/knock-out (KIKO) vectors was constructed for integration of large DNA sequences onto the E. coli chromosome at well-defined loci. The KIKO plasmids target three nonessential genes/operons as insertion sites: arsB (an arsenite transporter); lacZ (β-galactosidase); and rbsA-rbsR (a ribose metabolism operon). Two homologous 'arms' target each insertion locus; insertion is mediated by λ Red recombinase through these arms. Between the arms is a multiple cloning site for the introduction of exogenous sequences and an antibiotic resistance marker (either chloramphenicol or kanamycin) for selection of positive recombinants. The resistance marker can subsequently be removed by flippase-mediated recombination. The insertion cassette is flanked by hairpin loops to isolate it from the effects of external transcription at the integration locus. To characterize each target locus, a xylanase reporter gene (xynA) was integrated onto the chromosomes of E. coli strains W and K-12 using the KIKO vectors. Expression levels varied between loci, with the arsB locus consistently showing the highest level of expression. To demonstrate the simultaneous use of all three loci in one strain, xynA, green fluorescent protein (gfp) and a sucrose catabolic operon (cscAKB) were introduced into lacZ, arsB and rbsAR respectively, and shown to be functional. The KIKO plasmids are a useful tool for efficient integration of large DNA fragments (including multiple genes and pathways) into E. coli. Chromosomal insertion provides stable expression without the need for continuous antibiotic selection. Three non-essential loci have been characterised as insertion loci; combinatorial insertion at all three loci can be performed in one strain. The largest insertion at a single site described here was 5.4 kb; we have used this method in other studies to insert a total of 7.3 kb at one locus and 11.3 kb across two loci. These vectors are particularly useful for integration of multigene cassettes for metabolic engineering applications.

Health and safety impacts of nuclear, geothermal, and fossil-fuel electric generation in California. Volume 9. Methodologies for review of the health and safety aspects of proposed nuclear, geothermal, and fossil-fuel sites and facilities

DOE Office of Scientific and Technical Information (OSTI.GOV)

Nero, A.V.; Quinby-Hunt, M.S.

1977-01-01

This report sets forth methodologies for review of the health and safety aspects of proposed nuclear, geothermal, and fossil-fuel sites and facilities for electric power generation. The review is divided into a Notice of Intention process and an Application for Certification process, in accordance with the structure to be used by the California Energy Resources Conservation and Development Commission, the first emphasizing site-specific considerations, the second examining the detailed facility design as well. The Notice of Intention review is divided into three possible stages: an examination of emissions and site characteristics, a basic impact analysis, and an assessment of publicmore » impacts. The Application for Certification review is divided into five possible stages: a review of the Notice of Intention treatment, review of the emission control equipment, review of the safety design, review of the general facility design, and an overall assessment of site and facility acceptability.« less

The Methodology of Interactive Parametric Modelling of Construction Site Facilities in BIM Environment

NASA Astrophysics Data System (ADS)

Kozlovská, Mária; Čabala, Jozef; Struková, Zuzana

2014-11-01

Information technology is becoming a strong tool in different industries, including construction. The recent trend of buildings designing is leading up to creation of the most comprehensive virtual building model (Building Information Model) in order to solve all the problems relating to the project as early as in the designing phase. Building information modelling is a new way of approaching to the design of building projects documentation. Currently, the building site layout as a part of the building design documents has a very little support in the BIM environment. Recently, the research of designing the construction process conditions has centred on improvement of general practice in planning and on new approaches to construction site layout planning. The state of art in field of designing the construction process conditions indicated an unexplored problem related to connection of knowledge system with construction site facilities (CSF) layout through interactive modelling. The goal of the paper is to present the methodology for execution of 3D construction site facility allocation model (3D CSF-IAM), based on principles of parametric and interactive modelling.

Genetic Characterisation of Plasmodium falciparum Isolates with Deletion of the pfhrp2 and/or pfhrp3 Genes in Colombia: The Amazon Region, a Challenge for Malaria Diagnosis and Control

PubMed Central

Dorado, Erika Jimena; Okoth, Sheila Akinyi; Montenegro, Lidia Madeline; Diaz, Gustavo; Barnwell, John W.; Udhayakumar, Venkatachalam; Murillo Solano, Claribel

2016-01-01

Most Plasmodium falciparum-detecting rapid diagnostic tests (RDTs) target histidine-rich protein 2 (PfHRP2). However, P. falciparum isolates with deletion of the pfhrp2 gene and its homolog gene, pfhrp3, have been detected. We carried out an extensive investigation on 365 P. falciparum dried blood samples collected from seven P. falciparum endemic sites in Colombia between 2003 and 2012 to genetically characterise and geographically map pfhrp2- and/or pfhrp3-negative P. falciparum parasites in the country. We found a high proportion of pfhrp2-negative parasites only in Amazonas (15/39; 38.5%), and these parasites were also pfhrp3-negative. These parasites were collected between 2008 and 2009 in Amazonas, while pfhrp3-negative parasites (157/365, 43%) were found in all the sites and from each of the sample collection years evaluated (2003 to 2012). We also found that all pfhrp2- and/or pfhrp3-negative parasites were also negative for one or both flanking genes. Six sub-population clusters were established with 93.3% (14/15) of the pfhrp2-negative parasites grouped in the same cluster and sharing the same haplotype. This haplotype corresponded with the genetic lineage BV1, a multidrug resistant strain that caused two outbreaks reported in Peru between 2010 and 2013. We found this BV1 lineage in the Colombian Amazon as early as 2006. Two new clonal lineages were identified in these parasites from Colombia: the genetic lineages EV1 and F. PfHRP2 sequence analysis revealed high genetic diversity at the amino acid level, with 17 unique sequences identified among 53 PfHRP2 sequences analysed. The use of PfHRP2-based RDTs is not recommended in Amazonas because of the high proportion of parasites with pfhrp2 deletion (38.5%), and implementation of new strategies for malaria diagnosis and control in Amazonas must be prioritised. Moreover, studies to monitor and genetically characterise pfhrp2-negative P. falciparum parasites in the Americas are warranted, given the extensive human migration occurring in the region. PMID:27636709

Local crystal/chemical structures at iron sites in amorphous, magnetic, and nanocrystalline materials

NASA Astrophysics Data System (ADS)

Clark, Ted Michael

Order-disorder phenomena have been examined by means of Mossbauer spectroscopy in a variety of materials, including (a) tektites and other silicate glasses, (b) magnetic materials such as natural and synthetic magnetoplumbite, M-type hexagonal ferrites and magnetite, and (c) nanocrystalline zinc ferrite. A methodology has been established for the analysis of the local crystal/chemical structures of iron in tektites and its application has reconfirmed a low ferric/ferrous ratio of approximately 0.10 for tektites. Additionally, a greater degree of submirocscopic heterogeneity has been established for Muong Nong tektites in comparison with splash form tektites. The dynamics of the 2b site in hexagonal ferrites has been studied above and below the Curie temperature for magnetoplumbite and its synthetic analogs, and also for polycrystalline and oriented single-crystals of MeFesb{12}Osb{19} (Me=Ba, Sr, Pb). Cation ordering on this site is shown to be dependent on the thermal history of the material, while the dynamic disorder of the 2b site for the end-member hexagonal ferrites is shown to be influenced by the divalent heavy metal species, Me. The influence of chemical composition on the morphology of magnetite has been shown to depend on the site preference of impurity cations: Substitutional impurities with tetrahedral site preferences are postulated to result in the seldom-observed cubic habit. Based on the cation distributions of bulk and nanocrystalline material it is held that the enhanced magnetic moments and susceptibilities of nanocrystalline zinc ferrite are shown to be consistent with surface phenomena, independent of synthesis methodology, and contrary to claims of special effects resulting from a particular synthesis methodology.

An Educational System to Help Students Assess Website Features and Identify High-Risk Websites

ERIC Educational Resources Information Center

Kajiyama, Tomoko; Echizen, Isao

2015-01-01

Purpose: The purpose of this paper is to propose an effective educational system to help students assess Web site risk by providing an environment in which students can better understand a Web site's features and determine the risks of accessing the Web site for themselves. Design/methodology/approach: The authors have enhanced a prototype…

Dose rate estimation of the Tohoku hynobiid salamander, Hynobius lichenatus, in Fukushima.

PubMed

Fuma, Shoichi; Ihara, Sadao; Kawaguchi, Isao; Ishikawa, Takahiro; Watanabe, Yoshito; Kubota, Yoshihisa; Sato, Youji; Takahashi, Hiroyuki; Aono, Tatsuo; Ishii, Nobuyoshi; Soeda, Haruhi; Matsui, Kumi; Une, Yumi; Minamiya, Yukio; Yoshida, Satoshi

2015-05-01

The radiological risks to the Tohoku hynobiid salamanders (class Amphibia), Hynobius lichenatus due to the Fukushima Dai-ichi Nuclear Power Plant accident were assessed in Fukushima Prefecture, including evacuation areas. Aquatic egg clutches (n = 1 for each sampling date and site; n = 4 in total), overwintering larvae (n = 1-5 for each sampling date and site; n = 17 in total), and terrestrial juveniles or adults (n = 1 or 3 for each sampling date and site; n = 12 in total) of H. lichenatus were collected from the end of April 2011 to April 2013. Environmental media such as litter (n = 1-5 for each sampling date and site; n = 30 in total), soil (n = 1-8 for each sampling date and site; n = 31 in total), water (n = 1 for each sampling date and site; n = 17 in total), and sediment (n = 1 for each sampling date and site; n = 17 in total) were also collected. Activity concentrations of (134)Cs + (137)Cs were 1.9-2800, 0.13-320, and 0.51-220 kBq (dry kg) (-1) in the litter, soil, and sediment samples, respectively, and were 0.31-220 and <0.29-40 kBq (wet kg)(-1) in the adult and larval salamanders, respectively. External and internal absorbed dose rates to H. lichenatus were calculated from these activity concentration data, using the ERICA Assessment Tool methodology. External dose rates were also measured in situ with glass dosimeters. There was agreement within a factor of 2 between the calculated and measured external dose rates. In the most severely contaminated habitat of this salamander, a northern part of Abukuma Mountains, the highest total dose rates were estimated to be 50 and 15 μGy h(-1) for the adults and overwintering larvae, respectively. Growth and survival of H. lichenatus was not affected at a dose rate of up to 490 μGy h(-1) in the previous laboratory chronic gamma-irradiation experiment, and thus growth and survival of this salamander would not be affected, even in the most severely contaminated habitat in Fukushima Prefecture. However, further studies of the adult salamanders may be required in order to examine whether the most severe radioactive contamination has any effects on sensitive endpoints, since the estimated highest dose rate to the adults exceeded some of the guidance dose rates proposed by various organisations and programmes for the protection of amphibians, which range from 4 to 400 μGy h(-1). Conversely, at one site in Nakadori, a moderately contaminated region in Fukushima Prefecture, the dose rate to the adult salamanders in spring of 2012 was estimated to be 0.2 μGy h(-1). Estimated dose rates to the overwintering larvae in spring of 2012 were 1 and 0.2 μGy h(-1) at one site in Nakadori, and in Aizu, a less contaminated region in Fukushima Prefecture, respectively. These results suggest that there is a low risk that H. lichenatus will be affected by radioactive contamination in these districts, though further studies on dose rate estimation are required for definitive risk characterisation. Copyright © 2015 Elsevier Ltd. All rights reserved.

Proteins and Their Interacting Partners: An Introduction to Protein-Ligand Binding Site Prediction Methods.

PubMed

Roche, Daniel Barry; Brackenridge, Danielle Allison; McGuffin, Liam James

2015-12-15

Elucidating the biological and biochemical roles of proteins, and subsequently determining their interacting partners, can be difficult and time consuming using in vitro and/or in vivo methods, and consequently the majority of newly sequenced proteins will have unknown structures and functions. However, in silico methods for predicting protein-ligand binding sites and protein biochemical functions offer an alternative practical solution. The characterisation of protein-ligand binding sites is essential for investigating new functional roles, which can impact the major biological research spheres of health, food, and energy security. In this review we discuss the role in silico methods play in 3D modelling of protein-ligand binding sites, along with their role in predicting biochemical functionality. In addition, we describe in detail some of the key alternative in silico prediction approaches that are available, as well as discussing the Critical Assessment of Techniques for Protein Structure Prediction (CASP) and the Continuous Automated Model EvaluatiOn (CAMEO) projects, and their impact on developments in the field. Furthermore, we discuss the importance of protein function prediction methods for tackling 21st century problems.

Mesoscale Variation of Mechanisms Contributing to Stability in Rocky Shore Communities

PubMed Central

Valdivia, Nelson; González, Andrés E.; Manzur, Tatiana; Broitman, Bernardo R.

2013-01-01

Environmental fluctuations can generate asynchronous species’ fluctuations and community stability, due to compensatory dynamics of species with different environmental tolerances. We tested this hypothesis in intertidal hard-bottom communities of north-central Chile, where a persistent upwelling centre maintains a mosaic in sea surface temperatures (SST) over 10s of kilometres along the shore. Coastal upwelling implies colder and temporally more stable SST relative to downstream sites. Uni- and multivariate analyses of multiyear timeseries of SST and species abundances showed more asynchronous fluctuations and higher stability in sites characterised by warmer and more variable SST. Nevertheless, these effects were weakened after including data obtained in sites affected by less persistent upwelling centres. Further, dominant species were more stable in sites exposed to high SST variability. The strength of other processes that can influence community stability, chiefly statistical averaging and overyielding, did not vary significantly between SST regimes. Our results provide observational evidence supporting the idea that exogenously driven compensatory dynamics and the stabilising effects of dominant species can determine the stability of ecosystems facing environmental fluctuations. PMID:23326592

Development of Hydrologic Characterization Methodology of Faults: Outline of the Project in Berkeley, California

NASA Astrophysics Data System (ADS)

Goto, J.; Miwa, T.; Tsuchi, H.; Karasaki, K.

2009-12-01

The Nuclear Waste Management Organization of Japan (NUMO), after volunteering municipalities arise, will start a three-staged program for selecting a HLW and TRU waste repository site. It is recognized from experiences from various site characterization programs in the world that the hydrologic property of faults is one of the most important parameters in the early stage of the program. It is expected that numerous faults of interest exist in an investigation area of several tens of square kilometers. It is, however, impossible to characterize all these faults in a limited time and budget. This raises problems in the repository designing and safety assessment that we may have to accept unrealistic or over conservative results by using a single model or parameters for all the faults in the area. We, therefore, seek to develop an efficient and practical methodology to characterize hydrologic property of faults. This project is a five year program started in 2007, and comprises the basic methodology development through literature study and its verification through field investigations. The literature study tries to classify faults by correlating their geological features with hydraulic property, to search for the most efficient technology for fault characterization, and to develop a work flow diagram. The field investigation starts from selection of a site and fault(s), followed by existing site data analyses, surface geophysics, geological mapping, trenching, water sampling, a series of borehole investigations and modeling/analyses. Based on the results of the field investigations, we plan to develop a systematic hydrologic characterization methodology of faults. A classification method that correlates combinations of geological features (rock type, fault displacement, fault type, position in a fault zone, fracture zone width, damage zone width) with widths of high permeability zones around a fault zone was proposed through a survey on available documents of the site characterization programs. The field investigation started in 2008, by selecting the Wildcat Fault that cut across the Laurence Berkeley National Laboratory (LBNL) site as the target. Analyses on site-specific data, surface geophysics, geological mapping and trenching have confirmed the approximate location and characteristics of the fault (see Session H48, Onishi, et al). The plan for the remaining years includes borehole investigations at LBNL, and another series of investigations in the northern part of the Wildcat Fault.

Statistical and Economic Techniques for Site-specific Nematode Management.

PubMed

Liu, Zheng; Griffin, Terry; Kirkpatrick, Terrence L

2014-03-01

Recent advances in precision agriculture technologies and spatial statistics allow realistic, site-specific estimation of nematode damage to field crops and provide a platform for the site-specific delivery of nematicides within individual fields. This paper reviews the spatial statistical techniques that model correlations among neighboring observations and develop a spatial economic analysis to determine the potential of site-specific nematicide application. The spatial econometric methodology applied in the context of site-specific crop yield response contributes to closing the gap between data analysis and realistic site-specific nematicide recommendations and helps to provide a practical method of site-specifically controlling nematodes.

Development of a Probabilistic Tornado Wind Hazard Model for the Continental United States Volume I: Main Report

DOE Office of Scientific and Technical Information (OSTI.GOV)

Boissonnade, A; Hossain, Q; Kimball, J

Since the mid-l980's, assessment of the wind and tornado risks at the Department of Energy (DOE) high and moderate hazard facilities has been based on the straight wind/tornado hazard curves given in UCRL-53526 (Coats, 1985). These curves were developed using a methodology that utilized a model, developed by McDonald, for severe winds at sub-tornado wind speeds and a separate model, developed by Fujita, for tornado wind speeds. For DOE sites not covered in UCRL-53526, wind and tornado hazard assessments are based on the criteria outlined in DOE-STD-1023-95 (DOE, 1996), utilizing the methodology in UCRL-53526; Subsequent to the publication of UCRL53526,more » in a study sponsored by the Nuclear Regulatory Commission (NRC), the Pacific Northwest Laboratory developed tornado wind hazard curves for the contiguous United States, NUREG/CR-4461 (Ramsdell, 1986). Because of the different modeling assumptions and underlying data used to develop the tornado wind information, the wind speeds at specified exceedance levels, at a given location, based on the methodology in UCRL-53526, are different than those based on the methodology in NUREG/CR-4461. In 1997, Lawrence Livermore National Laboratory (LLNL) was funded by the DOE to review the current methodologies for characterizing tornado wind hazards and to develop a state-of-the-art wind/tornado characterization methodology based on probabilistic hazard assessment techniques and current historical wind data. This report describes the process of developing the methodology and the database of relevant tornado information needed to implement the methodology. It also presents the tornado wind hazard curves obtained from the application of the method to DOE sites throughout the contiguous United States.« less

Incorporating hydrologic data and ecohydrologic relationships in ecological site descriptions

USDA-ARS?s Scientific Manuscript database

The purpose of this paper is to recommend a framework and methodology for inclusion of key ecohydrologic feedbacks and relationships in Ecological Site Descriptions (ESDs) and thereby enhance the utility of ESDs for assessing rangelands and guiding resilience-based management strategies. Resilience...

Environmental impact reduction through ecological planning at Bahia Magdalena, Mexico.

PubMed

Malagrino, Giovanni; Lagunas, Magdalena; Rubio, Alfredo Ortega

2008-03-01

For analyzing basic marine and coastal characteristics we selected the potential sites where shrimp culture could be developed in a large coastal zone, Bahia Magdalena, Baja California Sur, Mexico. Based on our analysis, 6 sites were preselected and field stages of work were then developed to assess the precise suitability of each site in order to develop the proposed aquaculture activities. In ranking the suitability we were able to recommend the most appropriate places to develop shrimp culture in this region. Also, knowing the exact biological, physico-chemical and social environment, we determined the best species to cultivate, the recommended total area and the methodology to be used to lessen the environmental impact and to obtain the maximum profitability Our methodology could be used not only to select appropriate sites for shrimp culture in other coastal lagoons, but it also could be applied to assess the suitability in a quick and accurate way, of any other production activity in coastal zones.

Inorganic, organic and macromolecular components of fine aerosol in different areas of Europe in relation to their water solubility

NASA Astrophysics Data System (ADS)

Zappoli, S.; Andracchio, A.; Fuzzi, S.; Facchini, M. C.; Gelencsér, A.; Kiss, G.; Krivácsy, Z.; Molnár, Á.; Mészáros, E.; Hansson, H.-C.; Rosman, K.; Zebühr, Y.

A chemical mass balance of fine aerosol (<1.5 μm AED) collected at three European sites was performed with reference to the water solubility of the different aerosol classes of components. The sampling sites are characterised by different pollution conditions and aerosol loading in the air. Aspvreten is a background site in central Sweden, K-puszta is a rural site in the Great Hungarian Plain and San Pietro Capofiume is located in the polluted Po Valley, northern Italy. The average fine aerosol mass concentration was 5.9 μg m -3 at the background site Aspvreten, 24 μg m -3 at the rural K-puszta and 38 μg m -3 at the polluted site San Pietro Capofiume. However, a similarly high soluble fraction of the aerosol (65-75%) was measured at the three sites, while the percentage of water soluble organic species with respect to the total soluble mass was much higher at the background site (ca. 50%) than at the other two sites (ca. 25%). A very high fraction (over 70%) of organic compounds in the aerosol consisted of polar species. The presence of water soluble macromolecular compounds was revealed in the samples from K-puszta and San Pietro Capofiume. At both sites these species accounted for between ca. 20-50% of the water soluble organic fraction. The origin of the compounds was tentatively attributed to biomass combustion.

Reconstruction of diaminopimelic acid biosynthesis allows characterisation of Mycobacterium tuberculosis N-succinyl-L,L-diaminopimelic acid desuccinylase

PubMed Central

Usha, Veeraraghavan; Lloyd, Adrian J.; Roper, David I.; Dowson, Christopher G.; Kozlov, Guennadi; Gehring, Kalle; Chauhan, Smita; Imam, Hasan T.; Blindauer, Claudia A.; Besra, Gurdyal S.

2016-01-01

With the increased incidence of tuberculosis (TB) caused by Mycobacterium tuberculosis there is an urgent need for new and better anti-tubercular drugs. N-succinyl-L,L-diaminopimelic acid desuccinylase (DapE) is a key enzyme in the succinylase pathway for the biosynthesis of meso-diaminopimelic acid (meso-DAP) and L-lysine. DapE is a zinc containing metallohydrolase which hydrolyses N-succinyl L,L diaminopimelic acid (L,L-NSDAP) to L,L-diaminopimelic acid (L,L-DAP) and succinate. M. tuberculosis DapE (MtDapE) was cloned, over-expressed and purified as an N-terminal hexahistidine ((His)6) tagged fusion containing one zinc ion per DapE monomer. We redesigned the DAP synthetic pathway to generate L,L-NSDAP and other L,L-NSDAP derivatives and have characterised MtDapE with these substrates. In contrast to its other Gram negative homologues, the MtDapE was insensitive to inhibition by L-captopril which we show is consistent with novel mycobacterial alterations in the binding site of this drug. PMID:26976706

Reconstruction of diaminopimelic acid biosynthesis allows characterisation of Mycobacterium tuberculosis N-succinyl-L,L-diaminopimelic acid desuccinylase.

PubMed

Usha, Veeraraghavan; Lloyd, Adrian J; Roper, David I; Dowson, Christopher G; Kozlov, Guennadi; Gehring, Kalle; Chauhan, Smita; Imam, Hasan T; Blindauer, Claudia A; Besra, Gurdyal S

2016-03-15

With the increased incidence of tuberculosis (TB) caused by Mycobacterium tuberculosis there is an urgent need for new and better anti-tubercular drugs. N-succinyl-L,L-diaminopimelic acid desuccinylase (DapE) is a key enzyme in the succinylase pathway for the biosynthesis of meso-diaminopimelic acid (meso-DAP) and L-lysine. DapE is a zinc containing metallohydrolase which hydrolyses N-succinyl L,L diaminopimelic acid (L,L-NSDAP) to L,L-diaminopimelic acid (L,L-DAP) and succinate. M. tuberculosis DapE (MtDapE) was cloned, over-expressed and purified as an N-terminal hexahistidine ((His)6) tagged fusion containing one zinc ion per DapE monomer. We redesigned the DAP synthetic pathway to generate L,L-NSDAP and other L,L-NSDAP derivatives and have characterised MtDapE with these substrates. In contrast to its other Gram negative homologues, the MtDapE was insensitive to inhibition by L-captopril which we show is consistent with novel mycobacterial alterations in the binding site of this drug.

Characterising terrestrial influences on Antarctic air masses using Radon-222 measurements at King George Island

NASA Astrophysics Data System (ADS)

Chambers, S. D.; Hong, S.-B.; Williams, A. G.; Crawford, J.; Griffiths, A. D.; Park, S.-J.

2014-09-01

We report on one year of high-precision direct hourly radon observations at King Sejong Station (King George Island) beginning in February 2013. Findings are compared with historic and ongoing radon measurements from other Antarctic sites. Monthly median concentrations reduced from 72 mBq m-3 in late-summer to 44 mBq m-3 in late winter and early spring. Monthly 10th percentiles, ranging from 29 to 49 mBq m-3, were typical of oceanic baseline values. Diurnal cycles were rarely evident and local influences were minor, consistent with regional radon flux estimates one tenth of the global average for ice-free land. The predominant fetch region for terrestrially influenced air masses was South America (47-53° S), with minor influences also attributed to aged Australian air masses and local sources. Plume dilution factors of 2.8-4.0 were estimated for the most terrestrially influenced (South American) air masses, and a seasonal cycle in terrestrial influence on tropospheric air descending at the pole was identified and characterised.

Characterising terrestrial influences on Antarctic air masses using radon-222 measurements at King George Island

NASA Astrophysics Data System (ADS)

Chambers, S. D.; Hong, S.-B.; Williams, A. G.; Crawford, J.; Griffiths, A. D.; Park, S.-J.

2014-05-01

We report on one year of high precision direct hourly radon observations at King Sejong Station (King George Island) beginning in February 2013. Findings are compared with historic and ongoing radon measurements from other Antarctic sites. Monthly median concentrations reduced from 72 mBq m-3 in late summer to 44 mBq m-3 in late-winter and early-spring. Monthly 10th percentiles, ranging from 29 to 49 mBq m-3, were typical of oceanic baseline values. Diurnal cycles were rarely evident and local influences were minor, consistent with regional radon flux estimates one tenth of the global average for ice-free land. The predominant fetch region for terrestrially influenced air masses was South America (47-53° S), with minor influences also attributed to aged Australian air masses and local sources. Plume dilution factors of 2.8-4.0 were estimated for the most terrestrially influenced (South American) air masses, and a seasonal cycle in terrestrial influence on tropospheric air descending at the pole was identified and characterised.

Systematic approach to characterisation of NORM in Thailand.

PubMed

Chanyotha, S; Kranrod, C; Pengvanich, P

2015-11-01

The aim of this article is to provide information on the systematic approach that has been developed for the measurement of natural radiation exposure and the characterisation of naturally occurring radioactive materials (NORM) in terms of occurrence and distribution in various industrial processes, including the produced waste from the mineral industries in Thailand. The approach can be adapted for various types of study areas. The importance of collaboration among research institutions is discussed. Some developments include 25 documents; the redesign of the field equipment, such as the gamma survey meter, for convenient access to conduct measurement in various study areas; the method to collect and analyse radon gas from a natural gas pipeline and the manganese dioxide fibre to adsorb radium on-site for laboratory analysis. The NORM project in Thailand has been carried out for more than 10 y to support the development of NORM regulation in Thailand. In the previous studies as well as current, international standards for action levels have been adopted for safety purpose. © The Author 2015. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oup.com.

Investigating the dynamic nature of the ABC transporters: ABCB1 and MsbA as examples for the potential synergies of MD theory and EPR applications.

PubMed

Stockner, Thomas; Mullen, Anna; MacMillan, Fraser

2015-10-01

ABC transporters are primary active transporters found in all kingdoms of life. Human multidrug resistance transporter ABCB1, or P-glycoprotein, has an extremely broad substrate spectrum and confers resistance against chemotherapy drug treatment in cancer cells. The bacterial ABC transporter MsbA is a lipid A flippase and a homolog to the human ABCB1 transporter, with which it partially shares its substrate spectrum. Crystal structures of MsbA and ABCB1 have been solved in multiple conformations, providing a glimpse into the possible conformational changes the transporter could be going through during the transport cycle. Crystal structures are inherently static, while a dynamic picture of the transporter in motion is needed for a complete understanding of transporter function. Molecular dynamics (MD) simulations and electron paramagnetic resonance (EPR) spectroscopy can provide structural information on ABC transporters, but the strength of these two methods lies in the potential to characterise the dynamic regime of these transporters. Information from the two methods is quite complementary. MD simulations provide an all atom dynamic picture of the time evolution of the molecular system, though with a narrow time window. EPR spectroscopy can probe structural, environmental and dynamic properties of the transporter in several time regimes, but only through the attachment sites of an exogenous spin label. In this review the synergistic effects that can be achieved by combining the two methods are highlighted, and a brief methodological background is also presented. © 2015 Authors; published by Portland Press Limited.

Numerical simulation and validation of SI-CAI hybrid combustion in a CAI/HCCI gasoline engine

NASA Astrophysics Data System (ADS)

Wang, Xinyan; Xie, Hui; Xie, Liyan; Zhang, Lianfang; Li, Le; Chen, Tao; Zhao, Hua

2013-02-01

SI-CAI hybrid combustion, also known as spark-assisted compression ignition (SACI), is a promising concept to extend the operating range of CAI (Controlled Auto-Ignition) and achieve the smooth transition between spark ignition (SI) and CAI in the gasoline engine. In this study, a SI-CAI hybrid combustion model (HCM) has been constructed on the basis of the 3-Zones Extended Coherent Flame Model (ECFM3Z). An ignition model is included to initiate the ECFM3Z calculation and induce the flame propagation. In order to precisely depict the subsequent auto-ignition process of the unburned fuel and air mixture independently after the initiation of flame propagation, the tabulated chemistry concept is adopted to describe the auto-ignition chemistry. The methodology for extracting tabulated parameters from the chemical kinetics calculations is developed so that both cool flame reactions and main auto-ignition combustion can be well captured under a wider range of thermodynamic conditions. The SI-CAI hybrid combustion model (HCM) is then applied in the three-dimensional computational fluid dynamics (3-D CFD) engine simulation. The simulation results are compared with the experimental data obtained from a single cylinder VVA engine. The detailed analysis of the simulations demonstrates that the SI-CAI hybrid combustion process is characterised with the early flame propagation and subsequent multi-site auto-ignition around the main flame front, which is consistent with the optical results reported by other researchers. Besides, the systematic study of the in-cylinder condition reveals the influence mechanism of the early flame propagation on the subsequent auto-ignition.

The Moon Zoo citizen science project: Preliminary results for the Apollo 17 landing site

NASA Astrophysics Data System (ADS)

Bugiolacchi, Roberto; Bamford, Steven; Tar, Paul; Thacker, Neil; Crawford, Ian A.; Joy, Katherine H.; Grindrod, Peter M.; Lintott, Chris

2016-06-01

Moon Zoo is a citizen science project that utilises internet crowd-sourcing techniques. Moon Zoo users are asked to review high spatial resolution images from the Lunar Reconnaissance Orbiter Camera (LROC), onboard NASA's LRO spacecraft, and perform characterisation such as measuring impact crater sizes and identify morphological 'features of interest'. The tasks are designed to address issues in lunar science and to aid future exploration of the Moon. We have tested various methodologies and parameters therein to interrogate and reduce the Moon Zoo crater location and size dataset against a validated expert survey. We chose the Apollo 17 region as a test area since it offers a broad range of cratered terrains, including secondary-rich areas, older maria, and uplands. The assessment involved parallel testing in three key areas: (1) filtering of data to remove problematic mark-ups; (2) clustering methods of multiple notations per crater; and (3) derivation of alternative crater degradation indices, based on the statistical variability of multiple notations and the smoothness of local image structures. We compared different combinations of methods and parameters and assessed correlations between resulting crater summaries and the expert census. We derived the optimal data reduction steps and settings of the existing Moon Zoo crater data to agree with the expert census. Further, the regolith depth and crater degradation states derived from the data are also found to be in broad agreement with other estimates for the Apollo 17 region. Our study supports the validity of this citizen science project but also recommends improvements in key elements of the data acquisition planning and production.

Analysis of isoniazid-resistant transposon mutants of Mycobacterium smegmatis.

PubMed

Billman-Jacobe, H; Sloan, J; Coppel, R L

1996-10-15

The emergence of multidrug-resistant tuberculosis has renewed interest in the study of drug resistance in mycobacteria with the objective of improved chemotherapy. The genetic basis of isoniazid resistance in a model mycobacterium was studied. Eleven isoniazid-resistant mutants of Mycobacterium smegmatis were created using transposon mutagenesis. Genetic and enzymatic characterisation of the mutants showed that katG, encoding T-catalase, was inactivated. The nucleotide sequence of M. smegmatis katG was determined and the mutation sites mapped demonstrating that both the amino and carboxyl halves of T-catalase are important for enzymatic activity.

USING A RISK-BASED METHODOLOGY FOR THE TRANSFER OF RADIOACTIVE MATERIAL WITHIN THE SAVANNAH RIVER SITE BOUNDARY

DOE Office of Scientific and Technical Information (OSTI.GOV)

Loftin, B; Watkins, R; Loibl, M

2010-06-03

Shipment of radioactive materials (RAM) is discussed in the Code of Federal Regulations in parts of both 49 CFR and 10 CFR. The regulations provide the requirements and rules necessary for the safe shipment of RAM across public highways, railways, waterways, and through the air. These shipments are sometimes referred to as in-commerce shipments. Shipments of RAM entirely within the boundaries of Department of Energy sites, such as the Savannah River Site (SRS), can be made using methodology allowing provisions to maintain equivalent safety while deviating from the regulations for in-commerce shipments. These onsite shipments are known as transfers atmore » the SRS. These transfers must follow the requirements approved in a site-specific Transportation Safety Document (TSD). The TSD defines how the site will transfer materials so that they have equivalence to the regulations. These equivalences are documented in an Onsite Safety Assessment (OSA). The OSA can show how a particular packaging used onsite is equivalent to that which would be used for an in-commerce shipment. This is known as a deterministic approach. However, when a deterministic approach is not viable, the TSD allows for a risk-based OSA to be written. These risk-based assessments show that if a packaging does not provide the necessary safety to ensure that materials are not released (during normal or accident conditions) then the worst-case release of materials does not result in a dose consequence worse than that defined for the SRS. This paper will discuss recent challenges and successes using this methodology at the SRS.« less

Characterising an intense PM pollution episode in March 2015 in France from multi-site approach and near real time data: Climatology, variabilities, geographical origins and model evaluation

NASA Astrophysics Data System (ADS)

Petit, J.-E.; Amodeo, T.; Meleux, F.; Bessagnet, B.; Menut, L.; Grenier, D.; Pellan, Y.; Ockler, A.; Rocq, B.; Gros, V.; Sciare, J.; Favez, O.

2017-04-01

During March 2015, a severe and large-scale particulate matter (PM) pollution episode occurred in France. Measurements in near real-time of the major chemical composition at four different urban background sites across the country (Paris, Creil, Metz and Lyon) allowed the investigation of spatiotemporal variabilities during this episode. A climatology approach showed that all sites experienced clear unusual rain shortage, a pattern that is also found on a longer timescale, highlighting the role of synoptic conditions over Wester-Europe. This episode is characterized by a strong predominance of secondary pollution, and more particularly of ammonium nitrate, which accounted for more than 50% of submicron aerosols at all sites during the most intense period of the episode. Pollution advection is illustrated by similar variabilities in Paris and Creil (distant of around 100 km), as well as trajectory analyses applied on nitrate and sulphate. Local sources, especially wood burning, are however found to contribute to local/regional sub-episodes, notably in Metz. Finally, simulated concentrations from Chemistry-Transport model CHIMERE were compared to observed ones. Results highlighted different patterns depending on the chemical components and the measuring site, reinforcing the need of such exercises over other pollution episodes and sites.

An Evaluation of Public Preferences for Superfund Site Cleanup, Volume 1: A Preliminary Assessment (1995)

EPA Pesticide Factsheets

The purpose of the project is to develop a methodology for determining the cleanup options for National Priority List (NPL) sites governed under Superfund legislation that are acceptable to the public. A survey instrument was developed for the study.

SENSITIVITY ANALYSIS OF THE APPLICATION OF CHEMICAL EXPOSURE CRITERIA FOR COMPARING SITES AND WATERSHEDS

EPA Science Inventory

A methodology was developed for deriving quantitative exposure criteria useful for comparing a site or watershed to a reference condition. The prototype method used indicators of exposures to oil contamination and combustion by-products, naphthalene and benzo(a)pyrene metabolites...

Visual sensitivity of river recreation to power plants

Treesearch

David H. Blau; Michael C. Bowie

1979-01-01

The consultants were asked by the Power Plant Siting Staff of the Minnesota Environmental Quality Council to develop a methodology for evaluating the sensitivity of river-related recreational activities to visual intrusion by large coal-fired power plants. The methodology, which is applicable to any major stream in the state, was developed and tested on a case study...

78 FR 13742 - 60-Day Notice of Proposed Information Collection: Repatriation/Emergency Medical and Dietary...

Federal Register 2010, 2011, 2012, 2013, 2014

2013-02-28

... . You can search for the document by entering ``Public Notice '' in the Search bar. If necessary, use... the time and cost burden for this proposed collection, including the validity of the methodology and.... Methodology: The Bureau of Consular Affairs will be posting this form on Department of State Web sites to give...

Leveraging the Methodological Affordances of Facebook: Social Networking Strategies in Longitudinal Writing Research

ERIC Educational Resources Information Center

Sheffield, Jenna Pack; Kimme Hea, Amy C.

2016-01-01

While composition studies researchers have examined the ways social media are impacting our lives inside and outside of the classroom, less attention has been given to the ways in which social media--specifically Social Network Sites (SNSs)--may enhance our own research methods and methodologies by helping to combat research participant attrition…

Direct and indirect effects of metal contamination on soil biota in a Zn-Pb post-mining and smelting area (S Poland).

PubMed

Kapusta, Paweł; Szarek-Łukaszewska, Grażyna; Stefanowicz, Anna M

2011-06-01

Effects of metal contamination on soil biota activity were investigated at 43 sites in 5 different habitats (defined by substratum and vegetation type) in a post-mining area. Sites were characterised in terms of soil pH and texture, nutrient status, total and exchangeable metal concentrations, as well as plant species richness and cover, abundances of enchytraeids, nematodes and tardigrades, and microbial respiration and biomass. The concentrations of total trace metals were highest in soils developed on mining waste (metal-rich dolomite), but these habitats were more attractive than sandy sites for plants and soil biota because of their higher content of organic matter, clay and nutrients. Soil mesofauna and microbes were strongly dependent on natural habitat properties. Pollution (exchangeable Zn and Cd) negatively affected only enchytraeid density; due to a positive relationship between enchytraeids and microbes it indirectly reduced microbial activity. Copyright © 2011 Elsevier Ltd. All rights reserved.

The activation of the [NiFe]-hydrogenase from Allochromatium vinosum. An infrared spectro-electrochemical study.

PubMed

Bleijlevens, Boris; van Broekhuizen, Fleur A; De Lacey, Antonio L; Roseboom, Winfried; Fernandez, Victor M; Albracht, Simon P J

2004-09-01

The membrane-bound [NiFe]-hydrogenase from Allochromatium vinosum can occur in several inactive or active states. This study presents the first systematic infrared characterisation of the A. vinosum enzyme, with emphasis on the spectro-electrochemical properties of the inactive/active transition. This transition involves an energy barrier, which can be overcome at elevated temperatures. The reduced Ready enzyme can exist in two different inactive states, which are in an apparent acid-base equilibrium. It is proposed that a hydroxyl ligand in a bridging position in the Ni-Fe site is protonated and that the formed water molecule is subsequently removed. This enables the active site to bind hydrogen in a bridging position, allowing the formation of the fully active state of the enzyme. It is further shown that the active site in enzyme reduced by 1 bar H(2) can occur in three different electron paramagnetic resonance (EPR)-silent states with a different degree of protonation.

Highlights of the Global HIV-1 CSF Escape Consortium Meeting, 9 June 2016, Bethesda, MD, USA.

PubMed

Joseph, Jeymohan; Cinque, Paola; Colosi, Deborah; Dravid, Ameet; Ene, Luminita; Fox, Howard; Gabuzda, Dana; Gisslen, Magnus; Beth Joseph, Sarah; Letendre, Scott; Mukerji, Shibani S; Nath, Avindra; Perez-Valero, Ignacio; Persaud, Deborah; Price, Richard W; Rao, Vasudev R; Sacktor, Ned; Swanstrom, Ronald; Winston, Alan; Wojna, Valerie; Wright, Edwina; Spudich, Serena

2016-10-05

CSF HIV escape is a recently recognised phenomenon that suggests that despite suppressive treatment, HIV RNA may be detected in the CNS compartment in some individuals. In rare cases this is associated with clinical neurological disease, while in most cases, neurological consequences are not apparent. Attempts at characterising the biological substrates of CSF escape and further investigating the neurological consequences need to be made to better understand the implications of this condition for the HIV cure agenda as well as for clinical outcomes. The Global CSF HIV-1 Escape Consortium meeting, convened by the US National Institute of Mental Health, was a first step to gather investigators from diverse sites to discuss opportunities for future collaborative work on this emerging issue. To better understand CSF HIV escape and allow cross-site data reconciliation, it will be useful to reach a consensus set of definitions of the distinct forms of CSF escape, without which concerted cross-site efforts are difficult.

Direct Push supported geotechnical and hydrogeological characterisation of an active sinkhole area

NASA Astrophysics Data System (ADS)

Tippelt, Thomas; Vienken, Thomas; Kirsch, Reinhard; Dietrich, Peter; Werban, Ulrike

2017-04-01

Sinkholes represent a natural geologic hazard in areas where soluble layers are present in the subsurface. A detailed knowledge of the composition of the subsurface and its hydrogeological and geotechnical properties is essential for the understanding of sinkhole formation and propagation. This serves as base for risk evaluation and the development of an early warning system. However, site models often depend on data from drillings and surface geophysical surveys that in many cases cannot resolve the spatial distribution of relevant hydrogeological and geotechnical parameters sufficiently. Therefore, an active sinkhole area in Münsterdorf, Northern Germany, was investigated in detail using Direct Push technology, a minimally invasive sounding method. The obtained vertical high-resolution profiles of geotechnical and hydrogeological characteristics, in combination with Direct Push based sampling and surface geophysical measurements lead to a strong improvement of the geologic site model. The conceptual site model regarding sinkhole formation and propagation will then be tested based on the gathered data and, if necessary, adapted accordingly.

Chemical mimicry of insect oviposition sites: a global analysis of convergence in angiosperms.

PubMed

Jürgens, Andreas; Wee, Suk-Ling; Shuttleworth, Adam; Johnson, Steven D

2013-09-01

Floral mimicry of decaying plant or animal material has evolved in many plant lineages and exploits, for the purpose of pollination, insects seeking oviposition sites. Existing studies suggest that volatile signals play a particularly important role in these mimicry systems. Here, we present the first large-scale phylogenetically informed study of patterns of evolution in the volatile emissions of plants that mimic insect oviposition sites. Multivariate analyses showed strong convergent evolution, represented by distinct clusters in chemical phenotype space of plants that mimic animal carrion, decaying plant material, herbivore dung and omnivore/carnivore faeces respectively. These plants deploy universal infochemicals that serve as indicators for the main nutrients utilised by saprophagous, coprophagous and necrophagous insects. The emission of oligosulphide-dominated volatile blends very similar to those emitted by carrion has evolved independently in at least five plant families (Annonaceae, Apocynaceae, Araceae, Orchidaceae and Rafflesiaceae) and characterises plants associated mainly with pollination by necrophagous flies and beetles. © 2013 John Wiley & Sons Ltd/CNRS.

Wave Resource Characterization at US Wave Energy Converter (WEC) Test Sites

NASA Astrophysics Data System (ADS)

Dallman, A.; Neary, V. S.

2016-02-01

The US Department of Energy's (DOE) Marine and Hydrokinetic energy (MHK) Program is supporting a diverse research and development portfolio intended to accelerate commercialization of the marine renewable industry by improving technology performance, reducing market barriers, and lowering the cost of energy. Wave resource characterization at potential and existing wave energy converter (WEC) test sites and deployment locations contributes to this DOE goal by providing a catalogue of wave energy resource characteristics, met-ocean data, and site infrastructure information, developed utilizing a consistent methodology. The purpose of the catalogue is to enable the comparison of resource characteristics among sites to facilitate the selection of test sites that are most suitable for a developer's device and that best meet their testing needs and objectives. It also provides inputs for the design of WEC test devices and planning WEC tests, including the planning of deployment and operations and maintenance. The first edition included three sites: the Pacific Marine Energy Center (PMEC) North Energy Test Site (NETS) offshore of Newport, Oregon, the Kaneohe Bay Naval Wave Energy Test Site (WETS) offshore of Oahu, HI, and a potential site offshore of Humboldt Bay, CA (Eureka, CA). The second edition was recently finished, which includes five additional sites: the Jennette's Pier Wave Energy Converter Test Site in North Carolina, the US Army Corps of Engineers (USACE) Field Research Facility (FRF), the PMEC Lake Washington site, the proposed PMEC South Energy Test Site (SETS), and the proposed CalWave Central Coast WEC Test Site. The operational sea states are included according to the IEC Technical Specification on wave energy resource assessment and characterization, with additional information on extreme sea states, weather windows, and representative spectra. The methodology and a summary of results will be discussed.

[SciELO: method for electronic publishing].

PubMed

Laerte Packer, A; Rocha Biojone, M; Antonio, I; Mayumi Takemaka, R; Pedroso García, A; Costa da Silva, A; Toshiyuki Murasaki, R; Mylek, C; Carvalho Reisl, O; Rocha F Delbucio, H C

2001-01-01

It describes the SciELO Methodology Scientific Electronic Library Online for electronic publishing of scientific periodicals, examining issues such as the transition from traditional printed publication to electronic publishing, the scientific communication process, the principles which founded the methodology development, its application in the building of the SciELO site, its modules and components, the tools use for its construction etc. The article also discusses the potentialities and trends for the area in Brazil and Latin America, pointing out questions and proposals which should be investigated and solved by the methodology. It concludes that the SciELO Methodology is an efficient, flexible and wide solution for the scientific electronic publishing.

Study for the selection of optimal site in northeastern, Mexico for wind power generation using genetic algorithms.

NASA Astrophysics Data System (ADS)

Gonzalez, T.; Ruvalcaba, A.; Oliver, L.

2016-12-01

The electricity generation from renewable resources has acquired a leading role. Mexico particularrly it has great interest in renewable natural resources for power generation, especially wind energy. Therefore, the country is rapidly entering in the development of wind power generators sites. The development of a wind places as an energy project, does not have a standardized methodology. Techniques vary according to the developer to select the best place to install a wind turbine system. Generally to install the system the developers consider three key factors: 1) the characteristics of the wind, 2) the potential distribution of electricity and 3) transport access to the site. This paper presents a study with a different methodology which is carried out in two stages: the first at regional scale uses "space" and "natural" criteria in order to select a region based on its cartographic features such as politics and physiographic division, location of conservation natural areas, water bodies, urban criteria; and natural criteria such as the amount and direction of the wind, the type and land use, vegetation, topography and biodiversity of the site. The result of the application of these criteria, gives a first optimal selection area. The second part of the methodology includes criteria and variables on detail scale. The analysis of all data information collected will provide new parameters (decision variables) for the site. The overall analysis of the information, based in these criteria, indicates that the best location that the best location of the field would be the southern Coahuila and the central part of Nuevo Leon. The wind power site will contribute to the economy grow of important cities including Monterrey. Finally, computational model of genetic algorithm will be used as a tool to determine the best site selection depending on the parameters considered.

Assessment of Effectiveness of Geologic Isolation Systems: REFERENCE SITE INITIAL ASSESSMENT FOR A SALT DOME REPOSITORY

DOE Office of Scientific and Technical Information (OSTI.GOV)

Harwell, M. A.; Brandstetter, A.; Benson, G. L.

1982-06-01

As a methodology demonstration for the Office of Nuclear Waste Isolation (ONWI), the Assessment of Effectiveness of Geologic Isolation Systems (AEGIS) Program conducted an initial reference site analysis of the long-term effectiveness of a salt dome repository. The Hainesville Salt Dome in Texas was chosen to be representative of the Gulf Coast interior salt domes; however, the Hainesville Site has been eliminated as a possible nuclear waste repository site. The data used for this exercise are not adequate for an actual assessment, nor have all the parametric analyses been made that would adequately characterize the response of the geosystem surroundingmore » the repository. Additionally, because this was the first exercise of the complete AEGIS and WASTE Rock Interaction Technology (WRIT) methodology, this report provides the initial opportunity for the methodology, specifically applied to a site, to be reviewed by the community outside the AEGIS. The scenario evaluation, as a part of the methodology demonstration, involved consideration of a large variety of potentially disruptive phenomena, which alone or in concert could lead to a breach in a salt dome repository and to a subsequent transport of the radionuclides to the environment. Without waste- and repository-induced effects, no plausible natural geologic events or processes which would compromise the repository integrity could be envisioned over the one-million-year time frame after closure. Near-field (waste- and repository-induced) effects were excluded from consideration in this analysis, but they can be added in future analyses when that methodology development is more complete. The potential for consequential human intrusion into salt domes within a million-year time frame led to the consideration of a solution mining intrusion scenario. The AEGIS staff developed a specific human intrusion scenario at 100 years and 1000 years post-closure, which is one of a whole suite of possible scenarios. This scenario resulted in the delivery of radionuclidecontaminated brine to the surface, where a portion was diverted to culinary salt for direct ingestion by the existing population. Consequence analyses indicated calculated human doses that would be highly deleterious. Additional analyses indicated that doses well above background would occur from such a scenario t even if it occurred a million years into the future. The way to preclude such an intrusion is for continued control over the repository sitet either through direct institutional control or through the effective passive transfer of information. A secondary aspect of the specific human intrusion scenario involved a breach through the side of the salt dome t through which radionuclides migrated via the ground-water system to the accessible environment. This provided a demonstration of the geotransport methodology that AEGIS can use in actual site evaluations, as well as the WRIT program's capabilities with respect to defining the source term and retardation rates of the radionuclides in the repository. This reference site analysis was initially published as a Working Document in December 1979. That version was distributed for a formal peer review by individuals and organizations not involved in its development. The present report represents a revisiont based in part on the responses received from the external reviewers. Summaries of the comments from the reviewers and responses to these comments by the AEGIS staff are presented. The exercise of the AEGIS methodology was sUGcessful in demonstrating the methodologyt and thus t in providing a basis for substantive peer review, in terms of further development of the AEGIS site-applications capability and in terms of providing insight into the potential for consequential human intrusion into a salt dome repository.« less

Assessment of Effectiveness of Geologic Isolation Systems: REFERENCE SITE INITIAL ASSESSMENT FOR A SALT DOME REPOSITORY

DOE Office of Scientific and Technical Information (OSTI.GOV)

Harwell, M. A.; Brandstetter, A.; Benson, G. L.

1982-06-01

As a methodology demonstration for the Office of Nuclear Waste Isolation (ONWI), the Assessment of Effectiveness of Geologic Isolation Systems (AEGIS) Program conducted an initial reference site analysis of the long-term effectiveness of a salt dome repository. The Hainesville Salt Dome in Texas was chosen to be representative of the Gulf Coast interior salt domes; however, the Hainesville Site has been eliminated as a possible nuclear waste repository site. The data used for this exercise are not adequate for an actual assessment, nor have all the parametric analyses been made that would adequately characterize the response of the geosystem surroundingmore » the repository. Additionally, because this was the first exercise of the complete AEGIS and WASTE Rock Interaction Technology (WRIT) methodology, this report provides the initial opportunity for the methodology, specifically applied to a site, to be reviewed by the community outside the AEGIS. The scenario evaluation, as a part of the methodology demonstration, involved consideration of a large variety of potentially disruptive phenomena, which alone or in concert could lead to a breach in a salt dome repository and to a subsequent transport of the radionuclides to the environment. Without waste- and repository-induced effects, no plausible natural geologic events or processes which would compromise the repository integrity could be envisioned over the one-million-year time frame after closure. Near-field (waste- and repository-induced) effects were excluded from consideration in this analysis, but they can be added in future analyses when that methodology development is more complete. The potential for consequential human intrusion into salt domes within a million-year time frame led to the consideration of a solution mining intrusion scenario. The AEGIS staff developed a specific human intrusion scenario at 100 years and 1000 years post-closure, which is one of a whole suite of possible scenarios. This scenario resulted in the delivery of radionuclidecontaminated brine to the surface, where a portion was diverted to culinary salt for direct ingestion by the existing population. Consequence analyses indicated calculated human doses that would be highly deleterious. Additional analyses indicated that doses well above background would occur from such a scenario t even if it occurred a million years into the future. The way to preclude such an intrusion is for continued control over the repository sitet either through direct institutional control or through the effective passive transfer of information. A secondary aspect of the specific human intrusion scenario involved a breach through the side of the salt dome t through which radionuclides migrated via the ground-water system to the accessible environment. This provided a demonstration of the geotransport methodology that AEGIS can use in actual site evaluations, as well as the WRIT program's capabilities with respect to defining the source term and retardation rates of the radionuclides in the repository. This reference site analysis was initially published as a Working Document in December 1979. That version was distributed for a formal peer review by individuals and organizations not involved in its development. The present report represents a revisiont based in part on the responses received from the external reviewers. Summaries of the comments from the reviewers and responses to these comments by the AEGIS staff are presented. The exercise of the AEGIS methodology was successful in demonstrating the methodologyt and thus t in providing a basis for substantive peer review, in terms of further development of the AEGIS site-applications capability and in terms of providing insight into the potential for consequential human intrusion into a salt dome repository.« less

Paludified forests of Komi Republic (Northeastern Europe) do not act as hotspots of the CH4 emissions

NASA Astrophysics Data System (ADS)

Schneider, Julia; Lukasheva, Maria; Gudyrev, Vasiliy; Mikhaylov, Oleg; Miglovets, Mikhail

2015-04-01

In the Komi Republic, which is situated in Northeastern Europe and is subject of Russian Federation, 306,000km2 or about 73 % of the total area are covered by forest. The predominant part of these forests lies within the boreal zone. Within the boreal forests the vegetation patterns are a result of the moisture characteristics and air temperature. Based on the moisture conditions forest communities can be grouped into wet, mesic and dry sites. In conditions of high soil moisture content forest peatlands can develop. In boreal forest landscapes it is not a rare phenomenon and can reach coverage of up to one third of the total area. In addition to the high water content of the soils forested peatlands are characterised by low soil temperatures, high organic matter accumulation and low organic matter decomposition. The thick moss-organic layer on the forest floor and waterlogged soils favours methanogenesis. Such process of accumulation of poorly decomposed organic matter mostly originating from Sphagnum which involves the formation of waterlogged conditions is defined as paludification. Highly favourable to forest paludification are sites characterised by fine-textured soils which highly hamper percolation. Paludified forests also occur at peatland margins as a result of peatland expansion. During the last years peatland margins were considered as potential biogeochemical hotspots within the peatlands and due to their high nutrient and dissolved organic matter content they may also be a major methane emitter. Paludification can also occur at forests sites after clear cutting, which is a very intensive logging type and usually leads to water table elevations. In this study measurements were conducted at peatland margins and at a clear cut site during two climatically different years. The summer of the year 2013 was considerably warmer and drier, and the summer of the year 2014 was considerably colder and wetter than the long term mean. In this study we show, that regardless of the weather conditions and the water table levels related thereto, the peatland margins did not act as strong methane emitter but are mostly sources of methane and the clear cut sites emit very small amounts of methane or are even sinks for atmospheric methane.

The synthesis and characterisation of MDMA derived from a catalytic oxidation of material isolated from black pepper reveals potential route specific impurities.

PubMed

Plummer, Christopher M; Breadon, Thomas W; Pearson, James R; Jones, Oliver A H

2016-05-01

This work examines the chemical synthesis of 3,4-methylenedioxy-N-methylamphetamine (MDMA) from piperonal prepared via a catalytic ruthenium tetroxide oxidation of piperine extracted from black pepper. A variety of oxidation conditions were experimented with including different solvent systems and co-oxidants. A sample of prepared piperonal was successfully converted into MDMA via 3,4-methylenedioxyphenyl-2-nitropropene (MDP2NP) and 3,4-methylenedioxyphenyl-2-propanone (MDP2P) and the impurities within each product characterised by GC-MS to give a contaminant profile of the synthetic pathway. Interestingly, it was discovered that a chlorinated analogue of piperonal (6-chloropiperonal) was created during the oxidation process by an as yet unknown mechanism. This impurity reacted alongside piperonal to give chlorinated analogues of each precursor, ultimately yielding 2-chloro-4,5-methylenedioxymethamphetamine (6-Cl-MDMA) as an impurity within the MDMA sample. The methodology developed is a simple way to synthesise a substantial amount of precursor material with easy to obtain reagents. The results also show that chlorinated MDMA analogues, previously thought to be deliberately included adulterants, may in fact be route specific impurities with potential application in determining the origin and synthesis method of seized illicit drugs. Copyright © 2016 The Chartered Society of Forensic Sciences. Published by Elsevier Ireland Ltd. All rights reserved.

A general methodology for inverse estimation of the elastic and anelastic properties of anisotropic open-cell porous materials—with application to a melamine foam

DOE Office of Scientific and Technical Information (OSTI.GOV)

Cuenca, Jacques, E-mail: jcuenca@kth.se; Van der Kelen, Christophe; Göransson, Peter

2014-02-28

This paper proposes an inverse estimation method for the characterisation of the elastic and anelastic properties of the frame of anisotropic open-cell foams used for sound absorption. A model of viscoelasticity based on a fractional differential constitutive equation is used, leading to an augmented Hooke's law in the frequency domain, where the elastic and anelastic phenomena appear as distinctive terms in the stiffness matrix. The parameters of the model are nine orthotropic elastic moduli, three angles of orientation of the material principal directions and three parameters governing the anelastic frequency dependence. The inverse estimation consists in numerically fitting the modelmore » on a set of transfer functions extracted from a sample of material. The setup uses a seismic-mass measurement repeated in the three directions of space and is placed in a vacuum chamber in order to remove the air from the pores of the sample. The method allows to reconstruct the full frequency-dependent complex stiffness matrix of the frame of an anisotropic open-cell foam and in particular it provides the frequency of maximum energy dissipation by viscoelastic effects. The characterisation of a melamine foam sample is performed and the relation between the fractional-derivative model and other types of parameterisations of the augmented Hooke's law is discussed.« less

Isolation, purification, culture and characterisation of myoepithelial cells from normal and neoplastic canine mammary glands using a magnetic-activated cell sorting separation system.

PubMed

Sánchez-Céspedes, R; Maniscalco, L; Iussich, S; Martignani, E; Guil-Luna, S; De Maria, R; Martín de Las Mulas, J; Millán, Y

2013-08-01

Mammary gland tumours, the most common malignant neoplasm in bitches, often display myoepithelial (ME) cell proliferation. The aim of this study was to isolate, purify, culture and characterise ME cells from normal and neoplastic canine mammary glands. Monodispersed cells from three normal canine mammary glands and five canine mammary tumours were incubated with an anti-Thy1 antibody and isolated by magnetic-activated cell sorting (MACS). Cells isolated from two normal glands (cell lines CmME-N1 and CmME-N2) and four tumours (cell lines CmME-K1 from a complex carcinoma, CmME-K2 from a simple tubulopapillary carcinoma, and CmME-K3 and CmME-K4 from two carcinomas within benign tumours) were cultured in supplemented DMEM/F12 media for 40days. Cell purity was >90%. Tumour-derived ME cell lines exhibited heterogeneous morphology, growth patterns and immunocytochemical expression of cytokeratins, whereas cell lines from normal glands retained their morphology and levels of cytokeratin expression during culture. Cell lines from normal glands and carcinomas within benign tumours grew more slowly than those from simple and complex carcinomas. This methodology has the potential to be used for in vitro analysis of the role of ME cells in the growth and progression of canine mammary tumours. Copyright © 2013 Elsevier Ltd. All rights reserved.

Body integrity identity disorder: deranged body processing, right fronto-parietal dysfunction, and phenomenological experience of body incongruity.

PubMed

Giummarra, Melita J; Bradshaw, John L; Nicholls, Michael E R; Hilti, Leonie M; Brugger, Peter

2011-12-01

Body integrity identity disorder (BIID) is characterised by profound experience of incongruity between the biological and desired body structure. The condition manifests in "non-belonging" of body parts, and the subsequent desire to amputate, paralyse or disable a limb. Little is known about BIID; however, a neuropsychological model implicating right fronto-parietal and insular networks is emerging, with potential disruption to body representation. We argue that, as there is scant systematic research on BIID published to date and much of the research is methodologically weak, it is premature to assume that the only process underlying bodily experience that is compromised is body representation. The present review systematically investigates which aspects of neurological processing of the body, and sense of self, may be compromised in BIID. We argue that the disorder most likely reflects dysregulation in multiple levels of body processing. That is, the disunity between self and the body could arguably come about through congenital and/or developmental disruption of body representations, which, together with altered multisensory integration, may preclude the experience of self-attribution and embodiment of affected body parts. Ulimately, there is a need for official diagnostic criteria to facilitate epidemiological characterisation of BIID, and for further research to systematically investigate which aspects of body representation and processing are truly compromised in the disorder.

Application of 2D and 3D image technologies to characterise morphological attributes of grapevine clusters.

PubMed

Tello, Javier; Cubero, Sergio; Blasco, José; Tardaguila, Javier; Aleixos, Nuria; Ibáñez, Javier

2016-10-01

Grapevine cluster morphology influences the quality and commercial value of wine and table grapes. It is routinely evaluated by subjective and inaccurate methods that do not meet the requirements set by the food industry. Novel two-dimensional (2D) and three-dimensional (3D) machine vision technologies emerge as promising tools for its automatic and fast evaluation. The automatic evaluation of cluster length, width and elongation was successfully achieved by the analysis of 2D images, significant and strong correlations with the manual methods being found (r = 0.959, 0.861 and 0.852, respectively). The classification of clusters according to their shape can be achieved by evaluating their conicity in different sections of the cluster. The geometric reconstruction of the morphological volume of the cluster from 2D features worked better than the direct 3D laser scanning system, showing a high correlation (r = 0.956) with the manual approach (water displacement method). In addition, we constructed and validated a simple linear regression model for cluster compactness estimation. It showed a high predictive capacity for both the training and validation subsets of clusters (R(2)  = 84.5 and 71.1%, respectively). The methodologies proposed in this work provide continuous and accurate data for the fast and objective characterisation of cluster morphology. © 2016 Society of Chemical Industry. © 2016 Society of Chemical Industry.

Wind tunnel measurements for dispersion modelling of vehicle wakes

NASA Astrophysics Data System (ADS)

Carpentieri, Matteo; Kumar, Prashant; Robins, Alan

2012-12-01

Wind tunnel measurements downwind of reduced scale car models have been made to study the wake regions in detail, test the usefulness of existing vehicle wake models, and draw key information needed for dispersion modelling in vehicle wakes. The experiments simulated a car moving in still air. This is achieved by (i) the experimental characterisation of the flow, turbulence and concentration fields in both the near and far wake regions, (ii) the preliminary assessment of existing wake models using the experimental database, and (iii) the comparison of previous field measurements in the wake of a real diesel car with the wind tunnel measurements. The experiments highlighted very large gradients of velocities and concentrations existing, in particular, in the near-wake. Of course, the measured fields are strongly dependent on the geometry of the modelled vehicle and a generalisation for other vehicles may prove to be difficult. The methodology applied in the present study, although improvable, could constitute a first step towards the development of mathematical parameterisations. Experimental results were also compared with the estimates from two wake models. It was found that they can adequately describe the far-wake of a vehicle in terms of velocities, but a better characterisation in terms of turbulence and pollutant dispersion is needed. Parameterised models able to predict velocity and concentrations with fine enough details at the near-wake scale do not exist.

Thermal buckling and post-buckling behaviour of continuous welded rail track

NASA Astrophysics Data System (ADS)

Pucillo, Giovanni Pio

2016-12-01

Because thermal expansions are constrained within continuous welded rail track, the track can buckle, and does so mainly in the horizontal plane. In this paper, a parametric finite element model of railway track is presented, and its sensitivity to the variations of the main parameters that characterise the scenario has been investigated and discussed. Comparison with existing literature shows good agreement. It is found that curved tracks suffer from thermal buckling more than tangent tracks do. To simulate a track misalignment defect, a new methodology has been utilised that does not introduce, as is usual, geometrical discontinuities near the same defect, because it takes into account - in a natural way - the bending stiffness of the whole railway track in the horizontal plane. To contribute to a better understanding of the safe utilisation of raw experimental data obtained from in situ tests, a deep analysis of the effects on the thermal track buckling response produced by each parameter characterising the sleeper-ballast lateral resistance curve is presented and discussed. It is found that for current ballasted railway tracks, the minimum buckling temperature depends only on the limit lateral resistance, whereas a high value of the initial stiffness can lead to overestimation of the maximum buckling temperature, also taking into account the 'natural' decrease in the maximum buckling temperature due to an increase in the railway-traffic-induced defect amplitude.

A general methodology for inverse estimation of the elastic and anelastic properties of anisotropic open-cell porous materials—with application to a melamine foam

NASA Astrophysics Data System (ADS)

Cuenca, Jacques; Van der Kelen, Christophe; Göransson, Peter

2014-02-01

This paper proposes an inverse estimation method for the characterisation of the elastic and anelastic properties of the frame of anisotropic open-cell foams used for sound absorption. A model of viscoelasticity based on a fractional differential constitutive equation is used, leading to an augmented Hooke's law in the frequency domain, where the elastic and anelastic phenomena appear as distinctive terms in the stiffness matrix. The parameters of the model are nine orthotropic elastic moduli, three angles of orientation of the material principal directions and three parameters governing the anelastic frequency dependence. The inverse estimation consists in numerically fitting the model on a set of transfer functions extracted from a sample of material. The setup uses a seismic-mass measurement repeated in the three directions of space and is placed in a vacuum chamber in order to remove the air from the pores of the sample. The method allows to reconstruct the full frequency-dependent complex stiffness matrix of the frame of an anisotropic open-cell foam and in particular it provides the frequency of maximum energy dissipation by viscoelastic effects. The characterisation of a melamine foam sample is performed and the relation between the fractional-derivative model and other types of parameterisations of the augmented Hooke's law is discussed.

Early Market Site Identification Data

DOE Data Explorer

Levi Kilcher

2016-04-01

This data was compiled for the 'Early Market Opportunity Hot Spot Identification' project. The data and scripts included were used in the 'MHK Energy Site Identification and Ranking Methodology' Reports (Part I: Wave, NREL Report #66038; Part II: Tidal, NREL Report #66079). The Python scripts will generate a set of results--based on the Excel data files--some of which were described in the reports. The scripts depend on the 'score_site' package, and the score site package depends on a number of standard Python libraries (see the score_site install instructions).

Observation of sediment resuspension in Old Tampa Bay, Florida

USGS Publications Warehouse

Schoellhamer, David H.; ,

1990-01-01

Equipment and methodology have been developed to monitor sediment resuspension at two sites in Old Tampa Bay. Velocities are measured with electromagnetic current meters and suspended solids and turbidity are monitored with optical backscatterance sensors. In late November 1989, a vertical array of instrument pairs was deployed from a permanent platform at a deep-water site, and a submersible instrument package with a single pair of instruments was deployed at a shallow-water site. Wind waves caused resuspension at the shallow-water site, but not at the deeper platform site, and spring tidal currents did not cause resuspension at either site.

A Methodology to Evaluate Ecological Resources and Risk Using Two Case Studies at the Department of Energy’s Hanford Site

DOE Office of Scientific and Technical Information (OSTI.GOV)

Burger, Joanna; Gochfeld, Michael; Bunn, Amoret

An assessment of the potential risks to ecological resources from remediation activities or other perturbations should involve a quantitative evaluation of resources on the remediation site and in the surrounding environment. We developed a risk methodology to rapidly evaluate potential impact on ecological resources for the U.S. Department of Energy’s Hanford Site in southcentral Washington State. We describe the application of the risk evaluation for two case studies to illustrate its applicability. The ecological assessment involves examining previous sources of information for the site, defining different resource levels from 0 to 5. We also developed a risk rating scale frommore » nondiscernable to very high. Field assessment is the critical step to determine resource levels or to determine if current conditions are the same as previously evaluated. We provide a rapid assessment method for current ecological conditions that can be compared to previous site-specific data, or that can be used to assess resource value on other sites where ecological information is not generally available. The method is applicable to other Department of Energy’s sites, where its development may involve a range of state regulators, resource trustees, Tribes and other stakeholders. Achieving consistency across Department of Energy’s sites for valuation of ecological resources on remediation sites will assure Congress and the public that funds and personnel are being deployed appropriately.« less

Heavy - metal biomonitoring by using moss bags in Florence urban area, Italy

NASA Astrophysics Data System (ADS)

Pellizzaro, Grazia; Canu, Annalisa; Arca, Angelo; Duce, Pierpaolo

2013-04-01

In the last century, pollution has become one of the most important risks for environment. In particular, heavy metal presence in air, water and soil induces toxic effects on ecosystems and human health. Monitoring airborne trace element over large areas is a task not easy to reach since the concentrations of pollutants are variable in space and time. Data from automatic devices are site-specific and very limited in number to describe spatial-temporal trends of pollutants. In addition, especially in Italy, trace elements concentrations are not often recorded by most of the automated monitoring stations. In the last decades, development of alternative and complementary methods as bio-monitoring techniques, allowed to map deposition patterns not only near single pollution sources, but also over relatively large areas at municipal or even regional scale. Bio-monitoring includes a wide array of methodologies finalised to study relationships between pollution and living organisms. Mosses and lichens have been widely used as bio-accumulators for assessing the atmospheric deposition of heavy metals in natural ecosystems and urban areas. In this study bio-monitoring of airborne trace metals was made using moss bags technique. The moss Hypnum cupressiforme was used as bio-indicator for estimating atmospheric traces metal deposition in the urban area of Florence. Moss carpets were collected in a forested area of central Sardinia (municipality of Bolotana - Nuoro), which is characterised by absence of air pollution. Moss bags were located in the urban area of Florence close to three monitoring air quality stations managed by ARPAT (Agenzia Regionale Protezione Ambiente Toscana). Two stations were located in high-traffic roads whereas the other one was located in a road with less traffic density. In each site moss bags were exposed during three campaigns of measurement conducted during the periods March-April, May-July, and August-October 2010. Two moss bags, used as control, were not exposed. After exposure periods, moss bags were removed and moss samples were analyzed for As, Cr, Cu, Fe, Ni, Pb, V, and Zn by Inductively Coupled Plasma Atomic Emission Spectrometry. Results show differences between mean concentration of trace metals in moss bags after-exposure and the respective blanks in the three sample sites of Florence during the three campaigns of measurement. The highest concentrations for almost all elements were recorded at high-traffic road sites. Whereas lower values were detected in site located in a road with less traffic density In conclusion, Hypnum cupressiforme, for his high ability to accumulate trace metals, can be efficiently used as bio-indicator to estimate the trend of air pollution in a urban area during a period time.

Participant Observation, Anthropology Methodology and Design Anthropology Research Inquiry

ERIC Educational Resources Information Center

Gunn, Wendy; Løgstrup, Louise B.

2014-01-01

Within the design studio, and across multiple field sites, the authors compare involvement of research tools and materials during collaborative processes of designing. Their aim is to trace temporal dimensions (shifts/ movements) of where and when learning takes place along different sites of practice. They do so by combining participant…

Incorporating hydrologic data and ecohydrologic relationships into ecological site descriptions

Treesearch

C. Jason Williams; Frederick B. Pierson; Kenneth E. Spaeth; Joel R. Brown; Osama Z. Al-Hamdan; Mark A. Weltz; Mark A. Nearing; Jeffrey E. Herrick; Jan Boll; Pete Robichaud; David C. Goodrich; Phillip Heilman; D. Phillip Guertin; Mariano Hernandez; Haiyan Wei; Stuart P. Hardegree; Eva K. Strand; Jonathan D. Bates; Loretta J. Metz; Mary H. Nichols

2016-01-01

The purpose of this paper is to recommend a framework and methodology for incorporating hydrologic data and ecohydrologic relationships in Ecological Site Descriptions (ESDs) and thereby enhance the utility of ESDs for assessing rangelands and guiding resilience-based management strategies. Resilience-based strategies assess and manage ecological state...

Perspectives on ... Multiculturalism and Library Exhibits: Sites of Contested Representation

ERIC Educational Resources Information Center

Reece, Gwendolyn J.

2005-01-01

This article analyzes a multicultural library exhibit presenting the Palestinian/Israeli conflict as a site of contested representation. Qualitative methodology is used to interrogate the exhibit and its audience reception. Drawing on insights from critical pedagogy, implications for libraries arising from this case study are given and suggestions…

Integration of aerial imaging and variable-rate technology for site-specific aerial herbicide application

USDA-ARS?s Scientific Manuscript database

As remote sensing and variable rate technology are becoming more available for aerial applicators, practical methodologies on effective integration of these technologies are needed for site-specific aerial applications of crop production and protection materials. The objectives of this study were to...

40 CFR Appendix C to Part 58 - Ambient Air Quality Monitoring Methodology

Code of Federal Regulations, 2013 CFR

2013-07-01

..., National Exposure Research Laboratory (MD-D205-03), U.S. Environmental Protection Agency, Research Triangle....2.3For which a quantitative relationship to a reference or equivalent method for PM 10 has been established at the use site. Procedures for establishing a quantitative site-specific relationship are...

40 CFR Appendix C to Part 58 - Ambient Air Quality Monitoring Methodology

Code of Federal Regulations, 2014 CFR

2014-07-01

..., National Exposure Research Laboratory (MD-D205-03), U.S. Environmental Protection Agency, Research Triangle....2.3For which a quantitative relationship to a reference or equivalent method for PM 10 has been established at the use site. Procedures for establishing a quantitative site-specific relationship are...

MULTI-SITE PERFORMANCE EVALUATIONS OF CANDIDATE METHODOLOGIES FOR DETERMINING COARSE PARTICULATE MATTER (PMC) CONCENTRATIONS

EPA Science Inventory

Comprehensive field studies were conducted to evaluate the performance of sampling methods for measuring the coarse fraction of PM10 in ambient air. Five separate sampling approaches were evaluated at each of three sampling sites. As the primary basis of comparison, a discret...

MULTI-SITE EVALUATIONS OF CANDIDATE METHODOLOGIES FOR DETERMINING COARSE PARTICULATE MATTER (PMC) CONCENTRATIONS

EPA Science Inventory

Comprehensive field studies were conducted to evaluate the performance of sampling methods for measuring the coarse fraction of PM10 in ambient air. Five separate sampling approaches were evaluated at each of three sampling sites. As the primary basis of comparison, a discret...

MULTI-SITE EVALUATIONS OF CANDIDATE METHODOLOGIES FOR DETERMINING COARSE PARTICULATE MATTER (PMC) CONCENTRATIONS

EPA Science Inventory

Comprehensive field studies were conducted to evaluate the performance of sampling methods for measuring the coarse fraction of PM10 in ambient air. Five separate sampling approaches were evaluated at each of three sampling sites. As the primary basis of comparison, a discrete ...

Copper-catalyst-controlled site-selective allenylation of ketones and aldehydes with propargyl boronates.

PubMed

Fandrick, Keith R; Ogikubo, Junichi; Fandrick, Daniel R; Patel, Nitinchandra D; Saha, Jaideep; Lee, Heewon; Ma, Shengli; Grinberg, Nelu; Busacca, Carl A; Senanayake, Chris H

2013-03-15

A practical and highly site-selective copper-PhBPE-catalyst-controlled allenylation with propargyl boronates has been developed. The methodology has shown to be tolerant of diverse ketones and aldehydes providing the allenyl adducts in high selectivity. The BPE ligand and boronate substituents were shown to direct the site selectivity for which either propargyl or allenyl adducts can be acquired in high selectivity. A model is proposed that explains the origin of the site selectivity.

Direct molecular regulation of the myogenic determination gene Myf5 by Pax3, with modulation by Six1/4 factors, is exemplified by the -111 kb-Myf5 enhancer.

PubMed

Daubas, Philippe; Buckingham, Margaret E

2013-04-15

The Myf5 gene plays an important role in myogenic determination during mouse embryo development. Multiple genomic regions of the Mrf4-Myf5 locus have been characterised as enhancer sequences responsible for the complex spatiotemporal expression of the Myf5 gene at the onset of myogenesis. These include an enhancer sequence, located at -111 kb upstream of the Myf5 transcription start site, which is responsible of Myf5 activation in ventral somitic domains (Ribas et al., 2011. Dev. Biol. 355, 372-380). We show that the -111 kb-Myf5 enhancer also directs transgene expression in some limb muscles, and is active at foetal as well as embryonic stages. We have carried out further characterisation of the regulation of this enhancer and show that the paired-box Pax3 transcription factor binds to it in vitro as in vivo, and that Pax binding sites are essential for its activity. This requirement is independent of the previously reported regulation by TEAD transcription factors. Six1/4 which, like Pax3, are important upstream regulators of myogenesis, also bind in vivo to sites in the -111 kb-Myf5 enhancer and modulate its activity. The -111 kb-Myf5 enhancer therefore shares common functional characteristics with another Myf5 regulatory sequence, the hypaxial and limb 145 bp-Myf5 enhancer, both being directly regulated in vivo by Pax3 and Six1/4 proteins. However, in the case of the -111 kb-Myf5 enhancer, Six has less effect and we conclude that Pax regulation plays a major role in controlling this aspect of the Myf5 gene expression at the onset of myogenesis in the embryo. Copyright © 2013 Elsevier Inc. All rights reserved.

Chemical Characterisation of the Coarse and Fine Particulate Matter in the Environment of an Underground Railway System: Cytotoxic Effects and Oxidative Stress—A Preliminary Study

PubMed Central

Spagnolo, Anna Maria; Ottria, Gianluca; Perdelli, Fernanda; Cristina, Maria Luisa

2015-01-01

Background: Exposure to the particulate matter produced in underground railway systems is arousing increasing scientific interest because of its health effects. The aim of our study was to evaluate the airborne concentrations of PM10 and three sub-fractions of PM2.5 in an underground railway system environment in proximity to platforms and in underground commercial areas within the system, and to compare these with the outdoor airborne concentrations. We also evaluated the metal components, the cytotoxic properties of the various fractions of particulate matter (PM) and their capacity to induce oxidative stress. Method: We collected the coarse fraction (5–10 µm) and the fine fractions (1–2.5 µm; 0.5–1 µm; 0.25–0.5 µm). Chemical characterisation was determined by means of spectrometry. Cytotoxicity and oxidative stress were evaluated by 3-(4,5-dimethylthiazol-2-yl)-2,5-diphenyltetrazolium bromide (MTT) assay and Reactive Oxygen Species (ROS) assessment. Results: The concentrations of both PM10 and PM2.5 proved to be similar at the three sampling sites. Iron and other transition metals displayed a greater concentration at the subway platform than at the other two sites. The 2.5–10 µm and 1–2.5 µm fractions of PM from all three sampling sites determined a greater increase in ROS; the intensity of oxidative stress progressively declined as particle diameter diminished. Moreover, ROS concentrations were correlated with the concentrations of some transition metals, namely Mn, Cr, Ti, Fe, Cu, Zn, Ni and Mo. All particulate matter fractions displayed lower or similar ROS values between platform level and the outdoor air. Conclusions: The present study revealed that the underground railway environment at platform level, although containing higher concentrations of some particularly reactive metallic species, did not display higher cytotoxicity and oxidative stress levels than the outdoor air. PMID:25872016

Chemical characterisation of the coarse and fine particulate matter in the environment of an underground railway system: cytotoxic effects and oxidative stress-a preliminary study.

PubMed

Spagnolo, Anna Maria; Ottria, Gianluca; Perdelli, Fernanda; Cristina, Maria Luisa

2015-04-13

Exposure to the particulate matter produced in underground railway systems is arousing increasing scientific interest because of its health effects. The aim of our study was to evaluate the airborne concentrations of PM10 and three sub-fractions of PM2.5 in an underground railway system environment in proximity to platforms and in underground commercial areas within the system, and to compare these with the outdoor airborne concentrations. We also evaluated the metal components, the cytotoxic properties of the various fractions of particulate matter (PM) and their capacity to induce oxidative stress. We collected the coarse fraction (5-10 µm) and the fine fractions (1-2.5 µm; 0.5-1 µm; 0.25-0.5 µm). Chemical characterisation was determined by means of spectrometry. Cytotoxicity and oxidative stress were evaluated by 3-(4,5-dimethylthiazol-2-yl)-2,5-diphenyltetrazolium bromide (MTT) assay and Reactive Oxygen Species (ROS) assessment. The concentrations of both PM10 and PM2.5 proved to be similar at the three sampling sites. Iron and other transition metals displayed a greater concentration at the subway platform than at the other two sites. The 2.5-10 µm and 1-2.5 µm fractions of PM from all three sampling sites determined a greater increase in ROS; the intensity of oxidative stress progressively declined as particle diameter diminished. Moreover, ROS concentrations were correlated with the concentrations of some transition metals, namely Mn, Cr, Ti, Fe, Cu, Zn, Ni and Mo. All particulate matter fractions displayed lower or similar ROS values between platform level and the outdoor air. The present study revealed that the underground railway environment at platform level, although containing higher concentrations of some particularly reactive metallic species, did not display higher cytotoxicity and oxidative stress levels than the outdoor air.

Do Changes in Current Flow as a Result of Arrays of Tidal Turbines Have an Effect on Benthic Communities?

PubMed

Kregting, Louise; Elsaesser, Bjoern; Kennedy, Robert; Smyth, David; O'Carroll, Jack; Savidge, Graham

2016-01-01

Arrays of tidal energy converters have the potential to provide clean renewable energy for future generations. Benthic communities may, however, be affected by changes in current speeds resulting from arrays of tidal converters located in areas characterised by strong currents. Current speed, together with bottom type and depth, strongly influence benthic community distributions; however the interaction of these factors in controlling benthic dynamics in high energy environments is poorly understood. The Strangford Lough Narrows, the location of SeaGen, the world's first single full-scale, grid-compliant tidal energy extractor, is characterised by spatially heterogenous high current flows. A hydrodynamic model was used to select a range of benthic community study sites that had median flow velocities between 1.5-2.4 m/s in a depth range of 25-30 m. 25 sites were sampled for macrobenthic community structure using drop down video survey to test the sensitivity of the distribution of benthic communities to changes in the flow field. A diverse range of species were recorded which were consistent with those for high current flow environments and corresponding to very tide-swept faunal communities in the EUNIS classification. However, over the velocity range investigated, no changes in benthic communities were observed. This suggested that the high physical disturbance associated with the high current flows in the Strangford Narrows reflected the opportunistic nature of the benthic species present with individuals being continuously and randomly affected by turbulent forces and physical damage. It is concluded that during operation, the removal of energy by marine tidal energy arrays in the far-field is unlikely to have a significant effect on benthic communities in high flow environments. The results are of major significance to developers and regulators in the tidal energy industry when considering the environmental impacts for site licences.

An experimental investigation of the effect of impact generated micro-deformations in Moenkopi and Coconino Sandstone from Meteor Crater, Arizona on subsequent weathering

NASA Astrophysics Data System (ADS)

Verma, A.; Bourke, M. C.; Osinski, G.; Viles, H. A.; Blanco, J. D. R.

2017-12-01

Impact cratering is an important geological process that affects all planetary bodies in our solar system. As rock breakdown plays an important role in the evolution of landforms and sediments, it is important to assess the role of inheritance in the subsequent breakdown of impacted rocks.The shock pressure of several gigapascals generated during the impact can exceed the effective strength of target lithology by three to four orders of magnitude and is responsible for melting, vaporisation, shock metamorphism, fracturing and fragmentation of rocks. Environmental conditions and heterogeneities in rock properties exert an important control in rock breakdown. Similar to other subaerial rocks, impacted rocks are affected by a range of rock breakdown processes. In order to better understand the role of inheritance of the impact on rock breakdown, a rock breakdown experiment was conducted in a simulated environmental cabinet under conditions similar to the arid conditions found at the Meteor Crater site. We sampled Moenkopi and Coconino Sandstone from the Meteor Crater impact site in Arizona. For comparison, samples were also collected at control sites close by that have similar rock formations but did not undergo impact. Several established techniques (X-ray CT, SEM, Equotip, SfM) were used to characterise the rock samples before the environmental cabinet experiments. Our laboratory analysis (XRD, SEM, optical microscopy, X-ray CT) on impacted rock samples from Meteor Crater, show that rock porosity and permeability changes due to compaction and fracturing during impact. There were no high-pressure polymorphs of quartz or glass detected in XRD analysis. We ran the experiments on a total of 28 petrophysically characterised 5x5x5 cm sample blocks of Coconino and Moenkopi Sandstone (24 impacted rocks and 4 non-impacted). The results will be presented at the AGU Fall meeting 2017.