Mosquito Species (Diptera: Culicidae) Persistence and Synchrony Across an Urban Altitudinal Gradient.

PubMed

Chaves, Luis Fernando

2017-03-01

Patterns of mosquito spatial persistence and temporal presence, as well as synchrony, i.e., the degree of concerted fluctuations in abundance, have been scarcely studied at finely grained spatial scales and over altitudinal gradients. Here, we present a spatial persistence, temporal presence, and synchrony analysis of four common mosquito species across the altitudinal gradient of Mt. Konpira in Nagasaki, Japan. We found that Aedes albopictus (Skuse) was more frequently found at the mountain base. In contrast, Aedes japonicus (Theobald) and Aedes flavopictus Yamada were common higher in the mountain, while Armigeres subalbatus (Coquillet) was uniformly present across the mountain, yet less frequently than the other species during the studied period. Our analysis showed that these spatial heterogeneities were associated with differences in landscape and microclimatic elements of Mt. Konpira. Temporally we found that presence across sampling locations was mainly synchronous across the four species and positively associated with rainfall and temperature. With the exception of Ae albopictus, where no significant synchrony was observed, mosquito species mainly showed flat synchrony profiles in Mt. Konpira when looking at the geographic (2-D) distance between their sampling locations. By contrast, when synchrony was studied across altitude, it was observed that Ae. flavopictus tracked the temperature synchrony pattern, decreasing its synchrony with the separation in altitude between sampling locations. Finally, our results suggest that differences in mosquito species persistence, temporal presence, and synchrony might be useful to understand the entomological risk of vector-borne disease transmission in urban landscapes. © The Authors 2017. Published by Oxford University Press on behalf of Entomological Society of America. All rights reserved. For Permissions, please email: journals.permissions@oup.com.

Evidence for intercontinental parasite exchange through molecular detection and characterization of haematozoa in northern pintails (Anas acuta) sampled throughout the North Pacific Basin.

PubMed

Ramey, Andrew M; Schmutz, Joel A; Reed, John A; Fujita, Go; Scotton, Bradley D; Casler, Bruce; Fleskes, Joseph P; Konishi, Kan; Uchida, Kiyoshi; Yabsley, Michael J

2015-04-01

Empirical evidence supports wild birds as playing a role in the interhemispheric exchange of bacteria and viruses; however, data supporting the redistribution of parasites among continents are limited. In this study, the hypothesis that migratory birds contribute to the redistribution of parasites between continents was tested by sampling northern pintails (Anas acuta) at locations throughout the North Pacific Basin in North America and East Asia for haemosporidian infections and assessing the genetic evidence for parasite exchange. Of 878 samples collected from birds in Alaska (USA), California (USA), and Hokkaido (Japan) during August 2011-May 2012 and screened for parasitic infections using molecular techniques, Leucocytozoon, Haemoproteus, and Plasmodium parasites were detected in 555 (63%), 44 (5%), and 52 (6%) samples, respectively. Using an occupancy modeling approach, the probability of detecting parasites via replicate genetic tests was estimated to be high (ρ > 0.95). Multi-model inference supported variation of Leucocytozoon parasite prevalence by northern pintail age class and geographic location of sampling in contrast to Haemoproteus and Plasmodium parasites for which there was only support for variation in parasite prevalence by sampling location. Thirty-one unique mitochondrial DNA haplotypes were detected among haematozoa infecting northern pintails including seven lineages shared between samples from North America and Japan. The finding of identical parasite haplotypes at widely distributed geographic locations and general lack of genetic structuring by continent in phylogenies for Leucocytozoon and Plasmodium provides evidence for intercontinental genetic exchange of haemosporidian parasites. Results suggest that migratory birds, including waterfowl, could therefore facilitate the introduction of avian malaria and other haemosporidia to novel hosts and spatially distant regions.

Evidence for intercontinental parasite exchange through molecular detection and characterization of haematozoa in northern pintails (Anas acuta) sampled throughout the North Pacific Basin

PubMed Central

Ramey, Andrew M.; Schmutz, Joel A.; Reed, John A.; Fujita, Go; Scotton, Bradley D.; Casler, Bruce; Fleskes, Joseph P.; Konishi, Kan; Uchida, Kiyoshi; Yabsley, Michael J.

2014-01-01

Empirical evidence supports wild birds as playing a role in the interhemispheric exchange of bacteria and viruses; however, data supporting the redistribution of parasites among continents are limited. In this study, the hypothesis that migratory birds contribute to the redistribution of parasites between continents was tested by sampling northern pintails (Anas acuta) at locations throughout the North Pacific Basin in North America and East Asia for haemosporidian infections and assessing the genetic evidence for parasite exchange. Of 878 samples collected from birds in Alaska (USA), California (USA), and Hokkaido (Japan) during August 2011–May 2012 and screened for parasitic infections using molecular techniques, Leucocytozoon, Haemoproteus, and Plasmodium parasites were detected in 555 (63%), 44 (5%), and 52 (6%) samples, respectively. Using an occupancy modeling approach, the probability of detecting parasites via replicate genetic tests was estimated to be high (ρ > 0.95). Multi-model inference supported variation of Leucocytozoon parasite prevalence by northern pintail age class and geographic location of sampling in contrast to Haemoproteus and Plasmodium parasites for which there was only support for variation in parasite prevalence by sampling location. Thirty-one unique mitochondrial DNA haplotypes were detected among haematozoa infecting northern pintails including seven lineages shared between samples from North America and Japan. The finding of identical parasite haplotypes at widely distributed geographic locations and general lack of genetic structuring by continent in phylogenies for Leucocytozoon and Plasmodium provides evidence for intercontinental genetic exchange of haemosporidian parasites. Results suggest that migratory birds, including waterfowl, could therefore facilitate the introduction of avian malaria and other haemosporidia to novel hosts and spatially distant regions. PMID:25830100

Estimating species richness and accumulation by modeling species occurrence and detectability

USGS Publications Warehouse

Dorazio, R.M.; Royle, J. Andrew; Soderstrom, B.; Glimskarc, A.

2006-01-01

A statistical model is developed for estimating species richness and accumulation by formulating these community-level attributes as functions of model-based estimators of species occurrence while accounting for imperfect detection of individual species. The model requires a sampling protocol wherein repeated observations are made at a collection of sample locations selected to be representative of the community. This temporal replication provides the data needed to resolve the ambiguity between species absence and nondetection when species are unobserved at sample locations. Estimates of species richness and accumulation are computed for two communities, an avian community and a butterfly community. Our model-based estimates suggest that detection failures in many bird species were attributed to low rates of occurrence, as opposed to simply low rates of detection. We estimate that the avian community contains a substantial number of uncommon species and that species richness greatly exceeds the number of species actually observed in the sample. In fact, predictions of species accumulation suggest that even doubling the number of sample locations would not have revealed all of the species in the community. In contrast, our analysis of the butterfly community suggests that many species are relatively common and that the estimated richness of species in the community is nearly equal to the number of species actually detected in the sample. Our predictions of species accumulation suggest that the number of sample locations actually used in the butterfly survey could have been cut in half and the asymptotic richness of species still would have been attained. Our approach of developing occurrence-based summaries of communities while allowing for imperfect detection of species is broadly applicable and should prove useful in the design and analysis of surveys of biodiversity.

Evidence for intercontinental parasite exchange through molecular detection and characterization of haematozoa in northern pintails (Anas acuta) sampled throughout the North Pacific Basin

USGS Publications Warehouse

Ramey, Andy M.; Schmutz, Joel A.; Reed, John A.; Fujita, Go; Scotton, Bradley D.; Casler, Bruce; Fleskes, Joseph P.; Konishi, Kan; Uchida, Kiyoshi; Yabsley, Michael J.

2015-01-01

Empirical evidence supports wild birds as playing a role in the interhemispheric exchange of bacteria and viruses; however, data supporting the redistribution of parasites among continents are limited. In this study, the hypothesis that migratory birds contribute to the redistribution of parasites between continents was tested by sampling northern pintails (Anas acuta) at locations throughout the North Pacific Basin in North America and East Asia for haemosporidian infections and assessing the genetic evidence for parasite exchange. Of 878 samples collected from birds in Alaska (USA), California (USA), and Hokkaido (Japan) during August 2011 - May 2012 and screened for parasitic infections using molecular techniques, Leucocytozoon, Haemoproteus, and Plasmodium parasites were detected in 555 (63%), 44 (5%), and 52 (6%) samples, respectively. Using an occupancy modeling approach, the probability of detecting parasites via replicate genetic tests was estimated to be high (p ≥ 0.95). Multi-model inference supported variation of Leucocytozoon parasite prevalence by northern pintail age class and geographic location of sampling in contrast to Haemoproteus and Plasmodium parasites for which there was only support for variation in parasite prevalence by sampling location. Thirty-one unique mitochondrial DNA haplotypes were detected among haematozoa infecting northern pintails including seven lineages shared between samples from North America and Japan. The finding of identical parasite haplotypes at widely distributed geographic locations and general lack of genetic structuring by continent in phylogenies for Leucocytozoon and Plasmodium provides evidence for intercontinental genetic exchange of haemosporidian parasites. Results suggest that migratory birds, including waterfowl, could therefore facilitate the introduction of avian malaria and other haemosporidia to novel hosts and spatially distant regions.

Deriving spatial patterns from a novel database of volcanic rock geochemistry in the Virunga Volcanic Province, East African Rift

NASA Astrophysics Data System (ADS)

Poppe, Sam; Barette, Florian; Smets, Benoît; Benbakkar, Mhammed; Kervyn, Matthieu

2016-04-01

The Virunga Volcanic Province (VVP) is situated within the western branch of the East-African Rift. The geochemistry and petrology of its' volcanic products has been studied extensively in a fragmented manner. They represent a unique collection of silica-undersaturated, ultra-alkaline and ultra-potassic compositions, displaying marked geochemical variations over the area occupied by the VVP. We present a novel spatially-explicit database of existing whole-rock geochemical analyses of the VVP volcanics, compiled from international publications, (post-)colonial scientific reports and PhD theses. In the database, a total of 703 geochemical analyses of whole-rock samples collected from the 1950s until recently have been characterised with a geographical location, eruption source location, analytical results and uncertainty estimates for each of these categories. Comparative box plots and Kruskal-Wallis H tests on subsets of analyses with contrasting ages or analytical methods suggest that the overall database accuracy is consistent. We demonstrate how statistical techniques such as Principal Component Analysis (PCA) and subsequent cluster analysis allow the identification of clusters of samples with similar major-element compositions. The spatial patterns represented by the contrasting clusters show that both the historically active volcanoes represent compositional clusters which can be identified based on their contrasted silica and alkali contents. Furthermore, two sample clusters are interpreted to represent the most primitive, deep magma source within the VVP, different from the shallow magma reservoirs that feed the eight dominant large volcanoes. The samples from these two clusters systematically originate from locations which 1. are distal compared to the eight large volcanoes and 2. mostly coincide with the surface expressions of rift faults or NE-SW-oriented inherited Precambrian structures which were reactivated during rifting. The lava from the Mugogo eruption of 1957 belongs to these primitive clusters and is the only known to have erupted outside the current rift valley in historical times. We thus infer there is a distributed hazard of vent opening susceptibility additional to the susceptibility associated with the main Virunga edifices. This study suggests that the statistical analysis of such geochemical database may help to understand complex volcanic plumbing systems and the spatial distribution of volcanic hazards in active and poorly known volcanic areas such as the Virunga Volcanic Province.

Selection of habitats by Emperor Geese during brood rearing

USGS Publications Warehouse

Schmutz, J.A.

2001-01-01

Although forage quality strongly affects gosling growth and consequently juvenile survival, the relative use of different plant communities by brood rearing geese has been poorly studied. On the Yukon-Kuskokwim Delta, Alaska, population growth and juvenile recruitment of Emperor Geese (Chen canagica) are comparatively low, and it is unknown whether their selection of habitats during brood rearing differs from other goose species. Radio-telemetry was used to document the use of habitats by 56 families of Emperor Geese in a 70 km2 portion of the Yukon-Kuskokwim Delta during brood rearing in 1994-1996. When contrasted with available habitats (a set of six habitat classes), as estimated from 398 random sampling locations, Emperor Geese strongly selected Saline Ponds, Mudflat, and Ramenskii Meadow habitats and avoided Levee Meadow, Bog Meadow, and Sedge Meadow. These selected habitats were the most saline, comprised one-third of the study area, and 43% of all locations were in Ramenskii Meadow. I contrasted these Emperor Goose locations with habitats used by the composite goose community, as inferred from the presence of goose feces at random locations. The marked difference between groups in this comparison implied that Cackling Canada Geese (Branta canadensis minima) and Greater White-fronted Geese (Anser albifrons) collectively selected much different brood rearing habitats than Emperor Geese. Received 20 February 2001, accepted 18 April 2001.

K-ras mutation in colorectal cancer: relations to patient age, sex and tumour location.

PubMed Central

Breivik, J.; Meling, G. I.; Spurkland, A.; Rognum, T. O.; Gaudernack, G.

1994-01-01

DNA from 251 primary tumours obtained from 123 male and 125 female Norwegian patients with colorectal carcinoma was analysed for the presence of K-ras point mutations at codons 12 and 13. Mutations were found in 99 (39%) of the samples. The frequency of K-ras mutations was significantly related to age and sex of the patients, and to the location of the tumours (overall: P = 0.008). K-ras mutations were much less frequent in colonic tumours from male than female patients at younger ages (< 40 years, odds ratio < 0.014). The low frequency might indicate that a different, ras-independent, pathway to neoplasia is dominating in the colon of younger males. In contrast, older men had more mutations than older women (e.g. 90 years, odds ratio = 5.8). An inverse but less pronounced relationship was seen for rectal tumours. The type of mutation was found to be associated to sex of patient and location of tumour. G-->C transversions accounted for 35% of the mutations in rectal tumours from females, in contrast to only 2.5% in the rest of the material (P = 0.0005). This may indicate that there are specific carcinogens acting in this location. PMID:8297737

Exogenous attention enhances 2nd-order contrast sensitivity

PubMed Central

Barbot, Antoine; Landy, Michael S.; Carrasco, Marisa

2011-01-01

Natural scenes contain a rich variety of contours that the visual system extracts to segregrate the retinal image into perceptually coherent regions. Covert spatial attention helps extract contours by enhancing contrast sensitivity for 1st-order, luminance-defined patterns at attended locations, while reducing sensitivity at unattended locations, relative to neutral attention allocation. However, humans are also sensitive to 2nd-order patterns such as spatial variations of texture, which are predominant in natural scenes and cannot be detected by linear mechanisms. We assess whether and how exogenous attention—the involuntary and transient capture of spatial attention—affects the contrast sensitivity of channels sensitive to 2nd-order, texture-defined patterns. Using 2nd-order, texture-defined stimuli, we demonstrate that exogenous attention increases 2nd-order contrast sensitivity at the attended location, while decreasing it at unattended locations, relative to a neutral condition. By manipulating both 1st- and 2nd-order spatial frequency, we find that the effects of attention depend both on 2nd-order spatial frequency of the stimulus and the observer’s 2nd-order spatial resolution at the target location. At parafoveal locations, attention enhances 2nd-order contrast sensitivity to high, but not to low 2nd-order spatial frequencies; at peripheral locations attention also enhances sensitivity to low 2nd-order spatial frequencies. Control experiments rule out the possibility that these effects might be due to an increase in contrast sensitivity at the 1st-order stage of visual processing. Thus, exogenous attention affects 2nd-order contrast sensitivity at both attended and unattended locations. PMID:21356228

Fine scale bio-physical oceanographic characteristics predict the foraging occurrence of contrasting seabird species; Gannet (Morus bassanus) and storm petrel (Hydrobates pelagicus)

NASA Astrophysics Data System (ADS)

Scott, B. E.; Webb, A.; Palmer, M. R.; Embling, C. B.; Sharples, J.

2013-10-01

As we begin to manage our oceans in much more spatial detail we must understand a great deal more about oceanographic habitat preferences of marine mobile top predators. In this unique field study we test a hypothesis on the mechanisms defining mobile predator foraging habitat characteristics by comparing temporally and spatially detailed bio-physical oceanographic data from contrasting topographical locations. We contrast the foraging locations of two very different seabird species, gannets and storm petrels, by repeatedly sampling a bank and a nearby flat area over daily tidal cycles during spring and neap tides. The results suggest that storm petrels are linked to foraging in specific locations where internal waves are produced, which is mainly on banks. These locations can also include the presence of high biomass of chlorophyll. In contrast, the location where more gannets are foraging is significantly influenced by temporal variables with higher densities of foraging birds much more likely during the neap tide than times of spring tide. The foraging times of both species was influenced by differences between the vertical layers of the water column above and below the thermocline; via either vertical shear of horizontal currents or absolute differences in speed between layers. Higher densities of foraging gannets were significantly more likely to be found at ebb tides in both bank and flat regions however over the bank, the density of foraging gannets was higher when the differences in speed between the layers were at a maximum. Both gannets and storm petrels appear to be more likely to forage when wind direction is opposed to tidal direction. This detailed understanding links foraging behaviour to predictable spatial and temporal bio-physical vertical characteristics and thus can be immediately used to explain variance and increase certainty in past abundance and distributional surveys. These results also illuminate the types of variables that should be considered when assessing potential changes to the distribution and characteristics of habitats from increased anthropogenic disturbances such as large scale offshore wind, wave and tidal renewable deployments.

Characterization of the Reproductive Toxicity of Depleted Uranium

DTIC Science & Technology

2005-06-01

thymus, kidney, liver, skeletal muscle, uterus, ovaries, testes, bone marrow. Requested tissues were identified, embedded in paraffin and trimmed...located (all but 2-females), a cross section of the uterus was processed for evaluation. Each sample of skeletal muscle was bread-loafed in an attempt...correlation with the formation of soft tissue sarcomas . In contrast, none of these three animal’s implant sites showed evidence of a proliferative or

Visual signal detection in structured backgrounds. II. Effects of contrast gain control, background variations, and white noise

NASA Technical Reports Server (NTRS)

Eckstein, M. P.; Ahumada, A. J. Jr; Watson, A. B.

1997-01-01

Studies of visual detection of a signal superimposed on one of two identical backgrounds show performance degradation when the background has high contrast and is similar in spatial frequency and/or orientation to the signal. To account for this finding, models include a contrast gain control mechanism that pools activity across spatial frequency, orientation and space to inhibit (divisively) the response of the receptor sensitive to the signal. In tasks in which the observer has to detect a known signal added to one of M different backgrounds grounds due to added visual noise, the main sources of degradation are the stochastic noise in the image and the suboptimal visual processing. We investigate how these two sources of degradation (contrast gain control and variations in the background) interact in a task in which the signal is embedded in one of M locations in a complex spatially varying background (structured background). We use backgrounds extracted from patient digital medical images. To isolate effects of the fixed deterministic background (the contrast gain control) from the effects of the background variations, we conduct detection experiments with three different background conditions: (1) uniform background, (2) a repeated sample of structured background, and (3) different samples of structured background. Results show that human visual detection degrades from the uniform background condition to the repeated background condition and degrades even further in the different backgrounds condition. These results suggest that both the contrast gain control mechanism and the background random variations degrade human performance in detection of a signal in a complex, spatially varying background. A filter model and added white noise are used to generate estimates of sampling efficiencies, an equivalent internal noise, an equivalent contrast-gain-control-induced noise, and an equivalent noise due to the variations in the structured background.

Metallographic Characterization of Wrought Depleted Uranium

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

Forsyth, Robert Thomas; Hill, Mary Ann

Metallographic characterization was performed on wrought depleted uranium (DU) samples taken from the longitudinal and transverse orientations from specific locations on two specimens. Characterization of the samples included general microstructure, inclusion analysis, grain size analysis, and microhardness testing. Comparisons of the characterization results were made to determine any differences based on specimen, sample orientation, or sample location. In addition, the characterization results for the wrought DU samples were also compared with data obtained from the metallographic characterization of cast DU samples previously characterized. No differences were observed in microstructure, inclusion size, morphology, and distribution, or grain size in regard tomore » specimen, location, or orientation for the wrought depleted uranium samples. However, a small difference was observed in average hardness with regard to orientation at the same locations within the same specimen. The longitudinal samples were slightly harder than the transverse samples from the same location of the same specimen. This was true for both wrought DU specimens. Comparing the wrought DU sample data with the previously characterized cast DU sample data, distinct differences in microstructure, inclusion size, morphology and distribution, grain size, and microhardness were observed. As expected, the microstructure of the wrought DU samples consisted of small recrystallized grains which were uniform, randomly oriented, and equiaxed with minimal twinning observed in only a few grains. In contrast, the cast DU microstructure consisted of large irregularly shaped grains with extensive twinning observed in most grains. Inclusions in the wrought DU samples were elongated, broken and cracked and light and dark phases were observed in some inclusions. The mean inclusion area percentage for the wrought DU samples ranged from 0.08% to 0.34% and the average density from all wrought DU samples was 1.62E+04/cm 2. Inclusions in the cast DU samples were equiaxed and intact with light and dark phases observed in some inclusions. The mean inclusion area percentage for the cast DU samples ranged from 0.93% to 1.00% and the average density from all wrought DU samples was 2.83E+04/cm 2. The average mean grain area from all wrought DU samples was 141 μm 2 while the average mean grain area from all cast DU samples was 1.7 mm2. The average Knoop microhardness from all wrought DU samples was 215 HK and the average Knoop microhardness from all cast DU samples was 264 HK.« less

Quasi-static acoustic tweezing thromboelastometry.

PubMed

Holt, R G; Luo, D; Gruver, N; Khismatullin, D B

2017-07-01

Essentials Blood coagulation measurement during contact with an artificial surface leads to unreliable data. Acoustic tweezing thromboelastometry is a novel non-contact method for coagulation monitoring. This method detects differences in the blood coagulation state within 10 min. Coagulation data were obtained using a much smaller sample volume (4 μL) than currently used. Background Thromboelastography is widely used as a tool to assess the coagulation status of critical care patients. It allows observation of changes in material properties of whole blood, beginning with early stages of clot formation and ending with clot lysis. However, the contact activation of the coagulation cascade at surfaces of thromboelastographic systems leads to inherent variability and unreliability in predicting bleeding or thrombosis risks. Objectives To develop acoustic tweezing thromboelastometry as a non-contact method for perioperative assessment of blood coagulation. Methods Acoustic tweezing is used to levitate microliter drops of biopolymer and human blood samples. By quasi-statically changing the acoustic pressure we control the sample drop location and deformation. Sample size, deformation and location are determined by digital imaging at each pressure. Results Simple Newtonian liquid solutions maintain a constant, reversible location vs. deformation curve. In contrast, the location/deformation curves for gelatin, alginate, whole blood and blood plasma uniquely change as the samples solidify. Increasing elasticity causes the sample to deform less, leading to steeper stress/strain curves. By extracting a linear regime slope, we show that whole blood or blood plasma exhibits a unique slope profile as it begins to clot. By exposing blood samples to pro- or antithrombotic agents, the slope profile changes, allowing detection of hyper- or hypocoagulable states. Conclusions We demonstrate that quasi-static acoustic tweezing can yield information about clotting onset, maturation and strength. The advantages of small sample size, non-contact and rapid measurement make this technique desirable for real-time monitoring of blood coagulation. © 2017 International Society on Thrombosis and Haemostasis.

Needle-based polarization-sensitive OCT of breast tumor (Conference Presentation)

NASA Astrophysics Data System (ADS)

Villiger, Martin; Lorenser, Dirk; McLaughlin, Robert A.; Quirk, Bryden C.; Kirk, Rodney W.; Bouma, Brett E.; Sampson, David D.

2016-03-01

OCT imaging through miniature needle probes has extended the range of OCT and enabled structural imaging deep inside breast tissue, with the potential to assist in the intraoperative assessment of tumor margins. However, in many situations, scattering contrast alone is insufficient to clearly identify and delineate malignant areas. Here, we present a portable, depth-encoded polarization-sensitive OCT system, connected to a miniature needle probe. From the measured polarization states we constructed the tissue Mueller matrix at each sample location and improved the accuracy of the measured polarization states through incoherent averaging before retrieving the depth-resolved tissue birefringence. With the Mueller matrix at hand, additional polarization properties such as depolarization are readily available. We then imaged freshly excised breast tissue from a patient undergoing lumpectomy. The reconstructed local retardation highlighted regions of connective tissue, which exhibited birefringence due to the abundance of collagen fibers, and offered excellent contrast to areas of malignant tissue, which exhibited less birefringence due to their different tissue composition. Results were validated against co-located histology sections. The combination of needle-based imaging with the complementary contrast provided by polarization-sensitive analysis offers a powerful instrument for advanced tissue imaging and has potential to aid in the assessment of tumor margins during the resection of breast cancer.

Sampling Strategies for Evaluating the Rate of Adventitious Transgene Presence in Non-Genetically Modified Crop Fields.

PubMed

Makowski, David; Bancal, Rémi; Bensadoun, Arnaud; Monod, Hervé; Messéan, Antoine

2017-09-01

According to E.U. regulations, the maximum allowable rate of adventitious transgene presence in non-genetically modified (GM) crops is 0.9%. We compared four sampling methods for the detection of transgenic material in agricultural non-GM maize fields: random sampling, stratified sampling, random sampling + ratio reweighting, random sampling + regression reweighting. Random sampling involves simply sampling maize grains from different locations selected at random from the field concerned. The stratified and reweighting sampling methods make use of an auxiliary variable corresponding to the output of a gene-flow model (a zero-inflated Poisson model) simulating cross-pollination as a function of wind speed, wind direction, and distance to the closest GM maize field. With the stratified sampling method, an auxiliary variable is used to define several strata with contrasting transgene presence rates, and grains are then sampled at random from each stratum. With the two methods involving reweighting, grains are first sampled at random from various locations within the field, and the observations are then reweighted according to the auxiliary variable. Data collected from three maize fields were used to compare the four sampling methods, and the results were used to determine the extent to which transgene presence rate estimation was improved by the use of stratified and reweighting sampling methods. We found that transgene rate estimates were more accurate and that substantially smaller samples could be used with sampling strategies based on an auxiliary variable derived from a gene-flow model. © 2017 Society for Risk Analysis.

Enhanced x-ray imaging for a thin film cochlear implant with metal artefacts using phase retrieval tomography

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

Arhatari, B. D.; ARC Centre of Excellence for Coherent X-ray Science, Melbourne; Harris, A. R.

Phase retrieval tomography has been successfully used to enhance imaging in systems that exhibit poor absorption contrast. However, when highly absorbing regions are present in a sample, so-called metal artefacts can appear in the tomographic reconstruction. We demonstrate that straightforward approaches for metal artefact reconstruction, developed in absorption contrast tomography, can be applied when using phase retrieval. Using a prototype thin film cochlear implant that has high and low absorption components made from iridium (or platinum) and plastic, respectively, we show that segmentation of the various components is possible and hence measurement of the electrode geometry and relative location tomore » other regions of interest can be achieved.« less

Dataset from chemical gas sensor array in turbulent wind tunnel.

PubMed

Fonollosa, Jordi; Rodríguez-Luján, Irene; Trincavelli, Marco; Huerta, Ramón

2015-06-01

The dataset includes the acquired time series of a chemical detection platform exposed to different gas conditions in a turbulent wind tunnel. The chemo-sensory elements were sampling directly the environment. In contrast to traditional approaches that include measurement chambers, open sampling systems are sensitive to dispersion mechanisms of gaseous chemical analytes, namely diffusion, turbulence, and advection, making the identification and monitoring of chemical substances more challenging. The sensing platform included 72 metal-oxide gas sensors that were positioned at 6 different locations of the wind tunnel. At each location, 10 distinct chemical gases were released in the wind tunnel, the sensors were evaluated at 5 different operating temperatures, and 3 different wind speeds were generated in the wind tunnel to induce different levels of turbulence. Moreover, each configuration was repeated 20 times, yielding a dataset of 18,000 measurements. The dataset was collected over a period of 16 months. The data is related to "On the performance of gas sensor arrays in open sampling systems using Inhibitory Support Vector Machines", by Vergara et al.[1]. The dataset can be accessed publicly at the UCI repository upon citation of [1]: http://archive.ics.uci.edu/ml/datasets/Gas+sensor+arrays+in+open+sampling+settings.

Thermal control paints on LDEF: Results of M0003 sub-experiment 18

NASA Technical Reports Server (NTRS)

Jaggers, C. H.; Meshishnek, M. J.; Coggi, J. M.

1993-01-01

Several thermal control paints were flown on the Long Duration Exposure Facility (LDEF), including the white paints Chemglaze A276, S13GLO, and YB-71, and the black paint D-111. The effects of low earth orbit, which includes those induced by UV radiation and atomic oxygen, varied significantly with each paint and its location on LDEF. For example, samples of Chemglaze A276 located on the trailing edge of LDEF darkened significantly due to UV-induced degradation of the paint's binder, while leading edge samples remained white but exhibited severe atomic oxygen erosion of the binder. Although the response of S13GLO to low earth orbit is much more complicated, it also exhibited greater darkening on trailing edge samples as compared to leading edge samples. In contrast, YB-71 and D-111 remained relatively stable and showed minimal degradation. The performance of these paints as determined by changes in their optical and physical properties, including solar absorptance as well as surface chemical changes and changes in surface morphology is examined. It will also provide a correlation of these optical and physical property changes to the physical phenomena that occurred in these materials during the LDEF mission.

Water Quality of a Reservoir and Its Major Tributary Located in East-Central Mexico

PubMed Central

Castilla-Hernández, Patricia; Torres-Alvarado, María del Rocío; Herrera-San Luis, José Antonio; Cruz-López, Norma

2014-01-01

A reservoir with ecological and economic importance and its major tributary, localized in east-central Mexico, were studied. The aim of this work was to know the physicochemical water characteristics of both water bodies and to contrast these by their different uses, and also estimate overall water quality using a Water Quality Index (WQI). Water samples from the reservoir and the tributary were obtained in different climatic seasons. In the tributary, anoxic and hypoxic conditions and high levels of organic matter, orthophosphate, and ammonium showed that this is strongly impacted by wastewater discharges and that the water is not suitable for different uses; independently of the season, the WQI showed “poor” quality (34.4–47.2). In contrast, in the reservoir a better water quality was determined; the WQI in the sampling months ranged from 72.1–76.6 (“good” quality), and spatially, this was from 66.5–79.5 (“fair” and “good” quality). PMID:24919132

Determination of biological and physicochemical parameters of Artemia franciscana strains in hypersaline environments for aquaculture in the Colombian Caribbean

PubMed Central

Camargo, William N; Durán, Gabriel C; Rada, Orlando C; Hernández, Licet C; Linero, Juan-Carlos G; Muelle, Igor M; Sorgeloos, Patrick

2005-01-01

Background Artemia (Crustacea, Anostraca), also known as brine shrimp, are typical inhabitants of extreme environments. These hypersaline environments vary considerably in their physicochemical composition, and even their climatic conditions and elevation. Several thalassohaline (marine) environments along the Colombian Caribbean coast were surveyed in order to contribute to the knowledge of brine shrimp biotopes in South America by determining some vital biological and physicochemical parameters for Artemia survival. Additionally, cyst quality tests, biometrical and essential fatty acids analysis were performed to evaluate the economic viability of some of these strains for the aquaculture industry. Results In addition to the three locations (Galerazamba, Manaure, and Pozos Colorados) reported in the literature three decades ago in the Colombian Caribbean, six new locations were registered (Salina Cero, Kangaru, Tayrona, Bahía Hondita, Warrego and Pusheo). All habitats sampled showed that chloride was the prevailing anion, as expected, because of their thalassohaline origin. There were significant differences in cyst diameter grouping strains in the following manner according to this parameter: 1) San Francisco Bay (SFB-Control, USA), 2) Galerazamba and Tayrona, 3) Kangarú, 4) Manaure, and 5) Salina Cero and Pozos Colorados. Chorion thickness values were smaller in Tayrona, followed by Salina Cero, Galerazamba, Manaure, SFB, Kangarú and Pozos Colorados. There were significant differences in naupliar size, grouping strains as follows (smallest to largest): 1) Galerazamba, 2) Manaure, 3) SFB, Kangarú, and Salina Cero, 4) Pozos Colorados, and 5) Tayrona. Overall, cyst quality analysis conducted on samples from Manaure, Galerazamba, and Salina Cero revealed that all sites exhibited a relatively high number of cysts.g-1. Essential fatty acids (EFA) analysis performed on nauplii from cyst samples from Manaure, Galerazamba, Salina Cero and Tayrona revealed that cysts from all sites exhibited high arachidonic acid:20:4(n-6) (ArA) and eicosapentaenoic acid: 20:5(n-3) (EPA) levels comparable to the control sample (SFB). In contrast, most cysts collected (including SFB) at different locations, and during different months, presented low docosahexaenoic acid: 22:6(n-3) (DHA) levels (Manaure was the only exception with high DHA levels). Some variations in EPA and ArA levels were observed in all sites, contrasting with the much lower DHA levels which remained constant for all locations, except for Manaure which exhibited variable DHA levels. DHA/EPA ratio was overall very low for all sites compared to SFB cysts. All strains had a low DHA/ArA, but a high EPA/ArA ratio, including the control. Conclusion The Colombian A. franciscana habitats analyzed were determined to be thalassohaline, and suitable for A. franciscana development. EFA profiles demonstrated that Tayrona, Galerazamba, Manaure and Salina Cero strains are suitable food for marine fish and crustacean culture because of their high EPA/ArA ratio, but might have to be fortified with DHA rich emulsions depending on the nutritional requirements of the species to be cultured, because of their overall low DHA content. The relatively small nauplii are appropriate for marine larvaeculture. In contrast, the strains from Tayrona, Kangarú, Salina Cero, and Pozos Colorados may be of use but limited to Artemia small biomass production quantities, because of the small surface area of their respective locations; Artemia could be exploited at these locations for local aquaculture applications. In general, cyst quality evaluation for Manaure, Salina Cero and Galerazamba cysts revealed that cysts from these three locations could improve their quality by concentrating efforts on cyst processing techniques. Finally, most locations had great A. franciscana production potential and require different degrees of water quality and/or infrastructure management. PMID:16250916

Determination of biological and physicochemical parameters of Artemia franciscana strains in hypersaline environments for aquaculture in the Colombian Caribbean.

PubMed

Camargo, William N; Durán, Gabriel C; Rada, Orlando C; Hernández, Licet C; Linero, Juan-Carlos G; Muelle, Igor M; Sorgeloos, Patrick

2005-10-26

Artemia (Crustacea, Anostraca), also known as brine shrimp, are typical inhabitants of extreme environments. These hypersaline environments vary considerably in their physicochemical composition, and even their climatic conditions and elevation. Several thalassohaline (marine) environments along the Colombian Caribbean coast were surveyed in order to contribute to the knowledge of brine shrimp biotopes in South America by determining some vital biological and physicochemical parameters for Artemia survival. Additionally, cyst quality tests, biometrical and essential fatty acids analysis were performed to evaluate the economic viability of some of these strains for the aquaculture industry. In addition to the three locations (Galerazamba, Manaure, and Pozos Colorados) reported in the literature three decades ago in the Colombian Caribbean, six new locations were registered (Salina Cero, Kangaru, Tayrona, Bahía Hondita, Warrego and Pusheo). All habitats sampled showed that chloride was the prevailing anion, as expected, because of their thalassohaline origin. There were significant differences in cyst diameter grouping strains in the following manner according to this parameter: 1) San Francisco Bay (SFB-Control, USA), 2) Galerazamba and Tayrona, 3) Kangarú, 4) Manaure, and 5) Salina Cero and Pozos Colorados. Chorion thickness values were smaller in Tayrona, followed by Salina Cero, Galerazamba, Manaure, SFB, Kangarú and Pozos Colorados. There were significant differences in naupliar size, grouping strains as follows (smallest to largest): 1) Galerazamba, 2) Manaure, 3) SFB, Kangarú, and Salina Cero, 4) Pozos Colorados, and 5) Tayrona. Overall, cyst quality analysis conducted on samples from Manaure, Galerazamba, and Salina Cero revealed that all sites exhibited a relatively high number of cysts.g-1. Essential fatty acids (EFA) analysis performed on nauplii from cyst samples from Manaure, Galerazamba, Salina Cero and Tayrona revealed that cysts from all sites exhibited high arachidonic acid:20:4(n-6) (ArA) and eicosapentaenoic acid: 20:5(n-3) (EPA) levels comparable to the control sample (SFB). In contrast, most cysts collected (including SFB) at different locations, and during different months, presented low docosahexaenoic acid: 22:6(n-3) (DHA) levels (Manaure was the only exception with high DHA levels). Some variations in EPA and ArA levels were observed in all sites, contrasting with the much lower DHA levels which remained constant for all locations, except for Manaure which exhibited variable DHA levels. DHA/EPA ratio was overall very low for all sites compared to SFB cysts. All strains had a low DHA/ArA, but a high EPA/ArA ratio, including the control. The Colombian A. franciscana habitats analyzed were determined to be thalassohaline, and suitable for A. franciscana development. EFA profiles demonstrated that Tayrona, Galerazamba, Manaure and Salina Cero strains are suitable food for marine fish and crustacean culture because of their high EPA/ArA ratio, but might have to be fortified with DHA rich emulsions depending on the nutritional requirements of the species to be cultured, because of their overall low DHA content. The relatively small nauplii are appropriate for marine larvaeculture. In contrast, the strains from Tayrona, Kangarú, Salina Cero, and Pozos Colorados may be of use but limited to Artemia small biomass production quantities, because of the small surface area of their respective locations; Artemia could be exploited at these locations for local aquaculture applications. In general, cyst quality evaluation for Manaure, Salina Cero and Galerazamba cysts revealed that cysts from these three locations could improve their quality by concentrating efforts on cyst processing techniques. Finally, most locations had great A. franciscana production potential and require different degrees of water quality and/or infrastructure management.

Comparisons of the dust/smoke particulate that settled inside the surrounding buildings and outside on the streets of southern New York City after the collapse of the World Trade Center, September 11, 2001.

PubMed

Yiin, Lih-Ming; Millette, James R; Vette, Alan; Ilacqua, Vito; Quan, Chunli; Gorczynski, John; Kendall, Michaela; Chen, Lung Chi; Weisel, Clifford P; Buckley, Brian; Yang, Ill; Lioy, Paul J

2004-05-01

The collapse of the World Trade Center (WTC) on September 11, 2001, generated large amounts of dust and smoke that settled in the surrounding indoor and outdoor environments in southern Manhattan. Sixteen dust samples were collected from undisturbed locations inside two uncleaned buildings that were adjacent to Ground Zero. These samples were analyzed for morphology, metals, and organic compounds, and the results were compared with the previously reported outdoor WTC dust/smoke results. We also analyzed seven additional dust samples provided by residents in the local neighborhoods. The morphologic analyses showed that the indoor WTC dust/smoke samples were similar to the outdoor WTC dust/smoke samples in composition and characteristics but with more than 50% mass in the <53-microm size fraction. This was in contrast to the outdoor samples that contained >50% of mass above >53 microm. Elemental analyses also showed the similarities, but at lower concentrations. Organic compounds present in the outdoor samples were also detected in the indoor samples. Conversely, the resident-provided convenience dust samples were different from either the WTC indoor or outdoor samples in composition and pH, indicating that they were not WTC-affected locations. In summary, the indoor dust/smoke was similar in concentration to the outdoor dust/smoke but had a greater percentage of mass <53 microm in diameter.

Similarities and Differences in the Distributions of Hydrothermal Venting and the Formation of Seafloor Massive Sulfide Deposits at the Tui Malila and Mariner Vent Fields, Valu Fa Ridge

NASA Astrophysics Data System (ADS)

Tivey, M. K.; Evans, G. N.; Ferrini, V. L.; Spierer, H.

2016-12-01

High-resolution bathymetric mapping and recovery and study of samples from precisely known locations relative to local tectonic and volcanic features provide insight into the formation of seafloor massive sulfide deposits. Additional insight comes from repeat mapping efforts in 2005 and 2016 that provide details of relations and changes that may have occurred over time. Located 21 km apart on the Valu Fa Ridge, the Tui Malila and Mariner vent fields exhibit contrasting vent fluid chemistry, mineral deposit composition, deposit morphology, and seafloor morphology. At the Tui Malila vent field, near-neutral pH fluids with low metal contents vent from Zn- and Ba-rich, but Cu-poor deposits. The highest temperature fluids are found near the intersection of two faults and between volcanic domes. In contrast, acidic, metal-rich hydrothermal fluids at the Mariner vent field vent from Cu-rich, Zn-poor deposits. No discernable faults are present. At both the Tui Malila and Mariner vent fields, intermediate temperature fluids were sampled emanating from barite-rich deposits. At the Tui Malila vent field, intermediate fluids vent from flange-dominated edifices that are located on brecciated lava flow that overlays one of the two faults. Intermediate fluids at the Mariner vent field vent from squat terrace-like edifices located peripheral (10-15 m) to high-temperature chimney edifices, and seafloor morphology is dominated by brecciated lava flows. Thermodynamic models of mixing between high-temperature hydrothermal fluids and seawater that consider subsurface deposition of sulfide minerals and iron oxyhydroxide were used to reproduce the chemistry of intermediate fluids. This study suggests that the porous, brecciated lavas characteristic of these two vent fields provide sites for subsurface mixing and contribute to mineral deposition, with the faults at the Tui Malila vent field providing a pathway for subsurface fluid flow.

16SrDNA Pyrosequencing of the Mediterranean Gorgonian Paramuricea clavata Reveals a Link among Alterations in Bacterial Holobiont Members, Anthropogenic Influence and Disease Outbreaks

PubMed Central

Vezzulli, Luigi; Pezzati, Elisabetta; Huete-Stauffer, Carla; Pruzzo, Carla; Cerrano, Carlo

2013-01-01

Mass mortality events of benthic invertebrates in the Mediterranean Sea are becoming an increasing concern with catastrophic effects on the coastal marine environment. Sea surface temperature anomalies leading to physiological stress, starvation and microbial infections were identified as major factors triggering animal mortality. However the highest occurrence of mortality episodes in particular geographic areas and occasionally in low temperature deep environments suggest that other factors play a role as well. We conducted a comparative analysis of bacterial communities associated with the purple gorgonian Paramuricea clavata, one of the most affected species, collected at different geographic locations and depth, showing contrasting levels of anthropogenic disturbance and health status. Using massive parallel 16SrDNA gene pyrosequencing we showed that the bacterial community associated with healthy P. clavata in pristine locations was dominated by a single genus Endozoicomonas within the order Oceanospirillales which represented ∼90% of the overall bacterial community. P. clavata samples collected in human impacted areas and during disease events had higher bacterial diversity and abundance of disease-related bacteria, such as vibrios, than samples collected in pristine locations whilst showed a reduced dominance of Endozoicomonas spp. In contrast, bacterial symbionts exhibited remarkable stability in P. clavata collected both at euphotic and mesophotic depths in pristine locations suggesting that fluctuations in environmental parameters such as temperature have limited effect in structuring the bacterial holobiont. Interestingly the coral pathogen Vibrio coralliilyticus was not found on diseased corals collected during a deep mortality episode suggesting that neither temperature anomalies nor recognized microbial pathogens are solely sufficient to explain for the events. Overall our data suggest that anthropogenic influence may play a significant role in determining the coral health status by affecting the composition of the associated microbial community. Environmental stressful events and microbial infections may thus be superimposed to compromise immunity and trigger mortality outbreaks. PMID:23840768

Imaging electrical conductivity, permeability, and/or permittivity contrasts using the Born Scattering Inversion (BSI)

NASA Astrophysics Data System (ADS)

Darrh, A.; Downs, C. M.; Poppeliers, C.

2017-12-01

Born Scattering Inversion (BSI) of electromagnetic (EM) data is a geophysical imaging methodology for mapping weak conductivity, permeability, and/or permittivity contrasts in the subsurface. The high computational cost of full waveform inversion is reduced by adopting the First Born Approximation for scattered EM fields. This linearizes the inverse problem in terms of Born scattering amplitudes for a set of effective EM body sources within a 3D imaging volume. Estimation of scatterer amplitudes is subsequently achieved by solving the normal equations. Our present BSI numerical experiments entail Fourier transforming real-valued synthetic EM data to the frequency-domain, and minimizing the L2 residual between complex-valued observed and predicted data. We are testing the ability of BSI to resolve simple scattering models. For our initial experiments, synthetic data are acquired by three-component (3C) electric field receivers distributed on a plane above a single point electric dipole within a homogeneous and isotropic wholespace. To suppress artifacts, candidate Born scatterer locations are confined to a volume beneath the receiver array. Also, we explore two different numerical linear algebra algorithms for solving the normal equations: Damped Least Squares (DLS), and Non-Negative Least Squares (NNLS). Results from NNLS accurately recover the source location only for a large dense 3C receiver array, but fail when the array is decimated, or is restricted to horizontal component data. Using all receiver stations and all components per station, NNLS results are relatively insensitive to a sub-sampled frequency spectrum, suggesting that coarse frequency-domain sampling may be adequate for good target resolution. Results from DLS are insensitive to diminishing array density, but contain spatially oscillatory structure. DLS-generated images are consistently centered at the known point source location, despite an abundance of surrounding structure.

Practical guidance on characterizing availability in resource selection functions under a use-availability design

USGS Publications Warehouse

Northrup, Joseph M.; Hooten, Mevin B.; Anderson, Charles R.; Wittemyer, George

2013-01-01

Habitat selection is a fundamental aspect of animal ecology, the understanding of which is critical to management and conservation. Global positioning system data from animals allow fine-scale assessments of habitat selection and typically are analyzed in a use-availability framework, whereby animal locations are contrasted with random locations (the availability sample). Although most use-availability methods are in fact spatial point process models, they often are fit using logistic regression. This framework offers numerous methodological challenges, for which the literature provides little guidance. Specifically, the size and spatial extent of the availability sample influences coefficient estimates potentially causing interpretational bias. We examined the influence of availability on statistical inference through simulations and analysis of serially correlated mule deer GPS data. Bias in estimates arose from incorrectly assessing and sampling the spatial extent of availability. Spatial autocorrelation in covariates, which is common for landscape characteristics, exacerbated the error in availability sampling leading to increased bias. These results have strong implications for habitat selection analyses using GPS data, which are increasingly prevalent in the literature. We recommend researchers assess the sensitivity of their results to their availability sample and, where bias is likely, take care with interpretations and use cross validation to assess robustness.

Are wetlands the reservoir for avian cholera?

USGS Publications Warehouse

Samuel, M.D.; Shadduck, D.J.; Goldberg, Diana R.

2004-01-01

Wetlands have long been suspected to be an important reservoir for Pasteurella multocida and therefore the likely source of avian cholera outbreaks. During the fall of 1995a??98 we collected sediment and water samples from 44 wetlands where avian cholera epizootics occurred the previous winter or spring. We attempted to isolate P. multocida in sediment and surface water samples from 10 locations distributed throughout each wetland. We were not able to isolate P. multocida from any of the 440 water and 440 sediment samples collected from these wetlands. In contrast, during other investigations of avian cholera we isolated P. multocida from 20 of 44 wetlands, including 7% of the water and 4.5% of the sediment samples collected during or shortly following epizootic events. Our results indicate that wetlands are an unlikely reservoir for the bacteria that causes avian cholera.

Value of pituitary gland MRI at 7 T in Cushing's disease and relationship to inferior petrosal sinus sampling: case report.

PubMed

Law, Meng; Wang, Regina; Liu, Chia-Shang J; Shiroishi, Mark S; Carmichael, John D; Mack, William J; Weiss, Martin; Wang, Danny J J; Toga, Arthur W; Zada, Gabriel

2018-03-23

Cushing's disease is caused by adrenocorticotrophic hormone (ACTH)-secreting pituitary adenomas, which are often difficult to identify on standard 1.5-T or 3-T MRI, including dynamic contrast imaging. Inferior petrosal and cavernous sinus sampling remains the gold standard for MRI-negative Cushing's disease. The authors report on a 27-year-old woman with Cushing's disease in whom the results of standard 1.5-T and 3-T MRI, including 1.5-T dynamic contrast imaging, were negative. Inferior petrosal sinus sampling showed a high central-to-peripheral ACTH ratio (148:1) as well as a right-to-left ACTH gradient (19:1), suggesting a right-sided pituitary microadenoma. The patient underwent 7-T MRI, which showed evidence of a right-sided pituitary lesion with focal hypoenhancement not visualized on 1.5-T or 3-T MRI. The patient underwent an endoscopic endonasal transsphenoidal operation, with resection of a right-sided pituitary mass. Postoperatively, she developed clinical symptoms suggestive of adrenal insufficiency and a nadir cortisol level of 1.6 μg/dl on postoperative day 3, and hydrocortisone therapy was initiated. Permanent histopathology specimens showed Crooke's hyaline change and ACTH-positive cells suggestive of an adenoma. MRI at 7 T may be beneficial in identifying pituitary microadenoma location in cases of standard 1.5-T and 3-T MRI-negative Cushing's disease. In the future, 7-T MRI may preempt inferior petrosal sinus sampling and help in cases of standard and dynamic contrast 1.5-T and 3-T MRI-negative Cushing's disease.

Differential effects of exogenous and endogenous attention on second-order texture contrast sensitivity

PubMed Central

Barbot, Antoine; Landy, Michael S.; Carrasco, Marisa

2012-01-01

The visual system can use a rich variety of contours to segment visual scenes into distinct perceptually coherent regions. However, successfully segmenting an image is a computationally expensive process. Previously we have shown that exogenous attention—the more automatic, stimulus-driven component of spatial attention—helps extract contours by enhancing contrast sensitivity for second-order, texture-defined patterns at the attended location, while reducing sensitivity at unattended locations, relative to a neutral condition. Interestingly, the effects of exogenous attention depended on the second-order spatial frequency of the stimulus. At parafoveal locations, attention enhanced second-order contrast sensitivity to relatively high, but not to low second-order spatial frequencies. In the present study we investigated whether endogenous attention—the more voluntary, conceptually-driven component of spatial attention—affects second-order contrast sensitivity, and if so, whether its effects are similar to those of exogenous attention. To that end, we compared the effects of exogenous and endogenous attention on the sensitivity to second-order, orientation-defined, texture patterns of either high or low second-order spatial frequencies. The results show that, like exogenous attention, endogenous attention enhances second-order contrast sensitivity at the attended location and reduces it at unattended locations. However, whereas the effects of exogenous attention are a function of the second-order spatial frequency content, endogenous attention affected second-order contrast sensitivity independent of the second-order spatial frequency content. This finding supports the notion that both exogenous and endogenous attention can affect second-order contrast sensitivity, but that endogenous attention is more flexible, benefitting performance under different conditions. PMID:22895879

Stroke Location Is an Independent Predictor of Cognitive Outcome.

PubMed

Munsch, Fanny; Sagnier, Sharmila; Asselineau, Julien; Bigourdan, Antoine; Guttmann, Charles R; Debruxelles, Sabrina; Poli, Mathilde; Renou, Pauline; Perez, Paul; Dousset, Vincent; Sibon, Igor; Tourdias, Thomas

2016-01-01

On top of functional outcome, accurate prediction of cognitive outcome for stroke patients is an unmet need with major implications for clinical management. We investigated whether stroke location may contribute independent prognostic value to multifactorial predictive models of functional and cognitive outcomes. Four hundred twenty-eight consecutive patients with ischemic stroke were prospectively assessed with magnetic resonance imaging at 24 to 72 hours and at 3 months for functional outcome using the modified Rankin Scale and cognitive outcome using the Montreal Cognitive Assessment (MoCA). Statistical maps of functional and cognitive eloquent regions were derived from the first 215 patients (development sample) using voxel-based lesion-symptom mapping. We used multivariate logistic regression models to study the influence of stroke location (number of eloquent voxels from voxel-based lesion-symptom mapping maps), age, initial National Institutes of Health Stroke Scale and stroke volume on modified Rankin Scale and MoCA. The second part of our cohort was used as an independent replication sample. In univariate analyses, stroke location, age, initial National Institutes of Health Stroke Scale, and stroke volume were all predictive of poor modified Rankin Scale and MoCA. In multivariable analyses, stroke location remained the strongest independent predictor of MoCA and significantly improved the prediction compared with using only age, initial National Institutes of Health Stroke Scale, and stroke volume (area under the curve increased from 0.697-0.771; difference=0.073; 95% confidence interval, 0.008-0.155). In contrast, stroke location did not persist as independent predictor of modified Rankin Scale that was mainly driven by initial National Institutes of Health Stroke Scale (area under the curve going from 0.840 to 0.835). Similar results were obtained in the replication sample. Stroke location is an independent predictor of cognitive outcome (MoCA) at 3 months post stroke. © 2015 American Heart Association, Inc.

Characterization of fission gas bubbles in irradiated U-10Mo fuel

DOE PAGES

Casella, Andrew M.; Burkes, Douglas E.; MacFarlan, Paul J.; ...

2017-06-06

A simple, repeatable method for characterization of fission gas bubbles in irradiated U-Mo fuels has been developed. This method involves mechanical potting and polishing of samples along with examination with a scanning electron microscope located outside of a hot cell. The commercially available software packages CellProfiler, MATLAB, and Mathematica are used to segment and analyze the captured images. The results are compared and contrasted. Finally, baseline methods for fission gas bubble characterization are suggested for consideration and further development.

Involuntary attention with uncertainty: peripheral cues improve perception of masked letters, but may impair perception of low-contrast letters.

PubMed

Kerzel, Dirk; Gauch, Angélique; Buetti, Simona

2010-10-01

Improvements of perceptual performance following the presentation of peripheral cues have been ascribed to accelerated accrual of information, enhanced contrast perception, and decision bias. We investigated effects of peripheral cues on the perception of Gabor and letter stimuli. Non-predictive, peripheral cues improved perceptual accuracy when the stimuli were masked. In contrast, peripheral cues degraded perception of low-contrast letters and did not affect the perception of low-contrast Gabors. The results suggest that involuntary attention accelerates accrual of information but are not entirely consistent with the idea that involuntary attention enhances subjective contrast. Rather, peripheral cues may cause crowding with single letter targets of low contrast. Further, we investigated the effect of the amount of uncertainty on involuntary attention. Cueing effects were (initially) larger when there were more possible target locations. In addition, cueing effects were larger when error feedback was absent and observers had no knowledge of results. Despite these strategic factors, location uncertainty was not sufficient to produce cueing effects, showing that location uncertainty paired with non-predictive cues reveals perceptual and not (only) decisional processes.

Spatial pattern of dissolved organic matter (DOM) along a stream drainage in a forested, Piedmont catchment

NASA Astrophysics Data System (ADS)

Inamdar, S. P.; Singh, S.

2013-12-01

Understanding how dissolved organic matter (DOM) varies spatially in catchments and the processes and mechanisms that regulate this variation is critical for developing accurate and reliable models of DOM. We determined the concentrations and composition of DOM at multiple locations along a stream drainage network in a 79 ha forested, Piedmont, watershed in Maryland, USA. DOM concentrations and composition was compared for five stream locations during baseflow (drainage areas - 0.62, 3.5, 4.5, 12 and 79 ha) and three locations (3.5, 12, 79 ha) for storm flow. Sampling was conducted by manual grab samples and automated ISCO samplers. DOM composition was characterized using a suite of spectrofluorometric indices which included - HIX, a254, and FI. A site-specific PARAFAC model was also developed for DOM fluorescence to determine the humic-, fulvic-, and protein-like DOM constituents. Hydrologic flow paths during baseflow and stormflow were characterized for all stream locations using an end-member mixing model (EMMA). DOM varied notably across the sampled positions for baseflow and stormflow. During baseflow, mean DOC concentrations for the sampled locations ranged between 0.99-3.1 mg/L whereas for stormflow the range was 5.22-8.11 mg/L. Not surprisingly, DOM was more humic and aromatic during stormflow versus baseflow. The 3.5 ha stream drainage location that contained a large wetland yielded the highest DOC concentration as well as the most humic and aromatic DOM, during both, baseflow and stormflow. In contrast, a headwater stream location (0.62 ha) that received runoff from a groundwater seep registered the highest mean value for % protein-like DOM (30%) and the lowest index for aromaticity (mean a254 = 6.52) during baseflow. During stormflow, the mean % protein-like DOM was highest at the largest 79 ha drainage location (mean = 11.8%) and this site also registered the lowest mean value for a254 (46.3). Stream drainage locations that received a larger proportion of runoff along surficial flow paths produced a more aromatic and humic DOM with high DOC concentrations; whereas those with a greater proportion of groundwater contributions produced DOM with greater % of protein-like content. Overall, our observations suggest that occurrence of wetlands and the nature of hydrologic flow paths were the key determinants for the spatial pattern of DOM.

Locating Stardust-like Particles in Aerogel Using X-Ray Techniques

NASA Technical Reports Server (NTRS)

Jurewicz, A. J. G.; Jones, S. M.; Tsapin, A.; Mih, D. T.; Connolly, H. C., Jr.; Graham, G. A.

2003-01-01

Silica aerogel is the material that the spacecraft STARDUST is using to collect interstellar and cometary silicates. Anticipating the return of the samples to earth in January of 2006, MANY individual investigators and, especially, the investigators in NASA's SRLIDAP program are studying means of both in situ analysis of particles, as well as particle extraction. To help individual PI's with extraction of particles from aerogel in their own laboratories, we are exploring the use of standard laboratory x-ray equipment and commercial techniques for precisely locating specific particles in aerogel. We approached the evaluation of commercial x-ray techniques as follows. First, we determined the most appropriate detector for use with aerogel and particulates. Then, we compared and contrasted techniques useful for university laboratories.

Influence of a non-hospital medical care facility on antimicrobial resistance in wastewater.

PubMed

Bäumlisberger, Mathias; Youssar, Loubna; Schilhabel, Markus B; Jonas, Daniel

2015-01-01

The global widespread use of antimicrobials and accompanying increase in resistant bacterial strains is of major public health concern. Wastewater systems and wastewater treatment plants are considered a niche for antibiotic resistance genes (ARGs), with diverse microbial communities facilitating ARG transfer via mobile genetic element (MGE). In contrast to hospital sewage, wastewater from other health care facilities is still poorly investigated. At the instance of a nursing home located in south-west Germany, in the present study, shotgun metagenomics was used to investigate the impact on wastewater of samples collected up- and down-stream in different seasons. Microbial composition, ARGs and MGEs were analyzed using different annotation approaches with various databases, including Antibiotic Resistance Ontologies (ARO), integrons and plasmids. Our analysis identified seasonal differences in microbial communities and abundance of ARG and MGE between samples from different seasons. However, no obvious differences were detected between up- and downstream samples. The results suggest that, in contrast to hospitals, sewage from the nursing home does not have a major impact on ARG or MGE in wastewater, presumably due to much less intense antimicrobial usage. Possible limitations of metagenomic studies using high-throughput sequencing for detection of genes that seemingly confer antibiotic resistance are discussed.

Magnetic Force Microscopy Investigation of Magnetic Domains in Nd2Fe14B

NASA Astrophysics Data System (ADS)

Talari, Mahesh Kumar; Markandeyulu, G.; Rao, K. Prasad

2010-07-01

Remenance and coercivity in Nd2Fe14B materials are strongly dependent on the microstructural aspects like phases morphology and grain size. The coercivity (Hc) of a magnetic material varies inversely with the grain size (D) and there is a critical size below which Hc∝D6. Domain wall pinning by grain boundaries and foreign phases is the important mechanism in explaining the improvement in coercivity and remenance. Nd2Fe14B intermetallic compound with stochiometric composition was prepared from pure elements (Nd -99.5%, Fe—99.95%, B -99.99%) by arc melting in argon atmosphere. Magnetic Force Microscope (MFM) gives high-resolution magnetic domain structural information of ferromagnetic samples. DI-3100 Scanning Probe Microscope with MESP probes was used For MFM characterization of the samples. Magnetic domains observed in cast ingots were very long (up to 40 μm were observed) and approximately 1-5 μm wide due to high anisotropy of the compounds. Magnetic domains have displayed different image contrast and morphologies at different locations of the samples. The domain morphologies and image contrast obtained in this analysis were explained in this paper.

ultraLM and miniLM: Locator tools for smart tracking of fluorescent cells in correlative light and electron microscopy.

PubMed

Brama, Elisabeth; Peddie, Christopher J; Wilkes, Gary; Gu, Yan; Collinson, Lucy M; Jones, Martin L

2016-12-13

In-resin fluorescence (IRF) protocols preserve fluorescent proteins in resin-embedded cells and tissues for correlative light and electron microscopy, aiding interpretation of macromolecular function within the complex cellular landscape. Dual-contrast IRF samples can be imaged in separate fluorescence and electron microscopes, or in dual-modality integrated microscopes for high resolution correlation of fluorophore to organelle. IRF samples also offer a unique opportunity to automate correlative imaging workflows. Here we present two new locator tools for finding and following fluorescent cells in IRF blocks, enabling future automation of correlative imaging. The ultraLM is a fluorescence microscope that integrates with an ultramicrotome, which enables 'smart collection' of ultrathin sections containing fluorescent cells or tissues for subsequent transmission electron microscopy or array tomography. The miniLM is a fluorescence microscope that integrates with serial block face scanning electron microscopes, which enables 'smart tracking' of fluorescent structures during automated serial electron image acquisition from large cell and tissue volumes.

Aquatic assessment of the Pike Hill Copper Mine Superfund site, Corinth, Vermont

USGS Publications Warehouse

Piatak, Nadine M.; Argue, Denise M.; Seal, Robert R.; Kiah, Richard G.; Besser, John M.; Coles, James F.; Hammarstrom, Jane M.; Levitan, Denise M.; Deacon, Jeffrey R.; Ingersoll, Christopher G.

2013-01-01

The Pike Hill Copper Mine Superfund site in Corinth, Orange County, Vermont, includes the Eureka, Union, and Smith mines along with areas of downstream aquatic ecosystem impairment. The site was placed on the U.S. Environmental Protection Agency (USEPA) National Priorities List in 2004. The mines, which operated from about 1847 to 1919, contain underground workings, foundations from historical structures, several waste-rock piles, and some flotation tailings. The mine site is drained to the northeast by Pike Hill Brook, which includes several wetland areas, and to the southeast by an unnamed tributary that flows to the south and enters Cookville Brook. Both brooks eventually drain into the Waits River, which flows into the Connecticut River. The aquatic ecosystem at the site was assessed using a variety of approaches that investigated surface-water quality, sediment quality, and various ecological indicators of stream-ecosystem health. The degradation of surface-water quality is caused by elevated concentrations of copper, and to a lesser extent cadmium, with localized effects caused by aluminum, iron, and zinc. Copper concentrations in surface waters reached or exceeded the USEPA national recommended chronic water-quality criteria for the protection of aquatic life in all of the Pike Hill Brook sampling locations except for the location farthest downstream, in half of the locations sampled in the tributary to Cookville Brook, and in about half of the locations in one wetland area located in Pike Hill Brook. Most of these same locations also contained concentrations of cadmium that exceeded the chronic water-quality criteria. In contrast, surface waters at background sampling locations were below these criteria for copper and cadmium. Comparison of hardness-based and Biotic Ligand Model (BLM)-based criteria for copper yields similar results with respect to the extent or number of stations impaired for surface waters in the affected area. However, the BLM-based criteria are commonly lower values than the hardness-based criteria and thus suggest a greater degree or magnitude of impairment at the sampling locations. The riffle-habitat benthic invertebrate richness and abundance data correlate strongly with the extent of impact based on water quality for both brooks. Similarly, the fish community assessments document degraded conditions throughout most of Pike Hill Brook, whereas the data for the tributary to Cookville Brook suggest less degradation to this brook. The sediment environment shows similar extents of impairment to the surface-water environment, with most sampling locations in Pike Hill Brook, including the wetland areas, and the tributary to Cookville Brook affected. Sediment impairment is caused by elevated copper concentrations, although localized degradation due to elevated cadmium and zinc concentrations was documented on the basis of exceedances of probable effects concentrations (PECs). In contrast to impairment determined by exceedances of PECs, equilibrium-partitioning sediment benchmarks (based on simultaneously extracted metals, acid volatile sulfides, and total organic carbon) predict no toxic effects in sediments at the background locations and uncertain toxic effects throughout Pike Hill Brook and the tributary to Cookville Brook, with the exception of the most downstream Cookville Brook location, which indicated no toxic effects. Acute laboratory toxicity testing using the amphipod Hyalella azteca and the midge Chironomus dilutus on pore waters extracted from sediment in situ indicate impairment (based on tests with H. azteca) at only one location in Pike Hill Brook and no impairment in the tributary to Cookville Brook. Chronic laboratory sediment toxicity testing using H. azteca and C. dilutus indicated toxicity in Pike Hill Brook at several locations in the lower reach and two locations in the tributary to Cookville Brook. Toxicity was not indicated for either species in sediment from the most acidic metal-rich location, likely due to the low lability of copper in that sediment, as indicated by a low proportion of extractable copper (simultaneously extracted metal (SEM) copper only 5 percent of total copper) and due to the flushing of acidic metal-rich pore water from experimental chambers as overlying test water was introduced before and replaced periodically during the toxicity tests. Depositional habitat invertebrate richness and abundance data generally agreed with the results of toxicity tests and with the extent of impact in the watersheds on the basis of sediment and pore waters. The information was used to develop an overall assessment of the impact of mine drainage on the aquatic system downstream from the Pike Hill copper mines. Most of Pike Hill Brook, including several wetland areas that are all downstream from the Eureka and Union mines, was found to be impaired on the basis of water-quality data and biological assessments of fish or benthic invertebrate communities. In contrast, only one location in the tributary to Cookville Brook, downstream from the Smith mine, is definitively impaired. The biological community begins to recover at the most downstream locations in both brooks due to natural attenuation from mixing with unimpaired streams. On the basis of water quality and biological assessment, the reference locations were of good quality. The sediment toxicity, chemistry, and aquatic community survey data suggest that the sediments could be a source of toxicity in Pike Hill Brook and the tributary to Cookville Brook. On the basis of water quality, sediment quality, and biologic communities, the impacts of mine drainage on the aquatic ecosystem health of the watersheds in the study area are generally consistent with the toxicity suggested from laboratory toxicity testing on pore water and sediments.

Colony-level effects of imidacloprid in subterranean termites (Isoptera: Rhinotermitidae).

PubMed

Parman, Vincent; Vargo, Edward L

2010-06-01

We determined the impact of imidacloprid (Premise) on colonies of Reticulitermes spp. (Isoptera: Rhinotermitidae) through soil applications in the field. We selected 11 houses in the Raleigh, NC, area with active termite infestations. In-ground monitoring stations (mean = 75.9 stations) were installed around each house, and samples of termites visiting the monitors, in mud tubes, as well as samples from wood debris in the yard, were collected monthly for up to 14 mo to determine the numbers and locations of colonies present before treatment. We used microsatellite genetic markers to identify individual colonies present on each property. All houses were treated with Premise 75 WSP by using an exterior perimeter/interior spot treatment. After treatment, termite samples were collected monthly for 3 mo and then quarterly for 2 yr to track the fate of colonies. Of the 12 treated colonies (those attacking structures), 75% disappeared within 90 d and were not detected again. In contrast, only 25% of 48 untreated colonies (located 2 m or further from the treatment zone) and 40% of the six likely treated colonies (located within 0.5 m of the treatment zone but not known to be attacking the structure) were not detected again during the study. Our findings are consistent with strong colony-level effects of soil treatments with imidacloprid, resulting in the suppression or elimination of Reticulitermes spp. colonies in many cases.

Performance of 12 DIR algorithms in low-contrast regions for mass and density conserving deformation

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

Yeo, U. J.; Supple, J. R.; Franich, R. D.

2013-10-15

Purpose: Deformable image registration (DIR) has become a key tool for adaptive radiotherapy to account for inter- and intrafraction organ deformation. Of contemporary interest, the application to deformable dose accumulation requires accurate deformation even in low contrast regions where dose gradients may exist within near-uniform tissues. One expects high-contrast features to generally be deformed more accurately by DIR algorithms. The authors systematically assess the accuracy of 12 DIR algorithms and quantitatively examine, in particular, low-contrast regions, where accuracy has not previously been established.Methods: This work investigates DIR algorithms in three dimensions using deformable gel (DEFGEL) [U. J. Yeo, M. L.more » Taylor, L. Dunn, R. L. Smith, T. Kron, and R. D. Franich, “A novel methodology for 3D deformable dosimetry,” Med. Phys. 39, 2203–2213 (2012)], for application to mass- and density-conserving deformations. CT images of DEFGEL phantoms with 16 fiducial markers (FMs) implanted were acquired in deformed and undeformed states for three different representative deformation geometries. Nonrigid image registration was performed using 12 common algorithms in the public domain. The optimum parameter setup was identified for each algorithm and each was tested for deformation accuracy in three scenarios: (I) original images of the DEFGEL with 16 FMs; (II) images with eight of the FMs mathematically erased; and (III) images with all FMs mathematically erased. The deformation vector fields obtained for scenarios II and III were then applied to the original images containing all 16 FMs. The locations of the FMs estimated by the algorithms were compared to actual locations determined by CT imaging. The accuracy of the algorithms was assessed by evaluation of three-dimensional vectors between true marker locations and predicted marker locations.Results: The mean magnitude of 16 error vectors per sample ranged from 0.3 to 3.7, 1.0 to 6.3, and 1.3 to 7.5 mm across algorithms for scenarios I to III, respectively. The greatest accuracy was exhibited by the original Horn and Schunck optical flow algorithm. In this case, for scenario III (erased FMs not contributing to driving the DIR calculation), the mean error was half that of the modified demons algorithm (which exhibited the greatest error), across all deformations. Some algorithms failed to reproduce the geometry at all, while others accurately deformed high contrast features but not low-contrast regions—indicating poor interpolation between landmarks.Conclusions: The accuracy of DIR algorithms was quantitatively evaluated using a tissue equivalent, mass, and density conserving DEFGEL phantom. For the model studied, optical flow algorithms performed better than demons algorithms, with the original Horn and Schunck performing best. The degree of error is influenced more by the magnitude of displacement than the geometric complexity of the deformation. As might be expected, deformation is estimated less accurately for low-contrast regions than for high-contrast features, and the method presented here allows quantitative analysis of the differences. The evaluation of registration accuracy through observation of the same high contrast features that drive the DIR calculation is shown to be circular and hence misleading.« less

Optimal MRI sequence for identifying occlusion location in acute stroke: which value of time-resolved contrast-enhanced MRA?

PubMed

Le Bras, A; Raoult, H; Ferré, J-C; Ronzière, T; Gauvrit, J-Y

2015-06-01

Identifying occlusion location is crucial for determining the optimal therapeutic strategy during the acute phase of ischemic stroke. The purpose of this study was to assess the diagnostic efficacy of MR imaging, including conventional sequences plus time-resolved contrast-enhanced MRA in comparison with DSA for identifying arterial occlusion location. Thirty-two patients with 34 occlusion levels referred for thrombectomy during acute cerebral stroke events were consecutively included from August 2010 to December 2012. Before thrombectomy, we performed 3T MR imaging, including conventional 3D-TOF and gradient-echo T2 sequences, along with time-resolved contrast-enhanced MRA of the extra- and intracranial arteries. The 3D-TOF, gradient-echo T2, and time-resolved contrast-enhanced MRA results were consensually assessed by 2 neuroradiologists and compared with prethrombectomy DSA results in terms of occlusion location. The Wilcoxon test was used for statistical analysis to compare MR imaging sequences with DSA, and the κ coefficient was used to determine intermodality agreement. The occlusion level on the 3D-TOF and gradient-echo T2 images differed significantly from that of DSA (P < .001 and P = .002, respectively), while no significant difference was observed between DSA and time-resolved contrast-enhanced MRA (P = .125). κ coefficients for intermodality agreement with DSA (95% CI, percentage agreement) were 0.43 (0.3%-0.6; 62%), 0.32 (0.2%-0.5; 56%), and 0.81 (0.6%-1.0; 88%) for 3D-TOF, gradient-echo T2, and time-resolved contrast-enhanced MRA, respectively. The time-resolved contrast-enhanced MRA sequence proved reliable for identifying occlusion location in acute stroke with performance superior to that of 3D-TOF and gradient-echo T2 sequences. © 2015 by American Journal of Neuroradiology.

Experimental research on the feature of an x-ray Talbot-Lau interferometer versus tube accelerating voltage

NASA Astrophysics Data System (ADS)

Wang, Sheng-Hao; Margie, P. Olbinado; Atsushi, Momose; Hua-Jie, Han; Hu, Ren-Fang; Wang, Zhi-Li; Gao, Kun; Zhang, Kai; Zhu, Pei-Ping; Wu, Zi-Yu

2015-06-01

X-ray Talbot-Lau interferometer has been used most widely to perform x-ray phase-contrast imaging with a conventional low-brilliance x-ray source, and it yields high-sensitivity phase and dark-field images of samples producing low absorption contrast, thus bearing tremendous potential for future clinical diagnosis. In this work, by changing the accelerating voltage of the x-ray tube from 35 kV to 45 kV, x-ray phase-contrast imaging of a test sample is performed at each integer value of the accelerating voltage to investigate the characteristic of an x-ray Talbot-Lau interferometer (located in the Institute of Multidisciplinary Research for Advanced Materials, Tohoku University, Japan) versus tube voltage. Experimental results and data analysis show that within a range this x-ray Talbot-Lau interferometer is not sensitive to the accelerating voltage of the tube with a constant fringe visibility of ˜ 44%. This x-ray Talbot-Lau interferometer research demonstrates the feasibility of a new dual energy phase-contrast x-ray imaging strategy and the possibility to collect a refraction spectrum. Project supported by the Major State Basic Research Development Program of China (Grant No. 2012CB825800), the Science Fund for Creative Research Groups, China (Grant No. 11321503), the National Natural Science Foundation of China (Grant Nos. 11179004, 10979055, 11205189, and 11205157), and the Japan-Asia Youth Exchange Program in Science (SAKURA Exchange Program in Science) Administered by the Japan Science and Technology Agency.

Deep tissue volume imaging of birefringence through fibre-optic needle probes for the delineation of breast tumour

NASA Astrophysics Data System (ADS)

Villiger, Martin; Lorenser, Dirk; McLaughlin, Robert A.; Quirk, Bryden C.; Kirk, Rodney W.; Bouma, Brett E.; Sampson, David D.

2016-07-01

Identifying tumour margins during breast-conserving surgeries is a persistent challenge. We have previously developed miniature needle probes that could enable intraoperative volume imaging with optical coherence tomography. In many situations, however, scattering contrast alone is insufficient to clearly identify and delineate malignant regions. Additional polarization-sensitive measurements provide the means to assess birefringence, which is elevated in oriented collagen fibres and may offer an intrinsic biomarker to differentiate tumour from benign tissue. Here, we performed polarization-sensitive optical coherence tomography through miniature imaging needles and developed an algorithm to efficiently reconstruct images of the depth-resolved tissue birefringence free of artefacts. First ex vivo imaging of breast tumour samples revealed excellent contrast between lowly birefringent malignant regions, and stromal tissue, which is rich in oriented collagen and exhibits higher birefringence, as confirmed with co-located histology. The ability to clearly differentiate between tumour and uninvolved stroma based on intrinsic contrast could prove decisive for the intraoperative assessment of tumour margins.

Using a filtering task to measure the spatial extent of selective attention

PubMed Central

Palmer, John; Moore, Cathleen M.

2009-01-01

The spatial extent of attention was investigated by measuring sensitivity to stimuli at to-be-ignored locations. Observers detected a stimulus at a cued location (target), while ignoring otherwise identical stimuli at nearby locations (foils). Only an attentional cue distinguished target from foil. Several experiments varied the contrast and separation of targets and foils. Two theories of selection were compared: contrast gain and a version of attention switching called an all-or-none mixture model. Results included large effects of separation, rejection of the contrast gain model, and the measurement of the size and profile of the spatial extent of attention. PMID:18405935

Robust sampling of decision information during perceptual choice

PubMed Central

Vandormael, Hildward; Herce Castañón, Santiago; Balaguer, Jan; Li, Vickie; Summerfield, Christopher

2017-01-01

Humans move their eyes to gather information about the visual world. However, saccadic sampling has largely been explored in paradigms that involve searching for a lone target in a cluttered array or natural scene. Here, we investigated the policy that humans use to overtly sample information in a perceptual decision task that required information from across multiple spatial locations to be combined. Participants viewed a spatial array of numbers and judged whether the average was greater or smaller than a reference value. Participants preferentially sampled items that were less diagnostic of the correct answer (“inlying” elements; that is, elements closer to the reference value). This preference to sample inlying items was linked to decisions, enhancing the tendency to give more weight to inlying elements in the final choice (“robust averaging”). These findings contrast with a large body of evidence indicating that gaze is directed preferentially to deviant information during natural scene viewing and visual search, and suggest that humans may sample information “robustly” with their eyes during perceptual decision-making. PMID:28223519

Sewage outflow impact and temporal variation of butyltins in an intermittent French River

NASA Astrophysics Data System (ADS)

Chahinian, Nanée.; Bancon-Montigny, Chrystelle; Brunel, Victor; Aubert, Gabriel; Saarbach, Bruno; Tournoud, Marie-George; Perrin, Jean-Louis

2010-05-01

Organotins (OTs) are anthropogenic molecules used in many industrial applications for their thermoresistant and biocidal properties. Because of their toxicity and widespread use these molecules are on the EU water directive's list of prioritary substances. Organotins are prone to adsorption, can bond easily to particulate matter and "migrate" from the water column unto the sediments where their half-life can extend to a few decades. Recent surveys in various EU countries have indicated the presence of OTs in surface and sewage waters. The objective of this work is to study the temporal evolution of butyl, octyl and phenyl tins in contrasted flow conditions, in the sediments and water column of an intermittent river reach located to the right of an extensive sewage treatment plant (STP). The study zone is a reach of the Vène river located in southern France. The Vène is a major tributary of the Thau lagoon which is an important shellfish farming site and thus very vulnerable to OT contamination. Butyltin, trace metal and DOC concentrations were measured on water and sediment samples collected during two consecutive and contrasted hydrological years. The input and output of the STW was sampled in order to assess its impact on butyltin degradation and transformation. The results revealed the presence of butyltins at concentrations exceeding the EU and French pollution limits regularly. Very low concentrations of phenyltins were found in the water samples thus indicating that there is little use of OTs based pesticides in the area. The OTs concentrations were systematically higher during the wetter year, probably because of higher and more frequent wash off contribution to the reach and minimal dilution along the rivercourse. By contrast, the STW's impact in terms of OTs flux is more important during dry periods when there is less dilution in the river. Although the STW's outflows contained less OTs than the inputs, its efficiency in terms of OTs degradation could not be quantified from the available data as no information was available on the OTs concentrations in the deposited sediments of the lagoons. Future efforts will concentrate on a thorough analysis of OTs degradation within the STW.

[Analysis of Scattered Radiation in an Irradiated Body by Means of the Monte Carlo Simulation: Variation of the Subjective Contrast Due to Difference in the Location of Inhomogeneous Region].

PubMed

Kato, Hideki; Sawada, Michito

2015-12-01

When an inhomogeneous medium such as bone, whose composition or density are clearly different from that of soft tissue of human body, exist in irradiated body, a subjective contrast of X-ray image changes by the location of these inhomogeneous medium. This cause due to the change of behavior of scattered photons in the body depends on the location of inhomogeneous medium besides due to the influence of a penumbra. But this mechanism is not explained clearly yet. In this paper, it was analyzed by means of the Monte Carlo simulation that what kind of difference occurs to a subjective contrast by the difference in location of inhomogeneous medium in water phantom and that a change in behavior of scattered photons in the phantom influences a subjective contrast by what kind of mechanism. In this case the inhomogeneous medium is bone, whose effective atomic number and density are higher than that of water, the subjective contrast of X-ray image degrades when bone is located near the entrance surface (upper position) than located near the exit surface (lower position). This is caused by the number of scattered photons, originated in primary photons incident upon the zone besides the region from entrance surface to exit surface including inhomogeneous medium and incident on the area of shadow of inhomogeneous medium on the image detector, is greater in case of the upper position than in case of the lower position. In the lower position, many of these scattered photons are interacted in bone located near the exit surface by the photo-electric absorption and only a small amount is incident on the image detector.

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

Olsen, Todd Andrew; Brandt, Craig C.; Brooks, Scott C.

Mercury (Hg) methylation and methylmercury (MMHg) demethylation activity of periphyton biofilms from East Fork Poplar Creek, Tennessee, USA (EFPC) were measured during 2014-2015 using stable Hg isotopic rate assays. 201Hg II and MM 202Hg were added to intact periphyton samples and the formation of MM 201Hg and loss of MM 202Hg were monitored over time and used to calculate first-order rate constants for methylation and demethylation, respectively. The influence of location, temperature/season, light exposure and biofilm structure on methylation and demethylation were examined. Between-site differences in net methylation for samples collected from an upstream versus downstream location were driven bymore » differences in the demethylation rate constant (k d). In contrast, the within-site seasonal difference in net methylation was driven by changes in the methylation rate constant (k m). Samples incubated in the dark had lower net methylation due to km values that were 60% less than those incubated in the light. Disrupting the biofilm structure decreased km by 50% and resulted in net demethylating conditions. Overall, the measured rates resulted in a net excess of MMHg generated which could account for 27-85% of the MMHg flux in EFPC and suggests intact, actively photosynthesizing periphyton biofilms harbor zones of MMHg production.« less

Bed-sediment grain-size and morphologic data from Suisun, Grizzly, and Honker Bays, CA, 1998-2002

USGS Publications Warehouse

Hampton, Margaret A.; Snyder, Noah P.; Chin, John L.; Allison, Dan W.; Rubin, David M.

2003-01-01

The USGS Place Based Studies Program for San Francisco Bay investigates this sensitive estuarine system to aid in resource management. As part of the inter-disciplinary research program, the USGS collected side-scan sonar data and bed-sediment samples from north San Francisco Bay to characterize bed-sediment texture and investigate temporal trends in sedimentation. The study area is located in central California and consists of Suisun Bay, and Grizzly and Honker Bays, sub-embayments of Suisun Bay. During the study (1998-2002), the USGS collected three side-scan sonar data sets and approximately 300 sediment samples. The side-scan data revealed predominantly fine-grained material on the bayfloor. We also mapped five different bottom types from the data set, categorized as featureless, furrows, sand waves, machine-made, and miscellaneous. We performed detailed grain-size and statistical analyses on the sediment samples. Overall, we found that grain size ranged from clay to fine sand, with the coarsest material in the channels and finer material located in the shallow bays. Grain-size analyses revealed high spatial variability in size distributions in the channel areas. In contrast, the shallow regions exhibited low spatial variability and consistent sediment size over time.

Investigation into spore coat properties for the rapid identification of endospores in marine sediments

NASA Astrophysics Data System (ADS)

Rattray, J. E.; Chakraborty, A.; Bernard, B. B.; Brooks, J.; Hubert, C. R.

2017-12-01

Understanding the sediment biogeography of dormant marine thermophilic bacterial endospores (thermospores) has the potential to assist locating and characterising working petroleum systems. The presence of thermospores in cold ocean environments suggests that distribution occurs via hydrocarbon seepage from thermally active reservoirs. Low abundance and endospore coat physiology mean nucleic acid based techniques have limited success for in situ detection of thermospores. Alternative rapid analytical methods are needed so we investigated using the Schaeffer-Fulton (malachite green and safranin) and DAPI (4',6-diamidino-2-phenylindole) staining techniques on thermospores from cultures and marine sediments. Sediment samples from 111 locations in the Eastern Gulf of Mexico (100 to 3300 m water depth; 6 to 600 km apart) were incubated at high temperature, followed by construction of 16S rRNA gene amplicon libraries (V3-V4 region; Illumina MiSeq) revealing enrichment of species-level thermospore OTUs. A sulfate reducing bacterium from site EGM080 was purified and classified based on its rRNA gene sequence as Desulfotomaculum geothermicum. Prior to thermospore staining the culture was kept in the death/ decline phase for 16 weeks to promote sporulation. Samples of D. geothermicum and the source marine sediment were fixed, stained then analysed using brightfield, phase contrast or fluorescence microscopy. Thermospores in pure culture were identified using phase contrast but were difficult to observe in the sediment sample due to particle aggregation. The Schaeffer-Fulton technique aided thermospore identification in a complex sediment sample matrix as thermospores were stained bright green, and also revealed that there were only spores and no (red stained) vegetative cells in the culture. Treatment with DAPI gave dull fluorescing cells but also provided insight into the behaviour of thermospores in sediment suspensions. Spores in the culture medium were free floating but in the sediment suspension they were only attached to aggregated fluorescing material. Further investigation into thermospore association with bioparticles could further our understanding of the passive dispersal of spores in marine environments.

Contrasting OLS and Quantile Regression Approaches to Student "Growth" Percentiles

ERIC Educational Resources Information Center

Castellano, Katherine Elizabeth; Ho, Andrew Dean

2013-01-01

Regression methods can locate student test scores in a conditional distribution, given past scores. This article contrasts and clarifies two approaches to describing these locations in terms of readily interpretable percentile ranks or "conditional status percentile ranks." The first is Betebenner's quantile regression approach that results in…

Operation of a sampling train for the analysis of environmental species in coal gasification gas-phase process streams

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

Pochan, M.J.; Massey, M.J.

1979-02-01

This report discusses the results of actual raw product gas sampling efforts and includes: Rationale for raw product gas sampling efforts; design and operation of the CMU gas sampling train; development and analysis of a sampling train data base; and conclusions and future application of results. The results of sampling activities at the CO/sub 2/-Acceptor and Hygas pilot plants proved that: The CMU gas sampling train is a valid instrument for characterization of environmental parameters in coal gasification gas-phase process streams; depending on the particular process configuration, the CMU gas sampling train can reduce gasifier effluent characterization activity to amore » single location in the raw product gas line; and in contrast to the slower operation of the EPA SASS Train, CMU's gas sampling train can collect representative effluent data at a rapid rate (approx. 2 points per hour) consistent with the rate of change of process variables, and thus function as a tool for process engineering-oriented analysis of environmental characteristics.« less

3D model assisted fully automated scanning laser Doppler vibrometer measurements

NASA Astrophysics Data System (ADS)

Sels, Seppe; Ribbens, Bart; Bogaerts, Boris; Peeters, Jeroen; Vanlanduit, Steve

2017-12-01

In this paper, a new fully automated scanning laser Doppler vibrometer (LDV) measurement technique is presented. In contrast to existing scanning LDV techniques which use a 2D camera for the manual selection of sample points, we use a 3D Time-of-Flight camera in combination with a CAD file of the test object to automatically obtain measurements at pre-defined locations. The proposed procedure allows users to test prototypes in a shorter time because physical measurement locations are determined without user interaction. Another benefit from this methodology is that it incorporates automatic mapping between a CAD model and the vibration measurements. This mapping can be used to visualize measurements directly on a 3D CAD model. The proposed method is illustrated with vibration measurements of an unmanned aerial vehicle

3D X-Ray Nanotomography of Cells Grown on Electrospun Scaffolds.

PubMed

Bradley, Robert S; Robinson, Ian K; Yusuf, Mohammed

2017-02-01

Here, it is demonstrated that X-ray nanotomography with Zernike phase contrast can be used for 3D imaging of cells grown on electrospun polymer scaffolds. The scaffold fibers and cells are simultaneously imaged, enabling the influence of scaffold architecture on cell location and morphology to be studied. The high resolution enables subcellular details to be revealed. The X-ray imaging conditions were optimized to reduce scan times, making it feasible to scan multiple regions of interest in relatively large samples. An image processing procedure is presented which enables scaffold characteristics and cell location to be quantified. The procedure is demonstrated by comparing the ingrowth of cells after culture for 3 and 6 days. © 2016 The Authors. Published by WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

Influence of a Non-Hospital Medical Care Facility on Antimicrobial Resistance in Wastewater

PubMed Central

Bäumlisberger, Mathias; Youssar, Loubna; Schilhabel, Markus B.; Jonas, Daniel

2015-01-01

The global widespread use of antimicrobials and accompanying increase in resistant bacterial strains is of major public health concern. Wastewater systems and wastewater treatment plants are considered a niche for antibiotic resistance genes (ARGs), with diverse microbial communities facilitating ARG transfer via mobile genetic element (MGE). In contrast to hospital sewage, wastewater from other health care facilities is still poorly investigated. At the instance of a nursing home located in south-west Germany, in the present study, shotgun metagenomics was used to investigate the impact on wastewater of samples collected up- and down-stream in different seasons. Microbial composition, ARGs and MGEs were analyzed using different annotation approaches with various databases, including Antibiotic Resistance Ontologies (ARO), integrons and plasmids. Our analysis identified seasonal differences in microbial communities and abundance of ARG and MGE between samples from different seasons. However, no obvious differences were detected between up- and downstream samples. The results suggest that, in contrast to hospitals, sewage from the nursing home does not have a major impact on ARG or MGE in wastewater, presumably due to much less intense antimicrobial usage. Possible limitations of metagenomic studies using high-throughput sequencing for detection of genes that seemingly confer antibiotic resistance are discussed. PMID:25821977

Effect of Environmental Factors on Fusarium Species and Associated Mycotoxins in Maize Grain Grown in Poland

PubMed Central

Czembor, Elżbieta; Stępień, Łukasz; Waśkiewicz, Agnieszka

2015-01-01

Maize is one of the most important crops and Poland is the fifth largest producing country in Europe. Diseases caused by Fusarium spp. can affect the yield and grain quality of maize because of contamination with numerous mycotoxins produced by these fungi. The present study was performed to identify the prevailing Fusarium species and the environmental factors affecting their frequencies and the contamination of grain with the main mycotoxins deoxynivalenol (DON), zearalenone (ZON) and fumonisin B1 (FB1). Thirty kernel samples were collected in three locations in 2011 and in seven locations in 2012 from three hybrids. On average, 25.24% kernels were colonized by Fusarium spp. (424 strains were isolated). Fusarium verticillioides and F. temperatum were the most prevalent species, F. subglutinans, F. proliferatum and F. graminearum were in minor abundance. In total, 272 isolates of F. verticillioides and 81 isolates of F. temperatum were identified. Fusarium temperatum frequency ranged from 1.70% to 28.57% and differences between locations were significant. Fumonisin B1 was found in all tested samples. DON was found in 66.67% and ZON in 43.33% of samples. Rainfall amount positively affected F. temperatum and F. subglutinans frequency in opposite to mean temperatures in July. On the other hand, relationships between frequency of these species and historical data from 1950–2000 for annual temperature range were negative in contrast to the coldest quarter temperatures. PMID:26225823

Quantifying Morphological Parameters of the Terminal Branching Units in a Mouse Lung by Phase Contrast Synchrotron Radiation Computed Tomography

PubMed Central

Hwang, Jeongeun; Kim, Miju; Kim, Seunghwan; Lee, Jinwon

2013-01-01

An effective technique of phase contrast synchrotron radiation computed tomography was established for the quantitative analysis of the microstructures in the respiratory zone of a mouse lung. Heitzman’s method was adopted for the whole-lung sample preparation, and Canny’s edge detector was used for locating the air-tissue boundaries. This technique revealed detailed morphology of the respiratory zone components, including terminal bronchioles and alveolar sacs, with sufficiently high resolution of 1.74 µm isotropic voxel size. The technique enabled visual inspection of the respiratory zone components and comprehension of their relative positions in three dimensions. To check the method’s feasibility for quantitative imaging, morphological parameters such as diameter, surface area and volume were measured and analyzed for sixteen randomly selected terminal branching units, each consisting of a terminal bronchiole and a pair of succeeding alveolar sacs. The four types of asymmetry ratios concerning alveolar sac mouth diameter, alveolar sac surface area, and alveolar sac volume are measured. This is the first ever finding of the asymmetry ratio for the terminal bronchioles and alveolar sacs, and it is noteworthy that an appreciable degree of branching asymmetry was observed among the alveolar sacs at the terminal end of the airway tree, despite the number of samples was small yet. The series of efficient techniques developed and confirmed in this study, from sample preparation to quantification, is expected to contribute to a wider and exacter application of phase contrast synchrotron radiation computed tomography to a variety of studies. PMID:23704918

Identification of small-scale low and high permeability layers using single well forced-gradient tracer tests: fluorescent dye imaging and modelling at the laboratory-scale.

PubMed

Barns, Gareth L; Thornton, Steven F; Wilson, Ryan D

2015-01-01

Heterogeneity in aquifer permeability, which creates paths of varying mass flux and spatially complex contaminant plumes, can complicate the interpretation of contaminant fate and transport in groundwater. Identifying the location of high mass flux paths is critical for the reliable estimation of solute transport parameters and design of groundwater remediation schemes. Dipole flow tracer tests (DFTTs) and push-pull tests (PPTs) are single well forced-gradient tests which have been used at field-scale to estimate aquifer hydraulic and transport properties. In this study, the potential for PPTs and DFTTs to resolve the location of layered high- and low-permeability layers in granular porous media was investigated with a pseudo 2-D bench-scale aquifer model. Finite element fate and transport modelling was also undertaken to identify appropriate set-ups for in situ tests to determine the type, magnitude, location and extent of such layered permeability contrasts at the field-scale. The characteristics of flow patterns created during experiments were evaluated using fluorescent dye imaging and compared with the breakthrough behaviour of an inorganic conservative tracer. The experimental results show that tracer breakthrough during PPTs is not sensitive to minor permeability contrasts for conditions where there is no hydraulic gradient. In contrast, DFTTs are sensitive to the type and location of permeability contrasts in the host media and could potentially be used to establish the presence and location of high or low mass flux paths. Numerical modelling shows that the tracer peak breakthrough time and concentration in a DFTT is sensitive to the magnitude of the permeability contrast (defined as the permeability of the layer over the permeability of the bulk media) between values of 0.01-20. DFTTs are shown to be more sensitive to deducing variations in the contrast, location and size of aquifer layered permeability contrasts when a shorter central packer is used. However, larger packer sizes are more likely to be practical for field-scale applications, with fewer tests required to characterise a given aquifer section. The sensitivity of DFTTs to identify layered permeability contrasts was not affected by test flow rate. Copyright © 2014 Elsevier B.V. All rights reserved.

Finding a Cold Needle in a Warm Haystack: Infrared Imaging Applied to Locating Cryocooled Crystals in Loops

NASA Technical Reports Server (NTRS)

Snell, E. H.; vanderWoerd, M. J.; Miller, M. D.; Deacon, A. M.

2004-01-01

We demonstrate the use of inbred imaging to locate crystals mounted in cryoloops and cryopreserved in a nitrogen gas stream at 100K. In the home laboratory crystals are clearly seen in the infrared images with light transmitting through the sample while irradiating the crystal from behind, and with illumination from a direction perpendicular to the direction of view. The crystals transmit and reflect infrared radiation differently from the surrounding mother liquor and loop. Because of differences in contrast between crystals and their surrounding mother liquor, it is possible to clearly identify the crystal position. In use at the synchrotron, with robotically mounted crystals the small depth of field of the lens required the recording of multiple images at different focal points. Image processing techniques were then used to produce a clear image of the crystal. The resulting infrared images and intensity profiles show that infrared imaging can be a powerful complement to visual imaging in locating crystals in cryocooled loops.

Effects of detrital influx in the Pennsylvanian Upper Freeport peat swamp

USGS Publications Warehouse

Ruppert, L.F.; Stanton, R.W.; Blaine, Cecil C.; Eble, C.F.; Dulong, F.T.

1991-01-01

Quartz cathodoluminescence properties and mineralogy of three sets of samples and vegetal and/ or miospore data from two sets of samples from the Upper Freeport coal bed, west-central Pennsylvania, show that detrital influence from a penecontemporaneous channel is limited to an area less than three km from the channel. The sets of samples examined include localities of the coal bed where (1) the coal is thin, split by partings, and near a penecontemporaneous fluvial channel, (2) the coal is relatively thick and located approximately three km from the channel, and (3) the coal is thick and located approximately 12 km from the channel. Samples from locality 1 (nearest the channel) have relatively high-ash yields (low-temperature ash average = 27.3% on a pyrite- and calcite-free basis) and high proportions of quartz and clay minerals. The quartz is primarily detrital, as determined by cathodoluminescent properties, and the ratio of kaolinite to illite is low. In addition, most of the plant remains and miospores indicate peat-forming plants that required low nutrient levels for growth. In contrast, samples from localities 2 and 3, from the more interior parts of the bed, contained predominantly authigenic quartz grains nd yielded low-temperature ash values of less than 14% on a pyrite- and calcite-free basis. The low-temperature ash contains low concentrations of quartz and clay minerals and the ratio of kaolinite to illite is relatively high. Although intact core was not available for paleobotanical analyses, another core collected within 1 km from locality 3 contained plant types interpreted to have required high nutrient levels for growth. These data indicate that mineral formation is dominated by authigenic processes in interior parts of the coal body. Some of the authigenic quartz may have been derived from herbaceous ferns as indicated by patterns in the palynological and paleobotanical data. In contrast, detrital processes appeared to be limited to in areas directly adjacent to the penecontemporaneous channel where the coal bed is high in ash, split by mineral-rich partings, and of little or no economic value. ?? 1991.

Deuterium Labeling Together with Contrast Variation Small-angle Neutron Scattering Suggests How Skp Captures and Releases Unfolded Outer Membrane Proteins

PubMed Central

Zaccai, Nathan R.; Sandlin, Clifford W.; Hoopes, James T.; Curtis, Joseph E.; Fleming, Patrick J.; Fleming, Karen G.; Krueger, Susan

2016-01-01

In gram-negative bacteria, the chaperone protein Skp forms specific and stable complexes with membrane proteins while they are transported across the periplasm to the outer membrane. The jellyfish-like architecture of Skp is similar to the eukaryotic and archeal prefoldins and the mitochondrial Tim chaperones, that is α-helical ‘tentacles’ extend from a β-strand ‘body’ to create an internal cavity. Contrast variation small-angle neutron scattering (SANS) experiments on Skp alone in solution and bound in two different complexes to unfolded outer membrane proteins (uOMPs), OmpA and OmpW, demonstrate that the helical tentacles of Skp bind their substrate in a clamp-like mechanism in a conformation similar to that previously observed in the apo crystal structure of Skp. Deuteration of the uOMP component combined with contrast variation analysis allowed the shapes of Skp and uOMP as well as the location of uOMP with respect to Skp to be determined in both complexes. This represents unique information that could not be obtained without deuterium labeling of the uOMPs. The data yield the first direct structural evidence that the α-helical Skp tentacles move closer together on binding its substrate and that the structure of Skp is different when binding different uOMPs. This work presents, by example, a tutorial on performing SANS experiments using both deuterium labeling and contrast variation, including SANS theory, sample preparation, data collection, sample quality validation, data analysis and structure modeling. PMID:26791979

Deuterium Labeling Together with Contrast Variation Small-Angle Neutron Scattering Suggests How Skp Captures and Releases Unfolded Outer Membrane Proteins.

PubMed

Zaccai, Nathan R; Sandlin, Clifford W; Hoopes, James T; Curtis, Joseph E; Fleming, Patrick J; Fleming, Karen G; Krueger, Susan

2016-01-01

In Gram-negative bacteria, the chaperone protein Skp forms specific and stable complexes with membrane proteins while they are transported across the periplasm to the outer membrane. The jellyfish-like architecture of Skp is similar to the eukaryotic and archaeal prefoldins and the mitochondrial Tim chaperones, that is the α-helical "tentacles" extend from a β-strand "body" to create an internal cavity. Contrast variation small-angle neutron scattering (SANS) experiments on Skp alone in solution and bound in two different complexes to unfolded outer membrane proteins (uOMPs), OmpA and OmpW, demonstrate that the helical tentacles of Skp bind their substrate in a clamp-like mechanism in a conformation similar to that previously observed in the apo crystal structure of Skp. Deuteration of the uOMP component combined with contrast variation analysis allowed the shapes of Skp and uOMP as well as the location of uOMP with respect to Skp to be determined in both complexes. This represents unique information that could not be obtained without deuterium labeling of the uOMPs. The data yield the first direct structural evidence that the α-helical Skp tentacles move closer together on binding its substrate and that the structure of Skp is different when binding different uOMPs. This work presents, by example, a tutorial on performing SANS experiments using both deuterium labeling and contrast variation, including SANS theory, sample preparation, data collection, sample quality validation, data analysis, and structure modeling. © 2016 Elsevier Inc. All rights reserved.

Sensors for isolation of anti-cancer compounds found within marine invertebrates

NASA Astrophysics Data System (ADS)

Wiegand, Gordon; LaRue, Amanda

2015-05-01

Highly evolved bacteria living within immobile marine animals are being targeted as a source of antitumor pharmaceuticals. This paper describes 2 electo-optical sensor systems developed for identifying species of tunicates and actinobacteria that live within them. Two stages of identification include 1) a benthic survey apparatus to locate species and 2) a laboratory housed cell analysis platform used to classify their bacterial micro-biome. Marine Optics Sampling- There are over 3000 species of Tunicates that thrive in diverse habitats. We use a system of cameras, GPS and the GPS/photo integration application on a PC laptop to compile a time / location stamp for each image taken during the dive survey. A shape-map of x/y coordinates of photos are stored for later identification and sampling. Flow Cytometers/cell sorters housed at The Medical University of South Carolina and The University of Maryland have been modified to produce low-noise, high signal wave forms used for bacteria analysis. We strive to describe salient contrasts between these two fundamentally different sensor systems. Accents are placed on analog transducers and initial step sensing systems and output.

Application of simple biomechanical and biochemical tests to heart valve leaflets: implications for heart valve characterization and tissue engineering.

PubMed

Huang, Hsiao-Ying S; Balhouse, Brittany N; Huang, Siyao

2012-11-01

A simple biomechanical test with real-time displacement and strain mapping is reported, which provides displacement vectors and principal strain directions during the mechanical characterization of heart valve tissues. The maps reported in the current study allow us to quickly identify the approximate strain imposed on a location in the samples. The biomechanical results show that the aortic valves exhibit stronger anisotropic mechanical behavior than that of the pulmonary valves before 18% strain equibiaxial stretching. In contrast, the pulmonary valves exhibit stronger anisotropic mechanical behavior than aortic valves beyond 28% strain equibiaxial stretching. Simple biochemical tests are also conducted. Collagens are extracted at different time points (24, 48, 72, and 120 h) at different locations in the samples. The results show that extraction time plays an important role in determining collagen concentration, in which a minimum of 72 h of extraction is required to obtain saturated collagen concentration. This work provides an easy approach for quantifying biomechanical and biochemical properties of semilunar heart valve tissues, and potentially facilitates the development of tissue engineered heart valves.

Sexual dimorphism in multiple aspects of 3D facial symmetry and asymmetry defined by spatially dense geometric morphometrics.

PubMed

Claes, Peter; Walters, Mark; Shriver, Mark D; Puts, David; Gibson, Greg; Clement, John; Baynam, Gareth; Verbeke, Geert; Vandermeulen, Dirk; Suetens, Paul

2012-08-01

Accurate measurement of facial sexual dimorphism is useful to understanding facial anatomy and specifically how faces influence, and have been influenced by, sexual selection. An important facial aspect is the display of bilateral symmetry, invoking the need to investigate aspects of symmetry and asymmetry separately when examining facial shape. Previous studies typically employed landmarks that provided only a sparse facial representation, where different landmark choices could lead to contrasting outcomes. Furthermore, sexual dimorphism is only tested as a difference of sample means, which is statistically the same as a difference in population location only. Within the framework of geometric morphometrics, we partition facial shape, represented in a spatially dense way, into patterns of symmetry and asymmetry, following a two-factor anova design. Subsequently, we investigate sexual dimorphism in symmetry and asymmetry patterns separately, and on multiple aspects, by examining (i) population location differences as well as differences in population variance-covariance; (ii) scale; and (iii) orientation. One important challenge in this approach is the proportionally high number of variables to observations necessitating the implementation of permutational and computationally feasible statistics. In a sample of gender-matched young adults (18-25 years) with self-reported European ancestry, we found greater variation in male faces than in women for all measurements. Statistically significant sexual dimorphism was found for the aspect of location in both symmetry and asymmetry (directional asymmetry), for the aspect of scale only in asymmetry (magnitude of fluctuating asymmetry) and, in contrast, for the aspect of orientation only in symmetry. Interesting interplays with hypotheses in evolutionary and developmental biology were observed, such as the selective nature of the force underpinning sexual dimorphism and the genetic independence of the structural patterns of fluctuating asymmetry. Additionally, insights into growth patterns of the soft tissue envelope of the face and underlying skull structure can also be obtained from the results. © 2012 The Authors. Journal of Anatomy © 2012 Anatomical Society.

Sexual dimorphism in multiple aspects of 3D facial symmetry and asymmetry defined by spatially dense geometric morphometrics

PubMed Central

Claes, Peter; Walters, Mark; Shriver, Mark D; Puts, David; Gibson, Greg; Clement, John; Baynam, Gareth; Verbeke, Geert; Vandermeulen, Dirk; Suetens, Paul

2012-01-01

Accurate measurement of facial sexual dimorphism is useful to understanding facial anatomy and specifically how faces influence, and have been influenced by, sexual selection. An important facial aspect is the display of bilateral symmetry, invoking the need to investigate aspects of symmetry and asymmetry separately when examining facial shape. Previous studies typically employed landmarks that provided only a sparse facial representation, where different landmark choices could lead to contrasting outcomes. Furthermore, sexual dimorphism is only tested as a difference of sample means, which is statistically the same as a difference in population location only. Within the framework of geometric morphometrics, we partition facial shape, represented in a spatially dense way, into patterns of symmetry and asymmetry, following a two-factor anova design. Subsequently, we investigate sexual dimorphism in symmetry and asymmetry patterns separately, and on multiple aspects, by examining (i) population location differences as well as differences in population variance-covariance; (ii) scale; and (iii) orientation. One important challenge in this approach is the proportionally high number of variables to observations necessitating the implementation of permutational and computationally feasible statistics. In a sample of gender-matched young adults (18–25 years) with self-reported European ancestry, we found greater variation in male faces than in women for all measurements. Statistically significant sexual dimorphism was found for the aspect of location in both symmetry and asymmetry (directional asymmetry), for the aspect of scale only in asymmetry (magnitude of fluctuating asymmetry) and, in contrast, for the aspect of orientation only in symmetry. Interesting interplays with hypotheses in evolutionary and developmental biology were observed, such as the selective nature of the force underpinning sexual dimorphism and the genetic independence of the structural patterns of fluctuating asymmetry. Additionally, insights into growth patterns of the soft tissue envelope of the face and underlying skull structure can also be obtained from the results. PMID:22702244

Epigenetic Variation in Mangrove Plants Occurring in Contrasting Natural Environment

PubMed Central

Lira-Medeiros, Catarina Fonseca; Parisod, Christian; Fernandes, Ricardo Avancini; Mata, Camila Souza; Cardoso, Monica Aires; Ferreira, Paulo Cavalcanti Gomes

2010-01-01

Background Epigenetic modifications, such as cytosine methylation, are inherited in plant species and may occur in response to biotic or abiotic stress, affecting gene expression without changing genome sequence. Laguncularia racemosa, a mangrove species, occurs in naturally contrasting habitats where it is subjected daily to salinity and nutrient variations leading to morphological differences. This work aims at unraveling how CpG-methylation variation is distributed among individuals from two nearby habitats, at a riverside (RS) or near a salt marsh (SM), with different environmental pressures and how this variation is correlated with the observed morphological variation. Principal Findings Significant differences were observed in morphological traits such as tree height, tree diameter, leaf width and leaf area between plants from RS and SM locations, resulting in smaller plants and smaller leaf size in SM plants. Methyl-Sensitive Amplified Polymorphism (MSAP) was used to assess genetic and epigenetic (CpG-methylation) variation in L. racemosa genomes from these populations. SM plants were hypomethylated (14.6% of loci had methylated samples) in comparison to RS (32.1% of loci had methylated samples). Within-population diversity was significantly greater for epigenetic than genetic data in both locations, but SM also had less epigenetic diversity than RS. Frequency-based (GST) and multivariate (βST) methods that estimate population structure showed significantly greater differentiation among locations for epigenetic than genetic data. Co-Inertia analysis, exploring jointly the genetic and epigenetic data, showed that individuals with similar genetic profiles presented divergent epigenetic profiles that were characteristic of the population in a particular environment, suggesting that CpG-methylation changes may be associated with environmental heterogeneity. Conclusions In spite of significant morphological dissimilarities, individuals of L. racemosa from salt marsh and riverside presented little genetic but abundant DNA methylation differentiation, suggesting that epigenetic variation in natural plant populations has an important role in helping individuals to cope with different environments. PMID:20436669

Malignant head and neck tumours in Radiology Department JPMC Karachi -- a tertiary care experience.

PubMed

Kadri, Shazia; Uddin, Sami; Ahmed, Naveed; Mahmood, Tariq

2015-08-01

To study age, gender and sites of malignant head and neck tumours on contrast-enhanced computed tomography and to elucidate its role. The retrospective study was conducted at the Jinnah Postgraduate Medical Centre, Karachi, and comprised data of patients with histologically proven malignant head and neck tumours reporting from February 2013 to February 2014. Contrast enhanced computed tomography with puffed cheek technique was done in cases of oral cancer, while routine contrast computed tomography was done in cases of other head and neck tumours. SPSS 19 was used for statistical analysis. A total of 100 biopsy-proven cases of malignant tumours comprised the study sample. The male: female ratio was 1.5:1 with an overall mean age of 46.4±16-76 years. . The most common histopathologically proven tumour was squamous cell carcinoma affecting oral mucosa 43(43%), followed by larynx 27(27%) and pharynx 10(10%) . Oral squamous cell carcinoma was the commonest tumour. Compute tomography scan with puffed cheek technique played a beneficial role in locating the site of primary tumour.

Photothermoelastic contrast in nanoscale infrared spectroscopy

NASA Astrophysics Data System (ADS)

Morozovska, Anna N.; Eliseev, Eugene A.; Borodinov, Nikolay; Ovchinnikova, Olga S.; Morozovsky, Nicholas V.; Kalinin, Sergei V.

2018-01-01

The contrast formation mechanism in nanoscale Infrared (IR) Spectroscopy is analyzed. The temperature distribution and elastic displacement across the illuminated T-shape boundary between two materials with different IR-radiation absorption coefficients and thermo-physical and elastic properties located on a rigid substrate are calculated self-consistently for different frequencies f ˜ (1 kHz-1 MHz) of IR-radiation modulation (fully coupled problem). Analytical expressions for the temperature and displacement profiles across the "thermo-elastic step" are derived in the decoupling approximation for f = 0 ("static limit"), and conditions for approximation validity at low frequencies of IR-modulation are established. The step height was found to be thickness-independent for thick layers and proportional to the square of the thickness for very thin films. The theoretical results will be of potential interest for applications in the scanning thermo-ionic and thermal infrared microscopies for relatively long sample thermalization times and possibly for photothermal induced resonance microscopy using optomechanical probes.

Retina-V1 model of detectability across the visual field

PubMed Central

Bradley, Chris; Abrams, Jared; Geisler, Wilson S.

2014-01-01

A practical model is proposed for predicting the detectability of targets at arbitrary locations in the visual field, in arbitrary gray scale backgrounds, and under photopic viewing conditions. The major factors incorporated into the model include (a) the optical point spread function of the eye, (b) local luminance gain control (Weber's law), (c) the sampling array of retinal ganglion cells, (d) orientation and spatial frequency–dependent contrast masking, (e) broadband contrast masking, and (f) efficient response pooling. The model is tested against previously reported threshold measurements on uniform backgrounds (the ModelFest data set and data from Foley, Varadharajan, Koh, & Farias, 2007) and against new measurements reported here for several ModelFest targets presented on uniform, 1/f noise, and natural backgrounds at retinal eccentricities ranging from 0° to 10°. Although the model has few free parameters, it is able to account quite well for all the threshold measurements. PMID:25336179

Contrasting occurrence of Chromobacterium violaceum in tropical drinking water springs of Uganda.

PubMed

Byamukama, Denis; Farnleitner, Andreas H; Kansiime, Frank; Manafi, Mohamad; Burtscher, Martina; Mach, Robert L

2005-09-01

Occurrence of Chromobacterium violaceum in six protected drinking water springs in Uganda was investigated. C. violaceum showed a contrasting occurrence, which was independent of human impact as assessed by faecal pollution indicators. It was isolated from two springs (S1 and S2) that were located close to each other (3 km) but not in the rest. In S1 C. violaceum was continuously detected, in concentrations ranging from 6 to 270 cfu 100 ml(-1), while in S2 it was detected on only one sampling occasion. C. violaceum was never detected in the investigated upper soil layers (down to 15 cm) in the immediate surroundings (50 m radius) of the springs, despite continued isolation of faecal indicators. The results of the study indicate that C. violaceum may not be ubiquitous in spring water, but could occur in significant numbers in particular potable groundwaters as an autochthonous member.

Fractal and topological sustainable methods of overcoming expected uncertainty in the radiolocation of low-contrast targets and in the processing of weak multi-dimensional signals on the background of high-intensity noise: A new direction in the statistical decision theory

NASA Astrophysics Data System (ADS)

Potapov, A. A.

2017-11-01

The main purpose of this work is to interpret the main directions of radio physics, radio engineering and radio location in “fractal” language that makes new ways and generalizations on future promising radio systems. We introduce a new kind and approach of up-to-date radiolocation: fractal-scaling or scale-invariant radiolocation. The new topologic signs and methods of detecting the low-contrast objects against the high-intensity noise background are presented. It leads to basic changes in the theoretical radiolocation structure itself and also in its mathematical apparatus. The fractal radio systems conception, sampling topology, global fractal-scaling approach and the fractal paradigm underlie the scientific direction established by the author in Russia and all over the world for the first time ever.

Sensitivity to gaze-contingent contrast increments in naturalistic movies: An exploratory report and model comparison

PubMed Central

Wallis, Thomas S. A.; Dorr, Michael; Bex, Peter J.

2015-01-01

Sensitivity to luminance contrast is a prerequisite for all but the simplest visual systems. To examine contrast increment detection performance in a way that approximates the natural environmental input of the human visual system, we presented contrast increments gaze-contingently within naturalistic video freely viewed by observers. A band-limited contrast increment was applied to a local region of the video relative to the observer's current gaze point, and the observer made a forced-choice response to the location of the target (≈25,000 trials across five observers). We present exploratory analyses showing that performance improved as a function of the magnitude of the increment and depended on the direction of eye movements relative to the target location, the timing of eye movements relative to target presentation, and the spatiotemporal image structure at the target location. Contrast discrimination performance can be modeled by assuming that the underlying contrast response is an accelerating nonlinearity (arising from a nonlinear transducer or gain control). We implemented one such model and examined the posterior over model parameters, estimated using Markov-chain Monte Carlo methods. The parameters were poorly constrained by our data; parameters constrained using strong priors taken from previous research showed poor cross-validated prediction performance. Atheoretical logistic regression models were better constrained and provided similar prediction performance to the nonlinear transducer model. Finally, we explored the properties of an extended logistic regression that incorporates both eye movement and image content features. Models of contrast transduction may be better constrained by incorporating data from both artificial and natural contrast perception settings. PMID:26057546

Can benthic foraminifera be used as bio-indicators of pollution in areas with a wide range of physicochemical variability?

NASA Astrophysics Data System (ADS)

Martins, Maria Virgínia Alves; Pinto, Anita Fernandes Souza; Frontalini, Fabrizio; da Fonseca, Maria Clara Machado; Terroso, Denise Lara; Laut, Lazaro Luiz Mattos; Zaaboub, Noureddine; da Conceição Rodrigues, Maria Antonieta; Rocha, Fernando

2016-12-01

The Ria de Aveiro, a lagoon located in the NW coast of Portugal, presents a wide range of changes to the natural hydrodynamical and physicochemical conditions induced for instance by works of port engineering and pollution. In order to evaluate the response of living benthic foraminifera to the fluctuations in physicochemical parameters and pollution (metals and TOC), eight sediment samples were collected from canals and salt pans within the Aveiro City, in four different sampling events. During the sampling events, salinity showed the most significant fluctuations among the physicochemical parameters with the maximum range of variation at Troncalhada and Santiago salt pans. Species such as Haynesina germanica, Trochammina inflata and Entzia macrescens were found inhabiting these hypersaline environments with the widest fluctuations of physicochemical parameters. In contrast, Ammonia tepida dominated zones with high concentrations of metals and organic matter and in lower salinity waters. Parameters related to benthic foraminiferal assemblages (i.e., diversity and evenness) were found to significantly decline in stations polluted by metals and characterized by higher TOC content. Foraminiferal density reduced significantly in locations with a wide range of physicochemical temporal variability. This work shows that, even under extreme conditions caused by highly variable physicochemical parameters, benthic foraminiferal assemblages might be used as valuable bioindicators of environmental stress.

Periphyton Biofilms Influence Net Methylmercury Production in an Industrially Contaminated System.

PubMed

Olsen, Todd A; Brandt, Craig C; Brooks, Scott C

2016-10-18

Mercury (Hg) methylation and methylmercury (MMHg) demethylation activity of periphyton biofilms from the industrially contaminated East Fork Poplar Creek, Tennessee (EFPC) were measured during 2014-2016 using stable Hg isotopic rate assays. 201 Hg II and MM 202 Hg were added to intact periphyton samples in ambient streamwater and the formation of MM 201 Hg and loss of MM 202 Hg were monitored over time and used to calculate first-order rate potentials for methylation and demethylation. The influences of location, temperature/season, light exposure and biofilm structure on methylation and demethylation potentials were examined. Between-site differences in net methylation for samples collected from an upstream versus downstream location were driven by differences in the demethylation rate potential (k d ). In contrast, the within-site temperature-dependent difference in net methylation was driven by changes in the methylation rate potential (k m ). Samples incubated in the dark had lower net methylation due to lower k m values than those incubated in the light. Disrupting the biofilm structure decreased k m and resulted in lower net methylation. Overall, the measured rates resulted in a net excess of MMHg generated which could account for 3.71-7.88 mg d -1 MMHg flux in EFPC and suggests intact, actively photosynthesizing periphyton biofilms harbor zones of MMHg production.

Periphyton biofilms influence net methylmercury production in an industrially contaminated system

DOE PAGES

Olsen, Todd Andrew; Brandt, Craig C.; Brooks, Scott C.

2016-09-12

Mercury (Hg) methylation and methylmercury (MMHg) demethylation activity of periphyton biofilms from East Fork Poplar Creek, Tennessee, USA (EFPC) were measured during 2014-2015 using stable Hg isotopic rate assays. 201Hg II and MM 202Hg were added to intact periphyton samples and the formation of MM 201Hg and loss of MM 202Hg were monitored over time and used to calculate first-order rate constants for methylation and demethylation, respectively. The influence of location, temperature/season, light exposure and biofilm structure on methylation and demethylation were examined. Between-site differences in net methylation for samples collected from an upstream versus downstream location were driven bymore » differences in the demethylation rate constant (k d). In contrast, the within-site seasonal difference in net methylation was driven by changes in the methylation rate constant (k m). Samples incubated in the dark had lower net methylation due to km values that were 60% less than those incubated in the light. Disrupting the biofilm structure decreased km by 50% and resulted in net demethylating conditions. Overall, the measured rates resulted in a net excess of MMHg generated which could account for 27-85% of the MMHg flux in EFPC and suggests intact, actively photosynthesizing periphyton biofilms harbor zones of MMHg production.« less

Investigating the procedural variables that determine whether rats will display negative anticipatory contrast or positive induction.

PubMed

Weatherly, Jeffrey N; Nurnberger, Jeri T; Hanson, Brent C

2005-08-31

Previous studies have demonstrated that consumption of a low-valued food substance may decrease if access to a high-valued substance will soon be available (negative anticipatory contrast). Research has also demonstrated that responding for a low-valued reinforcer may increase if responding for a high-valued reinforcer will soon be possible (positive induction). The present experiment employed rats to respond in a procedure similar to that typically used to produce negative anticipatory contrast. The goal was to determine what factors contribute to when a contrast or an induction effect will occur. Based on previous research, the influence of auditory cues, temporal delays, food deprivation, and location of substance delivery were investigated. Auditory cues and temporal delays did little to influence whether subjects increased or decreased their consumption of 1% sucrose when access to 32% sucrose was upcoming. The appearance of contrast or induction was related to level of deprivation, with deprivation promoting induction. Which effect occurred also depended on whether subjects consumed the two substances from one spout in one location (induction) or from two different spouts in two different locations (contrast). The present results help identify the procedural link(s) between these two effects. They also provide insight to why positive induction may occur (i.e., higher-order place conditioning).

Are Human Peripheral Nerves Sensitive to X-Ray Imaging?

PubMed Central

Scopel, Jonas Francisco; de Souza Queiroz, Luciano; O’Dowd, Francis Pierce; Júnior, Marcondes Cavalcante França; Nucci, Anamarli; Hönnicke, Marcelo Gonçalves

2015-01-01

Diagnostic imaging techniques play an important role in assessing the exact location, cause, and extent of a nerve lesion, thus allowing clinicians to diagnose and manage more effectively a variety of pathological conditions, such as entrapment syndromes, traumatic injuries, and space-occupying lesions. Ultrasound and nuclear magnetic resonance imaging are becoming useful methods for this purpose, but they still lack spatial resolution. In this regard, recent phase contrast x-ray imaging experiments of peripheral nerve allowed the visualization of each nerve fiber surrounded by its myelin sheath as clearly as optical microscopy. In the present study, we attempted to produce high-resolution x-ray phase contrast images of a human sciatic nerve by using synchrotron radiation propagation-based imaging. The images showed high contrast and high spatial resolution, allowing clear identification of each fascicle structure and surrounding connective tissue. The outstanding result is the detection of such structures by phase contrast x-ray tomography of a thick human sciatic nerve section. This may further enable the identification of diverse pathological patterns, such as Wallerian degeneration, hypertrophic neuropathy, inflammatory infiltration, leprosy neuropathy and amyloid deposits. To the best of our knowledge, this is the first successful phase contrast x-ray imaging experiment of a human peripheral nerve sample. Our long-term goal is to develop peripheral nerve imaging methods that could supersede biopsy procedures. PMID:25757086

A Note on Maximized Posttest Contrasts.

ERIC Educational Resources Information Center

Williams, John D.

1979-01-01

Hollingsworth recently showed a posttest contrast for analysis of variance situations that, for equal sample sizes, had several favorable qualities. However, for unequal sample sizes, the contrast fails to achieve status as a maximized contrast; thus, separate testing of the contrast is required. (Author/GSK)

Contrasting Public Opinion Dynamics and Emotional Response during Crisis

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

Volkova, Svitlana; Chetviorkin, Ilia; Arendt, Dustin L.

We propose an approach for contrasting spatiotemporal dynamics of public opinions expressed toward targeted entities, also known as stance detection task, in Russia and Ukraine during crisis. Our analysis relies on a novel corpus constructed from posts on the VKontakte social network, centered on local public opinion of the ongoing Russian-Ukrainian crisis, along with newly annotated resources for predicting expressions of fine-grained emotions including joy, sadness, disgust, anger, surprise and fear. Akin to prior work on sentiment analysis we align traditional public opinion polls with aggregated automatic predictions of sentiments for contrastive geo-locations. We report interesting observations on emotional responsemore » and stance variations across geo-locations. Some of our findings contradict stereotypical misconceptions imposed by media, for example, we found posts from Ukraine that do not support Euromaidan but support Putin, and posts from Russia that are against Putin but in favor USA. Furthermore, we are the first to demonstrate contrastive stance variations over time across geo-locations using storyline visualization technique.« less

Development of a depth-integrated sample arm (DISA) to reduce solids stratification bias in stormwater sampling

USGS Publications Warehouse

Selbig, William R.; ,; Roger T. Bannerman,

2011-01-01

A new depth-integrated sample arm (DISA) was developed to improve the representation of solids in stormwater, both organic and inorganic, by collecting a water quality sample from multiple points in the water column. Data from this study demonstrate the idea of vertical stratification of solids in storm sewer runoff. Concentrations of suspended sediment in runoff were statistically greater using a fixed rather than multipoint collection system. Median suspended sediment concentrations measured at the fixed location (near the pipe invert) were approximately double those collected using the DISA. In general, concentrations and size distributions of suspended sediment decreased with increasing vertical distance from the storm sewer invert. Coarser particles tended to dominate the distribution of solids near the storm sewer invert as discharge increased. In contrast to concentration and particle size, organic material, to some extent, was distributed homogenously throughout the water column, likely the result of its low specific density, which allows for thorough mixing in less turbulent water.

Development of a depth-integrated sample arm to reduce solids stratification bias in stormwater sampling.

PubMed

Selbig, William R; Bannerman, Roger T

2011-04-01

A new depth-integrated sample arm (DISA) was developed to improve the representation of solids in stormwater, both organic and inorganic, by collecting a water quality sample from multiple points in the water column. Data from this study demonstrate the idea of vertical stratification of solids in storm sewer runoff. Concentrations of suspended sediment in runoff were statistically greater using a fixed rather than multipoint collection system. Median suspended sediment concentrations measured at the fixed location (near the pipe invert) were approximately double those collected using the DISA. In general, concentrations and size distributions of suspended sediment decreased with increasing vertical distance from the storm sewer invert. Coarser particles tended to dominate the distribution of solids near the storm sewer invert as discharge increased. In contrast to concentration and particle size, organic material, to some extent, was distributed homogenously throughout the water column, likely the result of its low specific density, which allows for thorough mixing in less turbulent water.

Development of a depth-integrated sample arm to reduce solids stratification bias in stormwater sampling

USGS Publications Warehouse

Selbig, W.R.; Bannerman, R.T.

2011-01-01

A new depth-integrated sample arm (DISA) was developed to improve the representation of solids in stormwater, both organic and inorganic, by collecting a water quality sample from multiple points in the water column. Data from this study demonstrate the idea of vertical stratification of solids in storm sewer runoff. Concentrations of suspended sediment in runoff were statistically greater using a fixed rather than multipoint collection system. Median suspended sediment concentrations measured at the fixed location (near the pipe invert) were approximately double those collected using the DISA. In general, concentrations and size distributions of suspended sediment decreased with increasing vertical distance from the storm sewer invert. Coarser particles tended to dominate the distribution of solids near the storm sewer invert as discharge increased. In contrast to concentration and particle size, organic material, to some extent, was distributed homogenously throughout the water column, likely the result of its low specific density, which allows for thorough mixing in less turbulent water. ?? 2010 Publishing Technology.

Correlations Between Life-Detection Techniques and Implications for Sampling Site Selection in Planetary Analog Missions

NASA Astrophysics Data System (ADS)

Gentry, Diana M.; Amador, Elena S.; Cable, Morgan L.; Chaudry, Nosheen; Cullen, Thomas; Jacobsen, Malene B.; Murukesan, Gayathri; Schwieterman, Edward W.; Stevens, Adam H.; Stockton, Amanda; Tan, George; Yin, Chang; Cullen, David C.; Geppert, Wolf

2017-10-01

We conducted an analog sampling expedition under simulated mission constraints to areas dominated by basaltic tephra of the Eldfell and Fimmvörðuháls lava fields (Iceland). Sites were selected to be "homogeneous" at a coarse remote sensing resolution (10-100 m) in apparent color, morphology, moisture, and grain size, with best-effort realism in numbers of locations and replicates. Three different biomarker assays (counting of nucleic-acid-stained cells via fluorescent microscopy, a luciferin/luciferase assay for adenosine triphosphate, and quantitative polymerase chain reaction (qPCR) to detect DNA associated with bacteria, archaea, and fungi) were characterized at four nested spatial scales (1 m, 10 m, 100 m, and >1 km) by using five common metrics for sample site representativeness (sample mean variance, group F tests, pairwise t tests, and the distribution-free rank sum H and u tests). Correlations between all assays were characterized with Spearman's rank test. The bioluminescence assay showed the most variance across the sites, followed by qPCR for bacterial and archaeal DNA; these results could not be considered representative at the finest resolution tested (1 m). Cell concentration and fungal DNA also had significant local variation, but they were homogeneous over scales of >1 km. These results show that the selection of life detection assays and the number, distribution, and location of sampling sites in a low biomass environment with limited a priori characterization can yield both contrasting and complementary results, and that their interdependence must be given due consideration to maximize science return in future biomarker sampling expeditions.

Contrasting patterns of coral bleaching susceptibility in 2010 suggest an adaptive response to thermal stress.

PubMed

Guest, James R; Baird, Andrew H; Maynard, Jeffrey A; Muttaqin, Efin; Edwards, Alasdair J; Campbell, Stuart J; Yewdall, Katie; Affendi, Yang Amri; Chou, Loke Ming

2012-01-01

Coral bleaching events vary in severity, however, to date, the hierarchy of susceptibility to bleaching among coral taxa has been consistent over a broad geographic range and among bleaching episodes. Here we examine the extent of spatial and temporal variation in thermal tolerance among scleractinian coral taxa and between locations during the 2010 thermally induced, large-scale bleaching event in South East Asia. Surveys to estimate the bleaching and mortality indices of coral genera were carried out at three locations with contrasting thermal and bleaching histories. Despite the magnitude of thermal stress being similar among locations in 2010, there was a remarkable contrast in the patterns of bleaching susceptibility. Comparisons of bleaching susceptibility within coral taxa and among locations revealed no significant differences between locations with similar thermal histories, but significant differences between locations with contrasting thermal histories (Friedman = 34.97; p<0.001). Bleaching was much less severe at locations that bleached during 1998, that had greater historical temperature variability and lower rates of warming. Remarkably, Acropora and Pocillopora, taxa that are typically highly susceptible, although among the most susceptible in Pulau Weh (Sumatra, Indonesia) where respectively, 94% and 87% of colonies died, were among the least susceptible in Singapore, where only 5% and 12% of colonies died. The pattern of susceptibility among coral genera documented here is unprecedented. A parsimonious explanation for these results is that coral populations that bleached during the last major warming event in 1998 have adapted and/or acclimatised to thermal stress. These data also lend support to the hypothesis that corals in regions subject to more variable temperature regimes are more resistant to thermal stress than those in less variable environments.

Contrasting Patterns of Coral Bleaching Susceptibility in 2010 Suggest an Adaptive Response to Thermal Stress

PubMed Central

Guest, James R.; Baird, Andrew H.; Maynard, Jeffrey A.; Muttaqin, Efin; Edwards, Alasdair J.; Campbell, Stuart J.; Yewdall, Katie; Affendi, Yang Amri; Chou, Loke Ming

2012-01-01

Background Coral bleaching events vary in severity, however, to date, the hierarchy of susceptibility to bleaching among coral taxa has been consistent over a broad geographic range and among bleaching episodes. Here we examine the extent of spatial and temporal variation in thermal tolerance among scleractinian coral taxa and between locations during the 2010 thermally induced, large-scale bleaching event in South East Asia. Methodology/Principal Findings Surveys to estimate the bleaching and mortality indices of coral genera were carried out at three locations with contrasting thermal and bleaching histories. Despite the magnitude of thermal stress being similar among locations in 2010, there was a remarkable contrast in the patterns of bleaching susceptibility. Comparisons of bleaching susceptibility within coral taxa and among locations revealed no significant differences between locations with similar thermal histories, but significant differences between locations with contrasting thermal histories (Friedman = 34.97; p<0.001). Bleaching was much less severe at locations that bleached during 1998, that had greater historical temperature variability and lower rates of warming. Remarkably, Acropora and Pocillopora, taxa that are typically highly susceptible, although among the most susceptible in Pulau Weh (Sumatra, Indonesia) where respectively, 94% and 87% of colonies died, were among the least susceptible in Singapore, where only 5% and 12% of colonies died. Conclusions/Significance The pattern of susceptibility among coral genera documented here is unprecedented. A parsimonious explanation for these results is that coral populations that bleached during the last major warming event in 1998 have adapted and/or acclimatised to thermal stress. These data also lend support to the hypothesis that corals in regions subject to more variable temperature regimes are more resistant to thermal stress than those in less variable environments. PMID:22428027

Utility of contrast-enhanced computed tomography in the evaluation of canine insulinoma location.

PubMed

Buishand, Floryne O; Vilaplana Grosso, Federico R; Kirpensteijn, Jolle; van Nimwegen, Sebastiaan A

2018-06-05

To determine 1) the sensitivity of contrast-enhanced CT (CECT) for detection of primary canine insulinomas and metastases 2) the sensitivity of CECT to locate canine insulinomas within the pancreas and 3) the CECT attenuation pattern of canine insulinomas and post-contrast phase in which insulinomas have the best visibility. A retrospective review was performed of the medical records of 27 canine insulinoma patients. Simultaneous occurrence of blood glucose < 3.5 mmol/L (reference interval: 4.2-5.8 mmol/L) and plasma insulin > 10 mIU/L (reference interval: 1.4-24.5 mIU/L) were considered diagnostic for insulinoma. The dogs had a mean age of 9.0 ± 1.7 (SD) years and comprised 11 males and 17 females. Using CECT-scans, 26/27 insulinomas were successfully detected. However, CECT-scans predicted the correct location of insulinomas within the pancreas in only 14/27 dogs. In 9/13 inaccurately located insulinoma cases, the location error was major. There was no significant difference between triple, double and single-phase CECT-scans with location accuracies of 54%, 50% and 50%, respectively. Also, there was no specific post-contrast phase in which insulinomas could be visualised best. Detection of lymph node metastases with CECT-scans had a sensitivity of 67% (10/15 lymph node metastases). Detection of liver metastases had a sensitivity of 75% (6/8 liver metastases). This study highlights that major location errors mainly occurred if single- or double-phase CECT-scans were used (6/9 cases). It is suggested that triple-phase CECT-scans have superior outcome over single- or double-phase CECT-scans in pre-operative imaging of canine insulinomas.

Association between a variation in the phosphodiesterase 4D gene and bone mineral density.

PubMed

Reneland, Richard H; Mah, Steven; Kammerer, Stefan; Hoyal, Carolyn R; Marnellos, George; Wilson, Scott G; Sambrook, Philip N; Spector, Tim D; Nelson, Matthew R; Braun, Andreas

2005-03-07

Fragility fractures caused by osteoporosis are a major cause of morbidity and mortality in aging populations. Bone mineral density (BMD) is a useful surrogate marker for risk of fracture and is a highly heritable trait. The genetic variants underlying this genetic contribution are largely unknown. We performed a large-scale association study investigating more than 25,000 single nucleotide polymorphisms (SNPs) located within 16,000 genes. Allele frequencies were estimated in contrasting DNA pools from white females selected for low (<0.87 g/cm2, n = 319) and high (> 1.11 g/cm2, n = 321) BMD at the lumbar spine. Significant findings were verified in two additional sample collections. Based on allele frequency differences between DNA pools and subsequent individual genotyping, one of the candidate loci indicated was the phosphodiesterase 4D (PDE4D) gene region on chromosome 5q12. We subsequently tested the marker SNP, rs1498608, in a second sample of 138 white females with low (<0.91 g/cm2) and 138 females with high (>1.04 g/cm2) lumbar spine BMD. Odds ratios were 1.5 (P = 0.035) in the original sample and 2.1 (P = 0.018) in the replication sample. Association fine mapping with 80 SNPs located within 50 kilobases of the marker SNP identified a 20 kilobase region of association containing exon 6 of PDE4D. In a second, family-based replication sample with a preponderance of females with low BMD, rs1498608 showed an opposite relationship with BMD at different sites (p = 0.00044-0.09). We also replicated the previously reported association of the Ser37Ala polymorphism in BMP2, known to interact biologically with PDE4D, with BMD. This study indicates that variants in the gene encoding PDE4D account for some of the genetic contribution to bone mineral density variation in humans. The contrasting results from different samples indicate that the effect may be context-dependent. PDE4 inhibitors have been shown to increase bone mass in normal and osteopenic mice, but up until now there have been no reports implicating any member of the PDE4 gene family in human osteoporosis.

Preliminary Results from Downhole Osmotic Samplers in a Gas Tracer Injection Experiment in the Upper Oceanic Crust on the Eastern Flank of the Juan de Fuca Ridge.

NASA Astrophysics Data System (ADS)

de Jong, M. T.; Clark, J. F.; Neira, N. M.; Fisher, A. T.; Wheat, C. G.

2015-12-01

We present results from a gas tracer injection experiment in the ocean crust on the eastern flank of the Juan de Fuca Ridge, in an area of hydrothermal circulation. Sulfur hexafluoride (SF6) tracer was injected in Hole 1362B in 2010, during IODP Expedition 327. Fluid samples were subsequently collected from a borehole observatory (CORK) installed in this hole and similar CORKs in three additional holes (1026B, 1362A, and 1301A), located 300 to 500 m away. This array of holes is located on 3.5 My old seafloor, as an array oriented subparallel to the Endeavor Segment of Juan de Fuca Ridge. Borehole fluid samples were collected in copper coils using osmotic pumps. In addition to pumps at seafloor wellheads, downhole sampling pumps were installed in the perforated casing in the upper ocean crust. These downhole samplers were intended to produce a high-resolution continuous record of tracer concentrations, including records from the first year after tracer injection in Holes 1362A and 1362B. In contrast, wellhead samplers were not installed on these CORKs holes until 2011, and wellhead records from all CORKs have a record gap of up to one year, because of a delayed expedition in 2012. The downhole samples were recovered with the submersible Alvin in August 2014. SF6 concentrations in downhole samples recovered in 2014 are generally consistent with data obtained from wellhead samples. Of particular interest are the results from Hole 1362B, where a seafloor valve was opened and closed during various recovery expeditions. High resolution tracer curves produced from the 1362B downhole samples confirm that these operations produced an SF6 breakthrough curve corresponding to a classic push-pull test used to evaluate contaminant field locations in terrestrial setting. Complete analyses of downhole samples from these CORKs are expected to produce high-resolution breakthrough curves that will allow more precise analysis and modeling of hydrothermal flow in the study area.

Basic statistics of PM2.5 and PM10 in the atmosphere of Mexico City.

PubMed

Vega, E; Reyes, E; Sánchez, G; Ortiz, E; Ruiz, M; Chow, J; Watson, J; Edgerton, S

2002-03-27

The high levels of fine particulate matter in Mexico City are of concern since they may induce severe public health effects as well as the attenuation of visible light. Sequential filter samplers were used at six different sites from 23 February to 22 March 1997. The sampling campaign was carried out as part of the project 'Investigación sobre Materia Particulada y Deterioro Atmosferico-Aerosol and Visibility Evaluation Research'. This research was a cooperative project sponsored by PEMEX and by the US Department of Energy. Sampling sites represent the different land uses along the city, the northwest station, Tlalnepantla, is located in a mixed medium income residential and industrial area. The northeast station, Xalostoc, is located in a highly industrialized area, Netzahualcoyotl is located in a mixed land use area, mainly commercial and residential. Station La Merced is located in the commercial and administrative district downtown. The southwest station is located in the Pedregal de San Angel, in a high-income neighborhood, and the southeast station located in Cerro de la Estrella is a mixed medium income residential and commercial area. Samples were collected four times a day in Cerro de la Estrella (CES), La Merced (MER) and Xalostoc (XAL) with sampling periods of 6 h. In Pedregal (PED), Tlalnepantla (TLA) and Netzahualcoyot1 (NEZ) sampling periods were every 24 h. In this paper the basic statistics of PM2.5 and PM10 mass concentrations are presented. The average results showed that 49, 61, 46, 57, 51 and 44% of the PM10 consisted of PM2.5 for CES, MER, XAL, PED, TLA and NEZ, respectively. The 24-h average highest concentrations of PM25 and PM10 were registered at NEZ (184 and 267 microg/m3) and the lowest at PED (22 and 39 microg/m3). The highest PM10 correlations were between XAL-CES (0.79), PED-TLA (0.80). In contrast, the highest PM2.5 correlations were between CES-PED (0.74), MER-CES (0.73) and TLA-PED (0.72), showing a lower correlation than the PM10 one. The results of the PM10 from 12.00 to 18.00 h at CES and MER presented the highest variability and also the highest median concentrations, meanwhile XAL showed them from 06.00 to 12.00 h. The highest variability and median concentrations of PM2.5 were from 06.00 to 12.00 h for the three stations.

Structural molecular biology: Recent results from neutron diffraction

NASA Astrophysics Data System (ADS)

Timmins, Peter A.

1995-02-01

Neutron diffraction is of importance in structural biology at several different levels of resolution. In most cases the unique possibility arising from deuterium labelling or contrast variation is of fundamental importance in providing information complementary to that which can be obtained from X-ray diffraction. At high resolution, neutron crystallography of proteins allows the location of hydrogen atoms in the molecule or of the hydration water, both of which may be central to biological activity. A major difficulty in this field has been the poor signal-to-noise ratio of the data arising not only from relatively low beam intensities and small crystals but, most importantly from the incoherent background due to hydrogen atoms in the sample. Modern methods of molecular biology now offer ways of producing fully deuterated proteins by cloning in bacteria grown on fully deuterated media. At a slightly lower resolution, there are a number of systems which may be ordered in one or two dimensions. This is the case in the purple membrane where neutron diffraction with deuterium labelling has complemented high resolution electron diffraction. Finally there is a class of very large macromolecular systems which can be crystallised and have been studied by X-ray diffraction but in which part of the structure is locally disordered and usually has insufficient contrast to be seen with X-rays. In this case the use of H 2O/D 2O contrast variation allows these components to be located. Examples of this are the nucleic acid in virus structures and detergent bound to membrane proteins.

Remarkable Reproducibility of Enzyme Activity Profiles in Tomato Fruits Grown under Contrasting Environments Provides a Roadmap for Studies of Fruit Metabolism1[W][OPEN

PubMed Central

Biais, Benoît; Bénard, Camille; Beauvoit, Bertrand; Colombié, Sophie; Prodhomme, Duyên; Ménard, Guillaume; Bernillon, Stéphane; Gehl, Bernadette; Gautier, Hélène; Ballias, Patricia; Mazat, Jean-Pierre; Sweetlove, Lee; Génard, Michel; Gibon, Yves

2014-01-01

To assess the influence of the environment on fruit metabolism, tomato (Solanum lycopersicum ‘Moneymaker’) plants were grown under contrasting conditions (optimal for commercial, water limited, or shaded production) and locations. Samples were harvested at nine stages of development, and 36 enzyme activities of central metabolism were measured as well as protein, starch, and major metabolites, such as hexoses, sucrose, organic acids, and amino acids. The most remarkable result was the high reproducibility of enzyme activities throughout development, irrespective of conditions or location. Hierarchical clustering of enzyme activities also revealed tight relationships between metabolic pathways and phases of development. Thus, cell division was characterized by high activities of fructokinase, glucokinase, pyruvate kinase, and tricarboxylic acid cycle enzymes, indicating ATP production as a priority, whereas cell expansion was characterized by enzymes involved in the lower part of glycolysis, suggesting a metabolic reprogramming to anaplerosis. As expected, enzymes involved in the accumulation of sugars, citrate, and glutamate were strongly increased during ripening. However, a group of enzymes involved in ATP production, which is probably fueled by starch degradation, was also increased. Metabolites levels seemed more sensitive than enzymes to the environment, although such differences tended to decrease at ripening. The integration of enzyme and metabolite data obtained under contrasting growth conditions using principal component analysis suggests that, with the exceptions of alanine amino transferase and glutamate and malate dehydrogenase and malate, there are no links between single enzyme activities and metabolite time courses or levels. PMID:24474652

Reducing Spatial Uncertainty Through Attentional Cueing Improves Contrast Sensitivity in Regions of the Visual Field With Glaucomatous Defects

PubMed Central

Phu, Jack; Kalloniatis, Michael; Khuu, Sieu K.

2018-01-01

Purpose Current clinical perimetric test paradigms present stimuli randomly to various locations across the visual field (VF), inherently introducing spatial uncertainty, which reduces contrast sensitivity. In the present study, we determined the extent to which spatial uncertainty affects contrast sensitivity in glaucoma patients by minimizing spatial uncertainty through attentional cueing. Methods Six patients with open-angle glaucoma and six healthy subjects underwent laboratory-based psychophysical testing to measure contrast sensitivity at preselected locations at two eccentricities (9.5° and 17.5°) with two stimulus sizes (Goldmann sizes III and V) under different cueing conditions: 1, 2, 4, or 8 points verbally cued. Method of Constant Stimuli and a single-interval forced-choice procedure were used to generate frequency of seeing (FOS) curves at locations with and without VF defects. Results At locations with VF defects, cueing minimizes spatial uncertainty and improves sensitivity under all conditions. The effect of cueing was maximal when one point was cued, and rapidly diminished when more points were cued (no change to baseline with 8 points cued). The slope of the FOS curve steepened with reduced spatial uncertainty. Locations with normal sensitivity in glaucomatous eyes had similar performance to that of healthy subjects. There was a systematic increase in uncertainty with the depth of VF loss. Conclusions Sensitivity measurements across the VF are negatively affected by spatial uncertainty, which increases with greater VF loss. Minimizing uncertainty can improve sensitivity at locations of deficit. Translational Relevance Current perimetric techniques introduce spatial uncertainty and may therefore underestimate sensitivity in regions of VF loss. PMID:29600116

Macrophages and dendritic cells in the rat meninges and choroid plexus: three-dimensional localisation by environmental scanning electron microscopy and confocal microscopy.

PubMed

McMenamin, Paul G; Wealthall, Rosamund J; Deverall, Marie; Cooper, Stephanie J; Griffin, Brendan

2003-09-01

The present investigation provides novel information on the topographical distribution of macrophages and dendritic cells (DCs) in normal meninges and choroid plexus of the rat central nervous system (CNS). Whole-mounts of meninges and choroid plexus of Lewis rats were incubated with various anti-leucocyte monoclonal antibodies and either visualised with gold-conjugated secondary antibody followed by silver enhancement and subsequent examination by environmental scanning electron microscopy or by the use of fluorochromes and confocal microscopy. Large numbers of MHC class II(+) putative DCs were identified on the internal or subarachnoid aspect of dural whole-mounts, on the surface of the cortex (pia/arachnoid) and on the surface of the choroid plexus. Occupation of these sites would allow DCs access to cerebrospinal fluid (CSF) and therefore allow antigens into the subarachnoid space and ventricles. By contrast, macrophages were less evident at sites exposed to CSF and were more frequently located within the connective tissue of the dura/arachnoid and choroid plexus stroma and also in a sub-pial location. The present data suggest that DC may be strategically located within the CNS to sample CSF-borne antigens. Furthermore, the data suggest that CNS tissue samples collected without careful removal of the meninges may inadvertently be contaminated by DCs and meningeal macrophages.

Foveal analysis and peripheral selection during active visual sampling

PubMed Central

Ludwig, Casimir J. H.; Davies, J. Rhys; Eckstein, Miguel P.

2014-01-01

Human vision is an active process in which information is sampled during brief periods of stable fixation in between gaze shifts. Foveal analysis serves to identify the currently fixated object and has to be coordinated with a peripheral selection process of the next fixation location. Models of visual search and scene perception typically focus on the latter, without considering foveal processing requirements. We developed a dual-task noise classification technique that enables identification of the information uptake for foveal analysis and peripheral selection within a single fixation. Human observers had to use foveal vision to extract visual feature information (orientation) from different locations for a psychophysical comparison. The selection of to-be-fixated locations was guided by a different feature (luminance contrast). We inserted noise in both visual features and identified the uptake of information by looking at correlations between the noise at different points in time and behavior. Our data show that foveal analysis and peripheral selection proceeded completely in parallel. Peripheral processing stopped some time before the onset of an eye movement, but foveal analysis continued during this period. Variations in the difficulty of foveal processing did not influence the uptake of peripheral information and the efficacy of peripheral selection, suggesting that foveal analysis and peripheral selection operated independently. These results provide important theoretical constraints on how to model target selection in conjunction with foveal object identification: in parallel and independently. PMID:24385588

Modeling photosynthesis of Spartina alterniflora (smooth cordgrass) impacted by the Deepwater Horizon oil spill using Bayesian inference

NASA Astrophysics Data System (ADS)

Wu, Wei; Biber, Patrick D.; Peterson, Mark S.; Gong, Chongfeng

2012-12-01

To study the impact of the Deepwater Horizon oil spill on photosynthesis of coastal salt marsh plants in Mississippi, we developed a hierarchical Bayesian (HB) model based on field measurements collected from July 2010 to November 2011. We sampled three locations in Davis Bayou, Mississippi (30.375°N, 88.790°W) representative of a range of oil spill impacts. Measured photosynthesis was negative (respiration only) at the heavily oiled location in July 2010 only, and rates started to increase by August 2010. Photosynthesis at the medium oiling location was lower than at the control location in July 2010 and it continued to decrease in September 2010. During winter 2010-2011, the contrast between the control and the two impacted locations was not as obvious as in the growing season of 2010. Photosynthesis increased through spring 2011 at the three locations and decreased starting with October at the control location and a month earlier (September) at the impacted locations. Using the field data, we developed an HB model. The model simulations agreed well with the measured photosynthesis, capturing most of the variability of the measured data. On the basis of the posteriors of the parameters, we found that air temperature and photosynthetic active radiation positively influenced photosynthesis whereas the leaf stress level negatively affected photosynthesis. The photosynthesis rates at the heavily impacted location had recovered to the status of the control location about 140 days after the initial impact, while the impact at the medium impact location was never severe enough to make photosynthesis significantly lower than that at the control location over the study period. The uncertainty in modeling photosynthesis rates mainly came from the individual and micro-site scales, and to a lesser extent from the leaf scale.

Spatial covert attention increases contrast sensitivity across the CSF: support for signal enhancement

NASA Technical Reports Server (NTRS)

Carrasco, M.; Penpeci-Talgar, C.; Eckstein, M.

2000-01-01

This study is the first to report the benefits of spatial covert attention on contrast sensitivity in a wide range of spatial frequencies when a target alone was presented in the absence of a local post-mask. We used a peripheral precue (a small circle indicating the target location) to explore the effects of covert spatial attention on contrast sensitivity as assessed by orientation discrimination (Experiments 1-4), detection (Experiments 2 and 3) and localization (Experiment 3) tasks. In all four experiments the target (a Gabor patch ranging in spatial frequency from 0.5 to 10 cpd) was presented alone in one of eight possible locations equidistant from fixation. Contrast sensitivity was consistently higher for peripherally- than for neutrally-cued trials, even though we eliminated variables (distracters, global masks, local masks, and location uncertainty) that are known to contribute to an external noise reduction explanation of attention. When observers were presented with vertical and horizontal Gabor patches an external noise reduction signal detection model accounted for the cueing benefit in a discrimination task (Experiment 1). However, such a model could not account for this benefit when location uncertainty was reduced, either by: (a) Increasing overall performance level (Experiment 2); (b) increasing stimulus contrast to enable fine discriminations of slightly tilted suprathreshold stimuli (Experiment 3); and (c) presenting a local post-mask (Experiment 4). Given that attentional benefits occurred under conditions that exclude all variables predicted by the external noise reduction model, these results support the signal enhancement model of attention.

Contrast enhanced spectroscopic optical coherence tomography

NASA Technical Reports Server (NTRS)

Xu, Chenyang (Inventor); Boppart, Stephen A. (Inventor)

2010-01-01

A method of forming an image of a sample includes performing SOCT on a sample. The sample may include a contrast agent, which may include an absorbing agent and/or a scattering agent. A method of forming an image of tissue may include selecting a contrast agent, delivering the contrast agent to the tissue, acquiring SOCT data from the tissue, and converting the SOCT data into an image. The contributions to the SOCT data of an absorbing agent and a scattering agent in a sample may be quantified separately.

What is the optimum sample size for the study of peatland testate amoeba assemblages?

PubMed

Mazei, Yuri A; Tsyganov, Andrey N; Esaulov, Anton S; Tychkov, Alexander Yu; Payne, Richard J

2017-10-01

Testate amoebae are widely used in ecological and palaeoecological studies of peatlands, particularly as indicators of surface wetness. To ensure data are robust and comparable it is important to consider methodological factors which may affect results. One significant question which has not been directly addressed in previous studies is how sample size (expressed here as number of Sphagnum stems) affects data quality. In three contrasting locations in a Russian peatland we extracted samples of differing size, analysed testate amoebae and calculated a number of widely-used indices: species richness, Simpson diversity, compositional dissimilarity from the largest sample and transfer function predictions of water table depth. We found that there was a trend for larger samples to contain more species across the range of commonly-used sample sizes in ecological studies. Smaller samples sometimes failed to produce counts of testate amoebae often considered minimally adequate. It seems likely that analyses based on samples of different sizes may not produce consistent data. Decisions about sample size need to reflect trade-offs between logistics, data quality, spatial resolution and the disturbance involved in sample extraction. For most common ecological applications we suggest that samples of more than eight Sphagnum stems are likely to be desirable. Copyright © 2017 Elsevier GmbH. All rights reserved.

Effects of iodinated contrast agent, xylocaine and gadolinium concentration on the signal emitted in magnetic resonance arthrography: a samples study*

PubMed Central

da Silva, Yvana Lopes Pinheiro; Costa, Rita Zanlorensi Visneck; Pinho, Kátia Elisa Prus; Ferreira, Ricardo Rabello; Schuindt, Sueliton Miyamoto

2015-01-01

Objective To investigate the effects of dilution of paramagnetic contrast agent with iodinated contrast and xylocaine on the signal intensity during magnetic resonance arthrography, and to improve the paramagnetic contrast agent concentration utilized in this imaging modality. Materials and Methods Samples specially prepared for the study with three different concentrations of paramagnetic contrast agent diluted in saline, iodinated contrast agent and xylocaine were imaged with fast spin echo T1-weighted sequences with fat saturation. The samples were placed into flasks and graphical analysis of the signal intensity was performed as a function of the paramagnetic contrast concentration. Results As compared with samples of equal concentrations diluted only with saline, the authors have observed an average signal intensity decrease of 20.67% for iodinated contrast agent, and of 28.34% for xylocaine. However, the increased gadolinium concentration in the samples caused decrease in signal intensity with all the dilutions. Conclusion Minimizing the use of iodinated contrast media and xylocaine and/or the use of a gadolinium concentration of 2.5 mmol/L diluted in saline will improve the sensitivity of magnetic resonance arthrography. PMID:25987746

Learning to identify contrast-defined letters in peripheral vision

PubMed Central

Chung, Susana T.L.; Levi, Dennis M.; Li, Roger W.

2009-01-01

Performance for identifying luminance-defined letters in peripheral vision improves with training. The purpose of the present study was to examine whether performance for identifying contrast-defined letters also improves with training in peripheral vision, and whether any improvement transfers to luminance-defined letters. Eight observers were trained to identify contrast-defined letters presented singly at 10° eccentricity in the inferior visual field. Before and after training, we measured observers’ thresholds for identifying luminance-defined and contrast-defined letters, embedded within a field of white luminance noise (maximum luminance contrast = 0, 0.25, and 0.5), at the same eccentric location. Each training session consisted of 10 blocks (100 trials per block) of identifying contrast-defined letters at a background noise contrast of 0.5. Letters (x-height = 4.2°) were the 26 lowercase letters of the Times-Roman alphabet. Luminance-defined letters were generated by introducing a luminance difference between the stimulus letter and its mid-gray background. The background noise covered both the letter and its background. Contrast-defined letters were generated by introducing a differential noise contrast between the group of pixels that made up the stimulus letter and the group of pixels that made up the background. Following training, observers showed a significant reduction in threshold for identifying contrast-defined letters (p < 0.0001). Averaged across observers and background noise contrasts, the reduction was 25.8%, with the greatest reduction (32%) occurring at the trained background noise contrast. There was virtually no transfer of improvement to luminance-defined letters, or to an untrained letter size (2× original), or an untrained retinal location (10° superior field). In contrast, learning transferred completely to the untrained contralateral eye. Our results show that training improves performance for identifying contrast-defined letters in peripheral vision. This perceptual learning effect seems to be stimulus-specific, as it shows no transfer to the identification of luminance-defined letters. The complete interocular transfer, and the retinotopic (retinal location) and size specificity of the learning effect are consistent with the properties of neurons in early visual area V2. PMID:16337252

THREE-DIMENSIONAL MODELING OF THE DYNAMICS OF THERAPEUTIC ULTRASOUND CONTRAST AGENTS

PubMed Central

Hsiao, Chao-Tsung; Lu, Xiaozhen; Chahine, Georges

2010-01-01

A 3-D thick-shell contrast agent dynamics model was developed by coupling a finite volume Navier-Stokes solver and a potential boundary element method flow solver to simulate the dynamics of thick-shelled contrast agents subjected to pressure waves. The 3-D model was validated using a spherical thick-shell model validated by experimental observations. We then used this model to study shell break-up during nonspherical deformations resulting from multiple contrast agent interaction or the presence of a nearby solid wall. Our simulations indicate that the thick viscous shell resists the contrast agent from forming a re-entrant jet, as normally observed for an air bubble oscillating near a solid wall. Instead, the shell thickness varies significantly from location to location during the dynamics, and this could lead to shell break-up caused by local shell thinning and stretching. PMID:20950929

Determination of the Electrical Junction in Cu(In, Ga)Se2 and Cu2ZnSnSe4 Solar Cells with 20-nm Spatial Resolution

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

Xiao, Chuanxiao; Jiang, Chun-Sheng; Moutinho, Helio

2016-11-21

We located the electrical junction (EJ) of Cu(In, Ga)Se2 (CIGS) and Cu2ZnSnSe4 (CZTS) solar cells with ~20-nm accuracy using a scanning capacitance spectroscopy (SCS) technique. A procedure was developed to prepare the cross-sectional samples and grow critical high-quality insulating layers for the SCS measurement. We found that CIGS has a buried homojunction with the EJ located at ~40 nm inside the CIGS/CdS interface. An n-type CIGS was probed in the region 10-30 nm away from the interface. By contrast, the CZTS/CdS cells have a heterointerface junction with a shallower EJ (~20 nm) than CIGS. The EJ is ~20 nm frommore » the CZTS/CdS interface, which is consistent with asymmetrical carrier concentrations of the p-CZTS and n-CdS in a heterojunction cell. The unambiguous determination of the junction locations helped explain the large open circuit voltage difference between the state-of-the-art devices of CIGS and CZTS.« less

The Population Structure of Glossina palpalis gambiensis from Island and Continental Locations in Coastal Guinea

PubMed Central

Solano, Philippe; Ravel, Sophie; Bouyer, Jeremy; Camara, Mamadou; Kagbadouno, Moise S.; Dyer, Naomi; Gardes, Laetitia; Herault, Damien; Donnelly, Martin J.; De Meeûs, Thierry

2009-01-01

Background We undertook a population genetics analysis of the tsetse fly Glossina palpalis gambiensis, a major vector of sleeping sickness in West Africa, using microsatellite and mitochondrial DNA markers. Our aims were to estimate effective population size and the degree of isolation between coastal sites on the mainland of Guinea and Loos Islands. The sampling locations encompassed Dubréka, the area with the highest Human African Trypanosomosis (HAT) prevalence in West Africa, mangrove and savannah sites on the mainland, and two islands, Fotoba and Kassa, within the Loos archipelago. These data are discussed with respect to the feasibility and sustainability of control strategies in those sites currently experiencing, or at risk of, sleeping sickness. Principal Findings We found very low migration rates between sites except between those sampled around the Dubréka area that seems to contain a widely dispersed and panmictic population. In the Kassa island samples, various effective population size estimates all converged on surprisingly small values (10

Development of source specific diatom lipids biomarkers as Antarctic Sea Ice proxies

NASA Astrophysics Data System (ADS)

Smik, Lukas; Belt, Simon T.; Brown, Thomas A.; Lieser, Jan L.; Armand, Leanne K.; Leventer, Amy; Allen, Claire S.

2016-04-01

C25 highly branched isoprenoid (HBI) are lipid biomarkers biosynthesised by a relatively small number of diatom genera, but are, nonetheless, common constituents of global marine sediments. The occurrence and variable abundance of certain C25 highly branched isoprenoid (HBI) biomarkers in Antarctic marine sediments has previously been proposed as a proxy measure of paleo sea-ice extent in the Southern Ocean and a small number of paleo sea-ice reconstructions based on the variable abundances of these HBIs have appeared in recent years. However, the development of HBIs as proxies for Antarctic sea ice is much less advanced than that for IP25 (another HBI) in the Arctic and has been based on relatively small number of analyses in sea ice, water column and sediment samples. To provide further insights into the use of these HBIs as proxies for Antarctic sea ice, we here describe an assessment of their distributions in surface water, surface sediment and sea ice samples collected from a number of Antarctic locations experiencing contrasting sea ice conditions in recent years. Our study shows that distributions of a di-unsaturated HBI (diene II) and tri-unsaturated HBI (triene III) in surface water samples were found to be extremely sensitive to the local sea-ice conditions, with diene II detected for sampling sites that experienced seasonal sea ice and highest concentrations found in coastal locations with longer-lasting ice cover and a recurrent polynya. In contrast, triene III was observed in all of the samples analysed, but with highest concentrations within the region of the retreating sea ice edge, an observation consistent with significant environmental control over the biosynthesis of diene II and triene III by sea ice diatoms and open water phytoplankton, respectively. However, additional local factors, such as those associated with polynya formation, may also exert some control over the distribution of triene III and the relative concentrations of diene II and triene III, in particular. This may have important implications for the use of these biomarkers for paleo sea ice reconstructions. Sedimentary distribution showed significant variation in abundances of diene II and triene III between different regions of Antarctica, but also on a more local scale, potentially reflecting a high degree of sensitivity towards individual sea ice dynamics that favour the individual species responsible for their biosynthesis. However, highest concentrations of diene II were generally observed in near coastal locations, consistent with the identification of elevated abundances of this HBI in first year or land fast ice in these settings. The identification of the sea ice diatom source of diene II will likely be significant in interpretations of the occurrence of this biomarker in paleo sea ice records.

Non-invasive localization of organic matter in soil aggregates using SR-μCT

NASA Astrophysics Data System (ADS)

Peth, Stephan; Mordhorst, Anneka; Chenu, Claire; Uteau Puschmann, Daniel; Garnier, Patricia; Nunan, Naoise; Pot, Valerie; Beckmann, Felix; Ogurreck, Malte

2014-05-01

Knowledge of the location of soil organic matter (SOM) and its spatial association to soil structure is an important step in improving modeling approaches for simulating organic matter turnover processes. Advanced models for carbon mineralization are able to account for the 3D distribution of SOM which is assumed to influence mineralisation. However, their application is still limited by the fact that no method exists to non-invasively determine the 3D spatial distribution of SOM in structured soils. SR-based X-ray microtomography (SR-µCT) is an advanced and promising tool in gaining knowledge on the 3-dimensional organization of soil phases (minerals, organic matter, water, air) which on a voxel level could be implemented into spatially explicit models. However, since the contrast of linear attenuation coefficients of soil organic matter on the one hand and mineral components and water on the other hand are relatively low, especially when materials are finely dispersed, organic matter within the soil pore space is often not resolved in ordinary X-ray absorption contrast imaging. To circumvent this problem we have developed a staining procedure for organic matter using Osmium-tetroxide since Osmium is an element with an absorption edge at a higher X-ray energy level. Osmium is known from transmission electron microscopy analysis (TEM) to stain organic matter specifically and irreversibly while having an absorption edge at approximately 74 keV. We report on the application of a novel Osmium vapor staining method to analyze differences in organic matter content and identify small scale spatial distribution of SOM in soil aggregates. To achieve this we have taken soil aggregate samples (6-8 mm across) obtained from arable soils differing in soil management. Aggregate samples were investigated by synchrotron-based X-ray microtomography (SR-µCT) after staining the sample with Osmium-tetroxide (OsO4) vapor. We utilized the monochromatic X-ray beam to locate osmium bound to SOM in the stained soil aggregate samples by scanning the aggregates at different photon energies: 30 keV at which the attenuation contrast is optimal for distinguishing other soil constituents, 70 keV (below the absorption of osmium) and 78 keV (above the absorption edge of osmium). The results suggest that particulate organic matter, which was not visibly by scanning samples at energy levels optimal for resolving soil structure (30 keV), was identified after osmium staining and scanning the samples at energy levels just below (70 keV) and above (78 keV) the absorption edge of Osmium. Subtracting the images below from the images above the osmium edged we were able to isolate stained particulate organic matter which otherwise would have been wrongly interpreted as pore space without staining. Combining both pore space and organic matter distribution we are able to investigate the association of SOM with soil structure.

Perceptual learning of basic visual features remains task specific with Training-Plus-Exposure (TPE) training.

PubMed

Cong, Lin-Juan; Wang, Ru-Jie; Yu, Cong; Zhang, Jun-Yun

2016-01-01

Visual perceptual learning is known to be specific to the trained retinal location, feature, and task. However, location and feature specificity can be eliminated by double-training or TPE training protocols, in which observers receive additional exposure to the transfer location or feature dimension via an irrelevant task besides the primary learning task Here we tested whether these new training protocols could even make learning transfer across different tasks involving discrimination of basic visual features (e.g., orientation and contrast). Observers practiced a near-threshold orientation (or contrast) discrimination task. Following a TPE training protocol, they also received exposure to the transfer task via performing suprathreshold contrast (or orientation) discrimination in alternating blocks of trials in the same sessions. The results showed no evidence for significant learning transfer to the untrained near-threshold contrast (or orientation) discrimination task after discounting the pretest effects and the suprathreshold practice effects. These results thus do not support a hypothetical task-independent component in perceptual learning of basic visual features. They also set the boundary of the new training protocols in their capability to enable learning transfer.

A test of the reward-contrast hypothesis.

PubMed

Dalecki, Stefan J; Panoz-Brown, Danielle E; Crystal, Jonathon D

2017-12-01

Source memory, a facet of episodic memory, is the memory of the origin of information. Whereas source memory in rats is sustained for at least a week, spatial memory degraded after approximately a day. Different forgetting functions may suggest that two memory systems (source memory and spatial memory) are dissociated. However, in previous work, the two tasks used baiting conditions consisting of chocolate and chow flavors; notably, the source memory task used the relatively better flavor. Thus, according to the reward-contrast hypothesis, when chocolate and chow were presented within the same context (i.e., within a single radial maze trial), the chocolate location was more memorable than the chow location because of contrast. We tested the reward-contrast hypothesis using baiting configurations designed to produce reward-contrast. The reward-contrast hypothesis predicts that under these conditions, spatial memory will survive a 24-h retention interval. We documented elimination of spatial memory performance after a 24-h retention interval using a reward-contrast baiting pattern. These data suggest that reward contrast does not explain our earlier findings that source memory survives unusually long retention intervals. Copyright © 2017 Elsevier B.V. All rights reserved.

Element concentrations in soils and other surficial materials of Alaska

USGS Publications Warehouse

Gough, L.P.; Severson, R.C.; Shacklette, H.T.

1988-01-01

Mean concentrations of 35 elements, ash yields, and pH have been estimated for samples of sils and other unconsolidated surficial materials from 266 collection locations throughout Alaska. These background values can be applied to studies of environmental geochemistry and health, wildlife management, and soil-forming processes in cold climates and to computation of element abundances on a regional or worldwide scale. Limited data for an additoinal eight elements are also presented. Materials were collected using a one-way, three-level, analysis-of-variance samplling design in which collecting procedures were simplified for the convenience of the many volunteer field workers. The sample collectors were asked to avoid locations of known mineral deposits and obvious contamination, to take samples at a depth of about 20 cm where possible, and to take a replicate sample about 100 m distant from the first sample collected. With more than 60 percent of the samples replicated and 14 percent of the samples split for duplicate laboratory analyses, reliable estimates were made of the variability in element concentrations at two geographic scales and of the error associated with sample handling and laboratory procedures. Mean concentrations of most elements in surficial materials from the state of alaska correspond well with those reported in similar materials from the conterminous United STatess. Most element concentrations and ranges in samples of stream and lake sediments from Alaska, however, as reported in the literature, do not correspond well with those found in surficial materials of this study. This lack of correspondence is attributed to (1) a merger of two kinds ofsediments (stream and lake) for calculating means; (2) elimination from the sediment mean calculations of values below the limit of quantitative determination; (3) analytical methods different from those of the surficial materials study; and (4) most importantly, the inherent differences in chemistry of the materials. The distribution of variability in element concentrations o Alaskan surficial-material samples was, for most elements, largely among sampling locations, with only a samll part of the variability occurring between replicate samples at a location. The geochemical uniformity within sampling locations in Alaska is an expression of uniform geochemical cycling processes within small geographic areas. The concentration values for 35 elements in 266 samples were plotted on maps by symbols representing classes of concentration frequency distributions. These plotted symbols form patterns that may or may not be possible to interpret but nevertheless show differences that are observable at several geographical scales. The largest pattern is one generally low concentrations of many elements in materials from arctic and oceanic tundra regions, as contrasted to their often high concentrations in samples from interior and southeastern Alaska. The patttern for sodium isespecially pronounced. Intermediate-sized patterns are shown, for example, by the generally high values for magnesium and low values for silicon in the coastal forest region of southeastern Alaska. Many elements occur at low concentratoins in samples from the Alaskan peninsula and the Aleutian Islands. The degree of confidence in patterns of element abundance is expected to be in direct proportion to the number of samples included in the area. As the patterns become smaller, the probability increases that the patterns are not reproducible.

Identification of muscle necrosis in the mdx mouse model of Duchenne muscular dystrophy using three-dimensional optical coherence tomography

NASA Astrophysics Data System (ADS)

Klyen, Blake R.; Shavlakadze, Thea; Radley-Crabb, Hannah G.; Grounds, Miranda D.; Sampson, David D.

2011-07-01

Three-dimensional optical coherence tomography (3D-OCT) was used to image the structure and pathology of skeletal muscle tissue from the treadmill-exercised mdx mouse model of human Duchenne muscular dystrophy. Optical coherence tomography (OCT) images of excised muscle samples were compared with co-registered hematoxylin and eosin-stained and Evans blue dye fluorescence histology. We show, for the first time, structural 3D-OCT images of skeletal muscle dystropathology well correlated with co-located histology. OCT could identify morphological features of interest and necrotic lesions within the muscle tissue samples based on intrinsic optical contrast. These findings demonstrate the utility of 3D-OCT for the evaluation of small-animal skeletal muscle morphology and pathology, particularly for studies of mouse models of muscular dystrophy.

The mixability of angiographic contrast with arterial blood

PubMed Central

Lieber, Baruch B.; Sadasivan, Chander; Hao, Qing; Seong, Jaehoon; Cesar, Liliana

2009-01-01

Purpose: Angiographic contrast that is routinely injected into arteries is used not only to evaluate arterial geometry but also in many cases to assess perfusion. The authors conducted two experiments to examine the dispersion of angiographic contrast injected antegradely into an artery under conditions similar to those found in selective (carotid artery) or superselective (circle of Willis) angiography in order to determine the distance from the catheter tip at which the contrast can be considered fully mixed with the blood. A third experiment investigated whether the contrast once mixed with blood will separate from the mixture under the gravitational field due to a density mismatch. Methods: Experiment I—Under high-speed angiographic acquisition, a bolus of contrast was injected through a catheter along the flow direction of a blood analog fluid flowing through a straight, long, cylindrical tube. The variation in grayscale intensity along the length of the tube was acquired and modeled as the step response to a second-order system. The distance from the catheter tip at which the contrast mixes with the working fluid, the mixing length, was determined as the length along the tube after which the step response settles to within 3% of the steady state value. Experiment II—A bolus of angiographic contrast was injected at rates varying from 0.1 to 1 cc∕s through three different catheter sizes in the left common carotid artery of three rabbits. The average cross-sectional grayscale intensity over one cardiac cycle was calculated at four locations along the artery: Immediately distal to the catheter tip, at location of maximum grayscale intensity, and at 10 and 20 arterial diameters from the catheter tip. The status of mixing within 10 arterial diameters was assessed by differences between the grayscale value at this location and that at the maximum and 20 arterial diameter location. Experiment III—Angiographic contrast was premixed by agitation in three separate vials containing normal saline, canine blood, and glycerol∕distilled-water mixture. The vials were then stationed vertically and angiographic images obtained every 5 min for 1 h. The average intensity of contrast along the vertical length of each vial was obtained for every time point to record any changes in the distribution of contrast over time. Results: The first experiment shows that angiographic contrast completely mixes with steady flowing blood analog fluid within about eight tube diameters of the injection site. The second experiment shows that contrast completely mixes with blood within ten arterial diameters under appropriate injection parameters. The third experiment shows that angiographic contrast does not separate from, or settle out of, contrast-carrying fluid mixtures for a period of 1 h. Conclusions: The results demonstrate that under typical injection conditions in the clinical setting, contrast issuing from the catheter completely mixes with the blood within ten artery diameters downstream of the catheter tip. Once mixed, it does not separate from the blood due to gravity. PMID:19994517

Male-specific coliphages for source tracking fecal contamination in surface waters and prevalence of Shiga-toxigenic Escherichia coli in a major produce production region of the Central Coast of California.

PubMed

Ravva, Subbarao V; Sarreal, Chester Z; Cooley, Michael B

2015-07-01

To provide data for traditional trace-back studies from fork to farm, it is necessary to determine the environmental sources for Shiga-toxigenic Escherichia coli. We developed SYBR green based reverse-transcriptase PCR methods to determine the prevalence of F+ RNA coliphages (FRNA) as indicators of fecal contamination. Male-specific coliphages, determined using a single-agar overlay method, were prevalent in all surface waters sampled for 8 months. F+ DNA coliphages (FDNA) were predominant compared to FRNA in water samples from majority of sampling locations. Most (90%) of the FRNA were sourced to humans and originated from human-impacted sites. Members of genogroup III represented 77% of FRNA originated from human sources. Furthermore, 93% of FRNA sourced to animals were also detected in water samples from human-impacted sites. Eighty percent of all FRNA were isolated during the winter months indicating seasonality in prevalence. In contrast, FDNA were more prevalent during summer months. E. coli O157:H7 and Shiga-toxigenic E. coli were detected in water samples from locations predominantly influenced by agriculture. Owing to their scarcity, their numbers could not be correlated with the prevalence of FRNA or FDNA in water samples. Both coliform bacteria and generic E. coli from agricultural or human-impacted sites were similar in numbers and thus could not be used to determine the sources of fecal contamination. Data on the prevalence of male-specific coliphages may be invaluable for predicting the sources of fecal contamination and aid in developing methods to prevent enteric pathogen contamination from likely sources during produce production.

Correlations Between Life-Detection Techniques and Implications for Sampling Site Selection in Planetary Analog Missions.

PubMed

Gentry, Diana M; Amador, Elena S; Cable, Morgan L; Chaudry, Nosheen; Cullen, Thomas; Jacobsen, Malene B; Murukesan, Gayathri; Schwieterman, Edward W; Stevens, Adam H; Stockton, Amanda; Tan, George; Yin, Chang; Cullen, David C; Geppert, Wolf

2017-10-01

We conducted an analog sampling expedition under simulated mission constraints to areas dominated by basaltic tephra of the Eldfell and Fimmvörðuháls lava fields (Iceland). Sites were selected to be "homogeneous" at a coarse remote sensing resolution (10-100 m) in apparent color, morphology, moisture, and grain size, with best-effort realism in numbers of locations and replicates. Three different biomarker assays (counting of nucleic-acid-stained cells via fluorescent microscopy, a luciferin/luciferase assay for adenosine triphosphate, and quantitative polymerase chain reaction (qPCR) to detect DNA associated with bacteria, archaea, and fungi) were characterized at four nested spatial scales (1 m, 10 m, 100 m, and >1 km) by using five common metrics for sample site representativeness (sample mean variance, group F tests, pairwise t tests, and the distribution-free rank sum H and u tests). Correlations between all assays were characterized with Spearman's rank test. The bioluminescence assay showed the most variance across the sites, followed by qPCR for bacterial and archaeal DNA; these results could not be considered representative at the finest resolution tested (1 m). Cell concentration and fungal DNA also had significant local variation, but they were homogeneous over scales of >1 km. These results show that the selection of life detection assays and the number, distribution, and location of sampling sites in a low biomass environment with limited a priori characterization can yield both contrasting and complementary results, and that their interdependence must be given due consideration to maximize science return in future biomarker sampling expeditions. Key Words: Astrobiology-Biodiversity-Microbiology-Iceland-Planetary exploration-Mars mission simulation-Biomarker. Astrobiology 17, 1009-1021.

A qualitative signature for early diagnosis of hepatocellular carcinoma based on relative expression orderings.

PubMed

Ao, Lu; Zhang, Zimei; Guan, Qingzhou; Guo, Yating; Guo, You; Zhang, Jiahui; Lv, Xingwei; Huang, Haiyan; Zhang, Huarong; Wang, Xianlong; Guo, Zheng

2018-04-23

Currently, using biopsy specimens to confirm suspicious liver lesions of early hepatocellular carcinoma are not entirely reliable because of insufficient sampling amount and inaccurate sampling location. It is necessary to develop a signature to aid early hepatocellular carcinoma diagnosis using biopsy specimens even when the sampling location is inaccurate. Based on the within-sample relative expression orderings of gene pairs, we identified a simple qualitative signature to distinguish both hepatocellular carcinoma and adjacent non-tumour tissues from cirrhosis tissues of non-hepatocellular carcinoma patients. A signature consisting of 19 gene pairs was identified in the training data sets and validated in 2 large collections of samples from biopsy and surgical resection specimens. For biopsy specimens, 95.7% of 141 hepatocellular carcinoma tissues and all (100%) of 108 cirrhosis tissues of non-hepatocellular carcinoma patients were correctly classified. Especially, all (100%) of 60 hepatocellular carcinoma adjacent normal tissues and 77.5% of 80 hepatocellular carcinoma adjacent cirrhosis tissues were classified to hepatocellular carcinoma. For surgical resection specimens, 99.7% of 733 hepatocellular carcinoma specimens were correctly classified to hepatocellular carcinoma, while 96.1% of 254 hepatocellular carcinoma adjacent cirrhosis tissues and 95.9% of 538 hepatocellular carcinoma adjacent normal tissues were classified to hepatocellular carcinoma. In contrast, 17.0% of 47 cirrhosis from non-hepatocellular carcinoma patients waiting for liver transplantation were classified to hepatocellular carcinoma, indicating that some patients with long-lasting cirrhosis could have already gained hepatocellular carcinoma characteristics. The signature can distinguish both hepatocellular carcinoma tissues and tumour-adjacent tissues from cirrhosis tissues of non-hepatocellular carcinoma patients even using inaccurately sampled biopsy specimens, which can aid early diagnosis of hepatocellular carcinoma. © 2018 The Authors. Liver International Published by John Wiley & Sons Ltd.

Assessment of the reliability of standard automated perimetry in regions of glaucomatous damage.

PubMed

Gardiner, Stuart K; Swanson, William H; Goren, Deborah; Mansberger, Steven L; Demirel, Shaban

2014-07-01

Visual field testing uses high-contrast stimuli in areas of severe visual field loss. However, retinal ganglion cells saturate with high-contrast stimuli, suggesting that the probability of detecting perimetric stimuli may not increase indefinitely as contrast increases. Driven by this concept, this study examines the lower limit of perimetric sensitivity for reliable testing by standard automated perimetry. Evaluation of a diagnostic test. A total of 34 participants with moderate to severe glaucoma; mean deviation at their last clinic visit averaged -10.90 dB (range, -20.94 to -3.38 dB). A total of 75 of the 136 locations tested had a perimetric sensitivity of ≤ 19 dB. Frequency-of-seeing curves were constructed at 4 nonadjacent visual field locations by the Method of Constant Stimuli (MOCS), using 35 stimulus presentations at each of 7 contrasts. Locations were chosen a priori and included at least 2 with glaucomatous damage but a sensitivity of ≥ 6 dB. Cumulative Gaussian curves were fit to the data, first assuming a 5% false-negative rate and subsequently allowing the asymptotic maximum response probability to be a free parameter. The strength of the relation (R(2)) between perimetric sensitivity (mean of last 2 clinic visits) and MOCS sensitivity (from the experiment) for all locations with perimetric sensitivity within ± 4 dB of each selected value, at 0.5 dB intervals. Bins centered at sensitivities ≥ 19 dB always had R(2) >0.1. All bins centered at sensitivities ≤ 15 dB had R(2) <0.1, an indication that sensitivities are unreliable. No consistent conclusions could be drawn between 15 and 19 dB. At 57 of the 81 locations with perimetric sensitivity <19 dB, including 49 of the 63 locations ≤ 15 dB, the fitted asymptotic maximum response probability was <80%, consistent with the hypothesis of response saturation. At 29 of these locations the asymptotic maximum was <50%, and so contrast sensitivity (50% response rate) is undefined. Clinical visual field testing may be unreliable when visual field locations have sensitivity below approximately 15 to 19 dB because of a reduction in the asymptotic maximum response probability. Researchers and clinicians may have difficulty detecting worsening sensitivity in these visual field locations, and this difficulty may occur commonly in patients with glaucoma with moderate to severe glaucomatous visual field loss. Copyright © 2014 American Academy of Ophthalmology. Published by Elsevier Inc. All rights reserved.

Elemental composition and size distribution of particulates in Cleveland, Ohio

NASA Technical Reports Server (NTRS)

King, R. B.; Fordyce, J. S.; Neustadter, H. E.; Leibecki, H. F.

1975-01-01

Measurements were made of the elemental particle size distribution at five contrasting urban environments with different source-type distributions in Cleveland, Ohio. Air quality conditions ranged from normal to air pollution alert levels. A parallel network of high-volume cascade impactors (5-state) were used for simultaneous sampling on glass fiber surfaces for mass determinations and on Whatman-41 surfaces for elemental analysis by neutron activation for 25 elements. The elemental data are assessed in terms of distribution functions and interrelationships and are compared between locations as a function of resultant wind direction in an attempt to relate the findings to sources.

Elemental composition and size distribution of particulates in Cleveland, Ohio

NASA Technical Reports Server (NTRS)

Leibecki, H. F.; King, R. B.; Fordyce, J. S.; Neustadter, H. E.

1975-01-01

Measurements have been made of the elemental particle size distribution at five contrasting urban environments with different source-type distributions in Cleveland, Ohio. Air quality conditions ranged from normal to air pollution alert levels. A parallel network of high-volume cascade impactors (5-stage) were used for simultaneous sampling on glass fiber surfaces for mass determinations and on Whatman-41 surfaces for elemental analysis by neutron activation for 25 elements. The elemental data are assessed in terms of distribution functions and interrelationships and are compared between locations as a function of resultant wind direction in an attempt to relate the findings to sources.

Effects of three-dimensional and color patterns on nest location and progeny mortality in alfalfa leafcutting bee (Hymenoptera: Megachilidae).

PubMed

Guédot, Christelle; Bosch, Jordi; James, Rosalind R; Kemp, William P

2006-06-01

ABSTRACT In alfalfa, Medicago sativa L., seed production where high bee densities are released, alfalfa leafcutting bee, Megachile rotundata (F.) (Hymenoptera: Megachilidae), females may enter several nesting holes before locating their nests. Such levels of "wrong hole" visits lead to an increase in the time spent by females locating their own nests, thereby decreasing alfalfa pollination efficiency and possibly healthy brood production. The objectives of this study were to determine the effect of different nesting board configurations in commercial alfalfa leafcutting bee shelters (separating nesting boards, applying a three-dimensional pattern to the boards, applying a color contrast pattern, or applying a combination of three-dimensional and color contrast patterns) on nest location performance, on the incidence of chalkbrood disease, and on the incidence of broodless provisions. Separating the nesting boards inside shelters improved the ability of females to locate their nests. An increase in nest location performance also occurred in boards with the three-dimensional pattern and the combined three-dimensional and color contrast pattern, compared with the uniform board (a standard configuration currently used commercially). The percentage of provisioned cells that were broodless was not statistically different between treatments, but the percentage of larvae infected with chalkbrood decreased by half in the three-dimensional board design, compared with the uniform board.

Context-specific attentional sampling: Intentional control as a pre-requisite for contextual control.

PubMed

Brosowsky, Nicholaus P; Crump, Matthew J C

2016-08-01

Recent work suggests that environmental cues associated with previous attentional control settings can rapidly and involuntarily adjust attentional priorities. The current study tests predictions from adaptive-learning and memory-based theories of contextual control about the role of intentions for setting attentional priorities. To extend the empirical boundaries of contextual control phenomena, and to determine whether theoretical principles of contextual control are generalizable we used a novel bi-dimensional stimulus sampling task. Subjects viewed briefly presented arrays of letters and colors presented above or below fixation, and identified specific stimuli according to a dimensional (letter or color) and positional cue. Location was predictive of the cued dimension, but not the position or identity. In contrast to previous findings, contextual control failed to develop through automatic, adaptive-learning processes. Instead, previous experience with intentionally changing attentional sampling priorities between different contexts was required for contextual control to develop. Copyright © 2016 Elsevier Inc. All rights reserved.

Multispectral laser imaging for advanced food analysis

NASA Astrophysics Data System (ADS)

Senni, L.; Burrascano, P.; Ricci, M.

2016-07-01

A hardware-software apparatus for food inspection capable of realizing multispectral NIR laser imaging at four different wavelengths is herein discussed. The system was designed to operate in a through-transmission configuration to detect the presence of unwanted foreign bodies inside samples, whether packed or unpacked. A modified Lock-In technique was employed to counterbalance the significant signal intensity attenuation due to transmission across the sample and to extract the multispectral information more efficiently. The NIR laser wavelengths used to acquire the multispectral images can be varied to deal with different materials and to focus on specific aspects. In the present work the wavelengths were selected after a preliminary analysis to enhance the image contrast between foreign bodies and food in the sample, thus identifying the location and nature of the defects. Experimental results obtained from several specimens, with and without packaging, are presented and the multispectral image processing as well as the achievable spatial resolution of the system are discussed.

Distinct regions of the hippocampus are associated with memory for different spatial locations.

PubMed

Jeye, Brittany M; MacEvoy, Sean P; Karanian, Jessica M; Slotnick, Scott D

2018-05-15

In the present functional magnetic resonance imaging (fMRI) study, we aimed to evaluate whether distinct regions of the hippocampus were associated with spatial memory for items presented in different locations of the visual field. In Experiment 1, during the study phase, participants viewed abstract shapes in the left or right visual field while maintaining central fixation. At test, old shapes were presented at fixation and participants classified each shape as previously in the "left" or "right" visual field followed by an "unsure"-"sure"-"very sure" confidence rating. Accurate spatial memory for shapes in the left visual field was isolated by contrasting accurate versus inaccurate spatial location responses. This contrast produced one hippocampal activation in which the interaction between item type and accuracy was significant. The analogous contrast for right visual field shapes did not produce activity in the hippocampus; however, the contrast of high confidence versus low confidence right-hits produced one hippocampal activation in which the interaction between item type and confidence was significant. In Experiment 2, the same paradigm was used but shapes were presented in each quadrant of the visual field during the study phase. Accurate memory for shapes in each quadrant, exclusively masked by accurate memory for shapes in the other quadrants, produced a distinct activation in the hippocampus. A multi-voxel pattern analysis (MVPA) of hippocampal activity revealed a significant correlation between behavioral spatial location accuracy and hippocampal MVPA accuracy across participants. The findings of both experiments indicate that distinct hippocampal regions are associated with memory for different visual field locations. Copyright © 2018 Elsevier B.V. All rights reserved.

Variability in Lotic Communities in Three Contrasting Stream Environments in the Santa Ana River Basin, California, 1999-2001

USGS Publications Warehouse

Burton, Carmen A.

2008-01-01

Biotic communities and environmental conditions can be highly variable between natural ecosystems. The variability of natural assemblages should be considered in the interpretation of any ecological study when samples are either spatially or temporally distributed. Little is known about biotic variability in the Santa Ana River Basin. In this report, the lotic community and habitat assessment data from ecological studies done as part of the U.S. Geological Survey's National Water-Quality Assessment (NAWQA) program are used for a preliminary assessment of variability in the Santa Ana Basin. Habitat was assessed, and benthic algae, benthic macroinvertebrate, and fish samples were collected at four sites during 1999-2001. Three of these sites were sampled all three years. One of these sites is located in the San Bernardino Mountains, and the other two sites are located in the alluvial basin. Analysis of variance determined that the three sites with multiyear data were significantly different for 41 benthic algae metrics and 65 macroinvertebrate metrics and fish communities. Coefficients of variation (CVs) were calculated for the habitat measurements, metrics of benthic algae, and macroinvertebrate data as measures of variability. Annual variability of habitat data was generally greater at the mountain site than at the basin sites. The mountain site had higher CVs for water temperature, depth, velocity, canopy angle, streambed substrate, and most water-quality variables. In general, CVs of most benthic algae metrics calculated from the richest-targeted habitat (RTH) samples were greater at the mountain site. In contrast, CVs of most benthic algae metrics calculated from depositional-targeted habitat (DTH) samples were lower at the mountain site. In general, CVs of macroinvertebrate metrics calculated from qualitative multihabitat (QMH) samples were lower at the mountain site. In contrast, CVs of many metrics calculated from RTH samples were greater at the mountain site than at one of the basin sites. Fish communities were more variable at the basin sites because more species were present at these sites. Annual variability of benthic algae metrics was related to annual variability in habitat variables. The CVs of benthic algae metrics related to the most CVs of habitat variables included QMH taxon richness, the RTH percentage richness, RTH abundance of tolerant taxa, RTH percentage richness of halophilic diatoms, RTH percentage abundance of sestonic diatoms, DTH percentage richness of nitrogen heterotrophic diatoms, and DTH pollution tolerance index. The CVs of macroinvertebrate metrics related to the most CVs of habitat variables included the RTH trichoptera, RTH EPT, RTH scraper richness, RTH nonchironomid dipteran abundance (in percent), and RTH EPA (U.S. Environmental Protection Agency) tolerance, which is based on abundance. Many of the CVs of habitat variables related to CVs of macroinvertebrate metrics were the same habitat variables that were related to the CVs of benthic algae metrics. On the basis of these results, annual variability may have a role in the relationship of benthic algae and macroinvertebrates assemblages with habitat and water quality in the Santa Ana Basin. This report provides valuable baseline data on the variability of biological communities in the Santa Ana Basin.

Intonation Facilitates Contrast Resolution: Evidence from Japanese Adults and 6-Year Olds

ERIC Educational Resources Information Center

Ito, Kiwako; Jincho, Nobuyuki; Minai, Utako; Yamane, Naoto; Mazuka, Reiko

2012-01-01

Two eye-tracking experiments tested how pitch prominence on a prenominal adjective affects contrast resolution in Japanese adult and 6-year old listeners. Participants located two animals in succession on displays with multiple colored animals. In Experiment 1, adults' fixations to the contrastive target (pink cat [right arrow] GREEN cat) were…

Recent progress in tissue optical clearing for spectroscopic application

NASA Astrophysics Data System (ADS)

Sdobnov, A. Yu.; Darvin, M. E.; Genina, E. A.; Bashkatov, A. N.; Lademann, J.; Tuchin, V. V.

2018-05-01

This paper aims to review recent progress in optical clearing of the skin and over naturally turbid biological tissues and blood using this technique in vivo and in vitro with multiphoton microscopy, confocal Raman microscopy, confocal microscopy, NIR spectroscopy, optical coherence tomography, and laser speckle contrast imaging. Basic principles of the technique, its safety, advantages and limitations are discussed. The application of optical clearing agent on a tissue allows for controlling the optical properties of tissue. Optical clearing-induced reduction of tissue scattering significantly facilitates the observation of deep-located tissue regions, at the same time improving the resolution and image contrast for a variety of optical imaging methods suitable for clinical applications, such as diagnostics and laser treatment of skin diseases, mucosal tumor imaging, laser disruption of pathological abnormalities, etc. Structural images of different skin layers obtained ex vivo for porcine ear skin samples at application of Omnipaque™ and glycerol solutions during 60 min. Red color corresponds to TPEAF signal channel. Green color corresponds to SHG signal channel.

The application of U-isotopes to assess weathering in contrasted soil-water regime in Brazil.

PubMed

Rosolen, Vania; Bueno, Guilherme Taitson; Bonotto, Daniel Marcos

2018-02-01

This paper presents the use of U-series radionuclides 238 U and 234 U to evaluate the biogeochemical disequilibrium in soil cover under a contrasted soil-water regime. The approach was applied in three profiles located in distinct topographical positions, from upslope ferralitic to downslope hydromorphic domain. The U fractionation data was obtained in the samples representing the saprolite and the superficial and subsuperficial soil horizons. The results showed a significant and positive correlation between U and the Total Organic Carbon (TOC). Soil organic matter has accumulated in soil due to hydromorphy. There is no evidence of positive correlation between U and Fe, as expected in lateritic soils. The advance of the hydromorphy on Ferralsol changes the weathering rates, and the ages of weathering are discussed as a function of the advance of waterlogged soil conditions from downslope. Also, the bioturbation could represent the other factor responsible to construct a more recent soil horizon. Copyright © 2017 Elsevier Ltd. All rights reserved.

Variation in characteristics of ambient particulate matter at eight locations in the Netherlands - The RAPTES project

NASA Astrophysics Data System (ADS)

Strak, Maciej; Steenhof, Maaike; Godri, Krystal J.; Gosens, Ilse; Mudway, Ian S.; Cassee, Flemming R.; Lebret, Erik; Brunekreef, Bert; Kelly, Frank J.; Harrison, Roy M.; Hoek, Gerard; Janssen, Nicole A. H.

2011-08-01

Numerous epidemiological studies have shown health effects related to short- and long-term exposure to elevated levels of ambient particulate matter (PM). It is not clear however which specific characteristics (e.g., size, components) or sources of PM are responsible for the observed effects. The aim of RAPTES (Risk of Airborne Particles: a Toxicological-Epidemiological hybrid Study) was to investigate which specific physical, chemical or oxidative characteristics of ambient PM are associated with adverse effects of PM on health. This was done by performing experimental exposure of human volunteers to air pollution at several real-world settings that had high contrast and low correlation between several PM characteristics. For this goal, eight sites in the Netherlands that differed in local PM emission sources were chosen for extensive air pollution characterization. Measurement sites included an underground train station, three different road traffic sites, an animal farm, a sea harbor, a site located in the vicinity of steelworks, and an urban background site. Five- to six-hours average concentration measurements at each site were made between June 2007 and October 2009. We measured PM 10, PM 2.5, particle number concentration (PNC), oxidative potential of PM, absorbance, endotoxin content, as well as elemental and chemical composition of PM, and gaseous pollutants concentrations. This paper presents a detailed characterization of particulate air pollution at the sampling sites. We found significant differences in all PM characteristics between the sites. The underground train station, compared to each outdoor location, had substantially higher concentrations of nearly all PM characteristics. The average PM 10 and PM 2.5 mass concentrations at the underground train station were 394 μg m -3 and 137 μg m -3, respectively, which was 14.1 and 7.6 times higher than the urban background. The sum of the concentrations of trace metals in fine and coarse PM was nearly 20 times above the outdoor levels. Elemental carbon (EC) was elevated at the underground site in the fine but also in the coarse mode, in contrast to the traffic sites where EC was predominantly found in fine PM. The highest concentrations and contrasts in PNC were at the traffic sites (between 45,000 and 80,000 particles cm -3), which was several times higher than measured at any other site. Correlations of PNC with metals, PM 10, PM 2.5 and absorbance were low to moderate, while correlations between PM 10, PM 2.5 and the metals Cu and Fe were high. After excluding the underground train station data, correlations between PM10, EC and metals decreased whereas the correlation between PNC and EC increased. We conclude that we were able to successfully identify and characterize real-world situations with very different particle characteristics. High contrast and low correlations between PM characteristics, as well as consistency of these differences across sampling campaigns, provide a good basis for identifying health relevant PM characteristics in the upcoming analysis.

Vernier perceptual learning transfers to completely untrained retinal locations after double training: A “piggybacking” effect

PubMed Central

Wang, Rui; Zhang, Jun-Yun; Klein, Stanley A.; Levi, Dennis M.; Yu, Cong

2014-01-01

Perceptual learning, a process in which training improves visual discrimination, is often specific to the trained retinal location, and this location specificity is frequently regarded as an indication of neural plasticity in the retinotopic visual cortex. However, our previous studies have shown that “double training” enables location-specific perceptual learning, such as Vernier learning, to completely transfer to a new location where an irrelevant task is practiced. Here we show that Vernier learning can be actuated by less location-specific orientation or motion-direction learning to transfer to completely untrained retinal locations. This “piggybacking” effect occurs even if both tasks are trained at the same retinal location. However, piggybacking does not occur when the Vernier task is paired with a more location-specific contrast-discrimination task. This previously unknown complexity challenges the current understanding of perceptual learning and its specificity/transfer. Orientation and motion-direction learning, but not contrast and Vernier learning, appears to activate a global process that allows learning transfer to untrained locations. Moreover, when paired with orientation or motion-direction learning, Vernier learning may be “piggybacked” by the activated global process to transfer to other untrained retinal locations. How this task-specific global activation process is achieved is as yet unknown. PMID:25398974

Contrast in air pollution components between major streets and background locations: Particulate matter mass, black carbon, elemental composition, nitrogen oxide and ultrafine particle number

NASA Astrophysics Data System (ADS)

Boogaard, Hanna; Kos, Gerard P. A.; Weijers, Ernie P.; Janssen, Nicole A. H.; Fischer, Paul H.; van der Zee, Saskia C.; de Hartog, Jeroen J.; Hoek, Gerard

2011-01-01

Policies to reduce outdoor air pollution concentrations are often assessed on the basis of the regulated pollutants. Whether these are the most appropriate components to assess the potential health benefits is questionable, as other health-relevant pollutants may be more strongly related to traffic. The aim of this study is to compare the contrast in concentration between major roads and (sub)urban background for a large range of pollutants and to analyze the magnitude of the measured difference in the street - background for major streets with different street configurations. Measurements of PM 10, PM 2.5, particle number concentrations (PNC), black carbon (BC), elemental composition of PM 10 and PM 2.5 and NO x were conducted simultaneously in eight major streets and nine (sub)urban background locations in the Netherlands. Measurements were done six times for a week during a six month period in 2008. High contrasts between busy streets and background locations in the same city were found for chromium, copper and iron (factor 2-3). These elements were especially present in the coarse fraction of PM. In addition, high contrasts were found for BC and NO x (factor 1.8), typically indicators of direct combustion emissions. The contrast for PNC was similar to BC. NO 2 contrast was lower (factor 1.5). The largest contrast was found for two street canyons and two streets with buildings at one side of the street only. The contrast between busy streets and urban background in NO 2 was less than the contrast found for BC, PNC and elements indicative of non-exhaust emissions, adding evidence that NO 2 is not representing (current) traffic well. The study supports a substantial role for non-exhaust emissions including brake- and tyre wear and road dust in addition to direct combustion emissions. Significant underestimation of disease burden may occur when relying too much on the regulated components.

The human hippocampal formation mediates short-term memory of colour-location associations.

PubMed

Finke, Carsten; Braun, Mischa; Ostendorf, Florian; Lehmann, Thomas-Nicolas; Hoffmann, Karl-Titus; Kopp, Ute; Ploner, Christoph J

2008-01-31

The medial temporal lobe (MTL) has long been considered essential for declarative long-term memory, whereas the fronto-parietal cortex is generally seen as the anatomical substrate of short-term memory. This traditional dichotomy is questioned by recent studies suggesting a possible role of the MTL for short-term memory. In addition, there is no consensus on a possible specialization of MTL sub-regions for memory of associative information. Here, we investigated short-term memory for single features and feature associations in three humans with post-surgical lesions affecting the right hippocampal formation and in 10 healthy controls. We used three delayed-match-to-sample tasks with two delays (900/5000 ms) and three set sizes (2/4/6 items). Subjects were instructed to remember either colours, locations or colour-location associations. In colour-only and location-only conditions, performance of patients did not differ from controls. By contrast, a significant group difference was found in the association condition at 5000 ms delay. This difference was largely independent of set size, thus suggesting that it cannot be explained by the increased complexity of the association condition. These findings show that the hippocampal formation plays a significant role for short-term memory of simple visuo-spatial associations, and suggest a specialization of MTL sub-regions for associative memory.

Effect of inherent location uncertainty on detection of stationary targets in noisy image sequences.

PubMed

Manjeshwar, R M; Wilson, D L

2001-01-01

The effect of inherent location uncertainty on the detection of stationary targets was determined in noisy image sequences. Targets were thick and thin projected cylinders mimicking arteries, catheters, and guide wires in medical imaging x-ray fluoroscopy. With the use of an adaptive forced-choice method, detection contrast sensitivity (the inverse of contrast) was measured both with and without marker cues that directed the attention of observers to the target location. With the probability correct clamped at 80%, contrast sensitivity increased an average of 77% when the marker was added to the thin-cylinder target. There was an insignificant effect on the thick cylinder. The large enhancement with the thin cylinder was obtained even though the target was located exactly in the center of a small panel, giving observers the impression that it was well localized. Psychometric functions consisting of d' plotted as a function of the square root of the signal-energy-to-noise-ratio gave a positive x intercept for the case of the thin cylinder without a marker. This x intercept, characteristic of uncertainty in other types of detection experiments, disappeared when the marker was added or when the thick cylinder was used. Inherent location uncertainty was further characterized by using four different markers with varying proximity to the target. Visual detection by human observers increased monotonically as the markers better localized the target. Human performance was modeled as a matched-filter detector with an uncertainty in the placement of the template. The removal of a location cue was modeled by introducing a location uncertainty of approximately equals 0.4 mm on the display device or only 7 microm on the retina, a size on the order of a single photoreceptor field. We conclude that detection is affected by target location uncertainty on the order of cellular dimensions, an observation with important implications for detection mechanisms in humans. In medical imaging, the results argue strongly for inclusion of high-contrast visualization markers on catheters and other interventional devices.

Testing hypotheses about management to enhance habitat for feeding birds in a freshwater wetland.

PubMed

Lindegarth, M; Chapman, M G

2001-08-01

The level of water was manipulated in a freshwater wetland, with the aim of enhancing abundances of benthic animals and, ultimately, improving habitat for feeding birds (Japanese Snipe, Gallinago hardwickii). We tested whether these actions had the predicted and desired effects on benthic animals, by contrasting changes in two managed locations to one control location which was left unmanipulated. The number of taxa and abundances of chironomids decreased strongly and significantly in the manipulated locations, while the abundance of oligochaetes appeared to vary in a seasonal manner. Temporal variability of the structure and composition of assemblages was also increased in manipulated locations. Such effects have previously been suggested to indicate stress in benthic assemblages. Therefore, in contrast to what was predicted, managerial actions made benthic fauna less abundant and thus, less suitable as habitat for feeding birds. Several general lessons can be learned from these results. (1) Effects of managerial actions like these are difficult to predict a priori and can only be reliably evaluated with an experimental framework. (2) Because abundances of animals vary naturally, evaluations of managerial actions must include appropriate spatial replication. (3) Sampling at hierarchical temporal scales is important, because abundances of animals may vary in an unpredictable manner at short temporal scales and because changes in temporal variability may be a symptom of stress. (4) Combined use of uni- and multivariate techniques provides a comprehensive set of tools to assess the effects of restoration and creation of new habitats. Finally, these results emphasise the need for clear predictions about desired outcomes and specific experimental plans about how to test whether the desired results were achieved, before managerial actions are taken. Although this is often very difficult to achieve in real situations, it is necessary for practices of management to evolve on the basis of sound empirical experience.

Perceptual learning of basic visual features remains task specific with Training-Plus-Exposure (TPE) training

PubMed Central

Cong, Lin-Juan; Wang, Ru-Jie; Yu, Cong; Zhang, Jun-Yun

2016-01-01

Visual perceptual learning is known to be specific to the trained retinal location, feature, and task. However, location and feature specificity can be eliminated by double-training or TPE training protocols, in which observers receive additional exposure to the transfer location or feature dimension via an irrelevant task besides the primary learning task Here we tested whether these new training protocols could even make learning transfer across different tasks involving discrimination of basic visual features (e.g., orientation and contrast). Observers practiced a near-threshold orientation (or contrast) discrimination task. Following a TPE training protocol, they also received exposure to the transfer task via performing suprathreshold contrast (or orientation) discrimination in alternating blocks of trials in the same sessions. The results showed no evidence for significant learning transfer to the untrained near-threshold contrast (or orientation) discrimination task after discounting the pretest effects and the suprathreshold practice effects. These results thus do not support a hypothetical task-independent component in perceptual learning of basic visual features. They also set the boundary of the new training protocols in their capability to enable learning transfer. PMID:26873777

Biogeochemical Controls on Biodegradation of MC252 Oil:Sand Aggregates on a Rapidly Eroding Coastal Headland Beach

NASA Astrophysics Data System (ADS)

Pardue, J.; Elango, V.; Urbano, M.; Lemelle, K.

2012-12-01

The research described below was conducted on Fourchon Beach, a coastal headland consisting of nine miles of fairly pristine sandy beaches and dunes, backed by wetlands and tidal channels, located between Belle Pass tidal inlet on the west and Elmer's Island on the east in Lafourche Parish, Louisiana. MC252 oil first arrived in large quantities on Fourchon Beach on or around May 20, 2010. A unique oil form created under these conditions was an aggregate of sand and emulsified oil, typically 0.1-10 cm in diameter, termed small surface residue balls (SSRBs). The work from this project made critical measurements on the factors controlling biodegradability of these SSRB aggregates. SSRB aggregates were sampled across transects perpendicular to the beach from the intertidal to the supratidal. Areas in the supratidal that were sampled initially were set aside for research purposes and not altered by any clean-up activities. Chemical composition of SSRBs was measured including concentrations of n-alkanes, PAHs, hopanes, nutrients (nitrate, nitrite, ammonium and orthophosphate measured on water extracts of SSRBs), and electron acceptor concentrations (O2 microprofiles measured on intact SSRBs and sulfate). Physical characterization of the SSRBs including length and area dimensions, mass, density, porosity, moisture content, and salinity using standard methods. Microbial characterization of SSRBs was also conducted using denaturing gradient gel electrophoresis and sequencing of dominant bands. SSRBs were sampled from various locations across the beach profile deposited by 2 significant tropical events in 2010; Hurricane Alex and TS Bonnie, and one event in 2011, TS Lee. Sampling focused on comparing and contrasting impacts of biogeochemistry on weathering of oil stranded in three beach microenvironments; supratidal surface; subtidal subsurface which is permanently inundated and intertidal subsurface samples which are intermittently inundated. The three types of oil are dramatically different in appearance and have a distinctive chemical signature indicative of different rates of weathering. Supratidal surface samples were depleted in n-alkanes and lower-molecular weight PAHs. Geochemically, aggregates located in these environments had low salinities (1.3-1.5 ppt), O2 at near saturation throughout the aggregates and nutrient concentrations (N and P) significantly lower than SSRBs deposited in the intertidal and subtidal. Intertidal and subtidal subsurface oil samples were characterized by elevated nutrient concentrations and salinities consistent with regular seawater inundation. Complete inundation leads to O2 consumption in the aggregates after several days. Despite the presence of elevated nutrients, PAHs and n-alkanes were comparatively unweathered in the subtidal subsurface samples consistent with O2 limitations. Sequences of known PAH degraders were isolated from the supratidal and intertidal aggregates. The results to be presented support the hypothesis that SSRBs deposited at different locations on the beach have different biogeochemical characteristics . These characteristics are due, in part, to their location on the landscape.

Association of Urinary Activity of MMP-2 with Microalbuminuria in an Isolated Sample of Subjects Living in High Altitude Rural Locations in México.

PubMed

Hernández-Hernández, Magda Elena; Morales-Romero, Jaime; Sampieri, Clara Luz; Luna Lozano, Diego Jesús; Valencia Lezama, Isidra Del Carmen; Muñoz Contreras, Mónica Janett; Rodríguez Hernández, Arturo

2017-09-01

Hernández-Hernández, Magda Elena, Jaime Morales-Romero, Clara Luz Sampieri, Diego Jesús Luna Lozano, Isidra del Carmen Valencia Lezama, Mónica Janett Muñoz Contreras, and Arturo Rodríguez Hernández. Association of urinary activity of MMP-2 with microalbuminuria in an isolated sample of subjects living in high altitude rural locations in México. High Alt Med Biol. 18:209-218, 2017.-Matrix metalloproteinases (MMP) are implicated in remodeling of the renal extracellular matrix. In a cross-sectional study we evaluated renal impairment in general population of high-altitude rural locations in México. Multivariable analysis was performed to identify the association between MMP-2 and MMP-9 and microalbuminuria. Twenty-eight (20.9%) subjects with renal impairment (WRI) and 106 (79.1%) without renal impairment were included. No differences were found relating to sex, location, marital status, current habits, weight, height, body mass index, waist size in males, creatinine in males, and uric acid. In contrast, differences were found among age, level of education, waist size in general and in females, creatinine in general and in females, urinary albumin, urea, glucose, total cholesterol, and triglycerides. Proportions of hypertension, type 2 diabetes mellitus, central abdominal obesity, hypertriglyceridemia, and hypercholesterolemia were greater in the group WRI. Presence of urinary MMP-2 or of both urinary gelatinases and arbitrary unit (AU) values ≥P 90 were associated with microalbuminuria. We conclude that AU values ≥P 90 of urinary MMP-2 (OR = 20.1, p = 0.002) is associated with microalbuminuria.

Evaluation of transcatheter arterial embolization therapy on hepatocellular carcinomas using contrast-enhanced harmonic power Doppler sonography: comparison with CT, power Doppler sonography, and dynamic MRI.

PubMed

Shima, Toshihide; Mizuno, Masayuki; Otsuji, Hideaki; Mizuno, Chiemi; Obata, Hirozumi; Park, Hyohun; Nakajo, Shinobu; Okanoue, Takeshi

2005-09-01

The aim of this study was to assess and compare the sensitivity of power Doppler sonography, contrast-enhanced sonography, plain computed tomography (CT), and dynamic magnetic resonance imaging (MRI) for detecting hepatocellular carcinoma (HCC) nodules incompletely treated with transcatheter arterial embolization (TAE). A total of 63 unresectable HCC nodules were examined in this study. The HCCs were treated with TAE. All patients underwent plain CT, power Doppler sonography, contrast-enhanced harmonic power Doppler sonography, and dynamic MRI 1 week after TAE. The sensitivity of each modality to incompletely treated HCC nodules was compared. Detection of the residual viable HCC on angiography or tumor biopsy was regarded as the gold standard for the diagnosis of incomplete treatment. Twenty-four nodules (38%) were diagnosed as incompletely treated. The sensitivities of plain CT, power Doppler sonography, contrast-enhanced harmonic power Doppler sonography, and dynamic MRI to these incompletely treated nodules were 42% (10/24), 46% (11/24), 88% (21/24), and 79% (19/24), respectively. Eighty percent (19 nodules) of the 24 incompletely treated nodules were located within a depth of less than 8 cm. The sensitivities of plain CT, power Doppler sonography, contrast-enhanced harmonic power Doppler sonography, and dynamic MRI to these superficial incompletely treated nodules were 37% (7/19), 53% (10/19), 100% (19/19), and 74% (14/19), respectively. In contrast, the sensitivities of each modality to deeply located nodules were 60% (3/5), 20% (1/5), 40% (2/5), and 100% (5/5), respectively. Plain CT and power Doppler sonography had a low sensitivity to HCC nodules incompletely treated with TAE. Except for those that were deeply located, contrast-enhanced harmonic sonography showed the highest sensitivity in detecting incompletely treated HCC nodules.

Characterizing sampling and quality screening biases in infrared and microwave limb sounding

NASA Astrophysics Data System (ADS)

Millán, Luis F.; Livesey, Nathaniel J.; Santee, Michelle L.; von Clarmann, Thomas

2018-03-01

This study investigates orbital sampling biases and evaluates the additional impact caused by data quality screening for the Michelson Interferometer for Passive Atmospheric Sounding (MIPAS) and the Aura Microwave Limb Sounder (MLS). MIPAS acts as a proxy for typical infrared limb emission sounders, while MLS acts as a proxy for microwave limb sounders. These biases were calculated for temperature and several trace gases by interpolating model fields to real sampling patterns and, additionally, screening those locations as directed by their corresponding quality criteria. Both instruments have dense uniform sampling patterns typical of limb emission sounders, producing almost identical sampling biases. However, there is a substantial difference between the number of locations discarded. MIPAS, as a mid-infrared instrument, is very sensitive to clouds, and measurements affected by them are thus rejected from the analysis. For example, in the tropics, the MIPAS yield is strongly affected by clouds, while MLS is mostly unaffected. The results show that upper-tropospheric sampling biases in zonally averaged data, for both instruments, can be up to 10 to 30 %, depending on the species, and up to 3 K for temperature. For MIPAS, the sampling reduction due to quality screening worsens the biases, leading to values as large as 30 to 100 % for the trace gases and expanding the 3 K bias region for temperature. This type of sampling bias is largely induced by the geophysical origins of the screening (e.g. clouds). Further, analysis of long-term time series reveals that these additional quality screening biases may affect the ability to accurately detect upper-tropospheric long-term changes using such data. In contrast, MLS data quality screening removes sufficiently few points that no additional bias is introduced, although its penetration is limited to the upper troposphere, while MIPAS may cover well into the mid-troposphere in cloud-free scenarios. We emphasize that the results of this study refer only to the representativeness of the respective data, not to their intrinsic quality.

Customizing Perimetric Locations Based on En Face Images of Retinal Nerve Fiber Bundles With Glaucomatous Damage

PubMed Central

Alluwimi, Muhammed S.; Swanson, William H.; Malinovsky, Victor E.; King, Brett J.

2018-01-01

Purpose Prior studies suggested the use of customized perimetric locations in glaucoma; these studies were limited by imaging only the superficial depths of the retinal nerve fiber layer (RNFL) and by prolonged perimetric testing. We aimed to develop a rapid perimetric test guided by high-resolution images of RNFL bundles. Methods We recruited 10 patients with glaucoma, ages 56 to 80 years, median 68 years, and 10 controls, ages 55 to 77 years, median 68 years. The patients were selected based on discrepancies between locations of glaucomatous damage for perimetric and structural measures. Montaging was used to produce optical coherence tomography en face images of the RNFL covering much of the 24-2 grid locations. In experiment 1, we presented the Goldmann size III stimulus at preselected retinal locations of glaucomatous damage, using just two contrasts. In experiment 2, we developed an elongated sinusoidal stimulus, aligned within the defect, to measure contrast sensitivities; abnormalities were defined based on lower 95% reference limits derived from the controls. Results The percentage of predicted locations where size III was not seen at 28 dB ranged from 16% to 80%, with a median of 48%. Contrast sensitivity for the sinusoidal stimulus was below the 95% reference range for 37 of 44 stimuli aligned within the defects. Conclusions We developed methods for rapid perimetric testing guided by en face images of the RNFL bundles in patients with glaucoma. Results indicated ganglion cell damage under all of the visible RNFL defects. Translational Relevance Customized perimetric locations have potential to improve clinical assessment of glaucoma. PMID:29576929

Population genomics of C. melanopterus using target gene capture data: demographic inferences and conservation perspectives

PubMed Central

Maisano Delser, Pierpaolo; Corrigan, Shannon; Hale, Matthew; Li, Chenhong; Veuille, Michel; Planes, Serge; Naylor, Gavin; Mona, Stefano

2016-01-01

Population genetics studies on non-model organisms typically involve sampling few markers from multiple individuals. Next-generation sequencing approaches open up the possibility of sampling many more markers from fewer individuals to address the same questions. Here, we applied a target gene capture method to deep sequence ~1000 independent autosomal regions of a non-model organism, the blacktip reef shark (Carcharhinus melanopterus). We devised a sampling scheme based on the predictions of theoretical studies of metapopulations to show that sampling few individuals, but many loci, can be extremely informative to reconstruct the evolutionary history of species. We collected data from a single deme (SID) from Northern Australia and from a scattered sampling representing various locations throughout the Indian Ocean (SCD). We explored the genealogical signature of population dynamics detected from both sampling schemes using an ABC algorithm. We then contrasted these results with those obtained by fitting the data to a non-equilibrium finite island model. Both approaches supported an Nm value ~40, consistent with philopatry in this species. Finally, we demonstrate through simulation that metapopulations exhibit greater resilience to recent changes in effective size compared to unstructured populations. We propose an empirical approach to detect recent bottlenecks based on our sampling scheme. PMID:27651217

Population genomics of C. melanopterus using target gene capture data: demographic inferences and conservation perspectives.

PubMed

Maisano Delser, Pierpaolo; Corrigan, Shannon; Hale, Matthew; Li, Chenhong; Veuille, Michel; Planes, Serge; Naylor, Gavin; Mona, Stefano

2016-09-21

Population genetics studies on non-model organisms typically involve sampling few markers from multiple individuals. Next-generation sequencing approaches open up the possibility of sampling many more markers from fewer individuals to address the same questions. Here, we applied a target gene capture method to deep sequence ~1000 independent autosomal regions of a non-model organism, the blacktip reef shark (Carcharhinus melanopterus). We devised a sampling scheme based on the predictions of theoretical studies of metapopulations to show that sampling few individuals, but many loci, can be extremely informative to reconstruct the evolutionary history of species. We collected data from a single deme (SID) from Northern Australia and from a scattered sampling representing various locations throughout the Indian Ocean (SCD). We explored the genealogical signature of population dynamics detected from both sampling schemes using an ABC algorithm. We then contrasted these results with those obtained by fitting the data to a non-equilibrium finite island model. Both approaches supported an Nm value ~40, consistent with philopatry in this species. Finally, we demonstrate through simulation that metapopulations exhibit greater resilience to recent changes in effective size compared to unstructured populations. We propose an empirical approach to detect recent bottlenecks based on our sampling scheme.

It's All about Location, Location, Location: Children's Memory for the "Where'' of Personally Experienced Events

ERIC Educational Resources Information Center

Bauer, Patricia J.; Doydum, Ayzit O.; Pathman, Thanujeni; Larkina, Marina; Guler, O. Evren; Burch, Melissa

2012-01-01

Episodic memory is defined as the ability to recall specific past events located in a particular time and place. Over the preschool and into the school years, there are clear developmental changes in memory for when events took place. In contrast, little is known about developmental changes in memory for where events were experienced. In the…

Using generalized additive mixed models to assess spatial, temporal, and hydrologic controls on bacteria and nitrate in a vulnerable agricultural aquifer.

PubMed

Mellor, Andrea F P; Cey, Edwin E

2015-11-01

The Abbotsford-Sumas aquifer (ASA) has a history of nitrate contamination from agricultural land use and manure application to soils, yet little is known about its microbial groundwater quality. The goal of this study was to investigate the spatiotemporal distribution of pathogen indicators (Escherichia coli [E. coli] and total coliform [TC]) and nitrate in groundwater, and their potential relation to hydrologic drivers. Sampling of 46 wells over an 11-month period confirmed elevated nitrate concentrations, with more than 50% of samples exceeding 10 mg-N/L. E. coli detections in groundwater were infrequent (4 of 385 total samples) and attributed mainly to surface water-groundwater connections along Fishtrap Creek, which tested positive for E. coli in every sampling event. TC was detected frequently in groundwater (70% of samples) across the ASA. Generalized additive mixed models (GAMMs) yielded valuable insights into relationships between TC or nitrate and a range of spatial, temporal, and hydrologic explanatory variables. Increased TC values over the wetter fall and winter period were most strongly related to groundwater temperatures and levels, while precipitation and well location were weaker (but still significant) predictors. In contrast, the moderate temporal variability in nitrate concentrations was not significantly related to hydrologic forcings. TC was relatively widespread across the ASA and spatial patterns could not be attributed solely to surface water connectivity. Varying nitrate concentrations across the ASA were significantly related to both well location and depth, likely due to spatially variable nitrogen loading and localized geochemical attenuation (i.e., denitrification). Vulnerability of the ASA to bacteria was clearly linked to hydrologic conditions, and was distinct from nitrate, such that a groundwater management strategy specifically for bacterial contaminants is warranted. Copyright © 2015 Elsevier B.V. All rights reserved.

The decay of wood in landfills in contrasting climates in Australia

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

Ximenes, Fabiano, E-mail: fabiano.ximenes@dpi.nsw.gov.au; Björdal, Charlotte; Cowie, Annette

Highlights: • We examine decay in wood from landfills in contrasting environments in Australia. • Analysis is based on changes in chemical composition and microscopy. • Climate did not influence levels of decay observed. • Microscopy of retrieved samples revealed most of the decay was aerobic in nature. • Current default factors for wood decay in landfills overestimate methane emissions. - Abstract: Wood products in landfill are commonly assumed to decay within several decades, returning the carbon contained therein to the atmosphere, with about half the carbon released as methane. However, the rate and extent of decay is not wellmore » known, as very few studies have examined the decay of wood products in landfills. This study reports on the findings from landfill excavations conducted in the Australian cities of Sydney and Cairns located in temperate and tropical environments, respectively. The objective of this study was to determine whether burial of the wood in warmer, more tropical conditions in Cairns would result in greater levels of decay than occurs in the temperate environment of Sydney. Wood samples recovered after 16–44 years in landfill were examined through physical, chemical and microscopic analyses, and compared with control samples to determine the carbon loss. There was typically little or no decay in the wood samples analysed from the landfill in Sydney. Although there was significant decay in rainforest wood species excavated from Cairns, decay levels for wood types that were common to both Cairns and Sydney landfills were similar. The current Intergovernmental Panel on Climate Change (IPCC, 2006) default decay factor for organic materials in landfills is 50%. In contrast, the carbon loss determined for Pinus radiata recovered from Sydney and Cairns landfills was 7.9% and 4.4%, respectively, and 0% for Agathis sp. This suggests that climate did not influence decay, and that the more extensive levels of decay observed for some wood samples from Cairns indicates that those wood types were more susceptible to biodegradation. Microscopic analyses revealed that most decay patterns observed in samples analysed from Sydney were consistent with aerobic fungal decay. Only a minor portion of the microbial decay was due to erosion bacteria active in anaerobic/near anaerobic environments. The findings of this study strongly suggest that models that adopt current accepted default factors for the decay of wood in landfills greatly overestimate methane emissions.« less

A Stoichioproteomic Analysis of Samples from the Human Microbiome Project

PubMed Central

Vecchio-Pagan, Briana; Bewick, Sharon; Mainali, Kumar; Karig, David K.; Fagan, William F.

2017-01-01

Ecological stoichiometry (ES) uses organism-specific elemental content to explain differences in species life histories, species interactions, community organization, environmental constraints and even ecosystem function. Although ES has been successfully applied to a range of different organisms, most emphasis on microbial ecological stoichiometry focuses on lake, ocean, and soil communities. With the recent advances in human microbiome research, however, large amounts of data are being generated that describe differences in community composition across body sites and individuals. We suggest that ES may provide a framework for beginning to understand the structure, organization, and function of human microbial communities, including why certain organisms exist at certain locations, and how they interact with both the other microbes in their environment and their human host. As a first step, we undertake a stoichioproteomic analysis of microbial communities from different body sites. Specifically, we compare and contrast the elemental composition of microbial protein samples using annotated sequencing data from 690 gut, vaginal, oral, nares, and skin samples currently available through the Human Microbiome Project. Our results suggest significant differences in both the median and variance of the carbon, oxygen, nitrogen, and sulfur contents of microbial protein samples from different locations. For example, whereas proteins from vaginal sites are high in carbon, proteins from skin and nasal sites are high in nitrogen and oxygen. Meanwhile, proteins from stool (the gut) are particularly high in sulfur content. We interpret these differences in terms of the local environments at different human body sites, including atmospheric exposure and food intake rates. PMID:28769875

GAMM's as a New Tool for Evaluating Spatiotemporal Distributions of Nitrate and Bacteria in an Agricultural Watershed

NASA Astrophysics Data System (ADS)

Cey, E. E.; Mellor, A. F.

2015-12-01

Generalized additive mixed models (GAMM's) are flexible regression models that are increasingly used in ecological and environmental studies to assess spatial and temporal trends in complex monitoring data. GAMM's hold promise for analysis of spatially and temporally correlated hydrogeologic data, but have been used only sparingly. Here we employed GAMM's to investigate the spatiotemporal distribution of pathogen indicators (E. coli and total coliform [TC]) and nitrate in the vulnerable Abbotsford-Sumas aquifer (ASA), and to explore potential relationships with hydrologic and climatic drivers, such as precipitation, streamflow, and groundwater level and temperature. A total of 46 wells sampled over a one year period showed more than 50% of samples exceeded 10 mg-N/L for nitrate. E. coli detections in groundwater were infrequent (4 of 385 total samples) and attributed mainly to surface water-groundwater connections. TC was detected frequently in groundwater (70% of samples) and the widespread TC distribution across the ASA could not be attributed solely to surface water connectivity. GAMM's showed that increased TC values in the wet season were most strongly related to groundwater temperatures and levels, while precipitation and well location were weaker (but still significant) predictors. In contrast, seasonal trends in nitrate were not significantly related to hydrologic forcings. Instead, nitrate concentrations across the aquifer were controlled by well location and depth, likely due to spatially variable nitrogen loading and localized geochemical attenuation. Major differences in nitrate and bacterial loading to the ASA were apparent in this study, and management strategies specific to each nonpoint source contaminant are recommended for improved source water protection.

Multi-organ segmentation from multi-phase abdominal CT via 4D graphs using enhancement, shape and location optimization.

PubMed

Linguraru, Marius George; Pura, John A; Chowdhury, Ananda S; Summers, Ronald M

2010-01-01

The interpretation of medical images benefits from anatomical and physiological priors to optimize computer-aided diagnosis (CAD) applications. Diagnosis also relies on the comprehensive analysis of multiple organs and quantitative measures of soft tissue. An automated method optimized for medical image data is presented for the simultaneous segmentation of four abdominal organs from 4D CT data using graph cuts. Contrast-enhanced CT scans were obtained at two phases: non-contrast and portal venous. Intra-patient data were spatially normalized by non-linear registration. Then 4D erosion using population historic information of contrast-enhanced liver, spleen, and kidneys was applied to multi-phase data to initialize the 4D graph and adapt to patient specific data. CT enhancement information and constraints on shape, from Parzen windows, and location, from a probabilistic atlas, were input into a new formulation of a 4D graph. Comparative results demonstrate the effects of appearance and enhancement, and shape and location on organ segmentation.

Impact of primary and secondary organic sources on the oxidative potential of quasi-ultrafine particles (PM0.25) at three contrasting locations in the Los Angeles Basin

NASA Astrophysics Data System (ADS)

Saffari, Arian; Hasheminassab, Sina; Wang, Dongbin; Shafer, Martin M.; Schauer, James J.; Sioutas, Constantinos

2015-11-01

To investigate the changing contribution of primary and secondary sources on the oxidative potential of particulate matter (PM) in a real-world urban atmosphere, 7 sets of quasi-ultrafine particles (PM0.25) were collected at three contrasting locations in the Los Angeles Basin, California, USA. Samples were collected in the coastal area of Long Beach during the morning rush hour period, representing fresh primary emissions from nearby freeways and the LA port; in central Los Angeles during midday, representing a mixture of fresh primary emissions and early products of photochemical secondary organic aerosol (SOA) formation; and at a downwind site (Upland) during afternoon, when the impacts of photochemically aged secondary PM are significant. Chemical composition showed distinctive trends, with the lowest fraction of water soluble organic carbon (WSOC) and other organic tracers of SOA formation (e.g. organic acids) at Long Beach, and the lowest abundance of organic tracers of primary vehicular emissions (such as polycyclic aromatic hydrocarbons and hopanes) at Upland. A molecular marker-based chemical mass balance (MM-CMB) model indicated that 72% of the total organic carbon at Long Beach was comprised of primary vehicular sources (combined heavy duty and light duty vehicles), while the vehicular fraction was found to be 50% and 39% at Los Angeles and Upland, respectively. Regression analysis suggested that at Long Beach, the variation in oxidative potential of PM0.25 (quantified using a macrophage-based reactive oxygen species (ROS) assay) was mainly driven by mobile vehicular emissions and the water-insoluble fraction of the organic carbon. In contrast, at Upland, where photochemical processing and secondary aerosol formation was the highest, WSOC and secondary organics were the major drivers of the oxidative potential variation. The multivariate regression analysis also indicated that as much as 58% of the overall spatial and temporal variation in the oxidative potential of PM0.25 at these three locations can be explained by mobile emissions and SOA.

In-Line Phase-Contrast X-ray Imaging and Tomography for Materials Science

PubMed Central

Mayo, Sheridan C.; Stevenson, Andrew W.; Wilkins, Stephen W.

2012-01-01

X-ray phase-contrast imaging and tomography make use of the refraction of X-rays by the sample in image formation. This provides considerable additional information in the image compared to conventional X-ray imaging methods, which rely solely on X-ray absorption by the sample. Phase-contrast imaging highlights edges and internal boundaries of a sample and is thus complementary to absorption contrast, which is more sensitive to the bulk of the sample. Phase-contrast can also be used to image low-density materials, which do not absorb X-rays sufficiently to form a conventional X-ray image. In the context of materials science, X-ray phase-contrast imaging and tomography have particular value in the 2D and 3D characterization of low-density materials, the detection of cracks and voids and the analysis of composites and multiphase materials where the different components have similar X-ray attenuation coefficients. Here we review the use of phase-contrast imaging and tomography for a wide variety of materials science characterization problems using both synchrotron and laboratory sources and further demonstrate the particular benefits of phase contrast in the laboratory setting with a series of case studies. PMID:28817018

In-Line Phase-Contrast X-ray Imaging and Tomography for Materials Science.

PubMed

Mayo, Sheridan C; Stevenson, Andrew W; Wilkins, Stephen W

2012-05-24

X-ray phase-contrast imaging and tomography make use of the refraction of X-rays by the sample in image formation. This provides considerable additional information in the image compared to conventional X-ray imaging methods, which rely solely on X-ray absorption by the sample. Phase-contrast imaging highlights edges and internal boundaries of a sample and is thus complementary to absorption contrast, which is more sensitive to the bulk of the sample. Phase-contrast can also be used to image low-density materials, which do not absorb X-rays sufficiently to form a conventional X-ray image. In the context of materials science, X-ray phase-contrast imaging and tomography have particular value in the 2D and 3D characterization of low-density materials, the detection of cracks and voids and the analysis of composites and multiphase materials where the different components have similar X-ray attenuation coefficients. Here we review the use of phase-contrast imaging and tomography for a wide variety of materials science characterization problems using both synchrotron and laboratory sources and further demonstrate the particular benefits of phase contrast in the laboratory setting with a series of case studies.

Trends in myocardial infarction rates and case fatality by anatomical location in four United States communities, 1987 to 2008 (from the Atherosclerosis Risk in Communities Study).

PubMed

Newman, Jonathan D; Shimbo, Daichi; Baggett, Chris; Liu, Xiaoxi; Crow, Richard; Abraham, Joellyn M; Loehr, Laura R; Wruck, Lisa M; Folsom, Aaron R; Rosamond, Wayne D

2013-12-01

Although the incidence of and mortality after ST-segment elevation myocardial infarction (STEMI) is decreasing, time trends in anatomical location of STEMI and associated short-term prognosis have not been examined in a population-based community study. We determined 22-year trends in age- and race-adjusted gender-specific incidences and 28-day case fatality of hospitalized STEMI by anatomic infarct location among a stratified random sample of 35- to 74-year-old residents of 4 communities in the Atherosclerosis Risk in Communities study. STEMI infarct location was assessed by 12-lead electrocardiograms from the hospital record and was coded as anterior, inferior, lateral, and multilocation STEMIs using the Minnesota code. From 1987 to 2008, a total of 4,845 patients had an incident STEMI; 37.2% were inferior STEMI, 32.8% were anterior, 16.8% occurred in multiple infarct locations, and 13.2% were lateral STEMI. For inferior, anterior, and lateral STEMIs in both men and women, significant decreases were observed in the age-adjusted annual incidence and the associated 28-day case fatality. In contrast, for STEMI in multiple infarct locations, neither the annual incidence nor the 28-day case fatality changed over time. The age- and race-adjusted annual incidence and associated 28-day case fatality of STEMI in anterior, inferior, and lateral infarct locations decreased during 22 years of surveillance; however, no decrease was observed for STEMI in multiple infarct locations. In conclusion, our findings suggest that there is room for improvement in the care of patients with multilocation STEMI. Copyright © 2013 Elsevier Inc. All rights reserved.

Attention enhances contrast appearance via increased input baseline of neural responses

PubMed Central

Cutrone, Elizabeth K.; Heeger, David J.; Carrasco, Marisa

2014-01-01

Covert spatial attention increases the perceived contrast of stimuli at attended locations, presumably via enhancement of visual neural responses. However, the relation between perceived contrast and the underlying neural responses has not been characterized. In this study, we systematically varied stimulus contrast, using a two-alternative, forced-choice comparison task to probe the effect of attention on appearance across the contrast range. We modeled performance in the task as a function of underlying neural contrast-response functions. Fitting this model to the observed data revealed that an increased input baseline in the neural responses accounted for the enhancement of apparent contrast with spatial attention. PMID:25549920

How bees distinguish patterns by green and blue modulation

PubMed Central

Horridge, Adrian

2015-01-01

In the 1920s, Mathilde Hertz found that trained bees discriminated between shapes or patterns of similar size by something related to total length of contrasting contours. This input is now interpreted as modulation in green and blue receptor channels as flying bees scan in the horizontal plane. Modulation is defined as total contrast irrespective of sign multiplied by length of edge displaying that contrast, projected to vertical, therefore, combining structure and contrast in a single input. Contrast is outside the eye; modulation is a phasic response in receptor pathways inside. In recent experiments, bees trained to distinguish color detected, located, and measured three independent inputs and the angles between them. They are the tonic response of the blue receptor pathway and modulation of small-field green or (less preferred) blue receptor pathways. Green and blue channels interacted intimately at a peripheral level. This study explores in more detail how various patterns are discriminated by these cues. The direction of contrast at a boundary was not detected. Instead, bees located and measured total modulation generated by horizontal scanning of contrasts, irrespective of pattern. They also located the positions of isolated vertical edges relative to other landmarks and distinguished the angular widths between vertical edges by green or blue modulation alone. The preferred inputs were the strongest green modulation signal and angular width between outside edges, irrespective of color. In the absence of green modulation, the remaining cue was a measure and location of blue modulation at edges. In the presence of green modulation, blue modulation was inhibited. Black/white patterns were distinguished by the same inputs in blue and green receptor channels. Left–right polarity and mirror images could be discriminated by retinotopic green modulation alone. Colors in areas bounded by strong green contrast were distinguished as more or less blue than the background. The blue content could also be summed over the whole target. There were no achromatic patterns for bees and no evidence that they detected black, white, or gray levels apart from the differences in blue content or modulation at edges. Most of these cues would be sensitive to background color but some were influenced by changes in illumination. The bees usually learned only to avoid the unrewarded target. Exactly the same preferences of the same inputs were used in the detection of single targets as in discrimination between two targets. PMID:28539796

Evaluating the fate of chlorinated ethenes in streambed sediments by combining stable isotope, geochemical and microbial methods

NASA Astrophysics Data System (ADS)

Abe, Yumiko; Aravena, Ramon; Zopfi, Jakob; Parker, Beth; Hunkeler, Daniel

2009-06-01

The occurrence of chlorinated ethene transformation in a streambed was investigated using concentration and carbon isotope data from water samples taken at different locations and depths within a 15 × 25 m study area across which a tetrachloroethene (PCE) plume discharges. Furthermore, it was evaluated how the degree of transformation is related to groundwater discharge rates, redox conditions, solid organic matter content (SOM) and microbial factors. Groundwater discharge rates were quantified based on streambed temperatures, and redox conditions using concentrations of dissolved redox-sensitive species. The degree of chlorinated ethene transformation was highly variable in space from no transformation to transformation beyond ethene. Complete reductive dechlorination to ethane and ethene occurred at locations with at least sulfate-reducing conditions and with a residence time in the samples streambed zone (80 cm depth) of at least 10 days. Among these locations, Dehalococcoides was detected using a PCR method where SOM contents were > 2% w/w and where transformation proceeded beyond ethene. However, it was not detected at locations with low SOM, which may cause an insufficient H 2 supply to sustain a detectably dense Dehalococcoides population. Additionally, it is possible that other organisms are responsible for the biodegradation. A microcosm study with streambed sediments demonstrated the potential of VC oxidation throughout the site even at locations without a pre-exposure to VC, consistent with the detection of the epoxyalkane:coenzyme M transferase (EaCoMT) gene involved in the degradation of chlorinated ethenes via epoxidation. In contrast, no aerobic transformation of cDCE in microcosms over a period of 1.5 years was observed. In summary, the study demonstrated that carbon isotope analysis is a sensitive tool to identify the degree of chlorinated ethene transformation even in hydrologically and geochemically complex streambed systems. In addition, it was observed that the degree of transformation is related to redox conditions, which in turn depend on groundwater discharge rates.

Molecular characterization of the canine mitochondrial DNA control region for forensic applications.

PubMed

Eichmann, Cordula; Parson, Walther

2007-09-01

The canine mitochondrial DNA (mtDNA) control region of 133 dogs living in the area around Innsbruck, Austria was sequenced. A total of 40 polymorphic sites were observed in the first hypervariable segment and 15 in the second, which resulted in the differentiation of 40 distinct haplotypes. We observed five nucleotide positions that were highly polymorphic within different haplogroups, and they represent good candidates for mtDNA screening. We found five point heteroplasmic positions; all located in HVS-I and a polythymine region in HVS-II, the latter often being associated with length heteroplasmy. In contrast to human mtDNA, the canine control region contains a hypervariable 10 nucleotide repeat region, which is located between the two hypervariable regions. In our population sample, we observed eight different repeat types, which we characterized by direct sequencing and fragment length analysis. The discrimination power of the canine mtDNA control region was 0.93, not taking the polymorphic repeat region into consideration.

Automatic lung lobe segmentation using particles, thin plate splines, and maximum a posteriori estimation.

PubMed

Ross, James C; San José Estépar, Rail; Kindlmann, Gordon; Díaz, Alejandro; Westin, Carl-Fredrik; Silverman, Edwin K; Washko, George R

2010-01-01

We present a fully automatic lung lobe segmentation algorithm that is effective in high resolution computed tomography (CT) datasets in the presence of confounding factors such as incomplete fissures (anatomical structures indicating lobe boundaries), advanced disease states, high body mass index (BMI), and low-dose scanning protocols. In contrast to other algorithms that leverage segmentations of auxiliary structures (esp. vessels and airways), we rely only upon image features indicating fissure locations. We employ a particle system that samples the image domain and provides a set of candidate fissure locations. We follow this stage with maximum a posteriori (MAP) estimation to eliminate poor candidates and then perform a post-processing operation to remove remaining noise particles. We then fit a thin plate spline (TPS) interpolating surface to the fissure particles to form the final lung lobe segmentation. Results indicate that our algorithm performs comparably to pulmonologist-generated lung lobe segmentations on a set of challenging cases.

Automatic Lung Lobe Segmentation Using Particles, Thin Plate Splines, and Maximum a Posteriori Estimation

PubMed Central

Ross, James C.; Estépar, Raúl San José; Kindlmann, Gordon; Díaz, Alejandro; Westin, Carl-Fredrik; Silverman, Edwin K.; Washko, George R.

2011-01-01

We present a fully automatic lung lobe segmentation algorithm that is effective in high resolution computed tomography (CT) datasets in the presence of confounding factors such as incomplete fissures (anatomical structures indicating lobe boundaries), advanced disease states, high body mass index (BMI), and low-dose scanning protocols. In contrast to other algorithms that leverage segmentations of auxiliary structures (esp. vessels and airways), we rely only upon image features indicating fissure locations. We employ a particle system that samples the image domain and provides a set of candidate fissure locations. We follow this stage with maximum a posteriori (MAP) estimation to eliminate poor candidates and then perform a post-processing operation to remove remaining noise particles. We then fit a thin plate spline (TPS) interpolating surface to the fissure particles to form the final lung lobe segmentation. Results indicate that our algorithm performs comparably to pulmonologist-generated lung lobe segmentations on a set of challenging cases. PMID:20879396

Use of kurtosis for locating deep blood vessels in raw speckle imaging using a homogeneity representation.

PubMed

Peregrina-Barreto, Hayde; Perez-Corona, Elizabeth; Rangel-Magdaleno, Jose; Ramos-Garcia, Ruben; Chiu, Roger; Ramirez-San-Juan, Julio C

2017-06-01

Visualization of deep blood vessels in speckle images is an important task as it is used to analyze the dynamics of the blood flow and the health status of biological tissue. Laser speckle imaging is a wide-field optical technique to measure relative blood flow speed based on the local speckle contrast analysis. However, it has been reported that this technique is limited to certain deep blood vessels (about ? = 300 ?? ? m ) because of the high scattering of the sample; beyond this depth, the quality of the vessel’s image decreases. The use of a representation based on homogeneity values, computed from the co-occurrence matrix, is proposed as it provides an improved vessel definition and its corresponding diameter. Moreover, a methodology is proposed for automatic blood vessel location based on the kurtosis analysis. Results were obtained from the different skin phantoms, showing that it is possible to identify the vessel region for different morphologies, even up to 900 ?? ? m in depth.

Variations in land use and nonpoint-source contamination on the Fort Berthold Indian Reservation, west-central North Dakota, 1990-93

USGS Publications Warehouse

Macek-Rowland, Kathleen; Lent, Robert M.

1996-01-01

The effects of land-use activities on the water quality of five streams on the Fort Berthold Indian Reservation were evaluated. The five basinsevaluated were East Fork Shell Creek, Deepwater Creek, Bear Den Creek, Moccasin Creek, and Squaw Creek. East Fork Shell Creek and DeepwaterCreek Basins are located east of Lake Sakakawea and Bear Den Creek, Moccasin Creek, and Squaw Creek Basins are located west of the lake. Land-use data for the five selected basins on and adjacent to the Fort Berthold Indian Reservation were obtained for 1990-92. Discharge measurements were made and water-quality samples were collected at stations and sites on each of the five streams during October 1991 through September 1993. Analysis of land-use data indicated that prairie was the largest land-use category in the study area. More prairie acreage was found in the basins located west of Lake Sakakawea than in the basins located east of the lake. Wheat was the predominant crop in the study area. More wheat acreage was found in the basins located east of Lake Sakakawea than in the basins located west of the lake. Discharge data for the five selected streams indicated that all of thestreams were ephemeral and had many days of no flow during the study period. High flows were usually the result of spring runoff or intense storms over the basins. East Fork Shell Creek and Deepwater Creek with larger basins and flatter stream slopes had high flows characterized by rapidly rising flows and gradually receding flows. In contrast, Bear DenCreek, Moccasin Creek, and Squaw Creek with smaller basins and steeper stream slopes had high flows characterized by rapidly rising flows and receding flows of shorter duration. Analysis of water-quality samples indicated concentrations of nitrogen, phosphorus, and total organic carbon varied throughout the study area. Nitrogen concentrations were larger in the streams located east of LakeSakakawea than in the streams located west of the lake. The largest nitrogen concentrations in all of the streams occurred during the nongrowing periods.Phosphorus (orthophosphate and total phosphorus)concentrations were larger in the streams located east of Lake Sakakawea than in the streams located west of the lake. The larger orthophosphateconcentrations in the eastern streams may be indicative of insecticide application in the eastern streams' basins. Total organic carbon concentrations were fairly consistent in all five streams. Water-quality samples were analyzed for the pesticides atrazine, carbofuran, cyanazine, and 2,4-D by using immunoassay testing. Pesticide concentrations above the minimum reporting levels were more prevalent insamples from streams located east of Lake Sakakawea than in the streams located west of the lake. The eastern streams drain areas where herbicides were applied to crops. Fecal-bacteria concentrations were larger in the streams located west of Lake Sakakawea, where prairie is more dominant, than in the streams located east of the lake. The larger concentrations and loads were associated with intense storm events and the presence of livestock.

A Freeze Substitution Fixation-Based Gold Enlarging Technique for EM Studies of Endocytosed Nanogold-Labeled Molecules

PubMed Central

He, Wanzhong; Kivork, Christine; Machinani, Suman; Morphew, Mary K.; Gail, Anna M.; Tesar, Devin B.; Tiangco, Noreen E.; McIntosh, J. Richard; Bjorkman, Pamela J.

2007-01-01

We have developed methods to locate individual ligands that can be used for electron microscopy studies of dynamic events during endocytosis and subsequent intracellular trafficking. The methods are based on enlargement of 1.4 nm Nanogold attached to an endocytosed ligand. Nanogold, a small label that does not induce misdirection of ligand-receptor complexes, is ideal for labeling ligands endocytosed by live cells, but is too small to be routinely located in cells by electron microscopy. Traditional pre-embedding enhancement protocols to enlarge Nanogold are not compatible with high pressure freezing/freeze substitution fixation (HPF/FSF), the most accurate method to preserve ultrastructure and dynamic events during trafficking. We have developed an improved enhancement procedure for chemically-fixed samples that reduced autonucleation, and a new pre-embedding gold-enlarging technique for HPF/FSF samples that preserved contrast and ultrastructure and can be used for high-resolution tomography. We evaluated our methods using labeled Fc as a ligand for the neonatal Fc receptor. Attachment of Nanogold to Fc did not interfere with receptor binding or uptake, and gold-labeled Fc could be specifically enlarged to allow identification in 2D projections and in tomograms. These methods should be broadly applicable to many endocytosis and transcytosis studies. PMID:17723309

Optimal Use of TDOA Geo-Location Techniques Within the Mountainous Terrain of Turkey

DTIC Science & Technology

2012-09-01

Cross -Correlation TDOA Estimation Technique ................. 49 3. Standard Deviation...76 Figure 32. The Effect of Noise on Accuracy ........................................................ 77 Figure 33. The Effect of Noise to...finding techniques. In contrast, people have been using active location finding techniques, such as radar , for decades. When active location finding

Comparison of African swine fever virus prevalence and risk in two contrasting pig-farming systems in South-west and Central Kenya.

PubMed

Okoth, E; Gallardo, C; Macharia, J M; Omore, A; Pelayo, V; Bulimo, D W; Arias, M; Kitala, P; Baboon, K; Lekolol, I; Mijele, D; Bishop, R P

2013-06-01

We describe a horizontal survey of African swine fever virus (ASFV) prevalence and risk factors associated with virus infection in domestic pigs in two contrasting production systems in Kenya. A free range/tethering, low input production system in Ndhiwa District of South-western Kenya is compared with a medium input stall fed production system in Kiambu District of Central Kenya. Analysis of variance (ANOVA) of data derived from cluster analysis showed that number of animals, number of breeding sows and number of weaner pigs were a significant factor in classifying farms in Nhiwa and Kiambu. Analysis of blood and serum samples using a PCR assay demonstrated an average animal level positivity to ASFV of 28% in two independent samplings in South-western Kenya and 0% PCR positivity in Central Kenya. No animals were sero-positive in either study site using the OIE indirect-ELISA and none of the animals sampled exhibited clinical symptoms of ASF. The farms that contained ASFV positive pigs in Ndhiwa District were located in divisions bordering the Ruma National Park from which bushpig (Potamochoerus larvatus) incursions into farms had been reported. ASFV prevalence (P<0.05) was significantly higher at distances between 6 and 16km from the National Park than at distances closer or further away. One of the 8 bushpigs sampled from the park, from which tissues were obtained was PCR positive for ASFV. The data therefore indicated a potential role for the bushpig in virus transmission in South-western Kenya, but there was no evidence of a direct sylvatic virus transmission cycle in Central Kenya. ASF control strategies implemented in these areas will need to take these epidemiological findings into consideration. Copyright © 2012 Elsevier B.V. All rights reserved.

Microbial Ecology of a Crewed Rover Traverse in the Arctic: Low Microbial Dispersal and Implications for Planetary Protection on Human Mars Missions.

PubMed

Schuerger, Andrew C; Lee, Pascal

2015-06-01

Between April 2009 and July 2011, the NASA Haughton-Mars Project (HMP) led the Northwest Passage Drive Expedition (NWPDX), a multi-staged long-distance crewed rover traverse along the Northwest Passage in the Arctic. In April 2009, the HMP Okarian rover was driven 496 km over sea ice along the Northwest Passage, from Kugluktuk to Cambridge Bay, Nunavut, Canada. During the traverse, crew members collected samples from within the rover and from undisturbed snow-covered surfaces around the rover at three locations. The rover samples and snow samples were stored at subzero conditions (-20°C to -1°C) until processed for microbial diversity in labs at the NASA Kennedy Space Center, Florida. The objective was to determine the extent of microbial dispersal away from the rover and onto undisturbed snow. Interior surfaces of the rover were found to be associated with a wide range of bacteria (69 unique taxa) and fungi (16 unique taxa). In contrast, snow samples from the upwind, downwind, uptrack, and downtrack sample sites exterior to the rover were negative for both bacteria and fungi except for two colony-forming units (cfus) recovered from one downwind (1 cfu; site A4) and one uptrack (1 cfu; site B6) sample location. The fungus, Aspergillus fumigatus (GenBank JX517279), and closely related bacteria in the genus Brevibacillus were recovered from both snow (B. agri, GenBank JX517278) and interior rover surfaces. However, it is unknown whether the microorganisms were deposited onto snow surfaces at the time of sample collection (i.e., from the clothing or skin of the human operator) or via airborne dispersal from the rover during the 12-18 h layovers at the sites prior to collection. Results support the conclusion that a crewed rover traveling over previously undisturbed terrain may not significantly contaminate the local terrain via airborne dispersal of propagules from the vehicle.

Atmospheric ammonia mixing ratios at an open-air cattle feeding facility.

PubMed

Hiranuma, Naruki; Brooks, Sarah D; Thornton, Daniel C O; Auvermann, Brent W

2010-02-01

Mixing ratios of total and gaseous ammonia were measured at an open-air cattle feeding facility in the Texas Panhandle in the summers of 2007 and 2008. Samples were collected at the nominally upwind and downwind edges of the facility. In 2008, a series of far-field samples was also collected 3.5 km north of the facility. Ammonium concentrations were determined by two complementary laboratory methods, a novel application of visible spectrophotometry and standard ion chromatography (IC). Results of the two techniques agreed very well, and spectrophotometry is faster, easier, and cheaper than chromatography. Ammonia mixing ratios measured at the immediate downwind site were drastically higher (approximately 2900 parts per billion by volume [ppbv]) than thos measured at the upwind site (< or = 200 ppbv). In contrast, at 3.5 km away from the facility, ammonia mixing ratios were reduced to levels similar to the upwind site (< or = 200 ppbv). In addition, PM10 (particulate matter < 10 microm in optical diameter) concentrations obtained at each sampling location using Grimm portable aerosol spectrometers are reported. Time-averaged (1-hr) volume concentrations of PM10 approached 5 x 10(12) nm3 cm(-3). Emitted ammonia remained largely in the gas phase at the downwind and far-field locations. No clear correlation between concentrations of ammonia and particles was observed. Overall, this study provides a better understanding of ammonia emissions from open-air animal feeding operations, especially under the hot and dry conditions present during these measurements.

Benefits and Limitations of Low-kV Macromolecular Imaging of Frozen-Hydrated Biological Samples

PubMed Central

Majorovits, Endre; Angert, Isabel; Kaiser, Ute; Schröder, Rasmus R.

2016-01-01

Object contrast is one of the most important parameters of macromolecular imaging. Low-voltage transmission electron microscopy has shown an increased atom contrast for carbon materials, indicating that amplitude contrast contributions increase at a higher rate than phase contrast and inelastic scattering. Here, we studied image contrast using ice-embedded tobacco mosaic virus particles as test samples at 20–80 keV electron energy. The particles showed the expected increase in contrast for lower energies, but at the same time the 2.3-nm-resolution measure decayed more rapidly. We found a pronounced signal loss below 60 keV, and therefore we conclude that increased inelastic scattering counteracts increased amplitude contrast. This model also implies that as long as the amplitude contrast does not increase with resolution, beam damage and multiple scattering will always win over increased contrast at the lowest energies. Therefore, we cannot expect that low-energy imaging of conventionally prepared samples would provide better data than state-of-the-art 200–300 keV imaging. PMID:26910420

Contrast summation across eyes and space is revealed along the entire dipper function by a "Swiss cheese" stimulus.

PubMed

Meese, Tim S; Baker, Daniel H

2011-01-27

Previous contrast discrimination experiments have shown that luminance contrast is summed across ocular (T. S. Meese, M. A. Georgeson, & D. H. Baker, 2006) and spatial (T. S. Meese & R. J. Summers, 2007) dimensions at threshold and above. However, is this process sufficiently general to operate across the conjunction of eyes and space? Here we used a "Swiss cheese" stimulus where the blurred "holes" in sine-wave carriers were of equal area to the blurred target ("cheese") regions. The locations of the target regions in the monocular image pairs were interdigitated across eyes such that their binocular sum was a uniform grating. When pedestal contrasts were above threshold, the monocular neural images contained strong evidence that the high-contrast regions in the two eyes did not overlap. Nevertheless, sensitivity to dual contrast increments (i.e., to contrast increments in different locations in the two eyes) was a factor of ∼1.7 greater than to single increments (i.e., increments in a single eye), comparable with conventional binocular summation. This provides evidence for a contiguous area summation process that operates at all contrasts and is influenced little, if at all, by eye of origin. A three-stage model of contrast gain control fitted the results and possessed the properties of ocularity invariance and area invariance owing to its cascade of normalization stages. The implications for a population code for pattern size are discussed.

Non-invasive genetic censusing and monitoring of primate populations.

PubMed

Arandjelovic, Mimi; Vigilant, Linda

2018-03-01

Knowing the density or abundance of primate populations is essential for their conservation management and contextualizing socio-demographic and behavioral observations. When direct counts of animals are not possible, genetic analysis of non-invasive samples collected from wildlife populations allows estimates of population size with higher accuracy and precision than is possible using indirect signs. Furthermore, in contrast to traditional indirect survey methods, prolonged or periodic genetic sampling across months or years enables inference of group membership, movement, dynamics, and some kin relationships. Data may also be used to estimate sex ratios, sex differences in dispersal distances, and detect gene flow among locations. Recent advances in capture-recapture models have further improved the precision of population estimates derived from non-invasive samples. Simulations using these methods have shown that the confidence interval of point estimates includes the true population size when assumptions of the models are met, and therefore this range of population size minima and maxima should be emphasized in population monitoring studies. Innovations such as the use of sniffer dogs or anti-poaching patrols for sample collection are important to ensure adequate sampling, and the expected development of efficient and cost-effective genotyping by sequencing methods for DNAs derived from non-invasive samples will automate and speed analyses. © 2018 Wiley Periodicals, Inc.

Contrasted phylogeographic patterns on mitochondrial DNA of shallow and deep brittle stars across the Atlantic-Mediterranean area

PubMed Central

Taboada, Sergi; Pérez-Portela, Rocío

2016-01-01

Previous studies on Ophiothrix in European waters demonstrated the existence of two distinct species, Ophiothrix fragilis and Ophiothrix sp. II. Using phylogenetic and species delimitation techniques based on two mitochondrial genes (cytochrome c oxidase I and 16S rRNA) we prove the existence of a new congeneric species (Ophiothrix sp. III), occurring in the deep Atlantic coast of the Iberian Peninsula and the Alboran Sea. We compared phylogeographic patterns of these three Ophiothrix species to test whether closely related species are differentially affected by past demographic events and current oceanographic barriers. We used 432 sequences (137 of O. fragilis, 215 of Ophiothrix sp. II, and 80 of Ophiothrix sp. III) of the 16S rRNA from 23 Atlantic-Mediterranean locations for the analyses. We observed different geographic and bathymetric distributions, and contrasted phylogeography among species. Ophiothrix fragilis appeared genetically isolated between the Atlantic and Mediterranean basins, attributed to past vicariance during Pleistocene glaciations and a secondary contact associated to demographic expansion. This contrasts with the panmixia observed in Ophiothrix sp. II across the Atlantic-Mediterranean area. Results were not conclusive for Ophiothrix sp. III due to the lack of a more complete sampling within the Mediterranean Sea. PMID:27585743

Volumetric velocity measurements in restricted geometries using spiral sampling: a phantom study.

PubMed

Nilsson, Anders; Revstedt, Johan; Heiberg, Einar; Ståhlberg, Freddy; Bloch, Karin Markenroth

2015-04-01

The aim of this study was to evaluate the accuracy of maximum velocity measurements using volumetric phase-contrast imaging with spiral readouts in a stenotic flow phantom. In a phantom model, maximum velocity, flow, pressure gradient, and streamline visualizations were evaluated using volumetric phase-contrast magnetic resonance imaging (MRI) with velocity encoding in one (extending on current clinical practice) and three directions (for characterization of the flow field) using spiral readouts. Results of maximum velocity and pressure drop were compared to computational fluid dynamics (CFD) simulations, as well as corresponding low-echo-time (TE) Cartesian data. Flow was compared to 2D through-plane phase contrast (PC) upstream from the restriction. Results obtained with 3D through-plane PC as well as 4D PC at shortest TE using a spiral readout showed excellent agreements with the maximum velocity values obtained with CFD (<1 % for both methods), while larger deviations were seen using Cartesian readouts (-2.3 and 13 %, respectively). Peak pressure drop calculations from 3D through-plane PC and 4D PC spiral sequences were respectively 14 and 13 % overestimated compared to CFD. Identification of the maximum velocity location, as well as the accurate velocity quantification can be obtained in stenotic regions using short-TE spiral volumetric PC imaging.

Functionalized graphene oxide/Fe3O4 hybrids for cellular magnetic resonance imaging and fluorescence labeling.

PubMed

Zhou, Chaohui; Wu, Hui; Wang, Mingliang; Huang, Chusen; Yang, Dapeng; Jia, Nengqin

2017-09-01

In this work, we developed a T 2 -weighted contrast agent based on graphene oxide (GO)/Fe 3 O 4 hybrids for efficient cellular magnetic resonance imaging (MRI). The GO/Fe 3 O 4 hybrids were obtained by combining with co-precipitation method and pyrolysis method. The structural, surface and magnetic characteristics of the hybrids were systematically characterized by transmission electron microscopy (TEM), vibrating sample magnetometer (VSM), AFM, Raman, FT-IR and XRD. The GO/Fe 3 O 4 hybrids were functionalized by modifying with anionic and cationic polyelectrolyte through layer-by-layer assembling. The fluorescence probe fluorescein isothiocyanate (FITC) was further loaded on the surface of functionalized GO/Fe 3 O 4 hybrids to trace the location of GO/Fe 3 O 4 hybrids in cells. Functionalized GO/Fe 3 O 4 hybrids possess good hydrophilicity, less cytotoxicity, high MRI enhancement with the relaxivity (r 2 ) of 493mM -1 s -1 as well as cellular MRI contrast effect. These obtained results indicated that the functionalized GO/Fe 3 O 4 hybrids could have great potential to be utilized as cellular MRI contrast agents for tumor early diagnosis and monitoring. Copyright © 2017 Elsevier B.V. All rights reserved.

Spectral K-edge subtraction imaging

NASA Astrophysics Data System (ADS)

Zhu, Y.; Samadi, N.; Martinson, M.; Bassey, B.; Wei, Z.; Belev, G.; Chapman, D.

2014-05-01

We describe a spectral x-ray transmission method to provide images of independent material components of an object using a synchrotron x-ray source. The imaging system and process is similar to K-edge subtraction (KES) imaging where two imaging energies are prepared above and below the K-absorption edge of a contrast element and a quantifiable image of the contrast element and a water equivalent image are obtained. The spectral method, termed ‘spectral-KES’ employs a continuous spectrum encompassing an absorption edge of an element within the object. The spectrum is prepared by a bent Laue monochromator with good focal and energy dispersive properties. The monochromator focuses the spectral beam at the object location, which then diverges onto an area detector such that one dimension in the detector is an energy axis. A least-squares method is used to interpret the transmitted spectral data with fits to either measured and/or calculated absorption of the contrast and matrix material-water. The spectral-KES system is very simple to implement and is comprised of a bent Laue monochromator, a stage for sample manipulation for projection and computed tomography imaging, and a pixelated area detector. The imaging system and examples of its applications to biological imaging are presented. The system is particularly well suited for a synchrotron bend magnet beamline with white beam access.

Legionnaires' disease bacteria in power plant cooling systems: downtime report. Final report

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

Tyndall, R.L.; Solomon, J.A.; Christensen, S.W.

1985-11-01

Legionnaires' disease bacteria (Legionella) are a normal part of the aquatic community that, when aerosolized, can be pathogenic to man. The downtime study was designed to determine the degree to which Legionella populations are aerosolized during cleaning and maintenance operations in a closed-cycle steam-electric power plant. Both high-volume and impinger air samples were collected prior to and during downtime operations. Emphasis was placed on sampling inside or adjacent to water boxes, condensers, and cooling towers. Control air samples were taken upwind from the plant site. Water and sludge samples were also collected at various locations. In the laboratory, the concentrationsmore » of Legionella were determined using the direct fluorescent antibody method. All positive air samples, and other selected air samples, were injected into guinea pigs to detect infectious Legionella. Legionella could be detected in only 12 of the 127 air samples collected. These were predominantly L. pneumophila, serogroups 1-6. In contrast to the air samples, most of the water and sludge samples were positive for Legionella, again predominantly L. pneumophila, serogroups 1-6. The highest Legionella concentrations were found in sludge samples associated with condenser tube cleaning. Among the water samples, the highest Legionella concentrations were found in cooling towers, immediately after the tower basins were cleaned and refilled, and in condenser tubes. Two of the three cooling tower water samples collected prior to downtime operations were infectious for guinea pigs. 16 refs., 4 figs., 11 tabs.« less

Characterizing growth patterns in longitudinal MRI using image contrast

NASA Astrophysics Data System (ADS)

Vardhan, Avantika; Prastawa, Marcel; Vachet, Clement; Piven, Joseph; Gerig, Guido

2014-03-01

Understanding the growth patterns of the early brain is crucial to the study of neuro-development. In the early stages of brain growth, a rapid sequence of biophysical and chemical processes take place. A crucial component of these processes, known as myelination, consists of the formation of a myelin sheath around a nerve fiber, enabling the effective transmission of neural impulses. As the brain undergoes myelination, there is a subsequent change in the contrast between gray matter and white matter as observed in MR scans. In this work, gray-white matter contrast is proposed as an effective measure of appearance which is relatively invariant to location, scanner type, and scanning conditions. To validate this, contrast is computed over various cortical regions for an adult human phantom. MR (Magnetic Resonance) images of the phantom were repeatedly generated using different scanners, and at different locations. Contrast displays less variability over changing conditions of scan compared to intensity-based measures, demonstrating that it is less dependent than intensity on external factors. Additionally, contrast is used to analyze longitudinal MR scans of the early brain, belonging to healthy controls and Down's Syndrome (DS) patients. Kernel regression is used to model subject-specific trajectories of contrast changing with time. Trajectories of contrast changing with time, as well as time-based biomarkers extracted from contrast modeling, show large differences between groups. The preliminary applications of contrast based analysis indicate its future potential to reveal new information not covered by conventional volumetric or deformation-based analysis, particularly for distinguishing between normal and abnormal growth patterns.

Ecological monitoring of intertidal phytobenthic communities of the Basque Coast (N. Spain) following the Prestige oil spill.

PubMed

Díez, I; Secilla, A; Santolaria, A; Gorostiaga, J M

2009-12-01

Following the Prestige oil spill, six-monthly samplings (spring and autumn) of intertidal macroalgal assemblages were carried out from 2004 to 2006 in twelve locations along the Basque coast. Macroalgal species appeared to be little modified, but species richness, diversity, and algal cover were significantly lower in the first year of the study, so it cannot be ruled out that the arrival of oil on the Basque coast might have had a damaging effect on intertidal communities. On the other hand, no significant differences were detected between locations slightly and moderately affected by oil in any of the structural parameters considered. By contrast, significant differences were detected between locations within each oiling level that indicate that other natural environmental factors play a greater role in the differences between locations than the oiling level. Likewise, significant differences were detected between areas within each location which were not consistent with time, indicating that communities are highly heterogeneous in species richness, diversity and algal cover at the scale of tens of meters. The dominant Corallina elongata and most of the accompanying species did not show significant year-on-year differences in terms of cover. Also, there were no differences between the two oiling levels. Analyses revealed a high spatial variability at the scale of kilometers (locations) and tens of meters (areas) for most of the taxa. The results obtained provide detailed quantitative data on intertidal phytobenthic assemblages of the Basque coast at different spatial and temporal scales that were hitherto unavailable for the region.

Compensation of missing wedge effects with sequential statistical reconstruction in electron tomography.

PubMed

Paavolainen, Lassi; Acar, Erman; Tuna, Uygar; Peltonen, Sari; Moriya, Toshio; Soonsawad, Pan; Marjomäki, Varpu; Cheng, R Holland; Ruotsalainen, Ulla

2014-01-01

Electron tomography (ET) of biological samples is used to study the organization and the structure of the whole cell and subcellular complexes in great detail. However, projections cannot be acquired over full tilt angle range with biological samples in electron microscopy. ET image reconstruction can be considered an ill-posed problem because of this missing information. This results in artifacts, seen as the loss of three-dimensional (3D) resolution in the reconstructed images. The goal of this study was to achieve isotropic resolution with a statistical reconstruction method, sequential maximum a posteriori expectation maximization (sMAP-EM), using no prior morphological knowledge about the specimen. The missing wedge effects on sMAP-EM were examined with a synthetic cell phantom to assess the effects of noise. An experimental dataset of a multivesicular body was evaluated with a number of gold particles. An ellipsoid fitting based method was developed to realize the quantitative measures elongation and contrast in an automated, objective, and reliable way. The method statistically evaluates the sub-volumes containing gold particles randomly located in various parts of the whole volume, thus giving information about the robustness of the volume reconstruction. The quantitative results were also compared with reconstructions made with widely-used weighted backprojection and simultaneous iterative reconstruction technique methods. The results showed that the proposed sMAP-EM method significantly suppresses the effects of the missing information producing isotropic resolution. Furthermore, this method improves the contrast ratio, enhancing the applicability of further automatic and semi-automatic analysis. These improvements in ET reconstruction by sMAP-EM enable analysis of subcellular structures with higher three-dimensional resolution and contrast than conventional methods.

Ganglioglioma of brain stem and cervicomedullary junction: A 50years review of literature.

PubMed

Janjua, M Burhan; Ivasyk, Iryna; Pisapia, David J; Souweidane, Mark M

2017-10-01

Gangliogliomas are rare low-grade brain tumors composed of both neoplastic glial and neuronal cell elements. The treatment modalities are relatively different in this location and hence factors affecting outcome are poorly understood. We identified 142 brain stem GG patients across 46 studies. The average age was 11.4years with significant difference b/w males and females under the age of 20 (p=0.001). 100% of tumors in the CMJ while, 72% of type I and 86% of type II tumors demonstrated contrast enhancement. 72% of type I and 86% of type II tumors demonstrated contrast enhancement. All BRAF mutation positive tumors demonstrated contrast enhancement. Medulla and pons was the most favorable location followed by medulla alone, and the CMJ. In all tumors "gross total resection" (GTR, 16%), "subtotal resection" (STR, 48%) or "partial resection" (PR, 36%) was achieved. Most subtypes II and III were partially resected (86% and 66%), while, subtype I underwent STR (66%). Only 55% of the patients were positive for the BRAF V600E mutation. The overall survival dropped from 50% at 24 to 10% at 60months, postoperatively. Through this review, we found that an early diagnosis, location, and with the imaging characteristics are vital part of the preoperative planning. Surgical resection is highly dependent on location in the brain stem with radical resection only limited to the most contrast enhancing portion of these tumors. BRAF V600E mutation status should be considered to allow the possibility of targeted therapy in case of a residual tumor and/or regrowth. Copyright © 2017 Elsevier Ltd. All rights reserved.

Controls on bacterial and archaeal community structure and greenhouse gas production in natural, mined, and restored Canadian peatlands

PubMed Central

Basiliko, Nathan; Henry, Kevin; Gupta, Varun; Moore, Tim R.; Driscoll, Brian T.; Dunfield, Peter F.

2013-01-01

Northern peatlands are important global C reservoirs, largely because of their slow rates of microbial C mineralization. Particularly in sites that are heavily influenced by anthropogenic disturbances, there is scant information about microbial ecology and whether or not microbial community structure influences greenhouse gas production. This work characterized communities of bacteria and archaea using terminal restriction fragment length polymorphism (T-RFLP) and sequence analysis of 16S rRNA and functional genes across eight natural, mined, or restored peatlands in two locations in eastern Canada. Correlations were explored among chemical properties of peat, bacterial and archaeal community structure, and carbon dioxide (CO2) and methane (CH4) production rates under oxic and anoxic conditions. Bacteria and archaea similar to those found in other peat soil environments were detected. In contrast to other reports, methanogen diversity was low in our study, with only 2 groups of known or suspected methanogens. Although mining and restoration affected substrate availability and microbial activity, these land-uses did not consistently affect bacterial or archaeal community composition. In fact, larger differences were observed between the two locations and between oxic and anoxic peat samples than between natural, mined, and restored sites, with anoxic samples characterized by less detectable bacterial diversity and stronger dominance by members of the phylum Acidobacteria. There were also no apparent strong linkages between prokaryote community structure and CH4 or CO2 production, suggesting that different organisms exhibit functional redundancy and/or that the same taxa function at very different rates when exposed to different peat substrates. In contrast to other earlier work focusing on fungal communities across similar mined and restored peatlands, bacterial and archaeal communities appeared to be more resistant or resilient to peat substrate changes brought about by these land uses. PMID:23914185

Integrated system for gathering, processing, and reporting data relating to site contamination

DOEpatents

Long, D.D.; Goldberg, M.S.; Baker, L.A.

1997-11-11

An integrated screening system comprises an intrusive sampling subsystem, a field mobile laboratory subsystem, a computer assisted design/geographical information subsystem, and a telecommunication linkup subsystem, all integrated to provide synergistically improved data relating to the extent of site soil/groundwater contamination. According to the present invention, data samples related to the soil, groundwater or other contamination of the subsurface material are gathered and analyzed to measure contaminants. Based on the location of origin of the samples in three-dimensional space, the analyzed data are transmitted to a location display. The data from analyzing samples and the data from the locating the origin are managed to project the next probable sample location. The next probable sample location is then forwarded for use as a guide in the placement of ensuing sample location, whereby the number of samples needed to accurately characterize the site is minimized. 10 figs.

Integrated system for gathering, processing, and reporting data relating to site contamination

DOEpatents

Long, Delmar D.; Goldberg, Mitchell S.; Baker, Lorie A.

1997-01-01

An integrated screening system comprises an intrusive sampling subsystem, a field mobile laboratory subsystem, a computer assisted design/geographical information subsystem, and a telecommunication linkup subsystem, all integrated to provide synergistically improved data relating to the extent of site soil/groundwater contamination. According to the present invention, data samples related to the soil, groundwater or other contamination of the subsurface material are gathered and analyzed to measure contaminants. Based on the location of origin of the samples in three-dimensional space, the analyzed data are transmitted to a location display. The data from analyzing samples and the data from the locating the origin are managed to project the next probable sample location. The next probable sample location is then forwarded for use as a guide in the placement of ensuing sample location, whereby the number of samples needed to accurately characterize the site is minimized.

Fast approximation for joint optimization of segmentation, shape, and location priors, and its application in gallbladder segmentation.

PubMed

Saito, Atsushi; Nawano, Shigeru; Shimizu, Akinobu

2017-05-01

This paper addresses joint optimization for segmentation and shape priors, including translation, to overcome inter-subject variability in the location of an organ. Because a simple extension of the previous exact optimization method is too computationally complex, we propose a fast approximation for optimization. The effectiveness of the proposed approximation is validated in the context of gallbladder segmentation from a non-contrast computed tomography (CT) volume. After spatial standardization and estimation of the posterior probability of the target organ, simultaneous optimization of the segmentation, shape, and location priors is performed using a branch-and-bound method. Fast approximation is achieved by combining sampling in the eigenshape space to reduce the number of shape priors and an efficient computational technique for evaluating the lower bound. Performance was evaluated using threefold cross-validation of 27 CT volumes. Optimization in terms of translation of the shape prior significantly improved segmentation performance. The proposed method achieved a result of 0.623 on the Jaccard index in gallbladder segmentation, which is comparable to that of state-of-the-art methods. The computational efficiency of the algorithm is confirmed to be good enough to allow execution on a personal computer. Joint optimization of the segmentation, shape, and location priors was proposed, and it proved to be effective in gallbladder segmentation with high computational efficiency.

Mercury bioaccumulation in northern two-lined salamanders from streams in the northeastern United States

USGS Publications Warehouse

Bank, M.S.; Loftin, C.S.; Jung, R.E.

2005-01-01

Mercury (Hg) bioaccumulation in salamanders has received little attention despite widespread Hg contamination of aquatic ecosystems and worldwide amphibian declines. Here we report concentrations of methyl Hg (MeHg) and total Hg in larval northern two-lined salamanders (Eurycea bislineata bislineata) collected from streams in Acadia National Park (ANP), Maine, and Bear Brook Watershed, Maine (BBWM; a paired, gauged watershed treated with bimonthly applications (25 kg/ha/yr) of ammonium sulfate [(NH4)(2)SO4]) since 1989), and Shenandoah National Park (SNP), Virginia. MeHg comprised 73-97% of total Hg in the larval salamander composite samples from ANP. At BBWM we detected significantly higher total Hg levels in larvae from the (NH4)(2)SO4 treatment watershed. At ANP total Hg concentrations in salamander larvae were significantly higher from streams in unburned watersheds in contrast with larval samples collected from streams located in watersheds burned by the 1947 Bar Harbor fire. Additionally, total Hg levels were significantly higher in salamander larvae collected at ANP in contrast with SNP. Our results suggest that watershed-scale attributes including. re history, whole-catchment (NH4)(2)SO4 additions, wetland extent, and forest cover type influence mercury bioaccumulation in salamanders inhabiting lotic environments. We also discuss the use of this species as an indicator of Hg bioaccumulation in stream ecosystems.

Calibration-free quantification of interior properties of porous media with x-ray computed tomography.

PubMed

Hussein, Esam M A; Agbogun, H M D; Al, Tom A

2015-03-01

A method is presented for interpreting the values of x-ray attenuation coefficients reconstructed in computed tomography of porous media, while overcoming the ambiguity caused by the multichromatic nature of x-rays, dilution by void, and material heterogeneity. The method enables determination of porosity without relying on calibration or image segmentation or thresholding to discriminate pores from solid material. It distinguishes between solution-accessible and inaccessible pores, and provides the spatial and frequency distributions of solid-matrix material in a heterogeneous medium. This is accomplished by matching an image of a sample saturated with a contrast solution with that saturated with a transparent solution. Voxels occupied with solid-material and inaccessible pores are identified by the fact that they maintain the same location and image attributes in both images, with voxels containing inaccessible pores appearing empty in both images. Fully porous and accessible voxels exhibit the maximum contrast, while the rest are porous voxels containing mixtures of pore solutions and solid. This matching process is performed with an image registration computer code, and image processing software that requires only simple subtraction and multiplication (scaling) processes. The process is demonstrated in dolomite (non-uniform void distribution, homogeneous solid matrix) and sandstone (nearly uniform void distribution, heterogeneous solid matrix) samples, and its overall performance is shown to compare favorably with a method based on calibration and thresholding. Copyright © 2014 Elsevier Ltd. All rights reserved.

Presence of Campylobacter and Salmonella in sand from bathing beaches.

PubMed

Bolton, F J; Surman, S B; Martin, K; Wareing, D R; Humphrey, T J

1999-02-01

The purpose of this study was to determine the presence of thermophilic Campylobacter spp. and Salmonella spp. in sand from non-EEC standard and EEC standard designated beaches in different locations in the UK and to assess if potentially pathogenic strains were present. Campylobacter spp. were detected in 82/182 (45%) of sand samples and Salmonella spp. in 10/182 (6%). Campylobacter spp. were isolated from 46/92 (50%) of samples from non-EEC standard beaches and 36/90 (40%) from EEC standard beaches. The prevalence of Campylobacter spp. was greater in wet sand from both types of beaches but, surprisingly, more than 30% of samples from dry sand also contained these organisms. The major pathogenic species C. jejuni and C. coli were more prevalent in sand from non-EEC standard beaches. In contrast, C. lari and urease positive thermophilic campylobacters, which are associated with seagulls and other migratory birds, were more prevalent in sand from EEC standard beaches. Campylobacter isolates were further characterized by biotyping and serotyping, which confirmed that strains known to be of types associated with human infections were frequently found in sand on bathing beaches.

Antioxidant activity of goat's milk from three different locations in Malaysia

NASA Astrophysics Data System (ADS)

Alyaqoubi, Saif; Abdullah, Aminah; Addai, Zuhair Radhi

2014-09-01

This study was conducted to evaluate the antioxidant activities of two types of goat milk obtained from three different farms in Malaysia named: Semenyih, Johor Baharu and Bander Baru Bangi. Milk from Jamnupari goat breed and a crossbred of Jamnupari and Saanen were investigated in terms of antioxidant capacity based on total phenol content (TPC), ferric reducing antioxidant power (FRAP), and 2,2-diphenyl-1-picrylhydrazyl (DPPH). Goat milk samples exhibited a significantly different antioxidant capacity (P>0.05) through all the samples. Jamnupari exhibited the highest capacity parity in TPC, FRAP, and DPPH assays (544.08 mg GA/100 g FW, 481.69 mg TE/100 g FW, and 64.77 %, respectively). By contrast, the milk sample obtained from the crossbred of Saanen and Jamnupari obtained from a UK farm exhibited the lowest values (354.14 mg GA/100 g FW, 313.58 mg TE/100 g FW, and 55.29 %, respectively). The samples obtained from the traditional farm in Bander Baru Bangi exhibited higher average values (523.80 mg GA/100 g FW, 439.33 mg TE/100 g FW, and 63.78%, respectively) than those from other sites.

Paragneiss zircon geochronology and trace element geochemistry, North Qaidam HP/UHP terrane, western China

USGS Publications Warehouse

Mattinson, C.G.; Wooden, J.L.; Zhang, J.X.; Bird, D.K.

2009-01-01

In the southeastern part of the North Qaidam terrane, near Dulan, paragneiss hosts minor peridotite and UHP eclogite. Zircon geochronology and trace element geochemistry of three paragneiss samples (located within a ???3 km transect) indicates that eclogite-facies metamorphism resulted in variable degrees of zircon growth and recrystallization in the three samples. Inherited zircon core age groups at 1.8 and 2.5 Ga suggest that the protoliths of these rocks may have received sediments from the Yangtze or North China cratons. Mineral inclusions, depletion in HREE, and absence of negative Eu anomalies indicate that zircon U-Pb ages of 431 ?? 5 Ma and 426 ?? 4 Ma reflect eclogite-facies zircon growth in two of the samples. Ti-in-zircon thermometry results are tightly grouped at ???660 and ???600 ??C, respectively. Inclusions of metamorphic minerals, scarcity of inherited cores, and lack of isotopic or trace element inheritance demonstrate that significant new metamorphic zircon growth must have occurred. In contrast, zircon in the third sample is dominated by inherited grains, and rims show isotopic and trace element inheritance, suggesting solid-state recrystallization of detrital zircon with only minor new growth. ?? 2009 Elsevier Ltd.

Pattern vision of the honeybee (Apis mellifera): blue and green receptors in the discrimination of translocation.

PubMed

Horridge, A

2000-07-01

The visual discrimination of horizontal gratings by the honeybee (Apis mellifera) was studied in a Y-choice apparatus with fixed patterns presented vertically at a set range. Translocation in this context is the exchange of the positions of two different colored or black areas. This paper investigates what cues the bees have learned in this task. The patterns, made from combinations of calibrated colored papers, are designed to explore the parts played by the blue and green receptors when the boundary between the two colors provides contrast to only one receptor type. Horizontal translocation is not discriminated without contrast to the green receptors, but up/down translocation can be discriminated whatever the contrast at the boundary. The trained bees were tested on the same patterns made with different papers that included extreme changes in contrast. The results show that discrimination of up/down translocation involves green receptors and also blue receptors. When bees discriminate a translocation that shows contrast to only one type of receptor, they do not use the apparent brightness or the direction of the contrast to that receptor type acting alone. Instead, they discriminate the locations of colored areas irrespective of intensity differences or directions of contrasts. They use some measure of the photon flux at both receptor types and remember the difference between the colors and their locations. Copyright 2000 Academic Press.

Imaging contrast and tip-sample interaction of non-contact amplitude modulation atomic force microscopy with Q-control

NASA Astrophysics Data System (ADS)

Shi, Shuai; Guo, Dan; Luo, Jianbin

2017-10-01

Active quality factor (Q) exhibits many promising properties in dynamic atomic force microscopy. Energy dissipation and image contrasts are investigated in the non-contact amplitude modulation atomic force microscopy (AM-AFM) with an active Q-control circuit in the ambient air environment. Dissipated power and virial were calculated to compare the highly nonlinear interaction of tip-sample and image contrasts with different Q gain values. Greater free amplitudes and lower effective Q values show better contrasts for the same setpoint ratio. Active quality factor also can be employed to change tip-sample interaction force in non-contact regime. It is meaningful that non-destructive and better contrast images can be realized in non-contact AM-AFM by applying an active Q-control to the dynamic system.

Image Registration of Cone-Beam Computer Tomography and Preprocedural Computer Tomography Aids in Localization of Adrenal Veins and Decreasing Radiation Dose in Adrenal Vein Sampling

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

Busser, Wendy M. H., E-mail: wendy.busser@radboudumc.nl; Arntz, Mark J.; Jenniskens, Sjoerd F. M.

2015-08-15

PurposeWe assessed whether image registration of cone-beam computed tomography (CT) (CBCT) and contrast-enhanced CT (CE-CT) images indicating the locations of the adrenal veins can aid in increasing the success rate of first-attempts adrenal vein sampling (AVS) and therefore decreasing patient radiation dose.Materials and Methods CBCT scans were acquired in the interventional suite (Philips Allura Xper FD20) and rigidly registered to the vertebra in previously acquired CE-CT. Adrenal vein locations were marked on the CT image and superimposed with live fluoroscopy and digital-subtraction angiography (DSA) to guide the AVS. Seventeen first attempts at AVS were performed with image registration and retrospectivelymore » compared with 15 first attempts without image registration performed earlier by the same 2 interventional radiologists. First-attempt AVS was considered successful when both adrenal vein samples showed representative cortisol levels. Sampling time, dose-area product (DAP), number of DSA runs, fluoroscopy time, and skin dose were recorded.ResultsWithout image registration, the first attempt at sampling was successful in 8 of 15 procedures indicating a success rate of 53.3 %. This increased to 76.5 % (13 of 17) by adding CBCT and CE-CT image registration to AVS procedures (p = 0.266). DAP values (p = 0.001) and DSA runs (p = 0.026) decreased significantly by adding image registration guidance. Sampling and fluoroscopy times and skin dose showed no significant changes.ConclusionGuidance based on registration of CBCT and previously acquired diagnostic CE-CT can aid in enhancing localization of the adrenal veins thereby increasing the success rate of first-attempt AVS with a significant decrease in the number of used DSA runs and, consequently, radiation dose required.« less

Colorado animal-based plague surveillance systems: relationships between targeted animal species and prediction efficacy of areas at risk for humans.

PubMed

Lowell, Jennifer L; Eisen, Rebecca J; Schotthoefer, Anna M; Xiaocheng, Liang; Montenieri, John A; Tanda, Dale; Pape, John; Schriefer, Martin E; Antolin, Michael F; Gage, Kenneth L

2009-06-01

Human plague risks (Yersinia pestis infection) are greatest when epizootics cause high mortality among this bacterium's natural rodent hosts. Therefore, health departments in plague-endemic areas commonly establish animal-based surveillance programs to monitor Y. pestis infection among plague hosts and vectors. The primary objectives of our study were to determine whether passive animal-based plague surveillance samples collected in Colorado from 1991 to 2005 were sampled from high human plague risk areas and whether these samples provided information useful for predicting human plague case locations. By comparing locations of plague-positive animal samples with a previously constructed GIS-based plague risk model, we determined that the majority of plague-positive Gunnison's prairie dogs (100%) and non-prairie dog sciurids (85.82%), and moderately high percentages of sigmodontine rodents (71.4%), domestic cats (69.3%), coyotes (62.9%), and domestic dogs (62.5%) were recovered within 1 km of the nearest area posing high peridomestic risk to humans. In contrast, the majority of white-tailed prairie dog (66.7%), leporid (cottontailed and jack rabbits) (71.4%), and black-tailed prairie dog (93.0%) samples originated more than 1 km from the nearest human risk habitat. Plague-positive animals or their fleas were rarely (one of 19 cases) collected within 2 km of a case exposure site during the 24 months preceding the dates of illness onset for these cases. Low spatial accuracy for identifying epizootic activity prior to human plague cases suggested that other mammalian species or their fleas are likely more important sources of human infection in high plague risk areas. To address this issue, epidemiological observations and multi-locus variable number tandem repeat analyses (MLVA) were used to preliminarily identify chipmunks as an under-sampled, but potentially important, species for human plague risk in Colorado.

Detection of Biosignatures in Natural and Microbial Cultured Jarosites Using Laser- Desorption Fourier Transform Mass Spectrometry: Implications for Astrobiology

NASA Astrophysics Data System (ADS)

Kotler, J.; Hinman, N. W.; Yan, B.; Stoner, D. L.; Scott, J. R.

2006-12-01

The jarosite group minerals have received increasing attention since the discovery by the Mars Exploration Rover-Opportunity of jarosite on the Martian surface. The general chemical formula for jarosite is XFe3(SO4)2(OH)6 where the X represents both monovalent and divalent cations that can occupy the axial positions in the crystal structure. Commonly found ions include K+, Na+, H3O+, NH4+, and Pb2+ with reports of other large ions occupying this position in the literature. Modeling efforts have been performed to confirm that jarosite has the ability to incorporate a variety of "foreign" cations. The minerals unique ability to incorporate various large ions in its structure and its association with biological activity in terrestrial environments has lead to investigations regarding its use as an indicator of aqueous and/or biological activity. The use of laser desorption Fourier transform mass spectrometry (LD-FTMS) has revealed the presence of organic matter including the amino acid, glycine, in several jarosite samples from various worldwide locations. Iron precipitates derived from acidophilic microbial cultures were also analyzed. Using attenuated total reflectance infrared spectroscopy (ATR-IR), signals indicative of microbes or microbial exudates were weak and ambiguous. In contrast, LD-FTMS clearly detected bioorganic constituents in some desorption spots. However, the signals were sporadic and required the laser scanning/imaging capability of our laboratory built system to locate the microbial signatures in the heterogeneous samples. The ability to observe these bioorganic signatures in jarosite samples using the instrumental technique employed in this study furthers the goals of planetary geologists to determine whether signs of life (e.g., presence of biomolecules or biomolecule precursors) can be detected in the rock record of terrestrial and extraterrestrial samples.

A review of dioxins/furans and methyl mercury in fish from the Penobscot river, located near Lincoln, Maine.

PubMed

Williams, Robert L; Cseh, Larry

2007-04-01

The Agency for Toxic Substances and Disease Registry (ATSDR) was requested to review the analytical results of tissue samples from fish caught in the Penobscot river in Maine, calculate fish consumption limits and provide a public health opinion regarding the health implications associated with eating the contaminated fish. Fish consumption limits were calculated to provide guidance on the amount of fish that a person may eat monthly that would probably not pose a public health threat. Earlier, in 1987, the Maine Bureau of Health (BOH) issued a fish consumption advisory for portions of the Penobscot river to protect the public from exposures to dioxins/furans and methyl mercury-contaminated fish. From 1988 to 2003 the state of Maine conducted fish surveys at four locations along the Penobscot river to monitor the levels of dioxins/furans and methyl mercury contamination. In 2005, ATSDR reviewed the sampling results for two fish species (i.e., bottom feeders and predators) collected from the Penobscot river that revealed various levels of dioxins/furans and methyl mercury. The United States Environmental Protection Agency's (US EPA) guidance for evaluating potential health threats associated with contaminated fish recommends that a minimum of two target species be sampled including one predatory and one bottom feeding species. Target species are chosen to meet the following criteria: (1) known to accumulate high concentrations of target contaminants in their tissues; (2) normally populate the freshwater system being studied; (3) are routinely caught and consumed by anglers; (4) nonmigratory; (5) pollutant-tolerant; (6) easily identified; (7) abundant and easy to collect and (8) of sufficient size to provide adequate tissue samples for analyses of contaminants (US EPA, 2000). The analytical results of these fish tissue samples appear to indicate that toxic equivalency quotients concentrations of dioxins/furans have slightly decreased since 1988. In contrast, fish tissue levels of methyl mercury appear to have increased slightly since 1988. Dioxins/furans and methyl mercury levels detected in fish tissue samples caught in the Penobscot river located near Lincoln, Maine, may continue to pose a public health hazard to persons who consume the fish daily, depending on the amount consumed. The ATSDR concurred with Maine BOH's fish advisory for dioxins/furans and methyl mercury, that is, currently in place for portions of the Penobscot river near Lincoln.

Drugs of abuse, cytostatic drugs and iodinated contrast media in tap water from the Madrid region (central Spain):A case study to analyse their occurrence and human health risk characterization.

PubMed

Mendoza, A; Zonja, B; Mastroianni, N; Negreira, N; López de Alda, M; Pérez, S; Barceló, D; Gil, A; Valcárcel, Y

2016-01-01

This work analyses the presence of forty-eight emerging pollutants, including twenty-five drugs of abuse and metabolites, seventeen cytostatic drugs and six iodinated contrast media, in tap water from the Madrid Region. Analysis of the target compounds in the tap water was performed by means of (on-line or off-line) solid-phase extraction followed by analysis by liquid chromatography-tandem mass spectrometry. A preliminary human health risk characterization was undertaken for each individual compound and for different groups of compounds with a common mechanism of action found in tap water. The results of the study showed the presence of eight out of the twenty-five drugs of abuse and metabolites analysed, namely, the cocainics cocaine and benzoylecgonine, the amphetamine-type stimulants ephedrine, 3,4-methylenedioxymethamphetamine and methamphetamine, the opioid methadone and its metabolite 2-ethylene-1,5-dimethyl-3,3-diphenylpyrrolidine and, finally caffeine at concentrations ranging from 0.11 to 502 ng L(-1). Four out of the six analysed iodinated contrast media, namely, diatrizoate, iohexol, iomeprol and iopromide, were detected in at least one sample, with concentration values varying between 0.4 and 5 ng L(-1). Cytostatic compounds were not detected in any sample. Caffeine was the substance showing the highest concentrations, up to 502 ng L(-1), mainly in the drinking water sampling point located in Madrid city. Among the other drugs of abuse, the most abundant compounds were cocaine and benzoylecgonine, detected at concentrations ranging from 0.11 to 86 ng L(-1) and from 0.11 to 53 ng L(-1), respectively. Regarding iodinated contrast media, iohexol was the most ubiquitous and abundant compound, with a frequency of detection of 100% and concentrations from 0.5 to 5.0 ng L(-1) in basically the same range in all sampling points. Taking into account the results and types of treatment applied, ozonisation plus granular activated carbon filtration appears to be efficient in the removal of cocaine and benzoylecgonine. For the amphetamine-type stimulants, opioids and caffeine, ozonisation plus granular activated carbon filtration and ultrafiltration plus reverse osmosis showed higher removal efficiency than sand filtration. The human health risk characterization performed indicates that the lifetime consumption of the tap waters analysed has associated a negligible human health concern. Copyright © 2015 Elsevier Ltd. All rights reserved.

Differences in aortic vortex flow pattern between normal and patients with stroke: qualitative and quantitative assessment using transesophageal contrast echocardiography.

PubMed

Son, Jang-Won; Hong, Geu-Ru; Hong, Woosol; Kim, Minji; Houle, Helene; Vannan, Mani A; Pedrizzetti, Gianni; Chung, Namsik

2016-06-01

The flow in the aorta forms a vortex, which is a critical determinant of the flow dynamics in the aorta. Arteriosclerosis can alter the blood flow pattern of the aorta and cause characteristic alterations of the vortex. However, this change in aortic vortex has not yet been studied. This study aimed to characterize aortic vortex flow pattern using transesophageal contrast echocardiography in normal and stroke patients. A total of 85 patients who diagnosed with ischemic stroke and 16 normal controls were recruited for this study. The 16 normal control subjects were designated as the control group, and the 85 ischemic stroke patients were designated as the stroke group. All subjects underwent contrast transesophageal echocardiography (TEE), and particle image velocimetry was used to assess aortic vortex flow. Qualitative and quantitative analyses of vortex flow morphology, location, phasic variation, and pulsatility were undertaken and compared between the groups. In the control group, multiple irregularly-shaped vortices were observed in a peripheral location in the descending thoracic aorta. In contrast, the stroke group had a single, round, merged, and more centrally located aortic vortex flow. In the quantitative analysis of vortex, vortex depth, which represents the location of the major vortex in the aorta, was significantly higher in the control group than in the stroke group (0.599 ± 0.159 vs. 0.522 ± 0.101, respectively, P = 0.013). Vortex relative strength, which is the pulsatility parameter of the vortex itself, was significantly higher in the stroke group than in the control group (0.367 ± 0.148 vs. 0.304 ± 0.087, respectively, P = 0.025). It was feasible to visualize and quantify the characteristic morphology and pulsatility of the aortic vortex flow using contrast TEE, and aortic vortex pattern significantly differed between normal and stroke patients.

The International Baccalaureate Diploma Programme and the Construction of Pedagogic Identity: A Preliminary Study

ERIC Educational Resources Information Center

Cambridge, James

2010-01-01

Bernstein (1999, 2000) proposes that contrasting educational discourses construct contrasting retrospective, prospective, decentred (market) and decentred (therapeutic) pedagogic identities. In different times and geographical locations the International Baccalaureate (IB) Diploma Programme (DP) has been projected onto a variety of pedagogic…

Lead as a legendary pollutant with emerging concern: Survey of lead in tap water in an old campus building using four sampling methods.

PubMed

Ng, Ding-Quan; Liu, Shu-Wei; Lin, Yi-Pin

2018-09-15

In this study, a sampling campaign with a total of nine sampling events investigating lead in drinking water was conducted at 7 sampling locations in an old building with lead pipes in service in part of the building on the National Taiwan University campus. This study aims to assess the effectiveness of four different sampling methods, namely first draw sampling, sequential sampling, random daytime sampling and flush sampling, in lead contamination detection. In 3 out of the 7 sampling locations without lead pipe, lead could not be detected (<1.1 μg/L) in most samples regardless of the sampling methods. On the other hand, in the 4 sampling locations where lead pipes still existed, total lead concentrations >10 μg/L were consistently observed in 3 locations using any of the four sampling methods while the remaining location was identified to be contaminated using sequential sampling. High lead levels were consistently measured by the four sampling methods in the 3 locations in which particulate lead was either predominant or comparable to soluble lead. Compared to first draw and random daytime samplings, although flush sampling had a high tendency to reduce total lead in samples in lead-contaminated sites, the extent of lead reduction was location-dependent and not dependent on flush durations between 5 and 10 min. Overall, first draw sampling and random daytime sampling were reliable and effective in determining lead contamination in this study. Flush sampling could reveal the contamination if the extent is severe but tends to underestimate lead exposure risk. Copyright © 2018 Elsevier B.V. All rights reserved.

Oxygen reduction reaction activity and structural stability of Pt-Au nanoparticles prepared by arc-plasma deposition.

PubMed

Takahashi, Shuntaro; Chiba, Hiroshi; Kato, Takashi; Endo, Shota; Hayashi, Takehiro; Todoroki, Naoto; Wadayama, Toshimasa

2015-07-28

The oxygen reduction reaction (ORR) activity and durability of various Au(x)/Pt100 nanoparticles (where x is the atomic ratio of Au against Pt) are evaluated herein. The samples were fabricated on a highly-oriented pyrolytic graphite substrate at 773 K through sequential arc-plasma depositions of Pt and Au. The electrochemical hydrogen adsorption charges (electrochemical surface area), particularly the characteristic currents caused by the corner and edge sites of the Pt nanoparticles, decrease with increasing Au atomic ratio (x). In contrast, the specific ORR activities of the Au(x)/Pt100 samples were dependent on the atomic ratios of Pt and Au: the Au28/Pt100 sample showed the highest specific activity among all the investigated samples (x = 0-42). As for ORR durability evaluated by applying potential cycles between 0.6 and 1.0 V in oxygen-saturated 0.1 M HClO4, Au28/Pt100 was the most durable sample against the electrochemical potential cycles. The results clearly showed that the Au atoms located at coordinatively-unsaturated sites, e.g. at the corners or edges of the Pt nanoparticles, can improve the ORR durability by suppressing unsaturated-site-induced degradation of the Pt nanoparticles.

Contrast coating of the surface of flat polyps at CT colonography: a marker of detection

PubMed Central

Kim, David H.; Hinshaw, J. Louis; Lubner, Meghan G.; Munoz del Rio, Alejandro; Pooler, B. Dustin; Pickhardt, Perry J.

2014-01-01

Purpose To assess the frequency of oral contrast coating of flat polyps, which may promote detection, and influencing factors within a screening CTC population. Materials From 7,426 individuals, 123 patients with 160 flat polyps were extracted. Flat polyps were defined as plaque-like, raised ≤ 3mm in height and reviewed for contrast coating. Factors including demographic variables such as age and sex, and polyp variables such as polyp size, location, and histology were analyzed for effect on coating. Results Of 160 flat polyps (mean size 9.4mm±3.6), 78.8% demonstrated coating. Mean coat thickness was 1.5mm±0.6; 23.8% (n=30), demonstrating a thin film of contrast. Large size (≥10 mm), and proximal colonic location (relative to splenic flexure) were predictive variables by univariate logistic regression [OR (odds ratio) 3.4(CI 1.3–8.9; p=0.011), 2.0(CI 1.2–3.5; p=0.011), respectively]. Adenomas (OR 0.37, CI: 0.14–1.02; p=0.054) and mucosal polyps or venous blebs (OR 0.07, CI: 0.02–0.25; p < 0.001) were less likely to coat than serrated/hyperplastic lesions. Age and sex were not predictive for coating (p=0.417, p= 0.499, respectively). Conclusions Surface contrast coating is common for flat polyps at CTC, promoted by large size, proximal location, and serrated/hyperplastic histology. Given the difficulty in detection, recognition may aid in flat polyp identification. PMID:24482303

Evaluation of nine-frame enhanced multiband photography San Andreas fault zone, Carrizo Plain, California

NASA Technical Reports Server (NTRS)

Wallace, R. E.

1969-01-01

Nine-frame multiband aerial photography of a sample area 4500 feet on a side was processed to enhance spectral contrasts. The area concerned is in the Carrizo Plain, 45 miles west of Bakersfield, California, in sec. 29, T 31 S., R. 21 E., as shown on the Panorama Hills quadrangle topographic map published by the U. S. Geological Survey. The accompany illustrations include an index map showing the location of the Carrizo Plain area; a geologic map of the area based on field studies and examination of black and white aerial photographs; an enhanced multiband aerial photograph; an Aero Ektachrome photograph; black and white aerial photographs; and infrared image in the 8-13 micron band.

Neutron diffraction from aligned stacks of lipid bilayers using the WAND instrument

DOE PAGES

Marquardt, Drew; Frontzek, Matthias D.; Zhao, Yu; ...

2018-02-06

Neutron diffraction from aligned stacks of lipid bilayers is examined using the Wide-Angle Neutron Diffractometer (WAND), located at the High Flux Isotope Reactor, Oak Ridge, Tennessee, USA. Data were collected at different levels of hydration and neutron contrast by varying the relative humidity (RH) and H 2O/D 2O ratio from multi-bilayers of dioleoylphosphatidylcholine and sunflower phosphatidylcholine extract aligned on single-crystal silicon substrates. This work highlights the capabilites of a newly fabricated sample hydration cell, which allows the lipid bilayers to be hydrated with varying H/D ratios from the RH generated by saturated salt solutions, and also demonstrates WAND's capability asmore » an instrument suitable for the study of aligned lipid multi-bilayers.« less

Neutron diffraction from aligned stacks of lipid bilayers using the WAND instrument

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

Marquardt, Drew; Frontzek, Matthias D.; Zhao, Yu

Neutron diffraction from aligned stacks of lipid bilayers is examined using the Wide-Angle Neutron Diffractometer (WAND), located at the High Flux Isotope Reactor, Oak Ridge, Tennessee, USA. Data were collected at different levels of hydration and neutron contrast by varying the relative humidity (RH) and H 2O/D 2O ratio from multi-bilayers of dioleoylphosphatidylcholine and sunflower phosphatidylcholine extract aligned on single-crystal silicon substrates. This work highlights the capabilites of a newly fabricated sample hydration cell, which allows the lipid bilayers to be hydrated with varying H/D ratios from the RH generated by saturated salt solutions, and also demonstrates WAND's capability asmore » an instrument suitable for the study of aligned lipid multi-bilayers.« less

Terrorism, post-traumatic stress, coping strategies, and spiritual outcomes.

PubMed

Meisenhelder, Janice Bell; Marcum, John P

2009-03-01

This mail survey measured post-traumatic stress symptoms, spiritual and non-spiritual coping strategies, and positive spiritual outcomes following the tragedies of 9/11/01 in a national, random sample of 1,056 Presbyterians. Respondents reported mild to moderate degrees of re-experiencing and hyper-arousal symptoms of post-traumatic stress, unrelated to location or knowing someone involved. People experiencing high stress used greater frequency and variety of both spiritual and non-spiritual types of coping strategies. Positive spiritual outcomes were remarkably related to positive spiritual coping strategies, in contrast to no association with negative coping. This study illustrates the significant degree of post-traumatic stress experienced with vicarious exposure and a wide spectrum of coping strategies used following the major terrorist attacks.

Probabilistic Sensitivity Analysis for Launch Vehicles with Varying Payloads and Adapters for Structural Dynamics and Loads

NASA Technical Reports Server (NTRS)

McGhee, David S.; Peck, Jeff A.; McDonald, Emmett J.

2012-01-01

This paper examines Probabilistic Sensitivity Analysis (PSA) methods and tools in an effort to understand their utility in vehicle loads and dynamic analysis. Specifically, this study addresses how these methods may be used to establish limits on payload mass and cg location and requirements on adaptor stiffnesses while maintaining vehicle loads and frequencies within established bounds. To this end, PSA methods and tools are applied to a realistic, but manageable, integrated launch vehicle analysis where payload and payload adaptor parameters are modeled as random variables. This analysis is used to study both Regional Response PSA (RRPSA) and Global Response PSA (GRPSA) methods, with a primary focus on sampling based techniques. For contrast, some MPP based approaches are also examined.

Interpretation of discrepancies in mass spectroscopy data obtained from different experimental configurations

NASA Technical Reports Server (NTRS)

Russell, John M.

1993-01-01

Many helium mass spectrometer leak detectors at KSC employ sampling systems that feature hand held sniffer probes. Authors of general leakage-testing literature recommend sniffer probes for leak location but not for quantitative leakage measurement. Their use in the latter application at KSC involves assumptions that may be subtle. The purpose of the research effort reported herein was to establish the significance of indicated leak rates displayed by sniffer-probe equipped leak detectors and to determine whether the use of alternative hardware or testing procedures may reduce the uncertainty of leakage measurements made with them. The report classifies probe-type sampling systems for helium leak detectors according to their internal plumbing (direct or branched), presents a basic analysis of the fluid dynamics in the sampling system in the branched-conduit case, describes the usual test method for measuring the internal supply-to-sample flowrate ratio (a.k.a permeation ratio), and describes a concept for a sponge-tipped probe whose external supply-to-sample flowrate ratio promises to be lower than that of a simple-ended probe. One conclusion is that the main source of uncertainty in the use of probe-type sampling systems for leakage measurement is uncertainty in the external supply-to-sample flowrate ratio. In contrast, the present method for measuring the internal supply-to-sample flowrate ratio is quantitative and satisfactory. The implication is that probes of lower external supply-to-sample flowrate ratio must be developed before this uncertainty may be reduced significantly.

Biodegradation of MC252 oil in oil:sand aggregates in a coastal headland beach environment

PubMed Central

Elango, Vijaikrishnah; Urbano, Marilany; Lemelle, Kendall R.; Pardue, John H.

2014-01-01

Unique oil:sand aggregates, termed surface residue balls (SRBs), were formed on coastal headland beaches along the northern Gulf of Mexico as emulsified MC252 crude oil mixed with sand following the Deepwater Horizon spill event. The objective of this study is to assess the biodegradation potential of crude oil components in these aggregates using multiple lines of evidence on a heavily-impacted coastal headland beach in Louisiana, USA. SRBs were sampled over a 19-month period on the supratidal beach environment with reasonable control over and knowledge of the residence time of the aggregates on the beach surface. Polycyclic aromatic hydrocarbons (PAHs) and alkane concentration ratios were measured including PAH/C30-hopane, C2/C3 phenanthrenes, C2/C3 dibenzothiophenes and alkane/C30-hopane and demonstrated that biodegradation was occurring in SRBs in the supratidal. These biodegradation reactions occurred over time frames relevant to the coastal processes moving SRBs off the beach. In contrast, submerged oil mat samples from the intertidal did not demonstrate chemical changes consistent with biodegradation. Review and analysis of additional biogeochemical parameters suggested the existence of a moisture and nutrient-limited biodegradation regime on the supratidal beach environment. At this location, SRBs possess moisture contents <2% and molar C:N ratios from 131–323, well outside of optimal values for biodegradation in the literature. Despite these limitations, biodegradation of PAHs and alkanes proceeded at relevant rates (2–8 year−1) due in part to the presence of degrading populations, i.e., Mycobacterium sp., adapted to these conditions. For submerged oil mat samples in the intertidal, an oxygen and salinity-impacted regime is proposed that severely limits biodegradation of alkanes and PAHs in this environment. These results support the hypothesis that SRBs deposited at different locations on the beach have different biogeochemical characteristics (e.g., moisture, salinity, terminal electron acceptors, nutrient, and oil composition) due, in part, to their location on the landscape. PMID:24782849

Ground-water contamination from lead shot at Prime Hook National Wildlife Refuge, Sussex County, Delaware

USGS Publications Warehouse

Soeder, Daniel J.; Miller, Cherie V.

2003-01-01

Prime Hook National Wildlife Refuge is located in southeastern Delaware in coastal lowlands along the margin of Delaware Bay. For 37 years, the Broadkiln Sportsman?s Club adjacent to the refuge operated a trap-shooting range, with the clay-target launchers oriented so that the expended lead shot from the range dropped into forested wetland areas on the refuge property. Investigators have estimated that up to 58,000 shotgun pellets per square foot are present in locations on the refuge where the lead shot fell to the ground. As part of the environmental risk assessment for the site, the U.S. Geological Survey (USGS) investigated the potential for lead contamination in ground water. Results from two sampling rounds in 19 shallow wells indicate that elevated levels of dissolved lead are present in ground water at the site. The lead and associated metals, such as antimony and arsenic (common shotgun pellet alloys), are being transported along shallow ground-water flowpaths toward an open-water slough in the forested wetland adjacent to the downrange target area. Water samples from wells located along the bank of the slough contained dissolved lead concentrations higher than 400 micrograms per liter, and as high as 1 milligram per liter. In contrast, a natural background concentration of lead from ground water in a well upgradient from the site is about 1 microgram per liter. Two water samples collected several months apart from the slough directly downgradient of the shooting range contained 24 and 212 micrograms per liter of lead, respectively. The data indicate that lead from a concentrated deposit of shotgun pellets on the refuge has been mobilized through a combination of acidic water conditions and a very sandy, shallow, unconfined aquifer, and is moving along ground-water flowpaths toward the surface-water drainage. Data from this study will be used to help delineate the lead plume, and determine the fate and transport of lead from the source area.

Biodegradation of MC252 oil in oil:sand aggregates in a coastal headland beach environment.

PubMed

Elango, Vijaikrishnah; Urbano, Marilany; Lemelle, Kendall R; Pardue, John H

2014-01-01

Unique oil:sand aggregates, termed surface residue balls (SRBs), were formed on coastal headland beaches along the northern Gulf of Mexico as emulsified MC252 crude oil mixed with sand following the Deepwater Horizon spill event. The objective of this study is to assess the biodegradation potential of crude oil components in these aggregates using multiple lines of evidence on a heavily-impacted coastal headland beach in Louisiana, USA. SRBs were sampled over a 19-month period on the supratidal beach environment with reasonable control over and knowledge of the residence time of the aggregates on the beach surface. Polycyclic aromatic hydrocarbons (PAHs) and alkane concentration ratios were measured including PAH/C30-hopane, C2/C3 phenanthrenes, C2/C3 dibenzothiophenes and alkane/C30-hopane and demonstrated that biodegradation was occurring in SRBs in the supratidal. These biodegradation reactions occurred over time frames relevant to the coastal processes moving SRBs off the beach. In contrast, submerged oil mat samples from the intertidal did not demonstrate chemical changes consistent with biodegradation. Review and analysis of additional biogeochemical parameters suggested the existence of a moisture and nutrient-limited biodegradation regime on the supratidal beach environment. At this location, SRBs possess moisture contents <2% and molar C:N ratios from 131-323, well outside of optimal values for biodegradation in the literature. Despite these limitations, biodegradation of PAHs and alkanes proceeded at relevant rates (2-8 year(-1)) due in part to the presence of degrading populations, i.e., Mycobacterium sp., adapted to these conditions. For submerged oil mat samples in the intertidal, an oxygen and salinity-impacted regime is proposed that severely limits biodegradation of alkanes and PAHs in this environment. These results support the hypothesis that SRBs deposited at different locations on the beach have different biogeochemical characteristics (e.g., moisture, salinity, terminal electron acceptors, nutrient, and oil composition) due, in part, to their location on the landscape.

40 CFR 141.703 - Sampling locations.

Code of Federal Regulations, 2011 CFR

2011-07-01

... 40 Protection of Environment 23 2011-07-01 2011-07-01 false Sampling locations. 141.703 Section... Monitoring Requirements § 141.703 Sampling locations. (a) Systems required to conduct source water monitoring... a sampling tap is available where the sources are combined prior to treatment, systems must collect...

A Comparison of What Is Part of Usability Testing in Three Countries

NASA Astrophysics Data System (ADS)

Clemmensen, Torkil

The cultural diversity of users of technology challenges our methods for usability evaluation. In this paper we report and compare three ethnographic interview studies of what is a part of a standard (typical) usability test in a company in Mumbai, Beijing and Copenhagen. At each of these three locations, we use structural and contrast questions do a taxonomic and paradigm analysis of a how a company performs a usability test. We find similar parts across the three locations. We also find different results for each location. In Mumbai, most parts of the usability test are not related to the interactive application that is tested, but to differences in user characteristics, test preparation, method, and location. In Copenhagen, considerations about the client's needs are part of a usability test. In Beijing, the only varying factor is the communication pattern and relation to the user. These results are then contrasted in a cross cultural matrix to identify cultural themes that can help interpret results from existing laboratory research in usability test methods.

Using SANS with Contrast-Matched Lipid Bicontinuous Cubic Phases To Determine the Location of Encapsulated Peptides, Proteins, and Other Biomolecules.

PubMed

van 't Hag, Leonie; de Campo, Liliana; Garvey, Christopher J; Feast, George C; Leung, Anna E; Yepuri, Nageshwar Rao; Knott, Robert; Greaves, Tamar L; Tran, Nhiem; Gras, Sally L; Drummond, Calum J; Conn, Charlotte E

2016-07-21

An understanding of the location of peptides, proteins, and other biomolecules within the bicontinuous cubic phase is crucial for understanding and evolving biological and biomedical applications of these hybrid biomolecule-lipid materials, including during in meso crystallization and drug delivery. While theoretical modeling has indicated that proteins and additive lipids might phase separate locally and adopt a preferred location in the cubic phase, this has never been experimentally confirmed. We have demonstrated that perfectly contrast-matched cubic phases in D2O can be studied using small-angle neutron scattering by mixing fully deuterated and hydrogenated lipid at an appropriate ratio. The model transmembrane peptide WALP21 showed no preferential location in the membrane of the diamond cubic phase of phytanoyl monoethanolamide and was not incorporated in the gyroid cubic phase. While deuteration had a small effect on the phase behavior of the cubic phase forming lipids, the changes did not significantly affect our results.

A switch in the Atlantic Oscillation correlates with inter-annual changes in foraging location and food habits of Macaronesian shearwaters (Puffinus baroli) nesting on two islands of the sub-tropical Atlantic Ocean

NASA Astrophysics Data System (ADS)

Ramos, Jaime A.; Isabel Fagundes, Ana; Xavier, José C.; Fidalgo, Vera; Ceia, Filipe R.; Medeiros, Renata; Paiva, Vitor H.

2015-10-01

Changes in oceanographic conditions, shaped by changes in large-scale atmospheric phenomena such as the North Atlantic Oscillation (NAO), alters the structure and functioning of marine ecosystems. Such signals are readily captured by marine top predators, given that their use of foraging habitats and diets change when the NAO changes. In this study we assessed sexual, seasonal and annual (2010/11-2012/13) differences in diet, trophic and isotopic niche (using δ15N and δ13C values of whole blood, 1st primary, 8th secondary and breast feathers), foraging locations and oceanographic variation within foraging areas for Macaronesian shearwaters' (Puffinus baroli) during two years of contrasting NAO values, and between two sub-tropical islands 330 km apart in the North Atlantic Ocean, Cima Islet and Selvagem Grande. These two locations provide contrasting oceanographic foraging regimes for the birds, because the second colony is much closer to the African coast (375 vs 650 km), and, therefore, to the upwelling area of the Canary Current. There was a marked environmental perturbation in 2010/2011, related with a negative NAO Index and lower marine productivity (lower concentration of Chlorophyll a). This event corresponded to the Macaronesian shearwaters feeding farther north and west, which was readily seen in change of both δ15N and δ13C values, and in a higher intake of cephalopods. Diet and stable isotopes did not differ between sexes. Regurgitation analysis indicate a dominance of cephalopods in both islands, but prey fish were important for Selvagem Grande in 2012 and cephalopods for Cima Islet in 2011. Both δ15N and δ13C values were significantly higher for Cima Islet than for Selvagem Grande, irrespective of year, season and tissue sampled. SIBER analysis showed smaller isotopic niches for the breeding period. Our study suggests that during years of poor environmental conditions Macaronesian shearwaters shift their foraging location to more pelagic waters, take more cephalopods and overall present a narrower isotopic niche.

Present-day monitoring underestimates the risk of exposure to pathogenic bacteria from cold water storage tanks

PubMed Central

2018-01-01

Water-borne bacteria, found in cold water storage tanks, are causative agents for various human infections and diseases including Legionnaires’ disease. Consequently, regular microbiological monitoring of tank water is undertaken as part of the regulatory framework used to control pathogenic bacteria. A key assumption is that a small volume of water taken from under the ball valve (where there is easy access to the stored water) will be representative of the entire tank. To test the reliability of this measure, domestic water samples taken from different locations of selected tanks in London properties between November 2015 and July 2016 were analysed for TVCs, Pseudomonas and Legionella at an accredited laboratory, according to regulatory requirements. Out of ~6000 tanks surveyed, only 15 were selected based on the ability to take a water sample from the normal sampling hatch (located above the ball valve) and from the far end of the tank (usually requiring disassembly of the tank lid with risk of structural damage), and permission being granted by the site manager to undertake the additional investigation and sampling. Despite seasonal differences in water temperature, we found 100% compliance at the ball valve end. In contrast, 40% of the tanks exceeded the regulatory threshold for temperature at the far end of the tank in the summer months. Consequently, 20% of the tanks surveyed failed to trigger appropriate regulatory action based on microbiological analyses of the water sample taken under the ball valve compared to the far end sample using present-day standards. These data show that typical water samples collected for routine monitoring may often underestimate the microbiological status of the water entering the building, thereby increasing the risk of exposure to water bourne pathogens with potential public health implications. We propose that water storage tanks should be redesigned to allow access to the far end of tanks for routine monitoring purposes, and that water samples used to ascertain the regulatory compliance of stored water in tanks should be taken at the point at which water is abstracted for use in the building. PMID:29649274

Factors affecting the bacterial community composition and heterotrophic production of Columbia River estuarine turbidity maxima.

PubMed

Herfort, Lydie; Crump, Byron C; Fortunato, Caroline S; McCue, Lee Ann; Campbell, Victoria; Simon, Holly M; Baptista, António M; Zuber, Peter

2017-12-01

Estuarine turbidity maxima (ETM) function as hotspots of microbial activity and diversity in estuaries, yet, little is known about the temporal and spatial variability in ETM bacterial community composition. To determine which environmental factors affect ETM bacterial populations in the Columbia River estuary, we analyzed ETM bacterial community composition (Sanger sequencing and amplicon pyrosequencing of 16S rRNA gene) and bulk heterotrophic production ( 3 H-leucine incorporation rates). We collected water 20 times to cover five ETM events and obtained 42 samples characterized by different salinities, turbidities, seasons, coastal regimes (upwelling vs. downwelling), locations, and particle size. Spring and summer populations were distinct. All May samples had similar bacterial community composition despite having different salinities (1-24 PSU), but summer non-ETM bacteria separated into marine, freshwater, and brackish assemblages. Summer ETM bacterial communities varied depending on coastal upwelling or downwelling conditions and on the sampling site location with respect to tidal intrusion during the previous neap tide. In contrast to ETM, whole (>0.2 μm) and free-living (0.2-3 μm) assemblages of non-ETM waters were similar to each other, indicating that particle-attached (>3 μm) non-ETM bacteria do not develop a distinct community. Brackish water type (ETM or non-ETM) is thus a major factor affecting particle-attached bacterial communities. Heterotrophic production was higher in particle-attached than free-living fractions in all brackish waters collected throughout the water column during the rise to decline of turbidity through an ETM event (i.e., ETM-impacted waters). However, free-living communities showed higher productivity prior to or after an ETM event (i.e., non-ETM-impacted waters). This study has thus found that Columbia River ETM bacterial communities vary based on seasons, salinity, sampling location, and particle size, with the existence of three particle types characterized by different bacterial communities in ETM, ETM-impacted, and non-ETM-impacted brackish waters. Taxonomic analysis suggests that ETM key biological function is to remineralize organic matter. © 2017 The Authors. MicrobiologyOpen published by John Wiley & Sons Ltd.

Numerous Submarine Radial Vents Revealed on Mauna Loa Volcano

NASA Astrophysics Data System (ADS)

Wanless, D.; Garcia, M. O.; Rhodes, J. M.; Trusdell, F. A.; Schilling, S.; Weis, D.; Fornari, D.; Vollinger, M.

2003-12-01

Among Hawaiian shield volcanoes, Mauna Loa is distinct in having vents outside of its summit and rift zones. These radial vents are located on its northern and western flanks and account for approximately 10% of historic eruptions outside the summit region. Thirty-three subaerial and one submarine vent (active in 1877) were known prior to our work. During a recent Jason2 expedition to the volcano's western flank, nine new submarine radial vents were discovered. Eighty-five samples were collected from these and the 1877 radial vent. Bathymetry and side-scan imagery were acquired using an EM300 multibeam echo sounder. The high resolution data (vertical resolution of approximately 4 m and horizontal resolution of 25 m) allowed us to create the first detailed geologic map of Mauna Loa's western submarine flank. The map was compiled using video and still photography from the Jason2 ROV and geochemical analysis of the samples. The geochemistry includes microprobe glass and XRF whole rock major and trace element data. Eight of the submarine radial vents sampled erupted tholeiitic lavas that are geochemically similar to historical subaerial eruptions on Mauna Loa. However, in contrast to all previously collected Mauna Loa lavas, two of the young vents erupted alkalic basalts. These lavas may have been derived from Mauna Loa, as they have somewhat higher FeO and TiO2 values at a given MgO content than alkalic lavas from neighboring Hualalai volcano, whose vents are located only on rifts 16 km away. Alkalic lavas are indicative of the postshield stage of volcanism and may signal the impending demise of Mauna Loa volcano.

Microbiome patterns across the gastrointestinal tract of the rabbitfish Siganus fuscescens.

PubMed

Nielsen, Shaun; Wilkes Walburn, Jackson; Vergés, Adriana; Thomas, Torsten; Egan, Suhelen

2017-01-01

Most of our knowledge regarding the biodiversity of gut microbes comes from terrestrial organisms or marine species of economic value, with less emphasis on ecologically important species. Here we investigate the bacterial composition associated with the gut of Siganus fuscescens , a rabbitfish that plays an important ecological role in coastal ecosystems by consuming seaweeds. Members of Firmicutes, Bacteroidetes and delta-Proteobacteria were among the dominant taxa across samples taken from the contents and the walls (sites) of the midgut and hindgut (location). Despite the high variability among individual fish, we observed statistically significant differences in beta-diversity between gut sites and gut locations. Some bacterial taxa low in abundance in the midgut content (e.g., Desulfovibrio ) were found in greater abundances on the midgut wall and within the hindgut, suggesting that the gut may select for specific groups of environmental and/or food-associated microorganisms. In contrast, some distinct taxa present in the midgut content (e.g., Synechococcus ) were noticeably reduced in the midgut wall and hindgut, and are thus likely to be representative of transient microbiota. This is the first assessment of the bacterial diversity associated with the gut of S. fuscescens and highlights the need to consider the variability across different gut locations and sites when analyzing fish gut microbiomes.

Analysis of Shuttle Multispecral Infrared Radiometer measurements of the western Saudi Arabian shield.

USGS Publications Warehouse

Rowan, Lawrence C.; Goetz, Alexander F.H.; Abbott, Elsa

1987-01-01

During the November 12–14, 1981, mission of the space shuttle Columbia, the Shuttle Multispectral Infrared Radiometer (SMIRR) recorded radiances in ten channels along a 100 m wide groundtrack across the western Saudi Arabian shield. The ten channels are located in the 0.5 to 2.4 μm region, with five positioned between 2.0 and 2.40 μm for measuring absorption features that are diagnostic of OH‐bearing and CO3‐bearing">CO3‐bearing minerals. This exceptionally well exposed area consists of late Proterozoic metamorphic, intermediate to silicic intrusive, and interlayered clastic sedimentary and intermediate silicic volcanic rocks that have not been studied previously using SMIRR data. Plots or traces of unnormalized SMIRR channel ratios were examined before field studies to locate areas with high spectral contrast, especially in the 2.0 μm to 2.40 μm channels. Reflectance spectra were measured in the laboratory for rock and soil samples collected in these areas, and the mineralogic causes of the main absorption features were determined using X‐ray diffraction. Laboratory SMIRR spectra were produced by convolving the ten SMIRR filters with the laboratory spectra. Then, normalized SMIRR reflectance spectra were generated along the groundtrack using normalization coefficients calculated for a field sample representing a uniform, low‐spectral contrast area. Field evaluation shows that unnormalized SMIRR ratio traces are useful, even without specific mineralogic information, for distinguishing rocks that are characterized by Al‐OH, Mg‐OH, and/or CO3">CO3">CO3, Fe3+">Fe3+, and Fe2+ absorption features. Analysis of field samples permits suites of minerals causing absorption features to be identified. However, specific mineral identification cannot be achieved consistently using the SMIRR ratio traces or normalized SMIRR spectra, because the Al‐OH and Mg‐OH absorption features can be caused by more than one of the minerals commonly present. The normalized SMIRR spectra are especially useful for identifying subtle Al‐OH and Mg‐OH absorption features that are difficult to identify in the unnormalized ratio traces and for comparing the relative intensities of absorption features. Al‐OH absorption is related to muscovite, smectite, illite, and kaolinite, whereas Mg‐OH absorption is caused by chlorite, amphibole, and biotite. The principal sources of error in using SMIRR spectral measurements for identifying mineral groups along the orbit 27 groundtrack are inaccuracies in field location and lithologic heterogeneity that is not represented adequately by field samples. Calibration errors may account for systematic albedo and absorption intensity differences between calculated laboratory SMIRR spectra and normalized SMIRR spectra. SMIRR instrument noise and atmospheric factors appear to be less important sources of error. However, as higher spectral and spatial resolution systems are developed for mineral identification, radiometric precision and atmospheric factors will become more important.

MRI and CT contrast media extravasation: A systematic review.

PubMed

Heshmatzadeh Behzadi, Ashkan; Farooq, Zerwa; Newhouse, Jeffery H; Prince, Martin R

2018-03-01

This systematic review combines data from multiple papers on contrast media extravasation to identify factors contributing to increased extravasation risk. Data were extracted from 17 papers reporting 2191 extravasations in 1,104,872 patients (0.2%) undergoing computed tomography (CT) or magnetic resonance imaging (MRI). Extravasation rates were 0.045% for gadolinium-based contrast agents (GBCA) and nearly 6-fold higher, 0.26% for iodinated contrast agents. Factors associated with increased contrast media extravasations included: older age, female gender, using an existing intravenous (IV) instead of placing a new IV in radiology, in-patient status, use of automated power injection, high injection rates, catheter location, and failing to warm up the more viscous contrast media to body temperature. Contrast media extravasation is infrequent but nearly 6 times less frequent with GBCA for MRI compared with iodinated contrast used in CT.

Experiments and modeling of variably permeable carbonate reservoir samples in contact with CO₂-acidified brines

DOE PAGES

Smith, Megan M.; Hao, Yue; Mason, Harris E.; ...

2014-12-31

Reactive experiments were performed to expose sample cores from the Arbuckle carbonate reservoir to CO₂-acidified brine under reservoir temperature and pressure conditions. The samples consisted of dolomite with varying quantities of calcite and silica/chert. The timescales of monitored pressure decline across each sample in response to CO₂ exposure, as well as the amount of and nature of dissolution features, varied widely among these three experiments. For all samples cores, the experimentally measured initial permeability was at least one order of magnitude or more lower than the values estimated from downhole methods. Nondestructive X-ray computed tomography (XRCT) imaging revealed dissolution featuresmore » including “wormholes,” removal of fracture-filling crystals, and widening of pre-existing pore spaces. In the injection zone sample, multiple fractures may have contributed to the high initial permeability of this core and restricted the distribution of CO₂-induced mineral dissolution. In contrast, the pre-existing porosity of the baffle zone sample was much lower and less connected, leading to a lower initial permeability and contributing to the development of a single dissolution channel. While calcite may make up only a small percentage of the overall sample composition, its location and the effects of its dissolution have an outsized effect on permeability responses to CO₂ exposure. The XRCT data presented here are informative for building the model domain for numerical simulations of these experiments but require calibration by higher resolution means to confidently evaluate different porosity-permeability relationships.« less

Evaluation of spiral acquisition variants for functional imaging of human superior colliculus at 3T field strength.

PubMed

Singh, Vimal; Pfeuffer, Josef; Zhao, Tiejun; Ress, David

2018-04-01

High-resolution functional magnetic resonance imaging of human subcortical brain structures is challenging because of their deep location in the cranium, and their comparatively weak blood oxygen level dependent responses to strong stimuli. Magnetic resonance imaging data for subcortical brain regions exhibit both low signal-to-noise ratio and low functional contrast-to-noise ratio. To overcome these challenges, this work evaluates the use of dual-echo spiral variants that combine outward and inward trajectories. Specifically, in-in, in-out, and out-out combinations are evaluated. For completeness, single-echo spiral-in and parallel-receive-accelerated echo-planar-imaging sequences are also evaluated. Sequence evaluation was based on comparison of functional contrast-to-noise ratio within retinotopically predefined regions of interest. Superior colliculus was chosen as sample subcortical brain region because it exhibits a strong visual response. All sequences were compared relative to a single-echo spiral-out trajectory to establish a within-session reference. In superior colliculus, the dual-echo out-out outperformed the reference trajectory by 55% in contrast-to-noise ratio, while all other trajectories had performance similar to the reference. The sequences were also compared in early visual cortex. Here, both dual-echo spiral out-out and in-out outperformed the reference by ∼25%. Dual-echo spiral variants offer improved contrast-to-noise ratio performance for high-resolution imaging for both superior colliculus and cortex. Magn Reson Med 79:1931-1940, 2018. © 2017 International Society for Magnetic Resonance in Medicine. © 2017 International Society for Magnetic Resonance in Medicine.

Spatially resolved D-T(2) correlation NMR of porous media.

PubMed

Zhang, Yan; Blümich, Bernhard

2014-05-01

Within the past decade, 2D Laplace nuclear magnetic resonance (NMR) has been developed to analyze pore geometry and diffusion of fluids in porous media on the micrometer scale. Many objects like rocks and concrete are heterogeneous on the macroscopic scale, and an integral analysis of microscopic properties provides volume-averaged information. Magnetic resonance imaging (MRI) resolves this spatial average on the contrast scale set by the particular MRI technique. Desirable contrast parameters for studies of fluid transport in porous media derive from the pore-size distribution and the pore connectivity. These microscopic parameters are accessed by 1D and 2D Laplace NMR techniques. It is therefore desirable to combine MRI and 2D Laplace NMR to image functional information on fluid transport in porous media. Because 2D Laplace resolved MRI demands excessive measuring time, this study investigates the possibility to restrict the 2D Laplace analysis to the sum signals from low-resolution pixels, which correspond to pixels of similar amplitude in high-resolution images. In this exploratory study spatially resolved D-T2 correlation maps from glass beads and mortar are analyzed. Regions of similar contrast are first identified in high-resolution images to locate corresponding pixels in low-resolution images generated with D-T2 resolved MRI for subsequent pixel summation to improve the signal-to-noise ratio of contrast-specific D-T2 maps. This method is expected to contribute valuable information on correlated sample heterogeneity from the macroscopic and the microscopic scales in various types of porous materials including building materials and rock. Copyright © 2014 Elsevier Inc. All rights reserved.

X-ray phase-contrast imaging

NASA Astrophysics Data System (ADS)

Endrizzi, Marco

2018-01-01

X-ray imaging is a standard tool for the non-destructive inspection of the internal structure of samples. It finds application in a vast diversity of fields: medicine, biology, many engineering disciplines, palaeontology and earth sciences are just few examples. The fundamental principle underpinning the image formation have remained the same for over a century: the X-rays traversing the sample are subjected to different amount of absorption in different parts of the sample. By means of phase-sensitive techniques it is possible to generate contrast also in relation to the phase shifts imparted by the sample and to extend the capabilities of X-ray imaging to those details that lack enough absorption contrast to be visualised in conventional radiography. A general overview of X-ray phase contrast imaging techniques is presented in this review, along with more recent advances in this fast evolving field and some examples of applications.

Definition of a new thermal contrast and pulse correction for defect quantification in pulsed thermography

NASA Astrophysics Data System (ADS)

Benítez, Hernán D.; Ibarra-Castanedo, Clemente; Bendada, AbdelHakim; Maldague, Xavier; Loaiza, Humberto; Caicedo, Eduardo

2008-01-01

It is well known that the methods of thermographic non-destructive testing based on the thermal contrast are strongly affected by non-uniform heating at the surface. Hence, the results obtained from these methods considerably depend on the chosen reference point. The differential absolute contrast (DAC) method was developed to eliminate the need of determining a reference point that defined the thermal contrast with respect to an ideal sound area. Although, very useful at early times, the DAC accuracy decreases when the heat front approaches the sample rear face. We propose a new DAC version by explicitly introducing the sample thickness using the thermal quadrupoles theory and showing that the new DAC range of validity increases for long times while preserving the validity for short times. This new contrast is used for defect quantification in composite, Plexiglas™ and aluminum samples.

Gas and porewater composition of shallow sediments in the Tuaheni Basin, New Zealand

NASA Astrophysics Data System (ADS)

Rose, P. S.; Coffin, R. B.; Yoza, B.; Boyd, T. J.; Crutchley, G. J.; Mountjoy, J. J.; Pecher, I. A.

2015-12-01

Seismic profiles collected during previous investigations on the Hikurangi Margin, off the North Island, New Zealand showed bottom simulating reflectors (BSRs), which are generally indicative of the presence of free gas. Further, double BSRs clearly identified in the Tuaheni Basin were hypothesized to result from differences in gas composition and fluid migration. During a cruise on the RV Tangaroa in June 2015 (TAN 1508) additional seismic data were collected and used to identify piston coring targets. Coring locations were selected to sample around BSR pinch-outs and possible fluid migration pathways to determine gas composition and flux. Shallow sediments collected in June 2015 in the Tuaheni Basin had relatively low sediment headspace CH4 concentrations (6000ppm. Higher molecular weight alkanes were not detected in the sediment headspace gas at any location. Sediment porewater sulfate, chloride and sulfide concentrations will be presented with CH4concentration profiles and geophysical data.

An Anisotropic Contrast in the Lithosphere Across the Central San Andreas Fault

NASA Astrophysics Data System (ADS)

Jiang, Chengxin; Schmandt, Brandon; Clayton, Robert W.

2018-05-01

Seismic anisotropy of the lithosphere and asthenosphere was investigated with a dense broadband seismic transect nearly orthogonal to the central San Andreas fault (SAF). A contrast in SK(K)S splitting was found across the SAF, with a clockwise rotation of the fast orientation 26° closer to the strike of the SAF and greater delay times for stations located within 35 km to the east. Dense seismograph spacing requires heterogeneous anisotropy east of the SAF in the uppermost mantle or crust. Based on existing station coverage, such a contrast in splitting orientations across the SAF may be unusual along strike and its location coincides with the high-velocity Isabella anomaly in the upper mantle. If the Isabella anomaly is a fossil slab fragment translating with the Pacific plate, the anomalous splitting east of the SAF could indicate a zone of margin-parallel shear beneath the western edge of North America.

System and method for floating-substrate passive voltage contrast

DOEpatents

Jenkins, Mark W [Albuquerque, NM; Cole, Jr., Edward I.; Tangyunyong, Paiboon [Albuquerque, NM; Soden, Jerry M [Placitas, NM; Walraven, Jeremy A [Albuquerque, NM; Pimentel, Alejandro A [Albuquerque, NM

2009-04-28

A passive voltage contrast (PVC) system and method are disclosed for analyzing ICs to locate defects and failure mechanisms. During analysis a device side of a semiconductor die containing the IC is maintained in an electrically-floating condition without any ground electrical connection while a charged particle beam is scanned over the device side. Secondary particle emission from the device side of the IC is detected to form an image of device features, including electrical vias connected to transistor gates or to other structures in the IC. A difference in image contrast allows the defects or failure mechanisms be pinpointed. Varying the scan rate can, in some instances, produce an image reversal to facilitate precisely locating the defects or failure mechanisms in the IC. The system and method are useful for failure analysis of ICs formed on substrates (e.g. bulk semiconductor substrates and SOI substrates) and other types of structures.

The Attentional Effects of Single Cues and Color Singletons on Visual Sensitivity

PubMed Central

White, Alex L.; Lunau, Rasmus; Carrasco, Marisa

2013-01-01

Sudden changes in the visual periphery can automatically draw attention to their locations. For example, the brief flash of a single object (a “cue”) rapidly enhances contrast sensitivity for subsequent stimuli in its vicinity. Feature singletons (e.g., a red circle among green circles) can also capture attention in a variety of tasks. Here, we evaluate whether a peripheral cue that enhances contrast sensitivity when it appears alone has a similar effect when it appears as a color singleton, with the same stimuli and task. In four experiments we asked observers to report the orientation of a target Gabor stimulus, which was preceded by an uninformative cue array consisting either of a single disk or of 16 disks containing a color or luminance singleton. Accuracy was higher and contrast thresholds lower when the single cue appeared at or near the target’s location, compared with farther away. The color singleton also modulated performance but to a lesser degree and only when it appeared exactly at the target’s location. Thus, this is the first study to demonstrate that cueing by color singletons, like single cues, can enhance sensory signals at an early stage of processing. PMID:23875570

Multiphase contrast medium injection for optimization of computed tomographic coronary angiography.

PubMed

Budoff, Matthew Jay; Shinbane, Jerold S; Child, Janis; Carson, Sivi; Chau, Alex; Liu, Stephen H; Mao, SongShou

2006-02-01

Electron beam angiography is a minimally invasive imaging technique. Adequate vascular opacification throughout the study remains a critical issue for image quality. We hypothesized that vascular image opacification and uniformity of vascular enhancement between slices can be improved using multiphase contrast medium injection protocols. We enrolled 244 consecutive patients who were randomized to three different injection protocols: single-phase contrast medium injection (Group 1), dual-phase contrast medium injection with each phase at a different injection rate (Group 2), and a three-phase injection with two phases of contrast medium injection followed by a saline injection phase (Group 3). Parameters measured were aortic opacification based on Hounsfield units and uniformity of aortic enhancement at predetermined slices (locations from top [level 1] to base [level 60]). In Group 1, contrast opacification differed across seven predetermined locations (scan levels: 1st versus 60th, P < .05), demonstrating significant nonuniformity. In Group 2, there was more uniform vascular enhancement, with no significant differences between the first 50 slices (P > .05). In Group 3, there was greater uniformity of vascular enhancement and higher mean Hounsfield units value across all 60 images, from the aortic root to the base of the heart (P < .05). The three-phase injection protocol improved vascular opacification at the base of the heart, as well as uniformity of arterial enhancement throughout the study.

Associations between damage location and five main body region injuries of MAIS 3-6 injured occupants.

PubMed

Tang, Youming; Cao, Libo; Kan, Steven

2014-05-08

To examine the damage location distribution of five main body region injuries of maximum abbreviated injury score (MAIS) 3-6 injured occupants for nearside struck vehicle in front-to-side impact crashes. MAIS 3-6 injured occupants information was extracted from the US-National Automotive Sampling System/Crashworthiness Data System in the year 2007; it included the head/face/neck, chest, pelvis, upper extremity and lower extremity. Struck vehicle collision damage was classified in a three-dimensional system according to the J224 Collision Deformation Classification of SAE Surface Vehicle Standard. Nearside occupants seated directly adjacent to the struck side of the vehicle with MAIS 3-6 injured, in light truck vehicles-passenger cars (LTV-PC) side impact crashes. Distribution of MAIS 3-6 injured occupants by body regions and specific location of damage (lateral direction, horizontal direction and vertical direction) were examined. Injury risk ratio was also assessed. The lateral crush zone contributed to MAIS 3-6 injured occupants (n=705) and 50th centile injury risks when extended into zone 3. When the crush extended to zone 4, the injury risk ratio of MAIS 3-6 injured occupants approached 81%. The horizontal crush zones contributing to the highest injury risk ratio of MAIS 3-6 occupants were zones 'D' and 'Y', and the injury risk ratios were 25.4% and 36.9%, respectively. In contrast, the lowest injury risk ratio was 5.67% caused by zone 'B'. The vertical crush zone which contributed to the highest injury risk ratio of MAIS 3-6 occupants was zone 'E', whose injury risk ratio was 58%. In contrast, the lowest injury risk ratio was 0.14% caused by zone 'G+M'. The highest injury risk ratio of MAIS 3-6 injured occupants caused by crush intrusion between 40 and 60 cm in LTV-PC nearside impact collisions and the damage region of the struck vehicle was in the zones 'E' and 'Y'.

Cost-effectiveness analysis using data from multinational trials: The use of bivariate hierarchical modelling

PubMed Central

Manca, Andrea; Lambert, Paul C; Sculpher, Mark; Rice, Nigel

2008-01-01

Healthcare cost-effectiveness analysis (CEA) often uses individual patient data (IPD) from multinational randomised controlled trials. Although designed to account for between-patient sampling variability in the clinical and economic data, standard analytical approaches to CEA ignore the presence of between-location variability in the study results. This is a restrictive limitation given that countries often differ in factors that could affect the results of CEAs, such as the availability of healthcare resources, their unit costs, clinical practice, and patient case-mix. We advocate the use of Bayesian bivariate hierarchical modelling to analyse multinational cost-effectiveness data. This analytical framework explicitly recognises that patient-level costs and outcomes are nested within countries. Using real life data, we illustrate how the proposed methods can be applied to obtain (a) more appropriate estimates of overall cost-effectiveness and associated measure of sampling uncertainty compared to standard CEA; and (b) country-specific cost-effectiveness estimates which can be used to assess the between-location variability of the study results, while controlling for differences in country-specific and patient-specific characteristics. It is demonstrated that results from standard CEA using IPD from multinational trials display a large degree of variability across the 17 countries included in the analysis, producing potentially misleading results. In contrast, ‘shrinkage estimates’ obtained from the modelling approach proposed here facilitate the appropriate quantification of country-specific cost-effectiveness estimates, while weighting the results based on the level of information available within each country. We suggest that the methods presented here represent a general framework for the analysis of economic data collected from different locations. PMID:17641141

Baleen hormones: a novel tool for retrospective assessment of stress and reproduction in bowhead whales (Balaena mysticetus).

PubMed

Hunt, Kathleen E; Stimmelmayr, Raphaela; George, Craig; Hanns, Cyd; Suydam, Robert; Brower, Harry; Rolland, Rosalind M

2014-01-01

Arctic marine mammals are facing increasing levels of many anthropogenic stressors. Novel tools are needed for assessment of stress physiology and potential impacts of these stressors on health, reproduction and survival. We have investigated baleen as a possible novel tissue type for retrospective assessment of stress and reproductive hormones. We found that pulverized baleen powder from bowhead whales (Balaena mysticetus) contained immunoreactive cortisol and progesterone that were detectable with commercially available enzyme immunoassay kits. Both assays passed parallelism and accuracy validations using baleen extracts. We analysed cortisol and progesterone at the base of the baleen plate (most recently grown baleen) from 16 bowhead whales of both sexes. For a subset of 11 whales, we also analysed older baleen from 10, 20 and 30 cm distal to the base of the baleen plate. Immunoreactive cortisol and progesterone were detectable in all baleen samples tested. In base samples, females had significantly higher concentrations of cortisol and progesterone compared with males. Cortisol concentrations in older baleen (10, 20 and 30 cm locations) were significantly lower than at the base and did not exhibit correlations with age-class or sex. Progesterone concentrations were significantly higher in females than in males at all baleen locations tested and were significantly higher in pregnant females than in non-pregnant females. Four of five mature females showed dramatic variation in progesterone concentrations at different locations along the baleen plate that may be indicative of previous pregnancies or luteal phases. In contrast, all males and all immature females had uniformly low progesterone. Baleen hormone analysis is a novel approach that, with further methodological development, may be useful for determining individual longitudinal profiles of reproductive cycles and stress responses.

Resistivity and Induced Polarization Imaging at a Hydrocarbon Contaminated Site in Brazil

NASA Astrophysics Data System (ADS)

Ustra, A.; Elis, V.; Hiodo, F.; Bondioli, A.; Miura, G.

2012-12-01

An area contaminated by accidental BTEX spills was investigated with resistivity and induced polarization methods. The main objective in this study was to relate the geophysical signature of the area with zones that were possibly undergoing microbial degradation of the contaminants. The spills took place over a decade ago; however, the exact location of these spills is unknown, as well as the amount of contaminant that was released into the subsurface. DC-resistivity identified a high contrast between the background (rho up to 2000 ohm.m) and a relatively conductive zone (rho < 100 ohm.m), where high chargeabilities were also measured (m > 30 mV/V). Normalized chargeability is enhanced in this anomaly zone (mn > 0.1). Soil samples collected in the area were submitted to direct bacterial count, clay content estimation, X-ray diffraction and SEM analysis. The electrical properties of each samples was also measured. The samples collected from the "background" (high resistivity zone) presented total bacterial amounts much smaller (dozens of colony forming units) than the samples from the conductive zone (millions of colony forming units). This observation could lead us to interpret that the zone of higher bacteria amount is undergoing biodegradation that would explain the increased conductivity at that portion of the subsurface. However, the geophysical properties observed at this zone could also be related to the clay content distribution throughout the surveyed area (concentrations up to 30%). Moreover, despite the fact that more microbes were found in the area, SEM images did not find any biodegradation typical feature of the grains, which are for example, mineral corrosion and dissolution or even biomineralization. This study is still undergoing and we are searching for more evidence of biodegradation in the samples. This study shows the limitation of the use of geophysical methods to access contaminant presence and/or biodegradation zones when the exact location of the contamination is unknown.

Environmental hazard assessment of contaminated soils in Antarctica: Using a structured tier 1 approach to inform decision-making.

PubMed

Pereira, Joana Luísa; Pereira, Patrícia; Padeiro, Ana; Gonçalves, Fernando; Amaro, Eduardo; Leppe, Marcelo; Verkulich, Sergey; Hughes, Kevin A; Peter, Hans-Ulrich; Canário, João

2017-01-01

Generally, Antarctica is considered to be an untouched area of the planet; however, the region's ecosystems have been subject to increased human pressure for at least the past half-century. This study assessed soils of Fildes Peninsula, where trace element pollution is thought to prevail. Four soil samples were collected from different locations and assessed following tier 1 methodologies for chemical and ecotoxicological lines of evidence (LoE) used in typical soil Environmental Risk Assessment (ERA). Trace element quantification was run on soil samples and sequential extracts, and elutriates were used to address their ecotoxicity using a standard ecotoxicological battery. The highest levels of trace elements were found for Cr, Cu, Ni and Zn, which were well above baseline levels in two sites located near previously identified contamination sources. Trace element concentrations in soils were compared with soil quality guidelines to estimate the contribution of the chemical LoE for integrated risk calculations; risk was found high, above 0.5 for all samples. Total concentrations in soil were consistent with corresponding sequentially extracted percentages, with Cu and Zn being the most bioavailable elements. Bacteria did not respond consistently to the elutriate samples and cladocerans did not respond at all. In contrast, the growth of microalgae and macrophytes was significantly impaired by elutriates of all soil samples, consistently to estimated trace element concentrations in the elutriate matrix. These results translated into lower risk values for the ecotoxicological compared to the chemical LoE. Nevertheless, integrated risk calculations generated either an immediate recommendation for further analysis to better understand the hazardous potential of the tested soils or showed that the soils could not adequately sustain natural ecosystem functions. This study suggests that the soil ecosystem in Fildes has been inadequately protected and supports previous claims on the need to reinforce protection measures and remediation activities. Copyright © 2016 Elsevier B.V. All rights reserved.

Exploring the use of environmental DNA to determine the species of salmon redds

USGS Publications Warehouse

Strobel, Burke; Laramie, Matthew; Pilliod, David S.

2017-01-01

Annual redd counts are used to monitor the status and trends of salmonid populations, but methods to easily and reliably determine which of sympatric species made specific redds are lacking. We explored whether environmental DNA (eDNA) analysis might prove useful for determining the species of salmon redds. We collected eDNA samples from the interstitial spaces of redds of Chinook Salmon Oncorhynchus tshawytscha, redds of Coho Salmon O. kisutch, and areas of undisturbed gravel (n = 10, each), as well as from the water column adjacent to each of those sites in the Sandy River basin, Oregon, USA during the fall of 2013. The concentrations of Chinook and Coho eDNA were quantified within each sample using real-time PCR. The water in the interstitial spaces of redds contained significantly higher eDNA concentrations of the species that made the redd than (1) the other species and (2) the adjacent water column. In contrast, neither Chinook nor Coho eDNA was significantly more concentrated than the other in the water from the interstitial spaces of undisturbed gravel. The interstitial water of undisturbed gravel contained significantly higher eDNA concentrations of Coho than the adjacent water column. In contrast, Chinook eDNA concentration was similar in the interstitial water of undisturbed gravel and the adjacent water column. Both species’ redds had significantly higher concentrations of their respective species’ eDNA than did undisturbed gravel, but conclusions were confounded by differences in the timing and locations of sampling. This initial investigation highlights the potential value and some of the complexity of using eDNA analysis to indicate redd species.

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Trophic accumulation of PSP toxins in zooplankton during Alexandrium fundyense blooms in Casco Bay, Gulf of Maine, April-June 1998. II. . Zooplankton abundance and size-fractionated community composition

NASA Astrophysics Data System (ADS)

Turner, Jefferson T.; Doucette, Gregory J.; Keafer, Bruce A.; Anderson, Donald M.

2005-09-01

During spring blooms of the toxic dinoflagellate Alexandrium fundyense in Casco Bay, Maine in 1998, we investigated vectorial intoxication of various zooplankton size fractions with PSP toxins, including zooplankton community composition from quantitative zooplankton samples (>102 μm), as well as zooplankton composition in relation to toxin levels in various size fractions (20-64, 64-100, 100-200, 200-500, >500 μm). Zooplankton abundance in 102 μm mesh samples was low (most values<10,000 animals m -3) from early April through early May, but increased to maxima in mid-June (cruise mean=121,500 animals m -3). Quantitative zooplankton samples (>102 μm) were dominated by copepod nauplii, and Oithona similis copepodites and adults at most locations except for those furthest inshore. At these inshore locations, Acartia hudsonica copepodites and adults were usually dominant. Larger copepods such as Calanus finmarchicus, Centropages typicus, and Pseudocalanus spp. were found primarily offshore, and at much lower abundances than O. similis. Rotifers, mainly present from late April to late May, were most abundant inshore. The marine cladoceran Evadne nordmani was sporadically abundant, particularly in mid-June. Microplankton in 20-64 μm size fractions was generally dominated by A. fundyense, non-toxic dinoflagellates, and tintinnids. Microplankton in 64-100 μm size fractions was generally dominated by larger non-toxic dinoflagellates, tintinnids, aloricate ciliates, and copepod nauplii, and in early May, rotifers. Some samples (23%) in the 64-100 μm size fractions contained abundant cells of A. fundyense, presumably due to sieve clogging, but most did not contain A. fundyense cells. This suggests that PSP toxin levels in those samples were due to vectorial intoxication of microzooplankters such as heterotrophic dinoflagellates, tintinnids, aloricate ciliates, rotifers, and copepod nauplii via feeding on A. fundyense cells. Dominant taxa in zooplankton fractions varied in size. Samples in the 100-200 μm size fraction were overwhelmingly dominated in most cases by copepod nauplii and small copepodites of O. similis, and during late May, rotifers. Samples in the 200-500 μm size fraction contained fewer copepod nauplii, but progressively more copepodites and adults of O. similis, particularly at offshore locations. At the most inshore stations, copepodites and adults of A. hudsonica were usual dominants. There were few copepod nauplii or O. similis in the>500 μm size fraction, which was usually dominated by copepodites and adults of C. finmarchicus, C. typicus, and Pseudocalanus spp. at offshore locations, and A. hudsonica inshore. Most of the higher PSP toxin concentrations were found in the larger zooplankton size fractions that were dominated by larger copepods such as C. finmarchicus and C. typicus. In contrast to our earlier findings, elevated toxin levels were also measured in numerous samples from smaller zooplankton size fractions, dominated by heterotrophic dinoflagellates, tintinnids and aloricate ciliates, rotifers, copepod nauplii, and smaller copepods such as O. similis and, at the most inshore locations, A. hudsonica. Thus, our data suggest that ingested PSP toxins are widespread throughout the zooplankton grazing community, and that potential vectors for intoxication of zooplankton assemblages include heterotrophic dinoflagellates, rotifers, protozoans, copepod nauplii, and small copepods.

Laboratory imaging of hydraulic fractures using microseismicity

NASA Astrophysics Data System (ADS)

Zeng, Zhengwen

2002-09-01

This dissertation starts with an investigation of the industry's needs for future research and development of hydraulic fracturing (HF) technology. Based on the investigation results of a questionnaire answered by some industrial experts, it was found that reliable hydraulic fracturing diagnostic techniques are in need. Further critical review showed that the microseismic method was one of the most promising techniques that needed further development. Developing robust algorithms and software for locating the coordinates of hydraulic fracturing-induced microseismic events, and for simulating the first motion of the induced waveforms were central tasks for this research. In addition, initiation and propagation characteristics of asymmetrical hydraulic fractures were investigated; a recent discovered tight gas sandstone was systematically characterized; a method for measuring Mode-I fracture toughness was upgraded; and the packer influence on the initiation of asymmetrical fractures was numerically simulated. By completing this research, the following contributions have been made: (1) Development of a simplex-based microseismic LOCATION program. This program overcame the shortcoming of ill-conditioning-prone conditions encountered in conventional location programs. (2) Development of a variance-based computer program, ArrTime, to automatically search the first arrival times from the full waveform data points. (3) Development of the first motion simulator of the induced microseismic waveforms. Using this program, the first motion waveform amplitude in any direction at any location induced from seismic sources at an arbitrary location in a known fracturing mode can be calculated. (4) Complete characterization of a newly discovered tight gas formation, the Jackfork sandstone. (5) Upgrade of a core sample-based method for the measurement of fracture toughness. Mode-I fracture toughness of common core samples in any direction can be measured using this method. (6) Discern of the packer influence on HF initiation. It is numerically shown that a properly functioning packer would transfer tensile stress concentrations from the sealed ends to the borehole wall in the maximum principal stress direction. In contrast, a malfunctioning packer would induce tensile stress concentrations at the sealed ends that, in turn, induces transverse fractures. (7) Image of dynamics of the asymmetrical hydraulic fracture initiation and propagation.

On the Origin of Monsoon

NASA Technical Reports Server (NTRS)

Chao, Winston C.; Chen, Baode; Einaudi, Franco (Technical Monitor)

2000-01-01

It is a long-held fundamental belief that the basic cause of a monsoon is land-sea thermal contrast on the continental scale. Through general circulation model experiments we demonstrate that this belief should be changed. The Asian and Australian summer monsoon circulations are largely intact in an experiment in which Asia, maritime continent, and Australia are replaced by ocean. It is also shown that the change resulting from such replacement is in general due more to the removal of topography than to the removal of land-sea contrast. Therefore, land-sea contrast plays only a minor modifying role in Asian and Australian summer monsoons. This also happens to the Central American summer monsoon. However, the same thing cannot be said of the African and South American summer monsoons. In Asian and Australian winter monsoons land-sea contrast also plays only a minor role. Our interpretation for the origin of monsoon is that the summer monsoon is the result of ITCZ's (intertropical convergence zones) peak being substantially (more than 10 degrees) away from the equator. The origin of the ITCZ has been previously interpreted by Chao. The circulation around thus located ITCZ, previously interpreted by Chao and Chen through the modified Gill solution and briefly described in this paper, explains the monsoon circulation. The longitudinal location of the ITCZs is determined by the distribution of surface conditions. ITCZ's favor locations of higher SST as in western Pacific and Indian Ocean, or tropical landmass, due to land-sea contrast, as in tropical Africa and South America. Thus, the role of landmass in the origin of monsoon can be replaced by ocean of sufficiently high SST. Furthermore, the ITCZ circulation extends into the tropics in the other hemisphere to give rise to the winter monsoon circulation there. Also through the equivalence of land-sea contrast and higher SST, it is argued that the basic monsoon onset mechanism proposed by Chao is valid for all monsoons.

Locating the electrical junctions in Cu(In,Ga)Se 2 and Cu 2ZnSnSe 4 solar cells by scanning capacitance spectroscopy

DOE PAGES

Xiao, Chuanxiao; Jiang, Chun -Sheng; Moutinho, Helio; ...

2016-08-09

Here, we determined the electrical junction (EJ) locations in Cu(In,Ga)Se 2 (CIGS) and Cu 2ZnSnSe 4 (CZTS) solar cells with ~20-nm accuracy by developing scanning capacitance spectroscopy (SCS) applicable to the thin-film devices. Cross-sectional sample preparation for the SCS measurement was developed by high-energy ion milling at room temperature for polishing the cross section to make it flat, followed by low-energy ion milling at liquid nitrogen temperature for removing the damaged layer and subsequent annealing for growing a native oxide layer. The SCS shows distinct p-type, transitional, and n-type spectra across the devices, and the spectral features change rapidly withmore » location in the depletion region, which results in determining the EJ with ~20-nm resolution. We found an n-type CIGS in the region next to the CIGS/CdS interface; thus, the cell is a homojunction. The EJ is ~40 nm from the interface on the CIGS side. In contrast, such an n-type CZTS was not found in the CZTS/CdS cells. The EJ is ~20 nm from the CZTS/CdS interface, which is consistent with asymmetrical carrier concentrations of the p-CZTS and n-CdS in a heterojunction cell. Our results of unambiguously determination of the junction locations contribute significantly to understanding the large open-circuit voltage difference between CIGS and CZTS.« less

Locating the electrical junctions in Cu(In,Ga)Se 2 and Cu 2ZnSnSe 4 solar cells by scanning capacitance spectroscopy

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

Xiao, Chuanxiao; Jiang, Chun -Sheng; Moutinho, Helio

Here, we determined the electrical junction (EJ) locations in Cu(In,Ga)Se 2 (CIGS) and Cu 2ZnSnSe 4 (CZTS) solar cells with ~20-nm accuracy by developing scanning capacitance spectroscopy (SCS) applicable to the thin-film devices. Cross-sectional sample preparation for the SCS measurement was developed by high-energy ion milling at room temperature for polishing the cross section to make it flat, followed by low-energy ion milling at liquid nitrogen temperature for removing the damaged layer and subsequent annealing for growing a native oxide layer. The SCS shows distinct p-type, transitional, and n-type spectra across the devices, and the spectral features change rapidly withmore » location in the depletion region, which results in determining the EJ with ~20-nm resolution. We found an n-type CIGS in the region next to the CIGS/CdS interface; thus, the cell is a homojunction. The EJ is ~40 nm from the interface on the CIGS side. In contrast, such an n-type CZTS was not found in the CZTS/CdS cells. The EJ is ~20 nm from the CZTS/CdS interface, which is consistent with asymmetrical carrier concentrations of the p-CZTS and n-CdS in a heterojunction cell. Our results of unambiguously determination of the junction locations contribute significantly to understanding the large open-circuit voltage difference between CIGS and CZTS.« less

Data Validation Package April 2016 Groundwater and Surface Water Sampling at the Monticello, Utah, Disposal and Processing Sites August 2016

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

Nguyen, Jason; Smith, Fred

This semiannual event includes sampling groundwater and surface water at the Monticello Disposal and Processing Sites. Sampling and analyses were conducted as specified in the Sampling and Analysis Plan for U.S. Department of Energy Office of Legacy Management Sites (LMS/PRO/S04351, continually updated) and Program Directive MNT-2016-01. Complete sample sets were collected from 42 of 48 planned locations (9 of 9 former mill site wells, 13 of 13 downgradient wells, 7 of 9 downgradient permeable reactive barrier wells, 4 of 7 seeps and wetlands, and 9 of 10 surface water locations). Planned monitoring locations are shown in Attachment 1, Sampling andmore » Analysis Work Order. Locations R6-M3, SW00-01, Seep 1, Seep 2, and Seep 5 were not sampled due to insufficient water availability. A partial sample was collected at location R4-M3 due to insufficient water. All samples from the permeable reactive barrier wells were filtered as specified in the program directive. Duplicate samples were collected from surface water location Sorenson and from monitoring wells 92-07 and RlO-Ml. Water levels were measured at all sampled wells and an additional set of wells. See Attachment2, Trip Report for additional details. The contaminants of concern (COCs) for the Monticello sites are arsenic, manganese, molybdenum, nitrate+ nitrite as nitrogen (nitrate+ nitrite as N), selenium, uranium, and vanadium. Locations with COCs that exceeded remediation goals are listed in Table 1 and Table 2. Time-concentration graphs of the COCs for all groundwater and surface water locations are included in Attachment 3, Data Presentation. An assessment of anomalous data is included in Attachment 4.« less

Data Validation Package June 2016 Groundwater and Surface Water Sampling at the Old and New Rifle, Colorado, Processing Sites September 2016

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

Bush, Richard; Lemke, Peter

Sampling Period: June 14–17 and July 7, 2016. Water samples were collected from 36 locations at New Rifle and Old Rifle, Colorado, Disposal/Processing Sites. Planned monitoring locations are shown in Attachment 1, Sampling and Analysis Work Order. Duplicate samples were collected from New Rifle locations 0216 and 0855, and Old Rifle location 0655. One equipment blank was collected after decontamination of non-dedicated equipment used to collect one surface water sample. See Attachment 2, Trip Report for additional details. Sampling and analyses were conducted as specified in the Sampling and Analysis Plan for U.S. Department of Energy Office of Legacy Managementmore » Sites (LMS/PRO/S04351, continually updated, http://energy.gov/lm/downloads/sampling-and- analysis-plan-us-department-energy-office-legacy-management-sites). New Rifle Site Samples were collected at the New Rifle site from 16 monitoring wells and 7 surface locations in compliance with the December 2008 Groundwater Compliance Action Plan [GCAP] for the New Rifle, Colorado, Processing Site (LMS/RFN/S01920). Monitoring well 0216 could not be sampled in June because it was surrounded by standing water due to the high river stage from spring runoff, it was later sampled in July. Monitoring well 0635 and surface location 0322 could not be sampled because access through the elk fence along Interstate 70 has not been completed at this time. Old Rifle Site Samples were collected at the Old Rifle site from eight monitoring wells and five surface locations in compliance with the December 2001 Ground Water Compliance Action Plan for the Old Rifle, Colorado, UMTRA Project Site (GJ0-2000-177-TAR).« less

Uniform apparent contrast noise: A picture of the noise of the visual contrast detection system

NASA Technical Reports Server (NTRS)

Ahumada, A. J., Jr.; Watson, A. B.

1984-01-01

A picture which is a sample of random contrast noise is generated. The noise amplitude spectrum in each region of the picture is inversely proportional to spatial frequency contrast sensitivity for that region, assuming the observer fixates the center of the picture and is the appropriate distance from it. In this case, the picture appears to have approximately the same contrast everywhere. To the extent that contrast detection thresholds are determined by visual system noise, this picture can be regarded as a picture of the noise of that system. There is evidence that, at different eccentricities, contrast sensitivity functions differ only by a magnification factor. The picture was generated by filtering a sample of white noise with a filter whose frequency response is inversely proportional to foveal contrast sensitivity. It was then stretched by a space-varying magnification function. The picture summmarizes a noise linear model of detection and discrimination of contrast signals by referring the model noise to the input picture domain.

Bacterial microbiota compositions of naturally fermented milk are shaped by both geographic origin and sample type.

PubMed

Zhong, Z; Hou, Q; Kwok, L; Yu, Z; Zheng, Y; Sun, Z; Menghe, B; Zhang, H

2016-10-01

Naturally fermented dairy products contain a rich microbial biodiversity. This study aimed to provide an overview on the bacterial microbiota biodiversity of 85 samples, previously collected across a wide region of China, Mongolia, and Russia. Data from these 85 samples, including 55 yogurts, 18 naturally fermented yak milks, 6 koumisses, and 6 cheeses, were retrieved and collectively analyzed. The most prevalent phyla shared across samples were Firmicutes, Proteobacteria, Bacteroidetes, and Actinobacteria, which together accounted for 99% of bacterial sequences. The predominant genera were Lactobacillus, Lactococcus, Streptococcus, Acetobacter, Acinetobacter, Leuconostoc, and Macrococcus, which together corresponded to 96.63% of bacterial sequences. Further multivariate statistical analyses revealed significant differences in the microbiota structure across sample geographic origin and type. First, on the principal coordinate score plot, samples representing the 3 main sample collection regions (Russia, Xinjiang, and Tibet) were mostly located respectively in the upper left, lower right, and lower left quadrants, although slight overlapping occurred. In contrast, samples from the minor sampling areas (Inner Mongolia, Mongolia, Gansu, and Sichuan) were predominantly distributed in the lower left quadrant. These results suggest a possible association between sample geographical origin and microbiota composition. Second, bacterial microbiota structure was stratified by sample type. In particular, the microbiota of cheese was largely distinct from the other sample types due to its high abundances of Lactococcus and Streptococcus. The fermented yak milk microbiota was most like that of the yogurts. Koumiss samples had the lowest microbial diversity and richness. In conclusion, both geographic origin and sample type shape the microbial diversity of naturally fermented milk. Copyright © 2016 American Dairy Science Association. Published by Elsevier Inc. All rights reserved.

Microbial Ecology of a Crewed Rover Traverse in the Arctic: Low Microbial Dispersal and Implications for Planetary Protection on Human Mars Missions

NASA Technical Reports Server (NTRS)

Schuerger, Andrew C.; Lee, Pascal

2015-01-01

Between April 2009 and July 2011, the NASA Haughton-Mars Project (HMP) led the Northwest Passage Drive Expedition (NWPDX), a multi-staged long-distance crewed rover traverse along the Northwest Passage in the Arctic. In April 2009, the HMP Okarian rover was driven 496 km over sea ice along the Northwest Passage, from Kugluktuk to Cambridge Bay, Nunavut, Canada. During the traverse, crew members collected samples from within the rover and from undisturbed snow-covered surfaces around the rover at three locations. The rover samples and snow samples were stored at subzero conditions (-20C to -1C) until processed for microbial diversity in labs at the NASA Kennedy Space Center, Florida. The objective was to determine the extent of microbial dispersal away from the rover and onto undisturbed snow. Interior surfaces of the rover were found to be associated with a wide range of bacteria (69 unique taxa) and fungi (16 unique taxa). In contrast, snow samples from the upwind, downwind, uptrack, and downtrack sample sites exterior to the rover were negative for both bacteria and fungi except for two colony-forming units (cfus) recovered from one downwind (1 cfu; site A4) and one uptrack (1 cfu; site B6) sample location. The fungus, Aspergillus fumigatus (GenBank JX517279), and closely related bacteria in the genus Brevibacillus were recovered from both snow (B. agri, GenBank JX517278) and interior rover surfaces. However, it is unknown whether the microorganisms were deposited onto snow surfaces at the time of sample collection (i.e., from the clothing or skin of the human operator) or via airborne dispersal from the rover during the 12-18 h layovers at the sites prior to collection. Results support the conclusion that a crewed rover traveling over previously undisturbed terrain may not significantly contaminate the local terrain via airborne dispersal of propagules from the vehicle. Key Words: Planetary protection-Contamination-Habitability-Haughton Crater-Mars. Astrobiology 15, 478-491.

Microbial Ecology of a Crewed Rover Traverse in the Arctic: Low Microbial Dispersal and Implications for Planetary Protection on Human Mars Missions

PubMed Central

Lee, Pascal

2015-01-01

Abstract Between April 2009 and July 2011, the NASA Haughton-Mars Project (HMP) led the Northwest Passage Drive Expedition (NWPDX), a multi-staged long-distance crewed rover traverse along the Northwest Passage in the Arctic. In April 2009, the HMP Okarian rover was driven 496 km over sea ice along the Northwest Passage, from Kugluktuk to Cambridge Bay, Nunavut, Canada. During the traverse, crew members collected samples from within the rover and from undisturbed snow-covered surfaces around the rover at three locations. The rover samples and snow samples were stored at subzero conditions (−20°C to −1°C) until processed for microbial diversity in labs at the NASA Kennedy Space Center, Florida. The objective was to determine the extent of microbial dispersal away from the rover and onto undisturbed snow. Interior surfaces of the rover were found to be associated with a wide range of bacteria (69 unique taxa) and fungi (16 unique taxa). In contrast, snow samples from the upwind, downwind, uptrack, and downtrack sample sites exterior to the rover were negative for both bacteria and fungi except for two colony-forming units (cfus) recovered from one downwind (1 cfu; site A4) and one uptrack (1 cfu; site B6) sample location. The fungus, Aspergillus fumigatus (GenBank JX517279), and closely related bacteria in the genus Brevibacillus were recovered from both snow (B. agri, GenBank JX517278) and interior rover surfaces. However, it is unknown whether the microorganisms were deposited onto snow surfaces at the time of sample collection (i.e., from the clothing or skin of the human operator) or via airborne dispersal from the rover during the 12–18 h layovers at the sites prior to collection. Results support the conclusion that a crewed rover traveling over previously undisturbed terrain may not significantly contaminate the local terrain via airborne dispersal of propagules from the vehicle. Key Words: Planetary protection—Contamination—Habitability—Haughton Crater—Mars. Astrobiology 15, 478–491. PMID:26060984

MRI and CT contrast media extravasation

PubMed Central

Heshmatzadeh Behzadi, Ashkan; Farooq, Zerwa; Newhouse, Jeffery H.; Prince, Martin R.

2018-01-01

Abstract Background: This systematic review combines data from multiple papers on contrast media extravasation to identify factors contributing to increased extravasation risk. Methods: Data were extracted from 17 papers reporting 2191 extravasations in 1,104,872 patients (0.2%) undergoing computed tomography (CT) or magnetic resonance imaging (MRI). Results: Extravasation rates were 0.045% for gadolinium-based contrast agents (GBCA) and nearly 6-fold higher, 0.26% for iodinated contrast agents. Factors associated with increased contrast media extravasations included: older age, female gender, using an existing intravenous (IV) instead of placing a new IV in radiology, in-patient status, use of automated power injection, high injection rates, catheter location, and failing to warm up the more viscous contrast media to body temperature. Conclusion: Contrast media extravasation is infrequent but nearly 6 times less frequent with GBCA for MRI compared with iodinated contrast used in CT. PMID:29489663

Contrast enhancement of mail piece images

NASA Astrophysics Data System (ADS)

Shin, Yong-Chul; Sridhar, Ramalingam; Demjanenko, Victor; Palumbo, Paul W.; Hull, Jonathan J.

1992-08-01

A New approach to contrast enhancement of mail piece images is presented. The contrast enhancement is used as a preprocessing step in the real-time address block location (RT-ABL) system. The RT-ABL system processes a stream of mail piece images and locates destination address blocks. Most of the mail pieces (classified into letters) show high contrast between background and foreground. As an extreme case, however, the seasonal greeting cards usually use colored envelopes which results in reduced contrast osured by an error rate by using a linear distributed associative memory (DAM). The DAM is trained to recognize the spectra of three classes of images: with high, medium, and low OCR error rates. The DAM is not forced to make a classification every time. It is allowed to reject as unknown a spectrum presented that does not closely resemble any that has been stored in the DAM. The DAM was fairly accurate with noisy images but conservative (i.e., rejected several text images as unknowns) when there was little ground and foreground degradations without affecting the nondegraded images. This approach provides local enhancement which adapts to local features. In order to simplify the computation of A and (sigma) , dynamic programming technique is used. Implementation details, performance, and the results on test images are presented in this paper.

Assessment of the effects of different sample perfusion procedures on phase-contrast tomographic images of mouse spinal cord

NASA Astrophysics Data System (ADS)

Stefanutti, E.; Sierra, A.; Miocchi, P.; Massimi, L.; Brun, F.; Maugeri, L.; Bukreeva, I.; Nurmi, A.; Begani Provinciali, G.; Tromba, G.; Gröhn, O.; Giove, F.; Cedola, A.; Fratini, M.

2018-03-01

Synchrotron X-ray Phase Contrast micro-Tomography (SXrPCμT) is a powerful tool in the investigation of biological tissues, including the central nervous system (CNS), and it allows to simultaneously detect the vascular and neuronal network avoiding contrast agents or destructive sample preparations. However, specific sample preparation procedures aimed to optimize the achievable contrast- and signal-to-noise ratio (CNR and SNR, respectively) are required. Here we report and discuss the effects of perfusion with two different fixative agents (ethanol and paraformaldehyde) and with a widely used contrast medium (MICROFIL®) on mouse spinal cord. As a main result, we found that ethanol enhances contrast at the grey/white matter interface and increases the contrast in correspondence of vascular features and fibres, thus providing an adequate spatial resolution to visualise the vascular network at the microscale. On the other hand, ethanol is known to induce tissue dehydration, likely reducing cell dimensions below the spatial resolution limit imposed by the experimental technique. Nonetheless, neurons remain well visible using either perfused paraformaldehyde or MICROFIL® compound, as these latter media do not affect tissues with dehydration effects. Paraformaldehyde appears as the best compromise: it is not a contrast agent, like MICROFIL®, but it is less invasive than ethanol and permits to visualise well both cells and blood vessels. However, a quantitative estimation of the relative grey matter volume of each sample has led us to conclude that no significant alterations in the grey matter extension compared to the white matter occur as a consequence of the perfusion procedures tested in this study.

First detection of bovine viral diarrhoea virus type 2 in cattle in Spain.

PubMed

Aduriz, Gorka; Atxaerandio, Raquel; Cortabarria, Nekane

2015-01-01

Bovine viral diarrhoea virus (BVDV) is a member of the genus Pestivirus that belongs to the family Flaviviridae. BVDV is found worldwide in cattle population and causes significant economic losses to the dairy and beef industries. Two distinct genotypes of BVDV exist: BVDV type 1 (BVDV-1) and BVDV type 2 (BVDV-2). The aim of the present study was to investigate retrospectively the presence of BVDV-2 in Spain. With this objective, 47 blood samples that had tested positive in an ELISA for BVDV antigen were selected. Samples had been submitted by practitioners to the Diagnostic Service of NEIKER. The 18 herds of origin were all located in the northern half of Spain. BVDV positive samples were genotyped by reverse transcription-PCR. BVDV-1 was detected with the highest frequency (46/47), in contrast to BVDV-2 (2/47). In one blood sample, both pestivirus genotypes, BVDV-1 and BVDV-2, were detected. Sequencing of a viral genomic region, 5' untranslated region, confirmed the identity of the BVDV-2 isolate. So far as the authors know, this is the first reported presence of BVDV-2 in cattle herds in Spain. This finding may have important implications for the epidemiology, diagnosis and control of BVDV infection in the country.

Magnetoacoustic tomography with magnetic induction (MAT-MI)

NASA Astrophysics Data System (ADS)

Xu, Yuan; He, Bin

2005-11-01

We report our theoretical and experimental investigations on a new imaging modality, magnetoacoustic tomography with magnetic induction (MAT-MI). In MAT-MI, the sample is located in a static magnetic field and a time-varying (µs) magnetic field. The time-varying magnetic field induces an eddy current in the sample. Consequently, the sample will emit ultrasonic waves by the Lorentz force. The ultrasonic signals are collected around the object to reconstruct images related to the electrical impedance distribution in the sample. MAT-MI combines the good contrast of electrical impedance tomography with the good spatial resolution of sonography. MAT-MI has two unique features due to the solenoid nature of the induced electrical field. Firstly, MAT-MI could provide an explicit or simple quantitative reconstruction algorithm for the electrical impedance distribution. Secondly, it promises to eliminate the shielding effects of other imaging modalities in which the current is applied directly with electrodes. In the theoretical part, we provide formulae for both the forward and inverse problems of MAT-MI and estimate the signal amplitude in biological tissues. In the experimental part, the experimental setup and methods are introduced and the signals and the image of a metal object by means of MAT-MI are presented. The promising pilot experimental results suggest the feasibility of the proposed MAT-MI approach.

Frequency position modulation using multi-spectral projections

NASA Astrophysics Data System (ADS)

Goodman, Joel; Bertoncini, Crystal; Moore, Michael; Nousain, Bryan; Cowart, Gregory

2012-10-01

In this paper we present an approach to harness multi-spectral projections (MSPs) to carefully shape and locate tones in the spectrum, enabling a new and robust modulation in which a signal's discrete frequency support is used to represent symbols. This method, called Frequency Position Modulation (FPM), is an innovative extension to MT-FSK and OFDM and can be non-uniformly spread over many GHz of instantaneous bandwidth (IBW), resulting in a communications system that is difficult to intercept and jam. The FPM symbols are recovered using adaptive projections that in part employ an analog polynomial nonlinearity paired with an analog-to-digital converter (ADC) sampling at a rate at that is only a fraction of the IBW of the signal. MSPs also facilitate using commercial of-the-shelf (COTS) ADCs with uniform-sampling, standing in sharp contrast to random linear projections by random sampling, which requires a full Nyquist rate sample-and-hold. Our novel communication system concept provides an order of magnitude improvement in processing gain over conventional LPI/LPD communications (e.g., FH- or DS-CDMA) and facilitates the ability to operate in interference laden environments where conventional compressed sensing receivers would fail. We quantitatively analyze the bit error rate (BER) and processing gain (PG) for a maximum likelihood based FPM demodulator and demonstrate its performance in interference laden conditions.

Fluid sampling system for a nuclear reactor

DOEpatents

Lau, Louis K.; Alper, Naum I.

1994-01-01

A system of extracting fluid samples, either liquid or gas, from the interior of a nuclear reactor containment utilizes a jet pump. To extract the sample fluid, a nonradioactive motive fluid is forced through the inlet and discharge ports of a jet pump located outside the containment, creating a suction that draws the sample fluid from the containment through a sample conduit connected to the pump suction port. The mixture of motive fluid and sample fluid is discharged through a return conduit to the interior of the containment. The jet pump and means for removing a portion of the sample fluid from the sample conduit can be located in a shielded sample grab station located next to the containment. A non-nuclear grade active pump can be located outside the grab sampling station and the containment to pump the nonradioactive motive fluid through the jet pump.

Fluid sampling system for a nuclear reactor

DOEpatents

Lau, L.K.; Alper, N.I.

1994-11-22

A system of extracting fluid samples, either liquid or gas, from the interior of a nuclear reactor containment utilizes a jet pump. To extract the sample fluid, a nonradioactive motive fluid is forced through the inlet and discharge ports of a jet pump located outside the containment, creating a suction that draws the sample fluid from the containment through a sample conduit connected to the pump suction port. The mixture of motive fluid and sample fluid is discharged through a return conduit to the interior of the containment. The jet pump and means for removing a portion of the sample fluid from the sample conduit can be located in a shielded sample grab station located next to the containment. A non-nuclear grade active pump can be located outside the grab sampling station and the containment to pump the nonradioactive motive fluid through the jet pump. 1 fig.

Simple Techniques For Assessing Impacts Of Oil And Gas Operations On Public Lands: A Field Evaluation Of A Photoionization Detector (PID) At A Condensate Release Site, Padre Island National Seashore, Texas

USGS Publications Warehouse

Otton, James K.; Zielinski, Robert A.

2001-01-01

Simple, cost-effective techniques are needed for land managers to assess the environmental impacts of oil and gas production activities on public lands, so that sites may be prioritized for remediation or for further, more formal assessment. Field-portable instruments provide real-time data and allow the field investigator to extend an assessment beyond simply locating and mapping obvious disturbances. Field investigators can examine sites for the presence of hydrocarbons in the subsurface using a soil auger and a photoionization detector (PID). The PID measures volatile organic compounds (VOC) in soil gases. This allows detection of hydrocarbons in the shallow subsurface near areas of obvious oil-stained soils, oil in pits, or dead vegetation. Remnants of a condensate release occur in sandy soils at a production site on the Padre Island National Seashore in south Texas. Dead vegetation had been observed by National Park Service personnel in the release area several years prior to our visit. The site is located several miles south of the Malaquite Beach Campground. In early 2001, we sampled soil gases for VOCs in the area believed to have received the condensate. Our purpose in this investigation was: 1) to establish what sampling techniques might be effective in sandy soils with a shallow water and contrast them with techniques used in an earlier study; and 2) delineate the probable area of condensate release. Our field results show that sealing the auger hole with a clear, rigid plastic tube capped at the top end and sampling the soil gas through a small hole in the cap increases the soil VOC gas signature, compared to sampling soil gases in the bottom of an open hole. This sealed-tube sampling method increases the contrast between the VOC levels within a contaminated area and adjacent background areas. The tube allows the PID air pump to draw soil gas from the volume of soil surrounding the open hole below the tube in a zone less influenced by atmospheric air. In an open hole, the VOC readings seem to be strongly dependent on the degree of diffusion and advection of soil gas VOCs into the open hole from the surrounding soil, a process that may vary with soil and wind conditions. Making measurements with the sealed hole does take some additional time (4-7 minutes after the hole is augered) compared to the open-hole technique (1-2 minutes). We used the rigid-plastic tube technique to survey for soil gas VOCs across the entire site, less than ? acre. Condensate has impacted at least 0.28 acres. The impacted area may extend northwest of the surveyed area.

Evaluating the accuracy of sampling to estimate central line-days: simplification of the National Healthcare Safety Network surveillance methods.

PubMed

Thompson, Nicola D; Edwards, Jonathan R; Bamberg, Wendy; Beldavs, Zintars G; Dumyati, Ghinwa; Godine, Deborah; Maloney, Meghan; Kainer, Marion; Ray, Susan; Thompson, Deborah; Wilson, Lucy; Magill, Shelley S

2013-03-01

To evaluate the accuracy of weekly sampling of central line-associated bloodstream infection (CLABSI) denominator data to estimate central line-days (CLDs). Obtained CLABSI denominator logs showing daily counts of patient-days and CLD for 6-12 consecutive months from participants and CLABSI numerators and facility and location characteristics from the National Healthcare Safety Network (NHSN). Convenience sample of 119 inpatient locations in 63 acute care facilities within 9 states participating in the Emerging Infections Program. Actual CLD and estimated CLD obtained from sampling denominator data on all single-day and 2-day (day-pair) samples were compared by assessing the distributions of the CLD percentage error. Facility and location characteristics associated with increased precision of estimated CLD were assessed. The impact of using estimated CLD to calculate CLABSI rates was evaluated by measuring the change in CLABSI decile ranking. The distribution of CLD percentage error varied by the day and number of days sampled. On average, day-pair samples provided more accurate estimates than did single-day samples. For several day-pair samples, approximately 90% of locations had CLD percentage error of less than or equal to ±5%. A lower number of CLD per month was most significantly associated with poor precision in estimated CLD. Most locations experienced no change in CLABSI decile ranking, and no location's CLABSI ranking changed by more than 2 deciles. Sampling to obtain estimated CLD is a valid alternative to daily data collection for a large proportion of locations. Development of a sampling guideline for NHSN users is underway.

Application of artificial neural networks to thermal detection of disbonds

NASA Technical Reports Server (NTRS)

Prabhu, D. R.; Howell, P. A.; Syed, H. I.; Winfree, W. P.

1992-01-01

A novel technique for processing thermal data is presented and applied to simulation as well as experimental data. Using a neural network of thermal data classification, good classification accuracies are obtained, and the resulting images exhibit very good contrast between bonded and disbonded locations. In order to minimize the preprocessing required before using the network of classification, the temperature values were directly employed to train a network using data from an on-site testing run of a commercial aircraft. Training was extremely fast, and the resulting classification also agreed reasonably well with an ultrasonic characterization of the panel. The results obtained using one sample show the partially disbonded vertical doubler. The vertical lines along the doubler correspond to the original extent of the doubler obtained using blueprints of the aircraft.

[Historical, social and cultural aspects of the deaf population].

PubMed

Duarte, Soraya Bianca Reis; Chaveiro, Neuma; Freitas, Adriana Ribeiro de; Barbosa, Maria Alves; Porto, Celmo Celeno; Fleck, Marcelo Pio de Almeida

2013-10-01

This work redeems, contextualizes and features the social, historical and cultural aspects of the deaf community that uses the Brazilian Sign Language focusing on the social and anthropological model. The scope of this study was to conduct a bibliographical review in scientific textbooks and articles available in the Virtual Health Library, irrespective of the date of publication. 102 articles and 53 books were located, including 33 textbooks and 26 articles (four from the Lilacs database and 22 from the Medline database) that constituted the sample. Today, in contrast with the past, there are laws that guarantee the right to communication and attendance by means of the Brazilian Sign Language. The repercussion, acceptance and inclusion in health policies of the decrees enshrined in Brazilian laws is a major priority.

Skeletonization algorithm-based blood vessel quantification using in vivo 3D photoacoustic imaging

NASA Astrophysics Data System (ADS)

Meiburger, K. M.; Nam, S. Y.; Chung, E.; Suggs, L. J.; Emelianov, S. Y.; Molinari, F.

2016-11-01

Blood vessels are the only system to provide nutrients and oxygen to every part of the body. Many diseases can have significant effects on blood vessel formation, so that the vascular network can be a cue to assess malicious tumor and ischemic tissues. Various imaging techniques can visualize blood vessel structure, but their applications are often constrained by either expensive costs, contrast agents, ionizing radiations, or a combination of the above. Photoacoustic imaging combines the high-contrast and spectroscopic-based specificity of optical imaging with the high spatial resolution of ultrasound imaging, and image contrast depends on optical absorption. This enables the detection of light absorbing chromophores such as hemoglobin with a greater penetration depth compared to purely optical techniques. We present here a skeletonization algorithm for vessel architectural analysis using non-invasive photoacoustic 3D images acquired without the administration of any exogenous contrast agents. 3D photoacoustic images were acquired on rats (n  =  4) in two different time points: before and after a burn surgery. A skeletonization technique based on the application of a vesselness filter and medial axis extraction is proposed to extract the vessel structure from the image data and six vascular parameters (number of vascular trees (NT), vascular density (VD), number of branches (NB), 2D distance metric (DM), inflection count metric (ICM), and sum of angles metric (SOAM)) were calculated from the skeleton. The parameters were compared (1) in locations with and without the burn wound on the same day and (2) in the same anatomic location before (control) and after the burn surgery. Four out of the six descriptors were statistically different (VD, NB, DM, ICM, p  <  0.05) when comparing two anatomic locations on the same day and when considering the same anatomic location at two separate times (i.e. before and after burn surgery). The study demonstrates an approach to obtain quantitative characterization of the vascular network from 3D photoacoustic images without any exogenous contrast agent which can assess microenvironmental changes related to disease progression.

Presence of Campylobacter and Salmonella in sand from bathing beaches.

PubMed Central

Bolton, F. J.; Surman, S. B.; Martin, K.; Wareing, D. R.; Humphrey, T. J.

1999-01-01

The purpose of this study was to determine the presence of thermophilic Campylobacter spp. and Salmonella spp. in sand from non-EEC standard and EEC standard designated beaches in different locations in the UK and to assess if potentially pathogenic strains were present. Campylobacter spp. were detected in 82/182 (45%) of sand samples and Salmonella spp. in 10/182 (6%). Campylobacter spp. were isolated from 46/92 (50%) of samples from non-EEC standard beaches and 36/90 (40%) from EEC standard beaches. The prevalence of Campylobacter spp. was greater in wet sand from both types of beaches but, surprisingly, more than 30% of samples from dry sand also contained these organisms. The major pathogenic species C. jejuni and C. coli were more prevalent in sand from non-EEC standard beaches. In contrast, C. lari and urease positive thermophilic campylobacters, which are associated with seagulls and other migratory birds, were more prevalent in sand from EEC standard beaches. Campylobacter isolates were further characterized by biotyping and serotyping, which confirmed that strains known to be of types associated with human infections were frequently found in sand on bathing beaches. PMID:10098779

Preliminary survey of local bacteriophages with lytic activity against multi-drug resistant bacteria.

PubMed

Latz, Simone; Wahida, Adam; Arif, Assuda; Häfner, Helga; Hoß, Mareike; Ritter, Klaus; Horz, Hans-Peter

2016-10-01

Bacteriophages (phages) represent a potential alternative for combating multi-drug resistant bacteria. Because of their narrow host range and the ever emergence of novel pathogen variants the continued search for phages is a prerequisite for optimal treatment of bacterial infections. Here we performed an ad hoc survey in the surroundings of a University hospital for the presence of phages with therapeutic potential. To this end, 16 aquatic samples of different origins and locations were tested simultaneously for the presence of phages with lytic activity against five current, but distinct strains each from the ESKAPE-group (i.e., Enterococcus faecium, Staphylococcus aureus, Klebsiella pneumoniae, Acinetobacter baumannii, Pseudomonas aeruginosa, and Enterobacter cloacae). Phages could be isolated for 70% of strains, covering all bacterial species except S. aureus. Apart from samples from two lakes, freshwater samples were largely devoid of phages. By contrast, one liter of hospital effluent collected at a single time point already contained phages active against two-thirds of tested strains. In conclusion, phages with lytic activity against nosocomial pathogens are unevenly distributed across environments with the prime source being the immediate hospital vicinity. © 2016 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

Occurrence and fate of emerging trace organic chemicals in wastewater plants in Chennai, India.

PubMed

Anumol, Tarun; Vijayanandan, Arya; Park, Minkyu; Philip, Ligy; Snyder, Shane A

2016-01-01

The presence of pharmaceuticals, hormones, pesticides and industrial contaminants collectively termed as trace organic compounds (TOrCs) in wastewater has been well-documented in USA, Europe, China and other regions. However, data from India, the second most populous country in the world is severely lacking. This study investigated the occurrence and concentrations of twenty-two indicator TOrCs at three wastewater treatment plants (WWTPs) in South India serving diverse communities across three sampling campaigns. Samples were collected after each WWTP treatment unit and removal efficiencies for TOrCs were determined. Eleven TOrCs were detected in every sample from every location at all sites, while only five TOrCs were detected consistently in effluent samples. Caffeine was present at greatest concentration in the influent of all three plants with average concentrations ranging between 56 and 65μg/L. In contrast, the x-ray contrast media pharmaceutical, iohexol, was the highest detected compound on average in the effluent at all three WWTPs (2.1-8.7μg/L). TOrCs were not completely removed in the WWTPs with removal efficiencies being compound specific and most of the attenuation being attributed to the biological treatment processes. Caffeine and triclocarban were well removed (>80%), while other compounds were poorly removed (acesulfame, sucralose, iohexol) or maybe even formed (carbamazepine) within the WWTPs. The effluent composition of the 22 TOrCs were similar within the three WWTPs but quite different to those seen in the US, indicating the importance of region-specific monitoring. Diurnal trends indicated that variability is compound specific but trended within certain classes of compounds (artificial sweeteners, and pharmaceuticals). The data collected on TOrCs from this study can be used as a baseline to identify potential remediation and regulatory strategies in this understudied region of India. Copyright © 2016 Elsevier Ltd. All rights reserved.

Assessing the drivers of dissolved organic matter export from two contrasting lowland catchments, U.K.

PubMed

Yates, Christopher A; Johnes, Penny J; Spencer, Robert G M

2016-11-01

Two lowland catchments in the U.K. were sampled throughout 2010-11 to investigate the dominant controls on dissolved organic matter quantity and composition. The catchments had marked differences in terms of nutrient status, land cover and contrasting lithologies resulting in differences in the dominant flow pathways (groundwater vs. surface water dominated). The Upper Wylye is a chalk stream with a baseflow index of 0.98, draining a catchment dominated by intensive agricultural production. Millersford Brook is a lowland peat catchment with a baseflow index of 0.43, draining a semi-natural catchment with heather moorland and coniferous forest. Samples were collected weekly between October 2010 and September 2011 from eleven sampling locations. Samples were analysed to determine dissolved organic carbon, nitrogen and phosphorus fractions with DOM composition evaluated via the DOC:DON ratio, DOC:DOP ratio, specific UV absorption at 254nm, absorbance ratio (a250:a365) and the spectral slope parameter between 350 and 400nm (S350-400). Significant differences were observed in all determinands between the catchments, over time, and spatially along nutrient enrichment and geoclimatic gradients. Seasonal variation in preferential flow pathways mobilising groundwater-derived DOM were identified as likely controls on the delivery of DOM in the permeable chalk dominated catchment. Steeper S350-400 values and elevated a250:a365 ratios in this catchment suggest material of a lower bulk aromatic C content and molecular weight delivered during the winter months when compared to the summer. DOC:DON ratios were markedly lower in the chalk catchment than the peatland catchment, reflecting the paucity of organic matter within the mineral soils of the chalk landscape, and higher fertiliser application rates. This manuscript highlights that DOM composition varies according to catchment landscape character and hydrological function. Copyright © 2016 The Authors. Published by Elsevier B.V. All rights reserved.

Identification of Metal Oxide Nanoparticles in Histological Samples by Enhanced Darkfield Microscopy and Hyperspectral Mapping.

PubMed

Roth, Gary A; Sosa Peña, Maria del Pilar; Neu-Baker, Nicole M; Tahiliani, Sahil; Brenner, Sara A

2015-12-08

Nanomaterials are increasingly prevalent throughout industry, manufacturing, and biomedical research. The need for tools and techniques that aid in the identification, localization, and characterization of nanoscale materials in biological samples is on the rise. Currently available methods, such as electron microscopy, tend to be resource-intensive, making their use prohibitive for much of the research community. Enhanced darkfield microscopy complemented with a hyperspectral imaging system may provide a solution to this bottleneck by enabling rapid and less expensive characterization of nanoparticles in histological samples. This method allows for high-contrast nanoscale imaging as well as nanomaterial identification. For this technique, histological tissue samples are prepared as they would be for light-based microscopy. First, positive control samples are analyzed to generate the reference spectra that will enable the detection of a material of interest in the sample. Negative controls without the material of interest are also analyzed in order to improve specificity (reduce false positives). Samples can then be imaged and analyzed using methods and software for hyperspectral microscopy or matched against these reference spectra in order to provide maps of the location of materials of interest in a sample. The technique is particularly well-suited for materials with highly unique reflectance spectra, such as noble metals, but is also applicable to other materials, such as semi-metallic oxides. This technique provides information that is difficult to acquire from histological samples without the use of electron microscopy techniques, which may provide higher sensitivity and resolution, but are vastly more resource-intensive and time-consuming than light microscopy.

Energy-loss- and thickness-dependent contrast in atomic-scale electron energy-loss spectroscopy

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

Tan, Haiyan; Zhu, Ye; Dwyer, Christian

2014-12-31

Atomic-scale elemental maps of materials acquired by core-loss inelastic electron scattering often exhibit an undesirable sensitivity to the unavoidable elastic scattering, making the maps counter-intuitive to interpret. Here, we present a systematic study that scrutinizes the energy-loss and sample-thickness dependence of atomic-scale elemental maps acquired using 100 keV incident electrons in a scanning transmission electron microscope. For single-crystal silicon, the balance between elastic and inelastic scattering means that maps generated from the near-threshold Si-L signal (energy loss of 99 eV) show no discernible contrast for a thickness of 0.5λ (λ is the electron mean-free path, here approximately 110 nm). Atmore » greater thicknesses we observe a counter-intuitive “negative” contrast. Only at much higher energy losses is an intuitive “positive” contrast gradually restored. Our quantitative analysis shows that the energy-loss at which a positive contrast is restored depends linearly on the sample thickness. This behavior is in very good agreement with our double-channeling inelastic scattering calculations. We test a recently-proposed experimental method to correct the core-loss inelastic scattering and restore an intuitive “positive” chemical contrast. The method is demonstrated to be reliable over a large range of energy losses and sample thicknesses. The corrected contrast for near-threshold maps is demonstrated to be (desirably) inversely proportional to sample thickness. As a result, implications for the interpretation of atomic-scale elemental maps are discussed.« less

Contrasting O/X-mode Heater Effects on O-Mode Sounding echo and the Generation of Magnetic Pulsations

DTIC Science & Technology

2010-01-06

Micropulsation [10] The induced magnetic field variation was monitored by the fluxgate magnetometer located at Gakona, AK. The 1 sec resolution data...minutes on and 1 minute off, were explored. The experiments were monitored using the digisonde and magnetometer located at the HAARP facility. The...were explored. The experiments were monitored using the digisonde and magnetometer located at the HAARP facility. The results show that the

Neurosurgical treatment of breast cancer metastases to the neurocranium.

PubMed

Stark, Andreas M

2010-12-16

Breast cancer metastases to the neurocranium might involve the bone, the dura, or the brain parenchyma. The latter location is the far most common. The annual incidence of brain metastases in patients with breast cancer is in the range of 4-11 per 100.000 persons per year. Symptoms and findings mainly result from the location of the lesion. The diagnostic method of choice is magnetic resonance imaging before and after administration of contrast material. Breast cancer brain metastases present as solid, cystic, or partially cystic lesions with marked contrast enhancement and perilesional edema. The therapeutic option of choice is microsurgical resection whenever possible. Adjuvant treatment includes radiotherapy, radiosurgery, and/or chemotherapy.

Neurosurgical Treatment of Breast Cancer Metastases to the Neurocranium

PubMed Central

Stark, Andreas M.

2011-01-01

Breast cancer metastases to the neurocranium might involve the bone, the dura, or the brain parenchyma. The latter location is the far most common. The annual incidence of brain metastases in patients with breast cancer is in the range of 4–11 per 100.000 persons per year. Symptoms and findings mainly result from the location of the lesion. The diagnostic method of choice is magnetic resonance imaging before and after administration of contrast material. Breast cancer brain metastases present as solid, cystic, or partially cystic lesions with marked contrast enhancement and perilesional edema. The therapeutic option of choice is microsurgical resection whenever possible. Adjuvant treatment includes radiotherapy, radiosurgery, and/or chemotherapy. PMID:21209717

Lufkin_Exercise_ Setup

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

Milbrath, Brian; Sussman, Aviva Joy

As part of this training course, we have created a scenario at a location that will provide you with an opportunity to practice the techniques you have learned during the week. For the first hour, you will have the opportunity to conduct a Visual Observation and use VOB to determine ideal locations for RN soil sampling, swipe sampling, and in situ measurements. After the VOB and sampling locating, you will rotate between soil sample, swipe sample, and two in situ activities.

Exploring Holocene climate fluctuations registered in Bosnian stalagmites adopting a multiproxy approach

NASA Astrophysics Data System (ADS)

Chiarini, Veronica; Couchoud, Isabelle; Drysdale, Russell; Bajo, Petra; Milanolo, Simone; Hellstrom, John; De Waele, Jo

2016-04-01

The central Mediterranean area, a crucial region for present day and future climate change, has been characterised by contrasting patterns between northern and southern climate influences over the Holocene (e.g. Magny et al., 2012; Peyron et al., 2013). Several records from the Italian Peninsula identify this phenomenon: relatively dry conditions experienced during the first half of the Holocene are followed by an increase in moisture in the northern regions, while in the southern portion of the Peninsula the opposite trend occurs. On the Balkan side of the Adriatic Sea, this contrasting pattern is less well documented. The available studies focused on lake sediments show a more gradual and less warm early Holocene and more stable conditions during the early-mid Holocene compared to Italy (Bordon et al., 2009; Vogel et al., 2010). Several speleothems have been collected from Banja Stijena and Govještica Caves (Bosnia and Herzegovina). Preliminary U-Th dating allowed to choose the five most promising samples for further study. Stable oxygen and carbon isotopes have been analysed along the stalagmite growth axes and trace elements of one sample have been investigated. Air-mass back-trajectory analyses of present day precipitation in the area have been performed in association with GNIP rainfall isotope data analyses, with the aim of understanding the parameters driving rainfall stable oxygen isotope composition variations. Considering the impossibility of having a detailed monitoring of cave conditions due to the practical difficulties of identifying the original location of the samples collected, petrographic observations have been coupled with δ13C and δ18O in order to improve the understanding of the environmental processes recorded by these samples, as suggested in Frisia (2015) and Borsato et al. (2015). Here we will present the results of these multiproxy analyses, exploring the potential of these samples in recording regional climate fluctuations and discussing their implications for a better understanding of Holocene climate dynamics in the Balkans. References Bordon A. et al. (2009). Pollen-inferred Late-Glacial and Holocene climate in southern Balkans (Lake Maliq). Quat. Int. 200, 19-30. Borsato A. et al. (2015). Carbon dioxide concentration in temperate climate caves and parent soils over an altitudinal gradient and its influence on speleothem growth and fabrics. Earth Surf. Process. Landforms 40(9), 1158-1170. Frisia S. (2015). Microstratigrahic logging of calcite fabrics in speleothems as tool for palaeoclimate studies. Int. J. Spel. 44(1), 1-16. Magny M. et al. (2012). Contrasting patterns of precipitation seasonality during the Holocene in the south- and north-central Mediterranean. J. Quat. Sci. 27, 290-296. Peyron O. et al. (2013). Contrasting patters of climatic changes during the Holocene across the Italian Peninsula reconstructed from pollen data. Clim. Past 9, 1233-1252. Vogel H. et al. (2010). A paleoclimate record with tephrochronological age control for the last glacial-interglacial cycle from Lake Ohrid, Albania and Macedonia. J. Paleolimnol. 44, 295-310.

Establishment of temporomandibular joint puncture technique in rats using in vivo micro-computed tomography (R_mCT®)

PubMed Central

Kameoka, S; Matsumoto, K; Kai, Y; Yonehara, Y; Arai, Y; Honda, K

2010-01-01

The aim of the report was to establish puncture techniques for the temporomandibular joint (TMJ) cavity in rats. The experimental sample comprised 30 male Sprague–Dawley rats. Under general anaesthesia the superior joint cavity of the rat was punctured either laterally (lateral puncture technique (LPT), n = 11), anteriorly (anterosuperior puncture technique (ASPT), n = 13) or anteroinferior puncture technique (AIPT), n = 6) using a 27-gauge needle. After the tip of the needle was confirmed by micro-CT (R-mCT®, Rigaku, Tokyo, Japan) located on the mandibular fossa, 0.05 ml of contrast media was injected under micro-CT fluoroscopic guidance. After confirmation that the joint cavity was filled with contrast media, micro-CT imaging was carried out. The puncture for LPT was accurate in 5 of the 11 animals. The ASPT was accurate in all 13 animals. The AIPT punctured 3 of the 6 animals. Furthermore, the ASPT and AIPT demonstrated improved preservation of the needle; it was harder to detach the needle, which led to greater stability. These results suggest that ASPT assisted by R-mCT® is useful for basic research, including drug discovery and pathogenesis of TMJ diseases. PMID:20841463

Contrasting introduction scenarios among continents in the worldwide invasion of the banana fungal pathogen Mycosphaerella fijiensis.

PubMed

Robert, S; Ravigne, V; Zapater, M-F; Abadie, C; Carlier, J

2012-03-01

Reconstructing and characterizing introduction routes is a key step towards understanding the ecological and evolutionary factors underlying successful invasions and disease emergence. Here, we aimed to decipher scenarios of introduction and stochastic demographic events associated with the global spread of an emerging disease of bananas caused by the destructive fungal pathogen Mycosphaerella fijiensis. We analysed the worldwide population structure of this fungus using 21 microsatellites and 8 sequence-based markers on 735 individuals from 37 countries. Our analyses designated South-East Asia as the source of the global invasion and supported the location of the centre of origin of M. fijiensis within this area. We confirmed the occurrence of bottlenecks upon introduction into other continents followed by widespread founder events within continents. Furthermore, this study suggested contrasting introduction scenarios of the pathogen between the African and American continents. While potential signatures of admixture resulting from multiple introductions were detected in America, all the African samples examined seem to descend from a single successful founder event. In combination with historical information, our study reveals an original and unprecedented global scenario of invasion for this recently emerging disease caused by a wind-dispersed pathogen. © 2012 Blackwell Publishing Ltd.

Multiparameter double hole contrast detail phantom: Ability to detect image displacement due to off position anode stem

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

Pauzi, Nur Farahana; Majid, Zafri Azran Abdul; Sapuan, Abdul Halim

Contrast Detail phantom is a quality control tool to analyze the performance of imaging devices. Currently, its function is solely to evaluate the contrast detail characteristic of imaging system. It consists of drilled hole which gives effect to the penetration of x-ray beam divergence to pass through the base of each hole. This effect will lead to false appearance of image from its original location but it does not being visualized in the radiograph. In this study, a new design of Contrast Detail phantom’s hole which consists of double hole construction has been developed. It can detect the image displacementmore » which is due to off position of anode stem from its original location. The double hole differs from previous milled hole, whereby it consists of combination of different hole diameters. Small hole diameter (3 mm) is positioned on top of larger hole diameter (10 mm). The thickness of double hole acrylic blocks is 13 mm. Result revealed that Multiparameter Double Hole Contrast Detail phantom can visualize the shifted flaw image quality produced by x-ray machine due to improper position of the anode stem which is attached to rotor and stator. The effective focal spot of x-ray beam also has been shifted from the center of collimator as a result of off-position anode stem. As a conclusion, the new design of double hole Contrast Detail phantom able to measure those parameters in a well manner.« less

Sample size and the detection of a hump-shaped relationship between biomass and species richness in Mediterranean wetlands

USGS Publications Warehouse

Espinar, J.L.

2006-01-01

Questions: What is the observed relationship between biomass and species richness across both spatial and temporal scales in communities of submerged annual macrophytes? Does the number of plots sampled affect detection of hump-shaped pattern? Location: Don??ana National Park, southwestern Spain. Methods: A total of 102 plots were sampled during four hydrological cycles. In each hydrological cycle, the plots were distributed randomly along an environmental flooding gradient in three contrasted microhabitats located in the transition zone just below the upper marsh. In each plot (0.5 m x 0.5 m), plant density and above- and below-ground biomass of submerged vegetation were measured. The hump-shaped model was tested by using a generalized linear model (GLM). A bootstrap procedure was used to test the effect of the number of plots on the ability to detect hump-shaped patterns. Result: The area exhibited low species density with a range of 1 - 9 species and low values of biomass with a range of 0.2 - 87.6 g-DW / 0.25 m2. When data from all years and all microhabitats were combined, the relationships between biomass and species richness showed a hump-shaped pattern. The number of plots was large enough to allow detection of the hump-shaped pattern across microhabitats but it was too small to confirm the hump-shaped pattern within each individual microhabitat. Conclusion: This study provides evidence of hump-shaped patterns across microhabitats when GLM analysis is used. In communities of submerged annual macrophytes in Mediterranean wetlands, the highest species density occurs in intermediate values of biomass. The bootstrap procedure indicates that the number of plots affects the detection of hump-shaped patterns. ?? IAVS; Opulus Press.

Soil is the origin for the presence of Naegleria fowleri in the thermal recreational waters.

PubMed

Moussa, Mirna; Tissot, Océane; Guerlotté, Jérôme; De Jonckheere, Johan F; Talarmin, Antoine

2015-01-01

Naegleria fowleri is found in most geothermal baths of Guadeloupe and has been responsible for the death of a 9-year-old boy who swam in one of these baths in 2008. We wanted to determine the origin for the presence of this amoeba in the water. Water samples were taken at the origin of the geothermal sources and at the arrival in the baths. After filtration, cultures were made and the number of Naegleria present was determined using the most probable number method. Soil samples collected in the proximity of the baths were also tested for the presence of thermophilic amoebae. The species identification was obtained by PCR. During three consecutive months, no Naegleria could be found at the origin of any geothermal source tested. In contrast, N. fowleri was isolated at least once in all baths at the arrival of the water, except one. Thermophilic amoebae could be found in each soil sample, especially near the baths located at a lower altitude, but N. fowleri was only isolated near two baths, which were also the baths most often contaminated with this species. So it appears that the contamination of the water with N. fowleri occurs after emerging from the geothermal source when the water runs over the soil. Therefore, it should be possible to reduce the concentration of N. fowleri in the geothermal baths of Guadeloupe to for example less than 1 N. fowleri/10 L by installing a pipeline between the geothermal sources and the baths and by preventing flooding water from entering the baths after rainfall. By taking these measures, we were able to eliminate N. fowleri from a pool located inside a reeducation clinic.

Effects of Geostrophic Kinetic Energy on the Distribution of Mesopelagic Fish Larvae in the Southern Gulf of California in Summer/Fall Stratified Seasons.

PubMed

Contreras-Catala, Fernando; Sánchez-Velasco, Laura; Beier, Emilio; Godínez, Victor M; Barton, Eric D; Santamaría-Del-Angel, Eduardo

2016-01-01

Effects of geostrophic kinetic energy flux on the three-dimensional distribution of fish larvae of mesopelagic species (Vinciguerria lucetia, Diogenichthys laternatus, Benthosema panamense and Triphoturus mexicanus) in the southern Gulf of California during summer and fall seasons of stronger stratification were analyzed. The greatest larval abundance was found at sampling stations in geostrophic kinetic energy-poor areas (<7.5 J/m3), where the distribution of the dominant species tended to be stratified. Larvae of V. lucetia (average abundance of 318 larvae/10m2) and B. panamense (174 larvae/10m2) were mostly located in and above the pycnocline (typically ~ 40 m depth). In contrast, larvae of D. laternatus (60 larvae/10m2) were mainly located in and below the pycnocline. On the other hand, in sampling stations from geostrophic kinetic energy-rich areas (> 21 J/m3), where mesoscale eddies were present, the larvae of the dominant species had low abundance and were spread more evenly through the water column, in spite of the water column stratification. For example, in a cyclonic eddy, V. lucetia larvae (34 larvae/10m2) extended their distribution to, at least, the limit of sampling 200 m depth below the pycnocline, while D. laternatus larvae (29 larvae/10m2) were found right up to the surface, both probably as a consequence mixing and secondary circulation in the eddy. Results showed that the level of the geostrophic kinetic energy flux affects the abundance and the three-dimensional distribution of mesopelagic fish larvae during the seasons of stronger stratification, indicating that areas with low geostrophic kinetic energy may be advantageous for feeding and development of mesopelagic fish larvae because of greater water column stability.

Effects of Geostrophic Kinetic Energy on the Distribution of Mesopelagic Fish Larvae in the Southern Gulf of California in Summer/Fall Stratified Seasons

PubMed Central

Contreras-Catala, Fernando; Beier, Emilio; Godínez, Victor M.; Barton, Eric D.; Santamaría-del-Angel, Eduardo

2016-01-01

Effects of geostrophic kinetic energy flux on the three-dimensional distribution of fish larvae of mesopelagic species (Vinciguerria lucetia, Diogenichthys laternatus, Benthosema panamense and Triphoturus mexicanus) in the southern Gulf of California during summer and fall seasons of stronger stratification were analyzed. The greatest larval abundance was found at sampling stations in geostrophic kinetic energy-poor areas (<7.5 J/m3), where the distribution of the dominant species tended to be stratified. Larvae of V. lucetia (average abundance of 318 larvae/10m2) and B. panamense (174 larvae/10m2) were mostly located in and above the pycnocline (typically ~ 40 m depth). In contrast, larvae of D. laternatus (60 larvae/10m2) were mainly located in and below the pycnocline. On the other hand, in sampling stations from geostrophic kinetic energy-rich areas (> 21 J/m3), where mesoscale eddies were present, the larvae of the dominant species had low abundance and were spread more evenly through the water column, in spite of the water column stratification. For example, in a cyclonic eddy, V. lucetia larvae (34 larvae/10m2) extended their distribution to, at least, the limit of sampling 200 m depth below the pycnocline, while D. laternatus larvae (29 larvae/10m2) were found right up to the surface, both probably as a consequence mixing and secondary circulation in the eddy. Results showed that the level of the geostrophic kinetic energy flux affects the abundance and the three-dimensional distribution of mesopelagic fish larvae during the seasons of stronger stratification, indicating that areas with low geostrophic kinetic energy may be advantageous for feeding and development of mesopelagic fish larvae because of greater water column stability. PMID:27760185

Corrosion control in water supply systems: effect of pH, alkalinity, and orthophosphate on lead and copper leaching from brass plumbing.

PubMed

Tam, Y S; Elefsiniotis, P

2009-10-01

This study explored the potential of lead and copper leaching from brass plumbing in the Auckland region of New Zealand. A five-month field investigation, at six representative locations, indicated that Auckland's water can be characterized as soft and potentially corrosive, having low alkalinity and hardness levels and a moderately alkaline pH. More than 90% of the unflushed samples contained lead above the maximum acceptable value (MAV) of 10 microg/L (New Zealand Standards). In contrast, the copper level of unflushed samples remained consistently below the corresponding MAV of 2 mg/L. Flushing however reduced sharply metal concentrations, with lead values well below the MAV limit. Generally, metal leaching patterns showed a limited degree of correlation with the variations in temperature, dissolved oxygen and free chlorine residual at all sampling locations. Furthermore, a series of bench-scale experiments was conducted to evaluate the effectiveness of pH and alkalinity adjustment, as well as orthophosphate addition as corrosion control tools regarding lead and copper dissolution. Results demonstrated that lead and copper leaching was predominant during the first 24 hr of stagnation, but reached an equilibrium state afterwards. Since the soluble fraction of both metals was small (12% for lead, 29% for copper), it is apparent that the non-soluble compounds play a predominant role in the dissolution process. The degree of leaching however was largely affected by the variations in pH and alkalinity. At pH around neutrality, an increase in alkalinity promoted metal dissolution, while at pH 9.0 the effect of alkalinity on leaching was marginal. Lastly, addition of orthophosphate as a corrosion inhibitor was more effective at pH 7.5 or higher, resulting in approximately 70% reduction in both lead and copper concentrations.

Bacterial communities in Great Barrier Reef calcareous sediments: Contrasting 16S rDNA libraries from nearshore and outer shelf reefs

NASA Astrophysics Data System (ADS)

Uthicke, S.; McGuire, K.

2007-03-01

Bacterial communities in eight 16S rDNA clone libraries from calcareous sediments were investigated to provide an assessment of the bacterial diversity on sediments of the Great Barrier Reef (GBR) and to investigate differences due to decreased water quality. Sample effort was spread across two locations on each of four coral reefs, with two reefs located nearshore and two reefs on the outer shelf to allow robust statistical comparison of nearshore reefs (subjected to enhanced runoff) and outer shelf reefs (pristine conditions). Out of 221 non-chimeric sequences, 189 (85.5%) were unique and only one sequence occurred in more than one library. Rarefaction analyses and coverage calculations indicated that only a small fraction of the diversity was sampled. Cluster analyses and comparison to published sequences indicated that sequences retrieved belonged to the α, γ and δ subdivision of the Proteobacteria (6.8, 29.4 and 13.6% of the total, respectively), Cytophaga-Flavobacteria-Bacteroidetes (CFB) group (20.4%), Cyanobacteria (5.4%), Planctomycetaceae (7.7%), Verrucomicrobiaceae (6.8%), Acidobacteriaceae (2.7%). Analysis of Similarity (ANOSIM, based on grouping all retrieved sequences into 9 phylogenetic groups) indicated that subtle differences do exist in the community composition between nearshore and outer shelf reefs. Similarity percentage analysis (SIMPER) indicated that Acidobacteriaceae and Cyanobacteriaceae were the main contributors to the dissimilarity. A significant difference between bacteria on nearshore and outer shelf reefs also existed on the molecular level ( FST = 0.008, p = 0.007 for all samples, 0.006, p = 0.022 when repeated sequences within libraries were removed). Thus, bacterial communities on carbonate sediments investigated were highly diverse and differences in community composition may provide important leads for the search for indicator species or communities for water quality differences.

Modeling Photosynthesis of Spartina alterniflora (smooth cordgrass) Impacted by the Deepwater Horizon Oil Spill Using Bayesian Inference

NASA Astrophysics Data System (ADS)

Wu, W.; Biber, P. D.; Peterson, M. S.; Gong, C.

2012-12-01

We studied the impact of the Deepwater Horizon oil spill on photosynthesis of coastal saltmarsh plants in Mississippi from July 2010 to November 2011 using field measurements and a hierarchical Bayesian (HB) model. We sampled three locations in Davis Bayou, Mississippi (30.375°N, 88.790°W) representative of a range of oil spill impacts. Measured photosynthesis was negative (respiration only) at the heavily oiled location in July 2010 only, and rates started to increase by August 2010. Photosynthesis at the medium oiled location was lower than at the control location in July 2010 and it continued to decrease in September 2010. During the winter months in 2010-2011, the contrast between the control and the two impacted locations was not as obvious as in the growing season of 2010. Photosynthesis increased through spring 2011 at the three locations and decreased starting with October at the control location and a month earlier (September) at the impacted locations. Using the field data, we developed an HB model. The model simulations agreed well with the measured photosynthesis, and they captured most of the variability of the measured data. Based on the posteriors of the parameters, air temperature and photosynthetic active radiation (PAR) positively influenced photosynthesis whereas the leaf stress level negatively affected photosynthesis. The photosynthesis rates at the heavily impacted location had recovered to the status of the control location about 140 days after the initial impact, while the impact at the medium location was never severe enough to make photosynthesis significantly lower than that at the control location over the study period. The uncertainty in modeling photosynthesis rates mainly came from the individual and micro-site scales, less from the leaf scale. Medians with 95% confidence intervals for the measured photosynthesis rate (μmol C m-2 s-1 - y axis) at the locations of A) Control, B) Medium impact, and C) Heavy impact in each month from July 2010 to November 2011. At the x-axis representing the photosynthetic active radiation intensity, 1 = around 400 μmol C m-2 s-1, 2 = around 800 μmol C m-2 s-1, 3 = around 1200 μmol C m-2 s-1, 4 = around 1600 μmol C m-2 s-1, and 5 = around 2000 μmol C m-2 s-1.

Experimentally enhanced model-based deconvolution of propagation-based phase-contrast data

NASA Astrophysics Data System (ADS)

Pichotka, M.; Palma, K.; Hasn, S.; Jakubek, J.; Vavrik, D.

2016-12-01

In recent years phase-contrast has become a much investigated modality in radiographic imaging. The radiographic setups employed in phase-contrast imaging are typically rather costly and complex, e.g. high performance Talbot-Laue interferometers operated at synchrotron light sources. In-line phase-contrast imaging states the most pedestrian approach towards phase-contrast enhancement. Utilizing small angle deflection within the imaged sample and the entailed interference of the deflected and un-deflected beam during spatial propagation, in-line phase-contrast imaging only requires a well collimated X-ray source with a high contrast & high resolution detector. Employing high magnification the above conditions are intrinsically fulfilled in cone-beam micro-tomography. As opposed of 2D imaging, where contrast enhancement is generally considered beneficial, in tomographic modalities the in-line phase-contrast effect can be quite a nuisance since it renders the inverse problem posed by tomographic reconstruction inconsistent, thus causing reconstruction artifacts. We present an experimentally enhanced model-based approach to disentangle absorption and in-line phase-contrast. The approach employs comparison of transmission data to a system model computed iteratively on-line. By comparison of the forward model to absorption data acquired in continuous rotation strong local deviations of the data residual are successively identified as likely candidates for in-line phase-contrast. By inducing minimal vibrations (few mrad) to the sample around the peaks of such deviations the transmission signal can be decomposed into a constant absorptive fraction and an oscillating signal caused by phase-contrast which again allows to generate separate maps for absorption and phase-contrast. The contributions of phase-contrast and the corresponding artifacts are subsequently removed from the tomographic dataset. In principle, if a 3D handling of the sample is available, this method also allows to track discontinuities throughout the volume and therefore states a powerful tool in 3D defectoscopy.

Origins of phase contrast in the atomic force microscope in liquids

PubMed Central

Melcher, John; Carrasco, Carolina; Xu, Xin; Carrascosa, José L.; Gómez-Herrero, Julio; José de Pablo, Pedro; Raman, Arvind

2009-01-01

We study the physical origins of phase contrast in dynamic atomic force microscopy (dAFM) in liquids where low-stiffness microcantilever probes are often used for nanoscale imaging of soft biological samples with gentle forces. Under these conditions, we show that the phase contrast derives primarily from a unique energy flow channel that opens up in liquids due to the momentary excitation of higher eigenmodes. Contrary to the common assumption, phase-contrast images in liquids using soft microcantilevers are often maps of short-range conservative interactions, such as local elastic response, rather than tip-sample dissipation. The theory is used to demonstrate variations in local elasticity of purple membrane and bacteriophage ϕ29 virions in buffer solutions using the phase-contrast images. PMID:19666560

Origins of phase contrast in the atomic force microscope in liquids.

PubMed

Melcher, John; Carrasco, Carolina; Xu, Xin; Carrascosa, José L; Gómez-Herrero, Julio; José de Pablo, Pedro; Raman, Arvind

2009-08-18

We study the physical origins of phase contrast in dynamic atomic force microscopy (dAFM) in liquids where low-stiffness microcantilever probes are often used for nanoscale imaging of soft biological samples with gentle forces. Under these conditions, we show that the phase contrast derives primarily from a unique energy flow channel that opens up in liquids due to the momentary excitation of higher eigenmodes. Contrary to the common assumption, phase-contrast images in liquids using soft microcantilevers are often maps of short-range conservative interactions, such as local elastic response, rather than tip-sample dissipation. The theory is used to demonstrate variations in local elasticity of purple membrane and bacteriophage 29 virions in buffer solutions using the phase-contrast images.

Applying Low Temperature Thermochronology to Constrain Exhumation Patterns along the Eastern Denali Fault Corner, Alaska

NASA Astrophysics Data System (ADS)

Warfel, T. S.; Fitzgerald, P. G.; Benowitz, J.; Ridgway, K.; Allen, W. K.

2017-12-01

The Denali Fault (DF) constitutes a long ( 2000 km), arcuate, dextrally transpressive intracontinental fault system sketching across south-central Alaska. Strain-partitioning along the DF is accommodated as slip on the fault and fault-normal motion on a series of thrusts located north and south of the fault itself. High topography in the central and eastern Alaska Range, also locations of the greatest exhumation along the fault, are associated with restraining bends in those regions. East of the Richardson Highway, along the eastern Denali fault corner (or east-central segment of the DF), thrust faults south of the DF, including the McCallum thrust have accommodated the fault-normal component of motion along the DF. The aim of this project is to better understand what controls exhumation along large strike-slip faults, in particular the DF. Previous work along the DF in the central and eastern Alaska Range (to the west of this region) indicate the importance of fault geometry and rheological contrasts between terranes that have been juxtaposed against one another in controlling the location of exhumation. Our area of interest is a largely unstudied section along the Denali Fault (eastern DF corner) located between the DF/Hines Creek fault intersection and the Totschunda/DF intersection. We are applying a combination of apatite fission track thermochronology and apatite (U-Th)/He dating to samples collected north and south of the DF, and across thrust faults south of the DF. Thermochronology is being applied to bedrock samples, collected in vertical profiles and/or hanging wall - footwall pairs. Cobbles were also collected within a stratigraphic framework (constrained by tephras), from Miocene sediments in inverted basins south of the DF. Thermochronologic data from these cobbles; using lag-time analyses and inverse thermal models, will constrain the exhumation history of the hinterland. Assuming modern rates for slip along the DF will allow constraints to be placed on spatial and temporal patterns of exhumation and hence, help constrain the underlying control on exhumation patterns. Preliminary results indicate older AFT and AHe ages (up to 50 Ma) away from the DF but yield apatite (U-Th)/He ages as young as 2 Ma for a sample from the footwall of the closest thrust south of the DF.

Spatial contrasts of seasonal and intraflock broiler litter trace gas emissions, physical and chemical properties.

PubMed

Miles, D M; Brooks, J P; Sistani, K

2011-01-01

Comprehensive mitigation strategies for gaseous emissions from broiler operations requires knowledge of the litters' physical and chemical properties, gas evolution, bird effects, as well as broiler house management and structure. This research estimated broiler litter surface fluxes for ammonia (NH3), nitrous oxide (N2O), and carbon dioxide (CO2). Ancillary measurements of litter temperature, litter total N, ammonium (NH4+), total C content, moisture, and pH were also made. Grid sampling was imposed over the floor area of two commercial broiler houses at the beginning (Day 1), middle (Day 23), and end (Day 43) of a winter and subsequent summer flock housed on reused pine shavings litter. The grid was composed of 36 points, three locations across the width, and 12 locations down the length of the houses. To observe feeder and waterer (F/W) influences on the parameters, eight additional sample locations were added in a crisscross pattern among these automated supply lines. Color variograms illustrate the nature of parameter changes within each flock and between seasons. Overall trends for the NH3, N2O, and CO2 gas fluxes indicate an increase in magnitude with bird age during a flock for both summer and winter, but flux estimates were reduced in areas where compacted litter (i.e., caked litter or cake) formed at the end of the flocks (at F/W locations and in the fan area). End of flock gas fluxes were estimated at 1040 mg NH3 m(-2) h(-1), 20 mg N2O m(-2) h(-1), and 24,200 mg CO2 m(-2) h(-1) in winter; and 843 mg NH3 m(-2) h(-1), 18 mg N2O m(-2) h(-1)), and 27,200 mg CO2 m(-2) h(-1) in summer. The results of intensive sample efforts during winter and summer flocks, reported visually using contour plots, offer a resource to the poultry industry and researchers for creating new management strategies for improving production and controlling gas evolution. Particularly, efforts could focus on designing housing systems that minimize extremes in litter compaction. The extremes are undesirable with more friable litter prone to greater gas evolution and more compacted litter providing a slippery, disease-sustaining surface.

Prior Driver Performance and Expressed Attitudes Toward Risk as Factors Associated With Railroad Grade Crossing Violations

DOT National Transportation Integrated Search

1999-06-01

Railroad 'gate runners' identified by photo surveillance instrumentation were contrasted with a sample of general 'users' of the same grade crossing. The two samples were contrasted in terms of the prior driving histories of the drivers involved. In ...

Investigation of second harmonic generation and multispectral imaging as new contrast mechanisms in scanning laser optical tomography

NASA Astrophysics Data System (ADS)

Nolte, Lena; Antonopoulos, Georgios C.; Heisterkamp, Alexander; Ripken, Tammo; Meyer, Heiko

2018-02-01

Scanning laser optical tomography (SLOT) is a 3D imaging technique, based on the principle of computed tomography to visualize samples up to magnitude of several centimeters. Intrinsic contrast mechanisms as absorption, scattering and autofluorescence provide information about the 3D architecture and composition of the sample. Another valuable intrinsic contrast mechanism is second harmonic generation (SHG), which is generated in noncentrosymmetric materials and commonly used to image collagen in biological samples. The angular dependence of the SHG signal, however, produces artifacts in reconstructed optical tomography datasets (OPT, SLOT). Thus, successful use of this intrinsic contrast mechanism is impaired. We investigate these artifacts by simulation and experiment and propose an elimination procedure that enables successful reconstruction of SHG-SLOT data. Nevertheless, in many cases specific labeling of certain structures is necessary to make them visible. Using multiple dyes in one sample can lead to crosstalk between the different channels and reduce contrast of the images. Also autofluorescence of the sample itself can account for that. By using multispectral imaging in combination with spectral unmixing techniques, this loss can be compensated. Therefore either a spectrally resolved detection path, or spectrally resolved excitation is required. Therefore we integrated a white supercontinuum light source in our SLOT-setup that enables a spectral selection of the excitation beam and extended the detection path to a four channel setup. This enables the detection of three fluorescence channels and one absorption channel in parallel, and increases the contrast in the reconstructed 3D images significantly.

Assessing the Relative Effects of Geographic Location and Soil Type on Microbial Communities Associated with Straw Decomposition

PubMed Central

Wang, Xiaoyue; Wang, Feng; Jiang, Yuji

2013-01-01

Decomposition of plant residues is largely mediated by soil-dwelling microorganisms whose activities are influenced by both climate conditions and properties of the soil. However, a comprehensive understanding of their relative importance remains elusive, mainly because traditional methods, such as soil incubation and environmental surveys, have a limited ability to differentiate between the combined effects of climate and soil. Here, we performed a large-scale reciprocal soil transplantation experiment, whereby microbial communities associated with straw decomposition were examined in three initially identical soils placed in parallel in three climate regions of China (red soil, Chao soil, and black soil, located in midsubtropical, warm-temperate, and cold-temperate zones). Maize straws buried in mesh bags were sampled at 0.5, 1, and 2 years after the burial and subjected to chemical, physical, and microbiological analyses, e.g., phospholipid fatty acid analysis for microbial abundance, community-level physiological profiling, and 16S rRNA gene denaturing gradient gel electrophoresis, respectively, for functional and phylogenic diversity. Results of aggregated boosted tree analysis show that location rather soil is the primary determining factor for the rate of straw decomposition and structures of the associated microbial communities. Principal component analysis indicates that the straw communities are primarily grouped by location at any of the three time points. In contrast, microbial communities in bulk soil remained closely related to one another for each soil. Together, our data suggest that climate (specifically, geographic location) has stronger effects than soil on straw decomposition; moreover, the successive process of microbial communities in soils is slower than those in straw residues in response to climate changes. PMID:23524671

Digital coordinates and age of more than 13,000 foraminifers samples collected by Chevron Petroleum geologists in California

USGS Publications Warehouse

Malmblorg, William T.; West, William B.; Brabb, Earl E.; Parker, John M.

2008-01-01

The general location and age of more than 33,500 mostly foraminifer samples from Chevron surface localities in nearly 600 U.S. Geological Survey (USGS) 7.5' quadrangles from California were provided by Brabb and Parker (2003). Barren and non-diagnostic samples plus many that have no paleontologic information were omitted to provide a revised list for more than 27,000 of these samples by Brabb and Parker (2005). The locations for many of these samples were recorded by Chevron geoscientists on topographic maps (originals now in the USGS Library in Menlo Park, Calif.). The recent availability of digital databases for geologic and topographic maps has provided the opportunity to prepare a database of the locations of these Chevron samples so that the information can be combined with geology and topography for plotting or geospatial analysis. This report provides specific locations for more than 13,000 samples in central California that have enough paleontologic information to determine their age but omits thousands of samples that are too closely spaced to differentiate or those that have only a general location.

Variation in size frequency distribution of coral populations under different fishing pressures in two contrasting locations in the Indian Ocean.

PubMed

Grimsditch, G; Pisapia, C; Huck, M; Karisa, J; Obura, D; Sweet, M

2017-10-01

This study aimed to assess how the size-frequency distributions of coral genera varied between reefs under different fishing pressures in two contrasting Indian Ocean locations (the Maldives and East Africa). Using generalized linear mixed models, we were able to demonstrate that complex interactions occurred between coral genera, coral size class and fishing pressure. In both locations, we found Acropora coral species to be more abundant in non-fished compared to fished sites (a pattern which was consistent for nearly all the assessed size classes). Coral genera classified as 'stress tolerant' showed a contrasting pattern i.e. were higher in abundance in fished compared to non-fished sites. Site specific variations were also observed. For example, Maldivian reefs exhibited a significantly higher abundance in all size classes of 'competitive' corals compared to East Africa. This possibly indicates that East African reefs have already been subjected to higher levels of stress and are therefore less suitable environments for 'competitive' corals. This study also highlights the potential structure and composition of reefs under future degradation scenarios, for example with a loss of Acropora corals and an increase in dominance of 'stress tolerant' and 'generalist' coral genera. Copyright © 2017. Published by Elsevier Ltd.

Microbiological quality of complementary foods and its association with diarrhoeal morbidity and nutritional status of Bangladeshi children.

PubMed

Islam, M A; Ahmed, T; Faruque, A S G; Rahman, S; Das, S K; Ahmed, D; Fattori, V; Clarke, R; Endtz, H P; Cravioto, A

2012-11-01

To examine the bacteriological quality of complementary foods (CF) and to correlate the results with diarrhoeal morbidity and nutritional status of Bangladeshi children aged 6-24 months. A total of 212 CF samples were tested, of which 72 were collected immediately before the first time of feeding (≤ 1 h of food preparation) and 140 were collected at second/third time of feeding from 140 households located in urban and rural areas of Bangladesh. Anthropometry, food frequency data and demographic information of the children were collected. Of the first time feeding samples, 3% from each of urban and rural areas were found to be contaminated with faecal coliforms (FC) at ≥ 100 CFU/g. E. coli was isolated from 11% and 6% of samples, and B. cereus from 8% and 6% of samples from urban and rural areas, respectively. In contrast, 33% of the second/third time feeding samples from urban areas and 19% from rural areas were contaminated with FC at ≥ 100 CFU/g (P<0.05). E. coli was isolated from 40% and 39% of samples, and B. cereus from 33% and 26% of samples from urban and rural areas, respectively. Significantly high numbers of wasted rural children had CF with a high aerobic plate count, which was also significantly associated with diarrhoeal morbidity in children. Around 40% of CF samples were contaminated with E. coli, which was mainly attributable to food preparation practices. Consumption of contaminated CF appeared to be associated with a higher frequency of diarrhoea and malnutrition in children.

Lunar Meteorites: A Global Geochemical Dataset

NASA Technical Reports Server (NTRS)

Zeigler, R. A.; Joy, K. H.; Arai, T.; Gross, J.; Korotev, R. L.; McCubbin, F. M.

2017-01-01

To date, the world's meteorite collections contain over 260 lunar meteorite stones representing at least 120 different lunar meteorites. Additionally, there are 20-30 as yet unnamed stones currently in the process of being classified. Collectively these lunar meteorites likely represent 40-50 distinct sampling locations from random locations on the Moon. Although the exact provenance of each individual lunar meteorite is unknown, collectively the lunar meteorites represent the best global average of the lunar crust. The Apollo sites are all within or near the Procellarum KREEP Terrane (PKT), thus lithologies from the PKT are overrepresented in the Apollo sample suite. Nearly all of the lithologies present in the Apollo sample suite are found within the lunar meteorites (high-Ti basalts are a notable exception), and the lunar meteorites contain several lithologies not present in the Apollo sample suite (e.g., magnesian anorthosite). This chapter will not be a sample-by-sample summary of each individual lunar meteorite. Rather, the chapter will summarize the different types of lunar meteorites and their relative abundances, comparing and contrasting the lunar meteorite sample suite with the Apollo sample suite. This chapter will act as one of the introductory chapters to the volume, introducing lunar samples in general and setting the stage for more detailed discussions in later more specialized chapters. The chapter will begin with a description of how lunar meteorites are ejected from the Moon, how deep samples are being excavated from, what the likely pairing relationships are among the lunar meteorite samples, and how the lunar meteorites can help to constrain the impactor flux in the inner solar system. There will be a discussion of the biases inherent to the lunar meteorite sample suite in terms of underrepresented lithologies or regions of the Moon, and an examination of the contamination and limitations of lunar meteorites due to terrestrial weathering. The bulk of the chapter will use examples from the lunar meteorite suite to examine important recent advances in lunar science, including (but not limited to the following: (1) Understanding the global compositional diversity of the lunar surface; (2) Understanding the formation of the ancient lunar primary crust; (3) Understanding the diversity and timing of mantle melting, and secondary crust formation; (4) Comparing KREEPy lunar meteorites to KREEPy Apollo samples as evidence of variability within the PKT; and (5) A better understanding of the South Pole Aitken Basin through lunar meteorites whose provenance are within that Terrane.

Teaching the Genres of Comparison and Contrast in English Writing: From the Perspectives of "Cooperative Principles"

ERIC Educational Resources Information Center

Wu, Greg Chung-Hsien

2014-01-01

This pilot study aims at integrating a socio-pragmatic concept, Cooperative Principles, into an experimental writing project on the genres of comparison and contrast. It reports on a six-week study of five undergraduates voluntarily recruited in a university located in central Taiwan. In surveying their writing momentum before and after the…

VOCs in shallow groundwater in new residential/commercial areas of the United States

USGS Publications Warehouse

Squillace, P.J.; Moran, M.J.; Price, C.V.

2004-01-01

The quality of shallow groundwater in urban areas was investigated by sampling 518 monitoring wells between 1996 and 2002 as part of the National Water-Quality Assessment Program of the U.S. Geological Survey. Well networks were installed primarily in new residential/commercial areas less than about 30 years old (17 studies) and in small towns (2 studies) by randomly locating as many as 30 monitoring wells in each study area. The median well depth was 10 m. Based on samples with age-date information, almost all groundwater was recharged after 1950. Samples were analyzed for 53 volatile organic compounds (VOCs). Concentrations ranged from about 0.001 to 1000 ??g/L (median 0.04), with less than 1% of the samples exceeding a Maximum Contamination Level or Drinking Water Advisory established by the U.S. Environmental Protection Agency. Using uncensored concentration data, at least one VOC was detected in 88% of the samples, and at least two VOCs were detected in 69% of the samples. Chloroform, toluene, and perchloroethene were the three most frequently detected VOCs. Dissolved oxygen concentration, estimated recharge index, and land-use were significant variables in logistic regression models that explained the presence of the commonly detected VOCs. Dissolved oxygen concentration was the most important explanatory variable in logistic regression models for 6 of the 14 most frequently detected VOCs. Bromodichloromethane, chloroform, and 1,1,1-trichloroethane had a positive correlation with dissolved oxygen; in contrast, dichloroethane, benzene, and toluene had a negative correlation with dissolved oxygen.

Compared analysis of different sampling strategies for the monitoring of pesticide contamination in streams

NASA Astrophysics Data System (ADS)

Liger, Lucie; Margoum, Christelle; Guillemain, Céline; Carluer, Nadia

2014-05-01

The implementation of the WFD (Water Framework Directive), requests European Union member states to achieve good qualitative and quantitative status of all water bodies in 2015. The monitoring of organic micropollutants such as pesticides is an essential step to assess the chemical and biological state of streams, to understand the reasons of degradation and to implement sound mitigation solutions in the watershed. In particular, the water sampling, which can be performed according to several strategies, has to be closely adapted to the experimental goals. In this study, we present and compare 3 different active sampling strategies: grab sampling, time-related and flow-dependent automatic samplings. In addition, the last two can be fractionated (i.e., several samples collected, and each one contained in a single bottle) or averaged (i.e., several samples mixed in the same bottle). Time-related samples allow the assessment of average exposure concentrations of organic micropollutants, whereas flow-dependent samples lead to average flux concentrations. The 3 sampling strategies were applied and compared during the monitoring of the pesticide contamination of a river located in a French vineyard watershed (the Morcille River, located 60 km north of Lyon, in the Beaujolais region). Data were collected between 2007 and 2011, during different seasons and for a range of hydrological events. The Morcille watershed is characterized by contrasted hydrological events with a very short-time response due to its small size (5 km²), steep slopes (20 to 28%) and highly permeable sandy soils. These features make it particularly difficult to monitor water quality, due to fast variations of pesticide concentrations depending on rain events. This comparative study is performed in 2 steps. At first, we compare the timestamps of each sample composing the weekly-averaged samples and those of the grab samples with hydrological data. This allows us to evaluate the efficiency of these 2 sampling strategies in the integration of flow variations and therefore pesticide concentration variations during the sampling campaign. In a second step, we use the fractionated samples data during flood events to calculate the concentrations of virtual averaged samples of the events. Different time or flow steps were used for the calculation, to assess their impact on the pesticide averaged-concentrations or fluxes. These analyses highlight the benefits and drawbacks of each sampling strategy. They show that the sampling strategy should be carefully chosen and designed depending on the final aim of the study and on the watershed characteristics (in particular its hydrological dynamics). This study may help to design future monitoring on water quality. Key Words: sampling strategies, surface water, concentration, flux, pesticides.

Augmented longitudinal acoustic trap for scalable microparticle enrichment.

PubMed

Cui, M; Binkley, M M; Shekhani, H N; Berezin, M Y; Meacham, J M

2018-05-01

We introduce an acoustic microfluidic device architecture that locally augments the pressure field for separation and enrichment of targeted microparticles in a longitudinal acoustic trap. Pairs of pillar arrays comprise "pseudo walls" that are oriented perpendicular to the inflow direction. Though sample flow is unimpeded, pillar arrays support half-wave resonances that correspond to the array gap width. Positive acoustic contrast particles of supracritical diameter focus to nodal locations of the acoustic field and are held against drag from the bulk fluid motion. Thus, the longitudinal standing bulk acoustic wave (LSBAW) device achieves size-selective and material-specific separation and enrichment of microparticles from a continuous sample flow. A finite element analysis model is used to predict eigenfrequencies of LSBAW architectures with two pillar geometries, slanted and lamellar. Corresponding pressure fields are used to identify longitudinal resonances that are suitable for microparticle enrichment. Optimal operating conditions exhibit maxima in the ratio of acoustic energy density in the LSBAW trap to that in inlet and outlet regions of the microchannel. Model results guide fabrication and experimental evaluation of realized LSBAW assemblies regarding enrichment capability. We demonstrate separation and isolation of 20  μ m polystyrene and ∼10  μ m antibody-decorated glass beads within both pillar geometries. The results also establish several practical attributes of our approach. The LSBAW device is inherently scalable and enables continuous enrichment at a prescribed location. These features benefit separations applications while also allowing concurrent observation and analysis of trap contents.

Spatial variation of acid-volatile sulfide and simultaneously extracted metals in Egyptian Mediterranean Sea lagoon sediments.

PubMed

Younis, Alaa M; El-Zokm, Gehan M; Okbah, Mohamed A

2014-06-01

In risk assessment of aquatic sediments, the immobilizing effect of acid-volatile sulfide (AVS) on trace metals is a principal control on availability and associated toxicity of metals to aquatic biota, which reduces metal bioavailability and toxicity by binding and immobilizing metals as insoluble sulfides. Spatial variation pattern of AVS, simultaneously extracted metals (SEM), and sediment characteristics were studied for the first time in surface sediment samples (0-20 cm) from 43 locations in Egyptian northern delta lagoons (Manzalah, Burullus, and Maryut) as predictors of the bioavailability of some divalent metals (Cu, Zn, Cd, Pb, and Ni) in sediments as well as indicators of metal toxicity in anaerobic sediments. The results indicated that the ∑SEM (Cu + Zn + Cd + Pb + Ni) values in sediments of lagoon Burullus had higher concentrations than those of Maryut and Manzalah. In contrast, AVS concentrations were considerably higher in lagoons Manzalah and Maryut and seemed to be consistent with the increase in organic matter than lagoon Burullus. Generally, the average concentrations of the SEM in all lagoons were in the order of Zn > Cu > Ni > Pb > Cd. The ratios of ∑SEM/AVS were less than 1 at all the sampling stations except at one station in lagoon Maryut as well as four stations located in lagoon Burullus (∑SEM/AVS > 1), which suggests that the metals have toxicity potential in these sediments. Therefore, SEM concentrations probably are better indicators of the metal bioavailability in sediments than the conventional total metal concentrations.

Human short-term spatial memory: precision predicts capacity.

PubMed

Banta Lavenex, Pamela; Boujon, Valérie; Ndarugendamwo, Angélique; Lavenex, Pierre

2015-03-01

Here, we aimed to determine the capacity of human short-term memory for allocentric spatial information in a real-world setting. Young adults were tested on their ability to learn, on a trial-unique basis, and remember over a 1-min interval the location(s) of 1, 3, 5, or 7 illuminating pads, among 23 pads distributed in a 4m×4m arena surrounded by curtains on three sides. Participants had to walk to and touch the pads with their foot to illuminate the goal locations. In contrast to the predictions from classical slot models of working memory capacity limited to a fixed number of items, i.e., Miller's magical number 7 or Cowan's magical number 4, we found that the number of visited locations to find the goals was consistently about 1.6 times the number of goals, whereas the number of correct choices before erring and the number of errorless trials varied with memory load even when memory load was below the hypothetical memory capacity. In contrast to resource models of visual working memory, we found no evidence that memory resources were evenly distributed among unlimited numbers of items to be remembered. Instead, we found that memory for even one individual location was imprecise, and that memory performance for one location could be used to predict memory performance for multiple locations. Our findings are consistent with a theoretical model suggesting that the precision of the memory for individual locations might determine the capacity of human short-term memory for spatial information. Copyright © 2015 Elsevier Inc. All rights reserved.

Edema is not a reliable diagnostic sign to exclude small brain metastases.

PubMed

Schneider, Tanja; Kuhne, Jan Felix; Bittrich, Paul; Schroeder, Julian; Magnus, Tim; Mohme, Malte; Grosser, Malte; Schoen, Gerhard; Fiehler, Jens; Siemonsen, Susanne

2017-01-01

No prior systematic study on the extent of vasogenic edema (VE) in patients with brain metastases (BM) exists. Here, we aim to determine 1) the general volumetric relationship between BM and VE, 2) a threshold diameter above which a BM shows VE, and 3) the influence of the primary tumor and location of the BM in order to improve diagnostic processes and understanding of edema formation. This single center, retrospective study includes 173 untreated patients with histologically proven BM. Semi-manual segmentation of 1416 BM on contrast-enhanced T1-weighted images and of 865 VE on fluid-attenuated inversion recovery/T2-weighted images was conducted. Statistical analyses were performed using a paired-samples t-test, linear regression/generalized mixed-effects model, and receiver-operating characteristic (ROC) curve controlling for the possible effect of non-uniformly distributed metastases among patients. For BM with non-confluent edema (n = 545), there was a statistically significant positive correlation between the volumes of the BM and the VE (P < 0.001). The optimal threshold for edema formation was a diameter of 9.4 mm for all BM. The primary tumors as interaction term in multivariate analysis had a significant influence on VE formation whereas location had not. Hence VE development is dependent on the volume of the underlying BM and the site of the primary neoplasm, but not from the location of the BM.

Fluorescence tomography characterization for sub-surface imaging with protoporphyrin IX

PubMed Central

Kepshire, Dax; Davis, Scott C.; Dehghani, Hamid; Paulsen, Keith D.; Pogue, Brian W.

2009-01-01

Optical imaging of fluorescent objects embedded in a tissue simulating medium was characterized using non-contact based approaches to fluorescence remittance imaging (FRI) and sub-surface fluorescence diffuse optical tomography (FDOT). Using Protoporphyrin IX as a fluorescent agent, experiments were performed on tissue phantoms comprised of typical in-vivo tumor to normal tissue contrast ratios, ranging from 3.5:1 up to 10:1. It was found that tomographic imaging was able to recover interior inclusions with high contrast relative to the background; however, simple planar fluorescence imaging provided a superior contrast to noise ratio. Overall, FRI performed optimally when the object was located on or close to the surface and, perhaps most importantly, FDOT was able to recover specific depth information about the location of embedded regions. The results indicate that an optimal system for localizing embedded fluorescent regions should combine fluorescence reflectance imaging for high sensitivity and sub-surface tomography for depth detection, thereby allowing more accurate localization in all three directions within the tissue. PMID:18545571

Single grating x-ray imaging for dynamic biological systems

NASA Astrophysics Data System (ADS)

Morgan, Kaye S.; Paganin, David M.; Parsons, David W.; Donnelley, Martin; Yagi, Naoto; Uesugi, Kentaro; Suzuki, Yoshio; Takeuchi, Akihisa; Siu, Karen K. W.

2012-07-01

Biomedical studies are already benefiting from the excellent contrast offered by phase contrast x-ray imaging, but live imaging work presents several challenges. Living samples make it particularly difficult to achieve high resolution, sensitive phase contrast images, as exposures must be short and cannot be repeated. We therefore present a single-exposure, high-flux method of differential phase contrast imaging [1, 2, 3] in the context of imaging live airways for Cystic Fibrosis (CF) treatment assessment [4]. The CF study seeks to non-invasively observe the liquid lining the airways, which should increase in depth in response to effective treatments. Both high spatial resolution and sensitivity are required in order to track micron size changes in a liquid that is not easily differentiated from the tissue on which it lies. Our imaging method achieves these goals by using a single attenuation grating or grid as a reference pattern, and analyzing how the sample deforms the pattern to quantitatively retrieve the phase depth of the sample. The deformations are mapped at each pixel in the image using local cross-correlations comparing each 'sample and pattern' image with a reference 'pattern only' image taken before the sample is introduced. This produces a differential phase image, which may be integrated to give the sample phase depth.

U.S. hardwood lumber production: 1963 to 2003

Treesearch

William Luppold; Matthew Bumgardner

2008-01-01

Between 1963 and 2003 northern hardwood lumber production more than doubled while production in the southern regions increased by less than 25 percent. In 1963 the major users of hardwood lumber were the furniture manufacturers located in the southeast region, and hardwood flooring producers located in the south central region. By contrast more than 60 percent of the...

Spatial controls of occurrence and spread of wildfires in the Missouri Ozark Highlands

Treesearch

Jian Yang; Hong S. He; Stephen R. Shifley

2008-01-01

Understanding spatial controls on wildfires is important when designing adaptive fire management plans and optimizing fuel treatment locations on a forest landscape. Previous research about this topic focused primarily on spatial controls for fire origin locations alone. Fire spread and behavior were largely overlooked. This paper contrasts the relative importance of...

Determining oxygen relaxations at an interface: A comparative study between transmission electron microscopy techniques.

PubMed

Gauquelin, N; van den Bos, K H W; Béché, A; Krause, F F; Lobato, I; Lazar, S; Rosenauer, A; Van Aert, S; Verbeeck, J

2017-10-01

Nowadays, aberration corrected transmission electron microscopy (TEM) is a popular method to characterise nanomaterials at the atomic scale. Here, atomically resolved images of nanomaterials are acquired, where the contrast depends on the illumination, imaging and detector conditions of the microscope. Visualization of light elements is possible when using low angle annular dark field (LAADF) STEM, annular bright field (ABF) STEM, integrated differential phase contrast (iDPC) STEM, negative spherical aberration imaging (NCSI) and imaging STEM (ISTEM). In this work, images of a NdGaO 3 -La 0.67 Sr 0.33 MnO 3 (NGO-LSMO) interface are quantitatively evaluated by using statistical parameter estimation theory. For imaging light elements, all techniques are providing reliable results, while the techniques based on interference contrast, NCSI and ISTEM, are less robust in terms of accuracy for extracting heavy column locations. In term of precision, sample drift and scan distortions mainly limits the STEM based techniques as compared to NCSI. Post processing techniques can, however, partially compensate for this. In order to provide an outlook to the future, simulated images of NGO, in which the unavoidable presence of Poisson noise is taken into account, are used to determine the ultimate precision. In this future counting noise limited scenario, NCSI and ISTEM imaging will provide more precise values as compared to the other techniques, which can be related to the mechanisms behind the image recording. Copyright © 2017 Elsevier B.V. All rights reserved.

High refractive index substrates for fluorescence microscopy of biological interfaces with high z contrast

PubMed Central

Ajo-Franklin, Caroline M.; Kam, Lance; Boxer, Steven G.

2001-01-01

Total internal reflection fluorescence microscopy is widely used to confine the excitation of a complex fluorescent sample very close to the material on which it is supported. By working with high refractive index solid supports, it is possible to confine even further the evanescent field, and by varying the angle of incidence, to obtain quantitative information on the distance of the fluorescent object from the surface. We report the fabrication of hybrid surfaces consisting of nm layers of SiO2 on lithium niobate (LiNbO3, n = 2.3). Supported lipid bilayer membranes can be assembled and patterned on these hybrid surfaces as on conventional glass. By varying the angle of incidence of the excitation light, we are able to obtain fluorescent contrast between 40-nm fluorescent beads tethered to a supported bilayer and fluorescently labeled protein printed on the surface, which differ in vertical position by only tens of nm. Preliminary experiments that test theoretical models for the fluorescence-collection factor near a high refractive index surface are presented, and this factor is incorporated into a semiquantitative model used to predict the contrast of the 40-nm bead/protein system. These results demonstrate that it should be possible to profile the vertical location of fluorophores on the nm distance scale in real time, opening the possibility of many experiments at the interface between supported membranes and living cells. Improvements in materials and optical techniques are outlined. PMID:11717428

Laser scatter in clinical applications

NASA Astrophysics Data System (ADS)

Luther, Ed; Geddie, William

2008-02-01

Brightfield Laser Scanning Imaging (BLSI) is available on Laser Scanning Cytometers (LSCs) from CompuCyte Corporation. Briefly, digitation of photodetector outputs is coordinated with the combined motions of a small diameter (typically 2 to 10 microns) laser beam scanning a specimen in the Y direction (directed by a galvanometer-driven scanning mirror) and the microscope stage motion in the X direction. The output measurements are assembled into a two-dimensional array to provide a "non-real" digital image, where each pixel value reports the amount of laser-scattered light that is obtained when the laser beam is centered on that location. Depending on the detector positions, these images are analogous to Differential Interference Contrast or Phase Contrast microscopy. We report the incorporation of the new laser scattering capabilities into the workflow of a high-volume clinical cytology laboratory at University Health Network, Toronto, Canada. The laboratory has been employing LSC technology since 2003 for immunophenotypic fluorescence analysis of approximately 1200 cytological specimens per year, using the Clatch methodology. The new BLSI component allows visualization of cellular morphology at higher resolution levels than is possible with standard brightfield microscopic evaluation of unstained cells. BLSI is incorporated into the triage phase, where evaluation of unstained samples is combined with fluorescence evaluation to obtain specimen background levels. Technical details of the imaging methodology will be presented, as well as illustrative examples from current studies and comparisons to detailed, but obscure, historical studies of cytology specimens based on phase contrast microscopy.

Propagation-based x-ray phase contrast imaging using an iterative phase diversity technique

NASA Astrophysics Data System (ADS)

Carroll, Aidan J.; van Riessen, Grant A.; Balaur, Eugeniu; Dolbnya, Igor P.; Tran, Giang N.; Peele, Andrew G.

2018-03-01

Through the use of a phase diversity technique, we demonstrate a near-field in-line x-ray phase contrast algorithm that provides improved object reconstruction when compared to our previous iterative methods for a homogeneous sample. Like our previous methods, the new technique uses the sample refractive index distribution during the reconstruction process. The technique complements existing monochromatic and polychromatic methods and is useful in situations where experimental phase contrast data is affected by noise.

Halo-free phase contrast microscopy (Conference Presentation)

NASA Astrophysics Data System (ADS)

Nguyen, Tan H.; Kandel, Mikhail E.; Shakir, Haadi M.; Best, Catherine; Do, Minh N.; Popescu, Gabriel

2017-02-01

The phase contrast (PC) method is one of the most impactful developments in the four-century long history of microscopy. It allows for intrinsic, nondestructive contrast of transparent specimens, such as live cells. However, PC is plagued by the halo artifact, a result of insufficient spatial coherence in the illumination field, which limits its applicability. We present a new approach for retrieving halo-free phase contrast microscopy (hfPC) images by upgrading the conventional PC microscope with an external interferometric module, which generates sufficient data for reversing the halo artifact. Measuring four independent intensity images, our approach first measures haloed phase maps of the sample. We solve for the halo-free sample transmission function by using a physical model of the image formation under partial spatial coherence. Using this halo-free sample transmission, we can numerically generate artifact-free PC images. Furthermore, this transmission can be further used to obtain quantitative information about the sample, e.g., the thickness with known refractive indices, dry mass of live cells during their cycles. We tested our hfPC method on various control samples, e.g., beads, pillars and validated its potential for biological investigation by imaging live HeLa cells, red blood cells, and neurons.

Trace elements in stormflow, ash, and burned soil following the 2009 station fire in southern California

USGS Publications Warehouse

Burton, Carmen; Hoefen, Todd M.; Plumlee, Geoffrey S.; Baumberger, Katherine L.; Backlin, Adam R.; Gallegos, Elizabeth; Fisher, Robert N.

2016-01-01

Most research on the effects of wildfires on stream water quality has focused on suspended sediment and nutrients in streams and water bodies, and relatively little research has examined the effects of wildfires on trace elements. The purpose of this study was two-fold: 1) to determine the effect of the 2009 Station Fire in the Angeles National Forest northeast of Los Angeles, CA on trace element concentrations in streams, and 2) compare trace elements in post-fire stormflow water quality to criteria for aquatic life to determine if trace elements reached concentrations that can harm aquatic life. Pre-storm and stormflow water-quality samples were collected in streams located inside and outside of the burn area of the Station Fire. Ash and burned soil samples were collected from several locations within the perimeter of the Station Fire. Filtered concentrations of Fe, Mn, and Hg and total concentrations of most trace elements in storm samples were elevated as a result of the Station Fire. In contrast, filtered concentrations of Cu, Pb, Ni, and Se and total concentrations of Cu were elevated primarily due to storms and not the Station Fire. Total concentrations of Se and Zn were elevated as a result of both storms and the Station Fire. Suspended sediment in stormflows following the Station Fire was an important transport mechanism for trace elements. Cu, Pb, and Zn primarily originate from ash in the suspended sediment. Fe primarily originates from burned soil in the suspended sediment. As, Mn, and Ni originate from both ash and burned soil. Filtered concentrations of trace elements in stormwater samples affected by the Station Fire did not reach levels that were greater than criteria established for aquatic life. Total concentrations for Fe, Pb, Ni, and Zn were detected at concentrations above criteria established for aquatic life.

Field-acclimated Gossypium hirsutum cultivars exhibit genotypic and seasonal differences in photosystem II thermostability.

PubMed

Snider, John L; Oosterhuis, Derrick M; Collins, Guy D; Pilon, Cristiane; Fitzsimons, Toby R

2013-03-15

Previous investigations have demonstrated that photosystem II (PSII) thermostability acclimates to prior exposure to heat and drought, but contrasting results have been reported for cotton (Gossypium hirsutum). We hypothesized that PSII thermotolerance in G. hirsutum would acclimate to environmental conditions during the growing season and that there would be differences in PSII thermotolerance between commercially-available U.S. cultivars. To this end, three cotton cultivars were grown under dryland conditions in Tifton Georgia, and two under irrigated conditions in Marianna Arkansas. At Tifton, measurements included PSII thermotolerance (T15, the temperature causing a 15% decline in maximum quantum yield), leaf temperatures, air temperatures, midday (1200 to 1400h) leaf water potentials (ΨMD), leaf-air vapor pressure deficit (VPD), actual quantum yield (ΦPSII) and electron transport rate through PSII (ETR) on three sample dates. At Marianna, T15 was measured on two sample dates. Optimal air and leaf temperatures were observed on all sample dates in Tifton, but PSII thermotolerance increased with water deficit conditions (ΨMD=-3.1MPa), and ETR was either unaffected or increased under water-stress. Additionally, T15 for PHY 499 was ∼5°C higher than for the other cultivars examined (DP 0912 and DP 1050). The Marianna site experienced more extreme high temperature conditions (20-30 days Tmax≥35°C), and showed an increase in T15 with higher average Tmax. When average T15 values for each location and sample date were plotted versus average daily Tmax, strong, positive relationships (r(2) from .954 to .714) were observed between Tmax and T15. For all locations T15 was substantially higher than actual field temperature conditions. We conclude that PSII thermostability in G. hirsutum acclimates to pre-existing environmental conditions; PSII is extremely tolerant to high temperature and water-deficit stress; and differences in PSII thermotolerance exist between commercially-available cultivars. Copyright © 2012 Elsevier GmbH. All rights reserved.

Trace Elements in Stormflow, Ash, and Burned Soil following the 2009 Station Fire in Southern California

PubMed Central

Burton, Carmen A.; Hoefen, Todd M.; Plumlee, Geoffrey S.; Baumberger, Katherine L.; Backlin, Adam R.; Gallegos, Elizabeth; Fisher, Robert N.

2016-01-01

Most research on the effects of wildfires on stream water quality has focused on suspended sediment and nutrients in streams and water bodies, and relatively little research has examined the effects of wildfires on trace elements. The purpose of this study was two-fold: 1) to determine the effect of the 2009 Station Fire in the Angeles National Forest northeast of Los Angeles, CA on trace element concentrations in streams, and 2) compare trace elements in post-fire stormflow water quality to criteria for aquatic life to determine if trace elements reached concentrations that can harm aquatic life. Pre-storm and stormflow water-quality samples were collected in streams located inside and outside of the burn area of the Station Fire. Ash and burned soil samples were collected from several locations within the perimeter of the Station Fire. Filtered concentrations of Fe, Mn, and Hg and total concentrations of most trace elements in storm samples were elevated as a result of the Station Fire. In contrast, filtered concentrations of Cu, Pb, Ni, and Se and total concentrations of Cu were elevated primarily due to storms and not the Station Fire. Total concentrations of Se and Zn were elevated as a result of both storms and the Station Fire. Suspended sediment in stormflows following the Station Fire was an important transport mechanism for trace elements. Cu, Pb, and Zn primarily originate from ash in the suspended sediment. Fe primarily originates from burned soil in the suspended sediment. As, Mn, and Ni originate from both ash and burned soil. Filtered concentrations of trace elements in stormwater samples affected by the Station Fire did not reach levels that were greater than criteria established for aquatic life. Total concentrations for Fe, Pb, Ni, and Zn were detected at concentrations above criteria established for aquatic life. PMID:27144270

Environmental DNA sampling protocol - filtering water to capture DNA from aquatic organisms

USGS Publications Warehouse

Laramie, Matthew B.; Pilliod, David S.; Goldberg, Caren S.; Strickler, Katherine M.

2015-09-29

Environmental DNA (eDNA) analysis is an effective method of determining the presence of aquatic organisms such as fish, amphibians, and other taxa. This publication is meant to guide researchers and managers in the collection, concentration, and preservation of eDNA samples from lentic and lotic systems. A sampling workflow diagram and three sampling protocols are included as well as a list of suggested supplies. Protocols include filter and pump assembly using: (1) a hand-driven vacuum pump, ideal for sample collection in remote sampling locations where no electricity is available and when equipment weight is a primary concern; (2) a peristaltic pump powered by a rechargeable battery-operated driver/drill, suitable for remote sampling locations when weight consideration is less of a concern; (3) a 120-volt alternating current (AC) powered peristaltic pump suitable for any location where 120-volt AC power is accessible, or for roadside sampling locations. Images and detailed descriptions are provided for each step in the sampling and preservation process.

Using synchrotron X-ray phase-contrast micro-computed tomography to study tissue damage by laser irradiation.

PubMed

Robinson, Alan M; Stock, Stuart R; Soriano, Carmen; Xiao, Xianghui; Richter, Claus-Peter

2016-11-01

The aim of this study was to determine if X-ray micro-computed tomography could be used to locate and characterize tissue damage caused by laser irradiation and to describe its advantages over classical histology for this application. A surgical CO 2 laser, operated in single pulse mode (100 milliseconds) at different power settings, was used to ablate different types of cadaveric animal tissues. Tissue samples were then harvested and imaged with synchrotron X-ray phase-contrast and micro-computed tomography to generate stacks of virtual sections of the tissues. Subsequently, Fiji (ImageJ) software was used to locate tissue damage, then to quantify volumes of laser ablation cones and thermal coagulation damage from 3D renderings of tissue image stacks. Visual comparisons of tissue structures in X-ray images with those visible by classic light microscopy histology were made. We demonstrated that micro-computed tomography could be used to rapidly identify areas of surgical laser ablation, vacuolization, carbonization, and thermally coagulated tissue. Quantification and comparison of the ablation crater, which represents the volume of ablated tissue, and the thermal coagulation zone volumes were performed faster than we could by classical histology. We demonstrated that these procedures can be performed on fresh hydrated and non-sectioned plastic embedded tissue. We demonstrated that the application of non-destructive micro-computed tomography to the visualization and analysis of laser induced tissue damage without tissue sectioning is possible. This will improve evaluation of new surgical lasers and their corresponding effect on tissues. Lasers Surg. Med. 48:866-877, 2016. © 2016 Wiley Periodicals, Inc. © 2016 Wiley Periodicals, Inc.

Spatial variation of volcanic rock geochemistry in the Virunga Volcanic Province: Statistical analysis of an integrated database

NASA Astrophysics Data System (ADS)

Barette, Florian; Poppe, Sam; Smets, Benoît; Benbakkar, Mhammed; Kervyn, Matthieu

2017-10-01

We present an integrated, spatially-explicit database of existing geochemical major-element analyses available from (post-) colonial scientific reports, PhD Theses and international publications for the Virunga Volcanic Province, located in the western branch of the East African Rift System. This volcanic province is characterised by alkaline volcanism, including silica-undersaturated, alkaline and potassic lavas. The database contains a total of 908 geochemical analyses of eruptive rocks for the entire volcanic province with a localisation for most samples. A preliminary analysis of the overall consistency of the database, using statistical techniques on sets of geochemical analyses with contrasted analytical methods or dates, demonstrates that the database is consistent. We applied a principal component analysis and cluster analysis on whole-rock major element compositions included in the database to study the spatial variation of the chemical composition of eruptive products in the Virunga Volcanic Province. These statistical analyses identify spatially distributed clusters of eruptive products. The known geochemical contrasts are highlighted by the spatial analysis, such as the unique geochemical signature of Nyiragongo lavas compared to other Virunga lavas, the geochemical heterogeneity of the Bulengo area, and the trachyte flows of Karisimbi volcano. Most importantly, we identified separate clusters of eruptive products which originate from primitive magmatic sources. These lavas of primitive composition are preferentially located along NE-SW inherited rift structures, often at distance from the central Virunga volcanoes. Our results illustrate the relevance of a spatial analysis on integrated geochemical data for a volcanic province, as a complement to classical petrological investigations. This approach indeed helps to characterise geochemical variations within a complex of magmatic systems and to identify specific petrologic and geochemical investigations that should be tackled within a study area.

Influence of sample preparation and identification of subcelluar structures in quantitative holographic phase contrast microscopy

NASA Astrophysics Data System (ADS)

Kemper, Björn; Schmidt, Lisa; Przibilla, Sabine; Rommel, Christina; Vollmer, Angelika; Ketelhut, Steffi; Schnekenburger, Jürgen; von Bally, Gert

2010-04-01

Digital holographic microscopy (DHM) provides label-free quantitative phase contrast with low demands on sample preparation. Nevertheless, for DHM measurements on fixed cells the mounting medium has to be considered while the phase contrast of living cells may be influenced by the used buffer solution. To quantify these effects, the maximum cell caused phase contrast and the visibility of the nucleoli were analyzed. A second aim of the study was to identify subcellular components in DHM phase contrast images. Therefore, comparative investigations using bright field imaging, DHM and fluorescence microscopy with 4',6- Diamidino-2-phenylindol (DAPI) staining were performed. DAPI-staining visualizes cell components containing DNA. The obtained results demonstrate exemplarily for two tumor cell lines that from DHM phase contrast images of fixed cells in phosphate buffer saline (PBS) cell thickness values are obtained which are comparable to living cells. Furthermore, it is shown that in many cases nucleus components can be identified only by DHM phase contrast.

CT contrast extravasation in the upper extremity: strategies for management.

PubMed

Sbitany, Hani; Koltz, Peter F; Mays, Chester; Girotto, John A; Langstein, Howard N

2010-01-01

Extravasation of CT scan contrast media into upper extremity subcutaneous tissue is a relatively frequent complication of injection. Potential sequelae of extravasation include compartment syndrome, skin sloughing, and necrosis. Many institutions institute protocols requiring inpatient plastic surgery consultations immediately following extravasation injury to the upper extremity. We hypothesize that conversion to non-ionic contrast media for contrast CT studies has greatly reduced the incidence of severe extravasation injuries, and may alleviate the need for routine hand surgery consultations. Records from 102 consecutive CT contrast media extravasation injuries were identified. Data acquired from a single institution included type and amount of contrast extravasated, anatomic location, post-procedural clinical symptoms, whether consult was obtained, and final recommendations and outcome. In 102 consecutive cases, immediate surgical therapy was necessary in 0. Non-ionic medium was used in 94% of these cases, and ionic dye was used in 6%. Extravasation of less than 100 cc occurred in 90%, and only 10% were greater. Plastic surgery consultation was immediately obtained in 42% of cases. Factors prompting consultation included extravasation >30 cc, and the presence of erythema or induration. Trends for consultation remained without discernable pattern when patients were stratified by age, amount of extravasate, or anatomic location. Conservative management was recommended in all cases. This included elevation of the extremity, frequent pulse and sensation exams, local message, and temporary splinting. There were no secondary complications requiring surgical intervention. Extravasation of non-ionic CT contrast media appears to be innocuous and can be treated with conservative therapy. Plastic surgery consultation should be obtained when there are obvious signs of skin and soft tissue compromise or symptoms of compartment syndrome. Copyright 2010 Surgical Associates Ltd. Published by Elsevier Ltd. All rights reserved.

Trace element distribution in the water and sediments of certain storage lakes from the Jijia catchment, (Romania)

NASA Astrophysics Data System (ADS)

Dughila, A.; Iancu, O. G.; Romanescu, G. T.

2012-04-01

The present study aims at investigating the concentrations and distribution levels of a series of trace elements in water and sediment samples collected from six storage lakes located in the Jijia catchment - NE of Romania. The lakes are multi-purpose water reservoirs, three of them being mainly used as a source of municipal drinking water, or for fishing, irrigation for the farms in the area, protection against floods and the regulation of river flows. By contrast, agricultural wastes, fertilizers, raw sewage effluents and road runoff constitute the predominant anthropogenic sources, which supply the lakes in question with Cd, Cu, Pb and Zn. The present study was conducted on a series of 63 sediment samples and 18 water samples, collected from the same locations, in order to establish the distribution levels of certain trace elements from the water through sediments. Sediment cores were collected from two sections across each lake by means of a motor boat, using a system that consists of a graduated sampling tube (0.9 m in length and 72.5 mm in diameter) made of Plexiglas (Eijkelkamp sample tube guide). Prior to the analyses, the samples were air-dried, ground and homogenized using an agate mortar, oven-dried at 50 °C for 6 days and then sieved through 63 µm sieves. The sediment and water samples were subjected to a digestion technique with concentrated nitric acid using a microwave oven (Berghof type), and analyzed for the following elements: Pb, Zn, Cu, Cd, Cr and Ni. The total concentration of the elements was measured through atomic absorption spectrometry (AAS) with an RSD of < 10 % from solutions. The vertical distribution of most elements in the cores examined could be characterized as relatively uniform, with higher concentrations for those collected from the lakes which are more influenced by anthropogenic factors, compared to those situated in forested areas. The lake-water quality characteristics were below the recommended drinking water standards imposed by the current legislation (MMGA Ord. No. 161/16.02.2006 - Normative regarding the classification of surface waters in order to establish the ecological status of water bodies, which combines European and Romanian provisions), with the exception of copper (with very high concentrations in all the water samples), lead and cadmium. Keywords: AAS, Jijia catchment (Romania), lake water, sediment core, trace elements

100 Area Columbia River sediment sampling

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

Weiss, S.G.

1993-09-08

Forty-four sediment samples were collected from 28 locations in the Hanford Reach of the Columbia River to assess the presence of metals and man-made radionuclides in the near shore and shoreline settings of the Hanford Site. Three locations were sampled upriver of the Hanford Site plutonium production reactors. Twenty-two locations were sampled near the reactors. Three locations were sampled downstream of the reactors near the Hanford Townsite. Sediment was collected from depths of 0 to 6 in. and between 12 to 24 in. below the surface. Samples containing concentrations of metals exceeding the 95 % upper threshold limit values (DOE-RLmore » 1993b) are considered contaminated. Contamination by arsenic, chromium, copper, lead, and zinc was found. Man-made radionuclides occur in all samples except four collected opposite the Hanford Townsite. Man-made radionuclide concentrations were generally less than 1 pCi/g.« less

Simultaneous Scanning Electron Microscope Imaging of Topographical and Chemical Contrast Using In-Lens, In-Column, and Everhart-Thornley Detector Systems.

PubMed

Zhang, Xinming; Cen, Xi; Ravichandran, Rijuta; Hughes, Lauren A; van Benthem, Klaus

2016-06-01

The scanning electron microscope provides a platform for subnanometer resolution characterization of material morphology with excellent topographic and chemical contrast dependent on the used detectors. For imaging applications, the predominantly utilized signals are secondary electrons (SEs) and backscattered electrons (BSEs) that are emitted from the sample surface. Recent advances in detector technology beyond the traditional Everhart-Thornley geometry have enabled the simultaneous acquisition and discrimination of SE and BSE signals. This study demonstrates the imaging capabilities of a recently introduced new detector system that consists of the combination of two in-lens (I-L) detectors and one in-column (I-C) detector. Coupled with biasing the sample stage to reduce electron-specimen interaction volumes, this trinity of detector geometry allows simultaneous acquisition of signals to distinguish chemical contrast from topographical changes of the sample, including the identification of surface contamination. The I-C detector provides 4× improved topography, whereas the I-L detector closest to the sample offers excellent simultaneous chemical contrast imaging while not limiting the minimization of working distance to obtain optimal lateral resolution. Imaging capabilities and contrast mechanisms for all three detectors are discussed quantitatively in direct comparison to each other and the conventional Everhart-Thornley detector.

True non-contact atomic force microscopy imaging of heterogeneous biological samples in liquids: topography and material contrast.

PubMed

Almonte, Lisa; Colchero, Jaime

2017-02-23

The present work analyses how the tip-sample interaction signals critically determine the operation of an Atomic Force Microscope (AFM) set-up immersed in liquid. On heterogeneous samples, the conservative tip-sample interaction may vary significantly from point to point - in particular from attractive to repulsive - rendering correct feedback very challenging. Lipid membranes prepared on a mica substrate are analyzed as reference samples which are locally heterogeneous (material contrast). The AFM set-up is operated dynamically at low oscillation amplitude and all available experimental data signals - the normal force, as well as the amplitude and frequency - are recorded simultaneously. From the analysis of how the dissipation (oscillation amplitude) and the conservative interaction (normal force and resonance frequency) vary with the tip-sample distance we conclude that dissipation is the only appropriate feedback source for stable and correct topographic imaging. The normal force and phase then carry information about the sample composition ("chemical contrast"). Dynamic AFM allows imaging in a non-contact regime where essentially no forces are applied, rendering dynamic AFM a truly non-invasive technique.

Characterization of AA2024-T3 by scanning Kelvin probe force microscopy

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

Schmutz, P.; Frankel, G.S.

1998-07-01

Volta potential mapping of AA2024-T3 on surfaces was performed with an atomic force microscope. A linear relation was found between the Volta potential measured in air and the corrosion potential in aqueous solution for a range of pure metal samples, indicating that this potential is a measurement of the practical nobility of the surface. Large differences in the Volta potential of intermetallic particles in AA2024-T3 and the matrix phase resulted in a potential map with high contrast that clearly identifies the location of the particles. All intermetallic particles, including the Mg-containing S-phase particles, had a Volta potential noble to thatmore » of the matrix. Surface films on the particles and the matrix were found to have strong effects on the potential, and probably explain the noble nature of the Mg-containing particles, which have been reported to be active to the matrix in solution. The effect of these surface films was examined by refreshing the sample surface using different techniques. Lateral heterogeneities in certain intermetallic particles were also revealed.« less

Ultrastructural study of iron oxide precipitates: implications for the search for biosignatures in the Meridiani hematite concretions, Mars.

PubMed

Souza-Egipsy, Virginia; Ormö, Jens; Beitler Bowen, Brenda; Chan, Marjorie A; Komatsu, Goro

2006-08-01

Two terrestrial environments that have been proposed as analogs for the iron oxide precipitation in the Meridiani Planum region of Mars include the Rio Tinto precipitates and southern Utah marble concretions. Samples of two typical Utah iron oxide concretions and iron oxide precipitates in contact with biofilms from Rio Tinto have been studied to determine whether evidence could be found for biomediation in the precipitation process and to identify likely locations for fossil microorganisms. Scanning electron microscopy, energy dispersive X-ray, and gas chromatography-mass spectrometry (GC-MS) were used to search for biosignatures in the Utah marbles. The precipitation of iron oxides resembles known biosignatures, though organic compounds could not be confirmed with GC-MS analysis. In contrast, textural variations induced by biological activity are abundant in the modern Rio Tinto samples. Although no compelling evidence of direct or indirect biomediation was found in the Utah marbles, the ultrastructure of the iron oxide cement in the concretion suggests an inward growth during concretion precipitation from an initially spherical redox front. No indication for growth from a physical nucleus was found.

Data Validation Package November 2015 Groundwater and Surface Water Sampling at the Old and New Rifle, Colorado, Processing Sites February 2016

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

Bush, Richard; Lemke, Peter

Water samples were collected from 36 locations at New Rifle and Old Rifle, Colorado, Processing Sites. Duplicate samples were collected from New Rifle locations 0659 and 0855, and Old Rifle location 0304. One equipment blank was collected after decontamination of non-dedicated equipment used to collect one surface water sample. Sampling and analyses were conducted as specified in the Sampling and Analysis Plan for U.S. Department of Energy Office of Legacy Management Sites (LMS/PRO/S04351, continually updated). New Rifle Site Samples were collected at the New Rifle site from 16 monitoring wells and 7 surface locations in compliance with the December 2008more » Groundwater Compliance Action Plan [GCAP] for the New Rifle, Colorado, Processing Site (LMS/RFN/S01920), with one exception: New Rifle location 0635 could not be sampled because it was inaccessible; a fence installed by the Colorado Department of Transportation prevents access to this location. DOE is currently negotiating access with the Colorado Department of Transportation. Analytes measured at the New Rifle site included contaminants of concern (COCs) (arsenic, molybdenum, nitrate + nitrite as nitrogen, selenium, uranium, and vanadium) ammonia as nitrogen, major cations, and major anions. Field measurements of total alkalinity, oxidation- reduction potential, pH, specific conductance, turbidity, and temperature were made at each location, and the water level was measured at each sampled well. A proposed alternate concentration limit (ACL) for vanadium of 50 milligrams per liter (mg/L), specific to the compliance (POC) wells (RFN-0217, -0659, -0664, and -0669) is included in the New Rifle GCAP. Vanadium concentrations in the POC wells were below the proposed ACL as shown in the time-concentration graphs in the Data Presentation section (Attachment 2). Time-concentration graphs from all other locations sampled are also included in Attachment 2. Sampling location RFN-0195 was misidentified for the June/August 2014 and November 2014 sampling events. (Well RFN-0609 was inadvertently sampled instead of RFN-0195 in 2014.) The results for RFN-0195 have been corrected, and are included in associated time-concentration graphs for this location. Recent results for RFN-0195 are consistent with established trends with the possible exception of vanadium. The most recent result for vanadium showed an increase over recent values. Vanadium concentrations at RFN-0195 and other locations will continue to be evaluated in the future to determine the potential for deviations from established trends. The surface water locations were sampled to monitor the impact of groundwater discharge. COC concentrations at Colorado River surface water locations RFN-0324 and RFN-0326, downgradient of the site, remained low and were consistent with historical results, as shown in the time-concentration graphs. COC concentrations did not indicate there are any impacts related to groundwater discharge to the river. In many cases, elevated COC concentrations at the New Rifle site pond locations were observed, as shown in the time-versus concentration graphs. As noted in the GCAP, this indicates impacts from groundwater discharge to the ponds. Old Rifle Site Samples were collected at the Old Rifle site from eight monitoring wells and five surface locations in compliance with the December 2001 Groundwater Compliance Action Plan for the Old Rifle, Colorado, UMTRA Project Site (GJ0-2000-177-TAR). Analytes measured at the Old Rifle site included COCs (selenium, uranium, and vanadium), major cations, and major anions. Field measurements of total alkalinity, oxidation-reduction potential, pH, specific conductance, turbidity, temperature, were made at each location, and the water level was measured at each sampled well. The monitoring strategy described in the GCAP is designed to determine progress of the natural flushing process in meeting compliance standards for site COCs. Standards for selenium and vanadium are the proposed ACLs of0.05 mg/L and 1.0 mg/L, respectively. For uranium the cleanup goal is the UMTRA standard of 0.044 mg/L or background, whichever is higher. As shown in the time concentration graphs, the uranium concentration exceeds the cleanup goal at groundwater monitoring locations RF0-0304, -0305, -0310, -0655, and -0656. The surface water locations were sampled to monitor the impact of groundwater discharge at Colorado River surface water locations adjacent to (RF0-0396) and downgradient of the site (RF0-0741). COC concentrations remain low and consistent with historical concentrations as shown in the time-concentration graphs (Attachment 2), which indicate no impacts from groundwater discharge to the river.« less

3D widefield light microscope image reconstruction without dyes

NASA Astrophysics Data System (ADS)

Larkin, S.; Larson, J.; Holmes, C.; Vaicik, M.; Turturro, M.; Jurkevich, A.; Sinha, S.; Ezashi, T.; Papavasiliou, G.; Brey, E.; Holmes, T.

2015-03-01

3D image reconstruction using light microscope modalities without exogenous contrast agents is proposed and investigated as an approach to produce 3D images of biological samples for live imaging applications. Multimodality and multispectral imaging, used in concert with this 3D optical sectioning approach is also proposed as a way to further produce contrast that could be specific to components in the sample. The methods avoid usage of contrast agents. Contrast agents, such as fluorescent or absorbing dyes, can be toxic to cells or alter cell behavior. Current modes of producing 3D image sets from a light microscope, such as 3D deconvolution algorithms and confocal microscopy generally require contrast agents. Zernike phase contrast (ZPC), transmitted light brightfield (TLB), darkfield microscopy and others can produce contrast without dyes. Some of these modalities have not previously benefitted from 3D image reconstruction algorithms, however. The 3D image reconstruction algorithm is based on an underlying physical model of scattering potential, expressed as the sample's 3D absorption and phase quantities. The algorithm is based upon optimizing an objective function - the I-divergence - while solving for the 3D absorption and phase quantities. Unlike typical deconvolution algorithms, each microscope modality, such as ZPC or TLB, produces two output image sets instead of one. Contrast in the displayed image and 3D renderings is further enabled by treating the multispectral/multimodal data as a feature set in a mathematical formulation that uses the principal component method of statistics.

Assessment of need for transport tubes when continuously monitoring for radioactive aerosols.

PubMed

Whicker, J J; Rodgers, J C; Lopez, R C

1999-09-01

Aerosol transport tubes are often used to draw aerosol from desirable sampling locations to nearby air sampling equipment that cannot be placed at that location. In many plutonium laboratories at Los Alamos National Laboratory, aerosol transport tubes are used to transport aerosol from the front of room ventilation exhaust registers to continuous air monitors (CAMs) that are mounted on nearby walls. Transport tubes are used because past guidance suggests that extraction of aerosol samples from exhaust locations provides the most sensitive and reliable detection under conditions where the rooms have unpredictable release locations and significant spatial variability in aerosol concentrations after releases, and where CAMs cannot be located in front of exhaust registers without blocking worker walkways. Despite designs to minimize particle loss in tubes, aerosol transport model predictions suggest losses occur lowering the sensitivity of CAMs to accidentally released plutonium aerosol. The goal of this study was to test the hypotheses that the reliability, speed, and sensitivity of aerosol detection would be equal whether the sample was extracted from the front of the exhaust register or from the wall location of CAMs. Polydisperse oil aerosols were released from multiple locations in two plutonium laboratories to simulate plutonium aerosol releases. Networked laser particle counters (LPCs) were positioned to simultaneously measure time-resolved aerosol concentrations at each exhaust register (representative of sampling with transport tubes) and at each wall-mounted CAM location (representative of sampling without transport tubes). Results showed no significant differences in detection reliability, speed, or sensitivity for LPCs positioned at exhaust locations when compared to LPCs positioned at the CAM wall location. Therefore, elimination of transport tubes would likely improve CAM performance.

Target-specific contrast agents for magnetic resonance microscopy

PubMed Central

Blackwell, Megan L.; Farrar, Christian T.; Fischl, Bruce; Rosen, Bruce R.

2009-01-01

High-resolution ex vivo magnetic resonance (MR) imaging can be used to delineate prominent architectonic features in the human brain, but increased contrast is required to visualize more subtle distinctions. To aid MR sensitivity to cell density and myelination, we have begun the development of target-specific paramagnetic contrast agents. This work details the first application of luxol fast blue (LFB), an optical stain for myelin, as a white matter-selective MR contrast agent for human ex vivo brain tissue. Formalin-fixed human visual cortex was imaged with an isotropic resolution between 80 and 150 μm at 4.7 and 14 T before and after en bloc staining with LFB. Longitudinal (R1) and transverse (R2) relaxation rates in LFB-stained tissue increased proportionally with myelination at both field strengths. Changes in R1 resulted in larger contrast-to-noise ratios (CNR), per unit time, on T1-weighted images between more myelinated cortical layers (IV–VI) and adjacent, superficial layers (I–III) at both field strengths. Specifically, CNR for LFB-treated samples increased by 229±13% at 4.7 T and 269±25% at 14 T when compared to controls. Also, additional cortical layers (IVca, IVd, and Va) were resolvable in 14T-MR images of LFB-treated samples but not in control samples. After imaging, samples were sliced in 40-micron sections, mounted, and photographed. Both the macroscopic and microscopic distributions of LFB were found to mimic those of traditional histological preparations. Our results suggest target-specific contrast agents will enable more detailed MR images with applications in imaging pathological ex vivo samples and constructing better MR atlases from ex vivo brains. PMID:19385012

River Flow Impacts Bacterial and Archaeal Community Structure in Surface Sediments in the Northern Gulf of Mexico.

PubMed

Ortmann, Alice C; Brannock, Pamela M; Wang, Lei; Halanych, Kenneth M

2018-04-17

Meiobenthic community structure in the northern Gulf of Mexico has been shown to be driven by geographical differences due to inshore-offshore gradients and location relative to river discharge. Samples collected along three transects spanning Mobile Bay, Alabama, showed significant differences in meiobenthic communities east of the bay compared to those sampled from the west. In contrast, analysis of bacterial and archaeal communities from the same sediment samples shows that the inshore-offshore gradient has minimal impact on their community structure. Significant differences in community structure were observed for Bacteria and Archaea between the east and west samples, but there was no difference in richness or diversity. Grouped by sediment type, higher richness was observed in silty samples compared to sandy samples. Significant differences were also observed among sediment types for community structure with bacteria communities in silty samples having more anaerobic sulfate reducers compared to aerobic heterotrophs, which had higher abundances in sandy sediments. This is likely due to increased organic matter in the silty sediments from the overlying river leading to low oxygen habitats. Most archaeal sequences represented poorly characterized high-level taxa, limiting interpretation of their distributions. Overlap between groups based on transect and sediment characteristics made determining which factor is more important in structuring bacterial and archaeal communities difficult. However, both factors are driven by discharge from the Mobile River. Although inshore-offshore gradients do not affect Bacteria or Archaea to the same extent as the meiobenthic communities, all three groups are strongly affected by sediment characteristics.

Evaluating sourcing and fluvial integration of plant wax biomarkers from the Peruvian Andes to Amazonian lowlands

NASA Astrophysics Data System (ADS)

Wu, M. S.; Feakins, S. J.; Ponton, C.; West, A. J.; Galy, V.

2017-12-01

The carbon and hydrogen isotopic compositions (respectively δ13C and δD) of plant wax biomarkers have been widely used to reconstruct past climate and environment. To understand how leaf waxes are sourced within a river catchment, and how their isotopic signature is transferred from source to sink, we study δ13C and δD of C29 n-alkanes and C30 n-alkanoic acids in the Madre de Dios River catchment along the eastern flank of the Peruvian Andes. We sampled soils across a 3.5km elevation transect and find gradients in δ13Cwax (ca. +1.5‰/km) and δDwax (ca. -10 ‰/km) similar to gradients in tree canopy leaves (Feakins et al., 2016 GCA; Wu et al., 2017 GCA). We also collected river suspended sediment samples along the Madre de Dios River and its tributaries, which together drain an area of 75,400 km2 and 6 km of elevation. We utilize soil data and a digital elevation model to construct isoscapes, delineate catchments for each river sampling location, predict river values assuming spatial uniform integration, and compare our predictions with observed values. Although both compounds generally follow isotopic gradients defined by catchment elevations, the dual isotope and compound-class comparison reveals additional processes. For C30 n-alkanoic acid we find an up to 1km lower-than-expected catchment signal, indicating degradation of upland contributions in transit and replacement with lowland inputs. In contrast, mountain-front river locations are susceptible to upland-biases (up to 1km higher sourcing) in C29 n-alkane sourcing, likely due to enhanced erosion and higher leaf wax stock in Andean soil compared to the lowland, and greater persistence of n-alkanes than n-alkanoic acids. For both compounds, the bias is eliminated with several hundred km of river transit across the floodplain. In one location, we identify significant petrogenic contamination of n-alkanes but not n-alkanoic acids. These results indicate the power in combining dual compound classes and dual isotopes to analyze source-to-sink processes and to evaluate sourcing of river exported plant wax biomarkers.

CFD modelling of sampling locations for early detection of spontaneous combustion in long-wall gob areas.

PubMed

Yuan, Liming; Smith, Alex C

In this study, computational fluid dynamics (CFD) modeling was conducted to optimize gas sampling locations for the early detection of spontaneous heating in longwall gob areas. Initial simulations were carried out to predict carbon monoxide (CO) concentrations at various regulators in the gob using a bleeder ventilation system. Measured CO concentration values at these regulators were then used to calibrate the CFD model. The calibrated CFD model was used to simulate CO concentrations at eight sampling locations in the gob using a bleederless ventilation system to determine the optimal sampling locations for early detection of spontaneous combustion.

Window of visibility - A psychophysical theory of fidelity in time-sampled visual motion displays

NASA Technical Reports Server (NTRS)

Watson, A. B.; Ahumada, A. J., Jr.; Farrell, J. E.

1986-01-01

A film of an object in motion presents on the screen a sequence of static views, while the human observer sees the object moving smoothly across the screen. Questions related to the perceptual identity of continuous and stroboscopic displays are examined. Time-sampled moving images are considered along with the contrast distribution of continuous motion, the contrast distribution of stroboscopic motion, the frequency spectrum of continuous motion, the frequency spectrum of stroboscopic motion, the approximation of the limits of human visual sensitivity to spatial and temporal frequencies by a window of visibility, the critical sampling frequency, the contrast distribution of staircase motion and the frequency spectrum of this motion, and the spatial dependence of the critical sampling frequency. Attention is given to apparent motion, models of motion, image recording, and computer-generated imagery.

Scanned-probe field-emission studies of vertically aligned carbon nanofibers

NASA Astrophysics Data System (ADS)

Merkulov, Vladimir I.; Lowndes, Douglas H.; Baylor, Larry R.

2001-02-01

Field emission properties of dense and sparse "forests" of randomly placed, vertically aligned carbon nanofibers (VACNFs) were studied using a scanned probe with a small tip diameter of ˜1 μm. The probe was scanned in directions perpendicular and parallel to the sample plane, which allowed for measuring not only the emission turn-on field at fixed locations but also the emission site density over large surface areas. The results show that dense forests of VACNFs are not good field emitters as they require high extracting (turn-on) fields. This is attributed to the screening of the local electric field by the neighboring VACNFs. In contrast, sparse forests of VACNFs exhibit moderate-to-low turn-on fields as well as high emission site and current densities, and long emission lifetime, which makes them very promising for various field emission applications.

Elemental, stable isotopic and biochemical characterization of soil organic matter alteration across a natural peatland gradient

NASA Astrophysics Data System (ADS)

Cowie, G.; Mowbray, S.; Belyea, L.; Laing, C.; Allton, K.; Abbott, G.; Muhammad, A.

2010-12-01

Northern peatlands store around one third of global soil C and thus represent a key reservoir. To elucidate how these systems might respond to climate change, field- and laboratory-based experimental incubation studies are being conducted at sites across a natural peatland gradient in the boreonemoral zone of central Sweden (Ryggmossen). The site comprises four successional stages, from edge to centre; Swamp Forest (SF), Lagg Fen (LF), Bog Margin (BM) and Bog Plateau (BP). The well-preserved succession shows strong decreases in mineral cations and pH, and distinct changes in vegetation and water-table depth. As an underpinning to these experiments, comprehensive characterization of natural soil organic matter (SOM) alteration has been carried out through detailed analyses of vegetation and downcore profiles at contrasting topographic sites (hummock vs hollow) in each of the four locations. As illustrated in Figure 1, while some similarities occur in downcore trends, contrasts are observed in C and N elemental and stable isotopic compositions, between stages and, in some cases, between microtopographic settings. Downcore trends and intersite differences are also observed in biochemical yields and molecular composition (carbohydrates, amino acids, phenols, lipids and D/L amino acid ratios). These reflect SOM decay and alteration combined with the effects of contrasting hydrologic, redox and nutrient regimes and differing vegetation and microbial inputs at each of the study sites. Multivariate analysis is used to to elucidate compositional patterns that characterize and delineate progressive SOM decay, specific vegetation types, and the effects of contrasting environmental conditions at the different sites. Figure 1. A. Organic carbon content (wt %), B. Atomic ratio of organic C to total N, C. Stable C isotopic composition of organic C (d13Corg), and D. Stable N isotopic composition of total nitrogen (d15N), all for core profiles from contrasting settings (hummock and hollow) at locations spanning a peatland gradient. Site locations are defined in the text.

Substrate Variations and its Relationship and Impact on the Distribution of Eelgrass Beds in Griffin Bay, Washington

NASA Astrophysics Data System (ADS)

Sopha, A.; Greene, H.; Wyllie-Echeverria, S.; Harmsen, F. J.

2010-12-01

Eelgrass is considered an important indicator species for the health of the oceans; it provides nearshore habitat to many marine organisms and also acts as a source of protection for migrating populations of juvenile salmon and other fish species including forage fish. Since the late 1980s, there has been a drastic decline in eelgrass beds within the surrounding marine areas of Washington State; specifically in the species Zostera marina. Previous studies have focused on potential impacts such as bacterial infections and loss of sunlight from docks, shoreline tree canopy overgrowth and permanently anchored boats. In specific locations, sawmill waste has prevented the regeneration of eelgrass. In this study, sediment samples, along with video transects, were collected from Griffin Bay, Washington, located within the San Juan Archipelago to determine if substrate conditions have any impact on the distribution, appearance, disappearance, and health of the eelgrass beds. Initial findings indicate that in fact, eelgrass is increasing with growth beyond the area in which their distribution was previously documented. This is in contrast to other areas where eelgrass is in decline. Final results have yet to be analyzed.

Software-aided automatic laser optoporation and transfection of cells

PubMed Central

Georg Breunig, Hans; Uchugonova, Aisada; Batista, Ana; König, Karsten

2015-01-01

Optoporation, the permeabilization of a cell membrane by laser pulses, has emerged as a powerful non-invasive and highly efficient technique to induce transfection of cells. However, the usual tedious manual targeting of individual cells significantly limits the addressable cell number. To overcome this limitation, we present an experimental setup with custom-made software control, for computer-automated cell optoporation. The software evaluates the image contrast of cell contours, automatically designates cell locations for laser illumination, centres those locations in the laser focus, and executes the illumination. By software-controlled meandering of the sample stage, in principle all cells in a typical cell culture dish can be targeted without further user interaction. The automation allows for a significant increase in the number of treatable cells compared to a manual approach. For a laser illumination duration of 100 ms, 7-8 positions on different cells can be targeted every second inside the area of the microscope field of view. The experimental capabilities of the setup are illustrated in experiments with Chinese hamster ovary cells. Furthermore, the influence of laser power is discussed, with mention on post-treatment cell survival and optoporation-efficiency rates. PMID:26053047

Inter-laboratory assessment by trained panelists from France and the United Kingdom of beef cooked at two different end-point temperatures.

PubMed

Gagaoua, Mohammed; Micol, Didier; Picard, Brigitte; Terlouw, Claudia E M; Moloney, Aidan P; Juin, Hervé; Meteau, Karine; Scollan, Nigel; Richardson, Ian; Hocquette, Jean-François

2016-12-01

Eating quality of the same meat samples from different animal types cooked at two end-point cooking temperatures (55°C and 74°C) was evaluated by trained panels in France and the United Kingdom. Tenderness and juiciness scores were greater at 55°C than at 74°C, irrespective of the animal type and location of the panel. The UK panel, independently of animal type, gave greater scores for beef flavour (+7 to +24%, P<0.001) but lower scores for abnormal flavour (-10 to -17%, P<0.001) at 74°C. Abnormal flavour score by the French panel was higher at 74°C than at 55°C (+26%, P<0.001). Irrespective of the data set, tenderness was correlated with juiciness and beef flavour. Overall, this study found that cooking beef at a lower temperature increased tenderness and juiciness, irrespective of the location of the panel. In contrast, cooking beef at higher temperatures increased beef flavour and decreased abnormal flavour for the UK panelists but increased abnormal flavour for the French panel. Copyright © 2016 Elsevier Ltd. All rights reserved.

A benthic-macroinvertebrate index of biotic integrity and assessment of conditions in selected streams in Chester County, Pennsylvania, 1998-2009

USGS Publications Warehouse

Reif, Andrew G.

2012-01-01

The Stream Conditions of Chester County Biological Monitoring Network (Network) was established by the U.S. Geological Survey and the Chester County Water Resources Authority in 1969. Chester County encompasses 760 square miles in southeastern Pennsylvania and has a rapidly expanding population. Land-use change has occurred in response to this continual growth, as open space, agricultural lands, and wooded lands have been converted to residential and commercial lands. In 1998, the Network was modified to include 18 fixed-location sites and 9 flexible-location sites. Sites were sampled annually in the fall (October-November) during base-flow conditions for water chemistry, instream habitat, and benthic macroinvertebrates. A new set of 9 flexible-location sites was selected each year. From 1998 to 2009, 213 samples were collected from the 18 fixed-location sites and 107 samples were collected from the 84 flexible-location sites. Eighteen flexible-location sites were sampled more than once over the 12-year period; 66 sites were sampled only once. Benthic-macroinvertebrate data from samples collected during 1998-2009 were used to establish the Chester County Index of Biotic Integrity (CC-IBI). The CC-IBI was based on the methods and metrics outlined in the Pennsylvania Department of Environmental Protection's "A Benthic Index of Biotic Integrity for Wadeable Freestone Streams in Pennsylvania." The resulting CC-IBI consists of scores for benthic-macroinvertebrate samples collected from sites in the Network that related to reference conditions in Chester County. Mean CC-IBI scores for 18 fixed-location sites ranged from 37.21 to 88.92. Thirty-nine percent of the 213 samples collected at the 18 fixed-location sites had a CC-IBI score less than 50; 33 percent, 50 to 70; 28 percent, greater than 70. CC-IBI scores from the 107 flexible-location samples ranged from 23.48 to 99.96. Twenty-five percent of the 107 samples collected at the flexible-location sites had a CC-IBI score less than 50; 33 percent, 50 to 70; and 42 percent, greater than 70. Factors that were found to affect CC-IBI scores are nutrient concentrations, habitat conditions, and percent of wooded and urban land use. A positive relation was determined between mean CC-IBI scores and mean total habitat scores for the 18 fixed-location sites. CC-IBI scores were most strongly affected by stream bank vegetative protection, embeddedness, riparian zone width, and sediment deposition. The highest CC-IBI scores were associated with sites that had greater than 28 percent wooded-wetland-water land use, less than 5 percent urban land use, and no municipal wastewater discharges within 10 miles upstream from the sampling site. The lowest CC-IBI scores were associated with sites where urban land use was greater than 15 percent or a municipal wastewater discharge was within 10 miles upstream from the sampling reach. The Mann Kendall test for trends was used to determine trends in CC-IBI scores and concentrations of nitrate, orthophosphate, and chloride for the 18 fixed-location sites. A positive trend in CC-IBI was determined for six sites, and a negative trend was determined for one site. Positive trends in nitrate concentrations were determined for 4 of the 18 fixed-location sites, and a negative trend in orthophosphate concentrations was determined for 1 of the 18 fixed-location sites. Positive trends in chloride concentrations were determined for 16 of the 18 fixed-location sites.

Tracing the origin of dissolved organic matter (DOM) in subterranean estuaries using colored DOM and amino acids

NASA Astrophysics Data System (ADS)

Kim, T.; Kwon, E.; Kim, G.

2011-12-01

In order to determine the origin of dissolved organic matter (DOM) in the subterranean estuary (STE), the mixing zone of fresh terrestrial groundwater and recirculating seawater in a coastal permeable aquifer, we conducted water sampling from two STEs with different geological settings: (1) Jeju Island beaches (Hwasun and Samyang), which are composed of volcanic rocks and sandy sediments, and (2) Hampyeong beach, which is located in a large intertidal, sandy flat zone. The distributions of salinity, total hydrolysable amino acids (THAA), dissolved organic carbon (DOC), and colored DOM (CDOM) were measured for groundwater samples in these STEs. In the Hwasun STE, the humic-like peak decreases with increasing salinity, whereas the protein-like peak does not show a clear relationship with salinity. In contrast, in the Samyang STE, both humic-like peak and protein-like peak increase with increasing salinity. These contrasting results indicate that DOM in the Hwasun STE originates mainly from terrestrial inputs, while that in the Samyang STE originates mainly from biological and/or microbial activities. In the Hampyeong STE, we observed good correlations among the biodegradation index, alanine D/L ratios, THAA concentrations, DOC, and CDOM index (both humic-like and protein-like). Together with their geographical distribution patterns, these correlations indicate that DOM in the Hampyeong STE is mainly derived from marine sediments in the course of seawater recirculation. Our study shows that CDOM and amino acids are excellent tracers of DOM in the STE where DOM is derived from diverse sources.

The morphology of blends of linear and branched polyethylenes in solid state by small-angle scattering

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

Wignall, G.D.; Londono, J.D.; Alamo, R.G.

1995-12-01

We have used small-angle neutron and x-ray scattering (SANS And SAXS) to investigate the solid state morphology of blends of high-density and low-density polyethylenes (HDPE and LDPE). The blends are homogenous in the melt as demonstrated by SANS using the contrast obtained by deuterating the linear polymer, though they phase segregate on slow cooling (0.75{degree}C/min). For high concentrations ({theta} {ge} 0.5) of linear polymer, there are separate stacks of HDPE and LDPE lamellae, as indicated by 2-peak SAXS curves. For predominantly branched blends, the phase separation is less complete, and the components are separated within the same lamellar stack, withmore » alternating HDPE and LDPE lamellae. Moreover, the phases no longer consist of the pure components and the HDPE lamellae contain up to 15% LDPE. Rapid quenching into dry-ice/acetone (-78{degree}C) produces only one lamellar stack over the whole concentration range. The blends show extensive cocrystallization with a tendency for the branched material to be preferentially located in the amorphous regions. For high concentrations ({theta} {ge} 0.5) of HDPE-D the overall scattering length density is high and the excess concentration of LDPE between the lamellae enhances the contrast between the crystalline and amorphous phases. Thus, the interlamellar spacing (long period) is clearly visible in the SANS pattern. The blend morphology is a strong function of the quench rate and samples quenched less rapidly (e.g., into water at 23{degree}C) show a similar morphology to slowly cooled samples.« less

Data Validation Package October 2015 Groundwater and Surface Water Sampling at the Monticello, Utah, Processing Site January 2016

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

Nguyen, Jason; Smith, Fred

Sampling Period: October 12–14, 2015. This semiannual event includes sampling groundwater and surface water at the Monticello Mill Tailings Site. Sampling and analyses were conducted as specified in the 2004 Monticello Mill Tailings Site Operable Unit III Post-Record of Decision Monitoring Plan, Draft Final and Sampling and Analysis Plan for U.S. Department of Energy Office of Legacy Management Sites (LMS/PRO/S04351, continually updated). Samples were collected from 52 of 61 planned locations (15 of 17 former mill site wells, 17 of 18 downgradient wells, 9 of 9 downgradient permeable reactive barrier wells, 2 of 7 seeps and wetlands, and 9 ofmore » 10 surface water locations). Locations MW00-07, Seep 1, Seep 2, Seep 3, Seep 5, Seep 6, SW00-01, T01-13, and T01-19 were not sampled because of insufficient water availability. All samples were filtered as specified in the monitoring plan. Duplicate samples were collected from surface water location W3-04 and from monitoring wells 82-08, 92-09, and 92-10. Water levels were measured at all but one sampled well and an additional set of wells. The contaminants of concern (COCs) for the Monticello Mill Tailings Site are arsenic, manganese, molybdenum, nitrate + nitrite as nitrogen (nitrate + nitrite as N), selenium, uranium, and vanadium. Time-concentration graphs of the COCs for all groundwater and surface water locations are included in this report. Locations with COCs that exceeded remediation goals are listed.« less

Determination of geostatistically representative sampling locations in Porsuk Dam Reservoir (Turkey)

NASA Astrophysics Data System (ADS)

Aksoy, A.; Yenilmez, F.; Duzgun, S.

2013-12-01

Several factors such as wind action, bathymetry and shape of a lake/reservoir, inflows, outflows, point and diffuse pollution sources result in spatial and temporal variations in water quality of lakes and reservoirs. The guides by the United Nations Environment Programme and the World Health Organization to design and implement water quality monitoring programs suggest that even a single monitoring station near the center or at the deepest part of a lake will be sufficient to observe long-term trends if there is good horizontal mixing. In stratified water bodies, several samples can be required. According to the guide of sampling and analysis under the Turkish Water Pollution Control Regulation, a minimum of five sampling locations should be employed to characterize the water quality in a reservoir or a lake. The European Union Water Framework Directive (2000/60/EC) states to select a sufficient number of monitoring sites to assess the magnitude and impact of point and diffuse sources and hydromorphological pressures in designing a monitoring program. Although existing regulations and guidelines include frameworks for the determination of sampling locations in surface waters, most of them do not specify a procedure in establishment of monitoring aims with representative sampling locations in lakes and reservoirs. In this study, geostatistical tools are used to determine the representative sampling locations in the Porsuk Dam Reservoir (PDR). Kernel density estimation and kriging were used in combination to select the representative sampling locations. Dissolved oxygen and specific conductivity were measured at 81 points. Sixteen of them were used for validation. In selection of the representative sampling locations, care was given to keep similar spatial structure in distributions of measured parameters. A procedure was proposed for that purpose. Results indicated that spatial structure was lost under 30 sampling points. This was as a result of varying water quality in the reservoir due to inflows, point and diffuse inputs, and reservoir hydromorphology. Moreover, hot spots were determined based on kriging and standard error maps. Locations of minimum number of sampling points that represent the actual spatial structure of DO distribution in the Porsuk Dam Reservoir

Asbestos Exposure Assessment Database

NASA Technical Reports Server (NTRS)

Arcot, Divya K.

2010-01-01

Exposure to particular hazardous materials in a work environment is dangerous to the employees who work directly with or around the materials as well as those who come in contact with them indirectly. In order to maintain a national standard for safe working environments and protect worker health, the Occupational Safety and Health Administration (OSHA) has set forth numerous precautionary regulations. NASA has been proactive in adhering to these regulations by implementing standards which are often stricter than regulation limits and administering frequent health risk assessments. The primary objective of this project is to create the infrastructure for an Asbestos Exposure Assessment Database specific to NASA Johnson Space Center (JSC) which will compile all of the exposure assessment data into a well-organized, navigable format. The data includes Sample Types, Samples Durations, Crafts of those from whom samples were collected, Job Performance Requirements (JPR) numbers, Phased Contrast Microscopy (PCM) and Transmission Electron Microscopy (TEM) results and qualifiers, Personal Protective Equipment (PPE), and names of industrial hygienists who performed the monitoring. This database will allow NASA to provide OSHA with specific information demonstrating that JSC s work procedures are protective enough to minimize the risk of future disease from the exposures. The data has been collected by the NASA contractors Computer Sciences Corporation (CSC) and Wyle Laboratories. The personal exposure samples were collected from devices worn by laborers working at JSC and by building occupants located in asbestos-containing buildings.

[Assessment of temperament with the Infant Behavior Questionnaire Revised (IBQ-R) - the psychometric properties of a German version].

PubMed

Vonderlin, Eva; Ropeter, Anna; Pauen, Sabina

2012-09-01

The Infant Behavior Questionnaire Revised (IBQ-R; Gartstein & Rothbart, 2003) is one of the most common parent-report instruments for assessing infant temperament. This study evaluated the psychometric properties of a German version. We studied item characteristics, internal consistency, and descriptive statistics for all 14 scales in a sample of 7- to 9-month-old infants and their mothers (N = 119). Factor analysis was conducted to identify higher-order relationships between the scales. Item analysis showed mixed corrected item-total correlations. Internal consistencies were all moderate to high. Results of the factor analysis confirmed the two dimensions of Surgency/Extraversion and Negative Affectivity, whereas the dimension Orienting/Regulation was not replicated. In contrast to the American sample, activity level in the German sample loaded on the factor Negative Affectivity. The scales low intensity pleasure and soothability, which loaded on factor Orienting/Regulation in the original version, showed substantial loadings on both dimensions Surgency/Extraversion and Negative Affectivity (inverted), whereas the scale duration of orienting was located on the factor Surgency/Extraversion. The German version of the IBQ-R provides a satisfying instrument for investigating infant temperament. However, further work is needed to improve the methodological quality of the questionnaire. Further research should especially focus on the factor structure of infant temperament. We suggest developing a shorter version and testing it with a larger and more diverse sample.

Occurrence and inputs of perfluoroalkyl substances (PFASs) from rivers and drain outlets to the Bohai Sea, China.

PubMed

Chen, Hong; Wang, Xiaomeng; Zhang, Can; Sun, Ruijun; Han, Jianbo; Han, Gengchen; Yang, Wenchao; He, Xin

2017-02-01

Concentrations of 19 PFASs in riverwater, coastal wastewater and effluents from WWTPs which were directly discharged into the Bohai Sea of China were measured and their inputs to this sea area were calculated accordingly. For riverwater samples, the total PFAS concentrations ranged from 13.1 to 69 238 ng/L. PFAS levels in riverwater collected from Liaoning Province were comparable to those from Shandong Province, while they were two orders of magnitude greater than those from Hebei Province and the city of Tianjin. The dominant PFAS patterns were spatially different. PFBS and PFOA were the predominant PFASs in riverwater samples at sites where fluorochemical industry parks are located in Liaoning Province and Shandong Province, respectively. For other sites, PFOA and PFOS were the most abundant PFASs. In contrast, the total PFAS concentrations in coastal wastewater and effluent samples ranged from 16.7 to 7 522 ng/L and from 13.1 to 319 ng/L, respectively. PFOA was dominant in these samples. Inputs of PFASs to the Bohai Sea via riverine flow, discharge of coastal wastewater and effluents were estimated to be 87.3 tons per year. As compared with coastal wastewater and effluent discharge, riverine input was a major source for the PFAS pollution in the Bohai Sea except for PFBS. Copyright © 2016 Elsevier Ltd. All rights reserved.

A Critical Assessment of Bias in Survey Studies Using Location-Based Sampling to Recruit Patrons in Bars

PubMed Central

Morrison, Christopher; Lee, Juliet P.; Gruenewald, Paul J.; Marzell, Miesha

2015-01-01

Location-based sampling is a method to obtain samples of people within ecological contexts relevant to specific public health outcomes. Random selection increases generalizability, however in some circumstances (such as surveying bar patrons) recruitment conditions increase risks of sample bias. We attempted to recruit representative samples of bars and patrons in six California cities, but low response rates precluded meaningful analysis. A systematic review of 24 similar studies revealed that none addressed the key shortcomings of our study. We recommend steps to improve studies that use location-based sampling: (i) purposively sample places of interest, (ii) utilize recruitment strategies appropriate to the environment, and (iii) provide full information on response rates at all levels of sampling. PMID:26574657

An evaluation of potential sampling locations in a reservoir with emphasis on conserved spatial correlation structure.

PubMed

Yenilmez, Firdes; Düzgün, Sebnem; Aksoy, Aysegül

2015-01-01

In this study, kernel density estimation (KDE) was coupled with ordinary two-dimensional kriging (OK) to reduce the number of sampling locations in measurement and kriging of dissolved oxygen (DO) concentrations in Porsuk Dam Reservoir (PDR). Conservation of the spatial correlation structure in the DO distribution was a target. KDE was used as a tool to aid in identification of the sampling locations that would be removed from the sampling network in order to decrease the total number of samples. Accordingly, several networks were generated in which sampling locations were reduced from 65 to 10 in increments of 4 or 5 points at a time based on kernel density maps. DO variograms were constructed, and DO values in PDR were kriged. Performance of the networks in DO estimations were evaluated through various error metrics, standard error maps (SEM), and whether the spatial correlation structure was conserved or not. Results indicated that smaller number of sampling points resulted in loss of information in regard to spatial correlation structure in DO. The minimum representative sampling points for PDR was 35. Efficacy of the sampling location selection method was tested against the networks generated by experts. It was shown that the evaluation approach proposed in this study provided a better sampling network design in which the spatial correlation structure of DO was sustained for kriging.

High-throughput, high-resolution X-ray phase contrast tomographic microscopy for visualisation of soft tissue

NASA Astrophysics Data System (ADS)

McDonald, S. A.; Marone, F.; Hintermüller, C.; Bensadoun, J.-C.; Aebischer, P.; Stampanoni, M.

2009-09-01

The use of conventional absorption based X-ray microtomography can become limited for samples showing only very weak absorption contrast. However, a wide range of samples studied in biology and materials science can produce significant phase shifts of the X-ray beam, and thus the use of the phase signal can provide substantially increased contrast and therefore new and otherwise inaccessible information. The application of two approaches for high-throughput, high-resolution X-ray phase contrast tomography, both available on the TOMCAT beamline of the SLS, is illustrated. Differential Phase Contrast (DPC) imaging uses a grating interferometer and a phase-stepping technique. It has been integrated into the beamline environment on TOMCAT in terms of the fast acquisition and reconstruction of data and the availability to scan samples within an aqueous environment. The second phase contrast approach is a modified transfer of intensity approach that can yield the 3D distribution of the phase (refractive index) of a weakly absorbing object from a single tomographic dataset. These methods are being used for the evaluation of cell integrity in 3D, with the specific aim of following and analyzing progressive cell degeneration to increase knowledge of the mechanistic events of neurodegenerative disorders such as Parkinson's disease.

Prevalence of mip virulence gene and PCR-base sequence typing of Legionella pneumophila from cooling water systems of two cities in Iran.

PubMed

Ahmadrajabi, Roya; Shakibaie, Mohammad Reza; Iranmanesh, Zahra; Mollaei, Hamid Reza; Sobhanipoor, Mohammad Hossein

2016-07-03

Legionella pneumophila is the primary respiratory pathogen and mostly transmitted to human through water cooling systems and cause mild to severe pneumonia with high mortality rate especially in elderly both in hospitals and community. However, current Legionella risk assessments may be compromised by uncertainties in Legionella detection methods. Here, we investigated the presence of L. pneumophila mip gene in water samples collected from different hospitals cooling towers, nursing homes and building/hotels water coolants from two geographical locations of Iran (Kerman and Bam cities) during summer season of 2015 by both nested and real-time PCR methods. Analysis of the 128 water samples for presence of the mip gene by nested-PCR revealed, 18 (23%) positive cases in Kerman and 7(14%) in Bam. However, when samples were tested by real-time PCR, we identified 4 more new cases of L. pneumophila in the hospitals as well as nursing homes water systems that were missed by nested-PCR. The highest rate of contamination was detected in water obtained from hospitals cooling towers in both the cities (p≤0.05). Dendrogram analysis and clonal relationship by PCR-base sequence typing (SBT) of the L. pneumophila genomic DNAs in Kerman water samples showed close clonal similarities among the isolates, in contrast, isolates identified from Bam city demonstrated two fingerprint patterns. The clones from hospital water samples were more related to the L. pneumophila serogroup- 1.

Prevalence of mip virulence gene and PCR-base sequence typing of Legionella pneumophila from cooling water systems of two cities in Iran

PubMed Central

Ahmadrajabi, Roya; Shakibaie, Mohammad Reza; Iranmanesh, Zahra; Mollaei, Hamid Reza; Sobhanipoor, Mohammad Hossein

2016-01-01

ABSTRACT Legionella pneumophila is the primary respiratory pathogen and mostly transmitted to human through water cooling systems and cause mild to severe pneumonia with high mortality rate especially in elderly both in hospitals and community. However, current Legionella risk assessments may be compromised by uncertainties in Legionella detection methods. Here, we investigated the presence of L. pneumophila mip gene in water samples collected from different hospitals cooling towers, nursing homes and building/hotels water coolants from two geographical locations of Iran (Kerman and Bam cities) during summer season of 2015 by both nested and real-time PCR methods. Analysis of the 128 water samples for presence of the mip gene by nested-PCR revealed, 18 (23%) positive cases in Kerman and 7(14%) in Bam. However, when samples were tested by real-time PCR, we identified 4 more new cases of L. pneumophila in the hospitals as well as nursing homes water systems that were missed by nested-PCR. The highest rate of contamination was detected in water obtained from hospitals cooling towers in both the cities (p≤0.05). Dendrogram analysis and clonal relationship by PCR-base sequence typing (SBT) of the L. pneumophila genomic DNAs in Kerman water samples showed close clonal similarities among the isolates, in contrast, isolates identified from Bam city demonstrated two fingerprint patterns. The clones from hospital water samples were more related to the L. pneumophila serogroup- 1. PMID:27028760

River-aquifer interactions and their relationship to stygofauna assemblages: a case study of the Gwydir River alluvial aquifer (New South Wales, Australia).

PubMed

Menció, A; Korbel, K L; Hose, G C

2014-05-01

In contrast to surface water ecosystems, groundwater ecosystems are usually considered to have relatively stable conditions and physically inert environments. However, many groundwater ecosystems undergo substantial changes through space and time, related to fluxes in groundwater flow, exchange and nutrient imports. In this study we used hydrochemical data to: 1) determine the different hydrogeological conditions in an alluvial system, the shallow Gwydir River alluvial aquifer (located in Northern New South Wales, Australia); and 2) analyze the relationship between hydrochemical conditions and the composition of stygofauna assemblages in the aquifer. Using hydrochemical modeling and multivariate analyses, four main hydrogeological situations were defined as occurring in the aquifer. Bores were classified as having either a high, low or no influence from or exchange with the river. The latter group was further subdivided into those of low and high salinity. Further analysis combining the biological and hydrochemical data identified two main groups of samples. The first group was composed mainly of samples related to the aquifer groundwater which had higher richness and abundance of fauna compared to samples in the second group which was comprised of samples affected by stream water leakage and samples related to the highest salinities. These results suggest that more stable conditions (mainly related to steadier groundwater head levels) and lower nitrate concentrations promoted a more diverse and abundant stygofauna community. Copyright © 2014 Elsevier B.V. All rights reserved.

JPRS Report, Science & Technology, China.

DTIC Science & Technology

1987-07-07

Detector Response , Projection Sampling on the Contrast of CT Reconstructed Images (Qu Jianxiong; ZHONGGUO KEXUE JISHU DAXUE XUEBAO, No 3, Sep 86) 5...Plan’ Update 92 Hunan Soft Sciences Research Association 92 Burgeoning Technology Market .92 Radioactive Waste Depots Set...DETECTOR RESPONSE , PROJECTION SAMPLING ON THE CONTRAST OF CT RECONSTRUCTED IMAGES Hefei ZHONGGUO KEXUE JISHU DAXUE XUEBAO [JOURNAL OF CHINA

Data Validation Package May 2016 Groundwater Sampling at the Lakeview, Oregon, Processing Site August 2016

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

Linard, Joshua; Hall, Steve

2016-08-01

This biennial event includes sampling five groundwater locations (four monitoring wells and one domestic well) at the Lakeview, Oregon, Processing Site. For this event, the domestic well (location 0543) could not be sampled because no one was in residence during the sampling event (Note: notification was provided to the resident prior to the event). Per Appendix A of the Groundwater Compliance Action Plan, sampling is conducted to monitor groundwater quality on a voluntary basis. Sampling and analyses were conducted as specified in the Sampling and Analysis Plan for U.S. Department of Energy Office of Legacy Management Sites (LMS/PRO/S04351, continually updated).more » One duplicate sample was collected from location 0505. Water levels were measured at each sampled monitoring well. The constituents monitored at the Lakeview site are manganese and sulfate. Monitoring locations that exceeded the U.S. Environmental Protection Agency (EPA) Secondary Maximum Contaminant Levels for these constituents are listed in Table 1. Review of time-concentration graphs included in this report indicate that manganese and sulfate concentrations are consistent with historical measurements.« less

Direct Regularization From Co-Registered Contrast MRI Improves Image Quality of MRI-Guided Near-Infrared Spectral Tomography of Breast Lesions.

PubMed

Zhang, Limin; Jiang, Shudong; Zhao, Yan; Feng, Jinchao; Pogue, Brian W; Paulsen, Keith D

2018-05-01

An approach using direct regularization from co-registered dynamic contrast enhanced magnetic reson- ance images was used to reconstruct near-infrared spectral tomography patient images, which does not need image segmentation. 20 patients with mammography/ultrasound confirmed breast abnormalities were involved in this paper, and the resulting images indicated that tumor total hemoglobin concentration contrast differentiated malignant from benign cases (p-value = 0.021). The approach prod- uced reconstructed images, which significantly reduced surface artifacts near the source-detector locations (p-value = 4.16e-6).

Imaging biological tissues with electrical conductivity contrast below 1 S m−1 by means of magnetoacoustic tomography with magnetic induction

PubMed Central

Hu, Gang; Li, Xu; He, Bin

2010-01-01

Magnetoacoustic tomography with magnetic induction (MAT-MI) is a recently introduced imaging modality for noninvasive electrical impedance imaging, with ultrasound imaging resolution and a contrast reflecting the electrical conductivity properties of tissues. However, previous MAT-MI systems can only image samples that are much more conductive than real human or animal tissues. To image real biological tissue samples, a large-current-carrying coil that can give stronger magnetic stimulations and stronger MAT-MI acoustic signals is employed in this study. The conductivity values of all the tissue samples employed in this study are also directly measured using a well calibrated four-electrode system. The experimental results demonstrated the feasibility to image biological tissues with electrical conductivity contrast below 1.0 S∕m using the MAT-MI technique with safe level of electromagnetic energy applied to tissue samples. PMID:20938494

Photo-induced ultrasound microscopy for photo-acoustic imaging of non-absorbing specimens

NASA Astrophysics Data System (ADS)

Tcarenkova, Elena; Koho, Sami V.; Hänninen, Pekka E.

2017-08-01

Photo-Acoustic Microscopy (PAM) has raised high interest in in-vivo imaging due to its ability to preserve the near-diffraction limited spatial resolution of optical microscopes, whilst extending the penetration depth to the mm-range. Another advantage of PAM is that it is a label-free technique - any substance that absorbs PAM excitation laser light can be viewed. However, not all sample structures desired to be observed absorb sufficiently to provide contrast for imaging. This work describes a novel imaging method that makes it possible to visualize optically transparent samples that lack intrinsic photo-acoustic contrast, without the addition of contrast agents. A thin, strongly light absorbing layer next to sample is used to generate a strong ultrasonic signal. This signal, when recorded from opposite side, contains ultrasonic transmission information of the sample and thus the method can be used to obtain an ultrasound transmission image on any PAM.

3D nanoscale imaging of the yeast, Schizosaccharomyces pombe, by full-field transmission X-ray microscopy at 5.4 keV.

PubMed

Chen, Jie; Yang, Yunhao; Zhang, Xiaobo; Andrews, Joy C; Pianetta, Piero; Guan, Yong; Liu, Gang; Xiong, Ying; Wu, Ziyu; Tian, Yangchao

2010-07-01

Three-dimensional (3D) nanoscale structures of the fission yeast, Schizosaccharomyces pombe, can be obtained by full-field transmission hard X-ray microscopy with 30 nm resolution using synchrotron radiation sources. Sample preparation is relatively simple and the samples are portable across various imaging environments, allowing for high-throughput sample screening. The yeast cells were fixed and double-stained with Reynold's lead citrate and uranyl acetate. We performed both absorption contrast and Zernike phase contrast imaging on these cells in order to test this method. The membranes, nucleus, and subcellular organelles of the cells were clearly visualized using absorption contrast mode. The X-ray images of the cells could be used to study the spatial distributions of the organelles in the cells. These results show unique structural information, demonstrating that hard X-ray microscopy is a complementary method for imaging and analyzing biological samples.

Imaging biological tissues with electrical conductivity contrast below 1 S m-1 by means of magnetoacoustic tomography with magnetic induction

NASA Astrophysics Data System (ADS)

Hu, Gang; Li, Xu; He, Bin

2010-09-01

Magnetoacoustic tomography with magnetic induction (MAT-MI) is a recently introduced imaging modality for noninvasive electrical impedance imaging, with ultrasound imaging resolution and a contrast reflecting the electrical conductivity properties of tissues. However, previous MAT-MI systems can only image samples that are much more conductive than real human or animal tissues. To image real biological tissue samples, a large-current-carrying coil that can give stronger magnetic stimulations and stronger MAT-MI acoustic signals is employed in this study. The conductivity values of all the tissue samples employed in this study are also directly measured using a well calibrated four-electrode system. The experimental results demonstrated the feasibility to image biological tissues with electrical conductivity contrast below 1.0 S/m using the MAT-MI technique with safe level of electromagnetic energy applied to tissue samples.

Leadership Challenges in ISS Operations: Lessons Learned from Junior and Senior Mission Control Personnel

NASA Technical Reports Server (NTRS)

Clement, James L.; Ritsher, Jennifer Boyd; Saylor, Stephanie A.; Kanas, Nick

2006-01-01

The International Space Station (ISS) is operated by a multi-national, multi-organizational team that is dispersed across multiple locations, time zones, and work schedules. At NASA, both junior and senior mission control personnel have had to find ways to address the leadership challenges inherent in such work, but neither have had systematic training in how to do so. The goals of this study were to examine the major leadership challenges faced by ISS mission control personnel and to highlight the approaches that they have found most effective to surmount them. We pay particular attention to the approaches successfully employed by the senior personnel and to the training needs identified by the junior personnel. We also evaluate the extent to which responses are consistent across the junior and senior samples. Further, we compare the issues identified by our interview survey to those identified by a standardized questionnaire survey of mission control personnel and a contrasting group of space station crewmembers. We studied a sample of 14 senior ISS flight controllers and a contrasting sample of 12 more junior ISS controllers. Data were collected using a semi-structured qualitative interview and content analyzed using an iterative process with multiple coders and consensus meetings to resolve discrepancies. To further explore the meaning of the interview findings, we also conducted new analyses of data from a previous questionnaire study of 13 American astronauts, 17 Russian cosmonauts, and 150 U.S. and 36 Russian mission control personnel supporting the ISS or Mir space stations. The interview data showed that the survey respondents had substantial consensus on several leadership challenges and on key strategies for dealing with them, and they offered a wide range of specific tactics for implementing these strategies. Interview data from the junior respondents will be presented for the first time at the meeting. The questionnaire data showed that the US mission control sample reported a level of support from their management that compared favorably to national norms. American mission control personnel and Russian crewmembers reported higher supervisor support than American crewmembers and Russian mission control personnel. We will present the specific issues underlying these findings and compare and contrast the results from the two datasets. Although specific to space station personnel, our results are consistent with recent management, cultural, and aerospace research. We aim to use our results to improve training for current and future mission control personnel.

Evaluation of wood structure using GPR with FO method - Effect of moisture, fibers direction and density

NASA Astrophysics Data System (ADS)

Chinh Maï, Tien; Reci, Hamza; Sbartaï, Zoubir Mehdi; Pajewski, Lara; Marciniak, Marian

2017-04-01

This work deals with the potential of GPR method in the evaluation of wood structure in relation with density of wood (different wood species), the orientation of fibers and water content (Maï et al., 2015; Reci et al., 2016). The system of measurements is the georadar type (GPR-ground penetrating radar) composed of an electromagnetic signal generator (SIR 3000 of GSSI), and one couple of antennas, one Transmitter (T) and a Receiver (R) of 1.5GHz center frequency, located in the same box in a fixed distance of 6cm. Six wood samples are tested, three samples of Epicea and three samples of Pine. To compare and analyze the results of dielectric constants, we have used the data on three principal directions (Transvesal, Longitudinal and Radial). We note that the dielectric constant of wood increases with the moisture by mass as a consequence of increasing polarization and the conduction phenomena. This effect is more distinguished when the electric field is polarized parallel to the fibers than in perpendicular direction. The smallest contrasts are observed in the radial direction. We conclude that is more appropriate to evaluate the water content along the parallel direction of fibers. In this case we observe the maximum of contrasts of dielectric contrasts between dry and humidity states. Differences on dielectric constant, spectras and amplitudes are taken between different wood samples. Knowing that the dielectric constant is related to the capacity of polarizing (dependent on the water quantity), the increasing of water content could explain the difference of values obtained for the dielectric constants between two kinds of wood. Acknowledgement The Authors are grateful to COST - European Cooperation in Science and Technology (www.cost.eu) for funding the Action TU1208 "Civil engineering applications of Ground Penetrating Radar" (www.GPRadar.eu). We acknowledge also the French National Research Agency (ANR) for supporting this study through the Xylo-plate project, Equipex XYLOFOREST. References Reci, H., Maï, T. C., Sbartaï, Z.M., Pajewski, L., Kiri, E.: Non-destructive evaluation of moisture content in wood using ground-penetrating radar. Geosci. Instrum. Method. Data Syst., 5, 575-581, 2016. doi:10.5194/gi-5-575-2016. Maï, T. C., Razafindratsima, S., Sbartaï, Z.M., Demontoux, D., Frédéric Bos, F.: Non-destructive evaluation of moisture content of wood material at GPR frequency. Construction and Building Materials 77: 213-217, 2015.

Hippocampus and amygdala morphology in adults with attention-deficit hyperactivity disorder

PubMed Central

Perlov, Evgeniy; Philipsen, Alexandra; Tebartz van Elst, Ludger; Ebert, Dieter; Henning, Juergen; Maier, Simon; Bubl, Emanuel; Hesslinger, Bernd

2008-01-01

Objective Attention-deficit hyperactivity disorder (ADHD) in adulthood is a serious health problem with a prevalence of up to 4%. Limbic structures have been implicated in the genesis of ADHD; it has been suggested that they mediate mood and cognitive disturbances in affected individuals. Recently, a large study involving children and adolescents with ADHD reported bilateral enlargement of the hippocampus and indirect evidence of amygdala volume loss in this patient sample. We sought to test the hypothesis that, like in pediatric patients, there might be hippocampus and amygdala volume abnormalities in adult patients with ADHD. Methods We studied 27 adult patients with ADHD and 27 group-matched healthy volunteers using a 1.5 T magnetic resonance imaging scanner. We manually obtained morphometric measurements of the regions mentioned. Results In contrast to previous findings in children and adolescents, we found no significant differences in hippocampus and amygdala volumes among adults with and without the disorder. Conclusion Findings of hippocampus enlargement and amygdala volume loss are not very stable across different samples of patients with ADHD. Contradictory findings may be related to the different locations of alterations along the complex circuits responsible for the different symptoms of ADHD. Further studies involving larger samples of adult patients with ADHD and using multimodal designs are needed. PMID:18982173

A comparison of temporal and location-based sampling strategies for global positioning system-triggered electronic diaries.

PubMed

Törnros, Tobias; Dorn, Helen; Reichert, Markus; Ebner-Priemer, Ulrich; Salize, Hans-Joachim; Tost, Heike; Meyer-Lindenberg, Andreas; Zipf, Alexander

2016-11-21

Self-reporting is a well-established approach within the medical and psychological sciences. In order to avoid recall bias, i.e. past events being remembered inaccurately, the reports can be filled out on a smartphone in real-time and in the natural environment. This is often referred to as ambulatory assessment and the reports are usually triggered at regular time intervals. With this sampling scheme, however, rare events (e.g. a visit to a park or recreation area) are likely to be missed. When addressing the correlation between mood and the environment, it may therefore be beneficial to include participant locations within the ambulatory assessment sampling scheme. Based on the geographical coordinates, the database query system then decides if a self-report should be triggered or not. We simulated four different ambulatory assessment sampling schemes based on movement data (coordinates by minute) from 143 voluntary participants tracked for seven consecutive days. Two location-based sampling schemes incorporating the environmental characteristics (land use and population density) at each participant's location were introduced and compared to a time-based sampling scheme triggering a report on the hour as well as to a sampling scheme incorporating physical activity. We show that location-based sampling schemes trigger a report less often, but we obtain more unique trigger positions and a greater spatial spread in comparison to sampling strategies based on time and distance. Additionally, the location-based methods trigger significantly more often at rarely visited types of land use and less often outside the study region where no underlying environmental data are available.

Assessment of the National Research Universal Reactor Proposed New Stack Sampling Probe Location for Compliance with ANSI/HPS N13.1-1999

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

Glissmeyer, John A.; Antonio, Ernest J.; Flaherty, Julia E.

2016-02-29

This document reports on a series of tests conducted to assess the proposed air sampling location for the National Research Universal reactor (NRU) complex exhaust stack, located in Chalk River, Ontario, Canada, with respect to the applicable criteria regarding the placement of an air sampling probe. Due to the age of the equipment in the existing monitoring system, and the increasing difficulty in acquiring replacement parts to maintain this equipment, a more up-to-date system is planned to replace the current effluent monitoring system, and a new monitoring location has been proposed. The new sampling probe should be located within themore » exhaust stack according to the criteria established by the American National Standards Institute/Health Physics Society (ANSI/HPS) N13.1-1999, Sampling and Monitoring Releases of Airborne Radioactive Substances from the Stack and Ducts of Nuclear Facilities. These criteria address the capability of the sampling probe to extract a sample that represents the effluent stream. The internal Pacific Northwest National Laboratory (PNNL) project for this task was 65167, Atomic Energy Canada Ltd. Chalk River Effluent Duct Flow Qualification. The testing described in this document was guided by the Test Plan: Testing of the NRU Stack Air Sampling Position (TP-STMON-032).« less

Time-jittered marine seismic data acquisition via compressed sensing and sparsity-promoting wavefield reconstruction

NASA Astrophysics Data System (ADS)

Wason, H.; Herrmann, F. J.; Kumar, R.

2016-12-01

Current efforts towards dense shot (or receiver) sampling and full azimuthal coverage to produce high resolution images have led to the deployment of multiple source vessels (or streamers) across marine survey areas. Densely sampled marine seismic data acquisition, however, is expensive, and hence necessitates the adoption of sampling schemes that save acquisition costs and time. Compressed sensing is a sampling paradigm that aims to reconstruct a signal--that is sparse or compressible in some transform domain--from relatively fewer measurements than required by the Nyquist sampling criteria. Leveraging ideas from the field of compressed sensing, we show how marine seismic acquisition can be setup as a compressed sensing problem. A step ahead from multi-source seismic acquisition is simultaneous source acquisition--an emerging technology that is stimulating both geophysical research and commercial efforts--where multiple source arrays/vessels fire shots simultaneously resulting in better coverage in marine surveys. Following the design principles of compressed sensing, we propose a pragmatic simultaneous time-jittered time-compressed marine acquisition scheme where single or multiple source vessels sail across an ocean-bottom array firing airguns at jittered times and source locations, resulting in better spatial sampling and speedup acquisition. Our acquisition is low cost since our measurements are subsampled. Simultaneous source acquisition generates data with overlapping shot records, which need to be separated for further processing. We can significantly impact the reconstruction quality of conventional seismic data from jittered data and demonstrate successful recovery by sparsity promotion. In contrast to random (sub)sampling, acquisition via jittered (sub)sampling helps in controlling the maximum gap size, which is a practical requirement of wavefield reconstruction with localized sparsifying transforms. We illustrate our results with simulations of simultaneous time-jittered marine acquisition for 2D and 3D ocean-bottom cable survey.

Impact of catch crop mixtures and soils on microbial diversity and nitrogen cycling communities in agroecosystems

NASA Astrophysics Data System (ADS)

Burbano, Claudia S.; Große, Julia; Hurek, Thomas; Reinhold-Hurek, Barbara

2017-04-01

In light of the projected world's population growth, food supplies will necessary have to increase. Soils are an essential component for achieving this expansion and its quality and fertility are crucial for bio-economic productivity. Catch crops can be an option to preserve or even improve soil productivity because of their effect on soil fertility and health. A long-term field experiment of the CATCHY project (Catch-cropping as an agrarian tool for continuing soil health and yield-increase) with two contrasting crop rotations was established in two different locations in Northern and Southern Germany. Single catch crops (white mustard, Egyptian clover, phacelia and bristle oat), catch crop mixtures (a mixture of the above and a commercial mixture) and main crops (wheat and maize) have been grown. To investigate how catch crops can affect the microbial diversity and particularly the microbial nitrogen cycling communities, we are studying first the short-term effect of different catch crop mixtures on the microbiomes associated with soils and roots. We compared these microbiomes with wheat plants, representing the microbial community before a catch crop treatment. Roots, rhizosphere and bulk soils were collected from representative samples of wheat plants from one field. The same compartments were also sampled from one fallow treatment and three catch crops variants from three fields each. The variants consisted of white mustard and the two catch crop mixtures. All fields were sampled by triplicate. Quantitative analyses were carried out by qPCR based on key functional marker genes for mineralization (ureC), nitrification (amoA), dissimilatory nitrate and nitrite reduction to ammonium -DNRA- (nrfA), denitrification (nirK, nirS, nosZ), and nitrogen fixation (nifH). These genes were targeted at the DNA and RNA level for the characterization of the microbial population and the actual transcription activity, respectively. We detected the presence and activity of microbial populations capable of performing all the main processes of the N-cycle except DNRA. In bulk soils the expression levels of genes for nitrification and denitrification were significantly higher in Northern than in Southern Germany. In contrast, the expression level of amoA genes in the rhizosphere were significantly higher in Southern than in Northern Germany, suggesting that amoA genes may be controlled by the plant and that this control is dependent on location as well. The microbial population structure was studied using rRNA and nifH amplicon sequencing of DNA extracts obtained from root, rhizosphere and bulk soils of wheat plants and catch crops. DNAs were sequenced using the Illumina platform (MiSeq platform). The OTU-based analysis showed that microbiomes from the three compartments studied were distinct in both locations. Additionally, the taxonomic-based analysis revealed also how plant roots selected for particular bacteria and excluded others. For example, wheat selected for β-Proteobacteria making up 35% of the bacterial community in roots but only 10% in bulk soil. These preliminary results indicate that location and catch crop treatments may have large effects on composition and activity of microbial communities and may be suitable to identify microbial functions which help to maintain or improve soil fertility and plant yield.

Electrophysiological indices of surround suppression in humans

PubMed Central

Vanegas, M. Isabel; Blangero, Annabelle

2014-01-01

Surround suppression is a well-known example of contextual interaction in visual cortical neurophysiology, whereby the neural response to a stimulus presented within a neuron's classical receptive field is suppressed by surrounding stimuli. Human psychophysical reports present an obvious analog to the effects seen at the single-neuron level: stimuli are perceived as lower-contrast when embedded in a surround. Here we report on a visual paradigm that provides relatively direct, straightforward indices of surround suppression in human electrophysiology, enabling us to reproduce several well-known neurophysiological and psychophysical effects, and to conduct new analyses of temporal trends and retinal location effects. Steady-state visual evoked potentials (SSVEP) elicited by flickering “foreground” stimuli were measured in the context of various static surround patterns. Early visual cortex geometry and retinotopic organization were exploited to enhance SSVEP amplitude. The foreground response was strongly suppressed as a monotonic function of surround contrast. Furthermore, suppression was stronger for surrounds of matching orientation than orthogonally-oriented ones, and stronger at peripheral than foveal locations. These patterns were reproduced in psychophysical reports of perceived contrast, and peripheral electrophysiological suppression effects correlated with psychophysical effects across subjects. Temporal analysis of SSVEP amplitude revealed short-term contrast adaptation effects that caused the foreground signal to either fall or grow over time, depending on the relative contrast of the surround, consistent with stronger adaptation of the suppressive drive. This electrophysiology paradigm has clinical potential in indexing not just visual deficits but possibly gain control deficits expressed more widely in the disordered brain. PMID:25411464

Associations between damage location and five main body region injuries of MAIS 3–6 injured occupants

PubMed Central

Tang, Youming; Cao, Libo; Kan, Steven

2014-01-01

Objectives To examine the damage location distribution of five main body region injuries of maximum abbreviated injury score (MAIS) 3–6 injured occupants for nearside struck vehicle in front-to-side impact crashes. Design and setting MAIS 3–6 injured occupants information was extracted from the US-National Automotive Sampling System/Crashworthiness Data System in the year 2007; it included the head/face/neck, chest, pelvis, upper extremity and lower extremity. Struck vehicle collision damage was classified in a three-dimensional system according to the J224 Collision Deformation Classification of SAE Surface Vehicle Standard. Participants Nearside occupants seated directly adjacent to the struck side of the vehicle with MAIS 3–6 injured, in light truck vehicles–passenger cars (LTV–PC) side impact crashes. Outcome measures Distribution of MAIS 3–6 injured occupants by body regions and specific location of damage (lateral direction, horizontal direction and vertical direction) were examined. Injury risk ratio was also assessed. Results The lateral crush zone contributed to MAIS 3–6 injured occupants (n=705) and 50th centile injury risks when extended into zone 3. When the crush extended to zone 4, the injury risk ratio of MAIS 3–6 injured occupants approached 81%. The horizontal crush zones contributing to the highest injury risk ratio of MAIS 3–6 occupants were zones ‘D’ and ‘Y’, and the injury risk ratios were 25.4% and 36.9%, respectively. In contrast, the lowest injury risk ratio was 5.67% caused by zone ‘B’. The vertical crush zone which contributed to the highest injury risk ratio of MAIS 3–6 occupants was zone ‘E’, whose injury risk ratio was 58%. In contrast, the lowest injury risk ratio was 0.14% caused by zone ‘G+M’. Conclusions The highest injury risk ratio of MAIS 3–6 injured occupants caused by crush intrusion between 40 and 60 cm in LTV–PC nearside impact collisions and the damage region of the struck vehicle was in the zones ‘E’ and ‘Y’. PMID:24812190

Wave Propagation inside Random Media

NASA Astrophysics Data System (ADS)

Cheng, Xiaojun

This thesis presents results of studies of wave scattering within and transmission through random and periodic systems. The main focus is on energy profiles inside quasi-1D and 1D random media. The connection between transport and the states of the medium is manifested in the equivalence of the dimensionless conductance, g, and the Thouless number which is the ratio of the average linewidth and spacing of energy levels. This equivalence and theories regarding the energy profiles inside random media are based on the assumption that LDOS is uniform throughout the samples. We have conducted microwave measurements of the longitudinal energy profiles within disordered samples contained in a copper tube supporting multiple waveguide channels with an antenna moving along a slit on the tube. These measurements allow us to determine the local density of states (LDOS) at a location which is the sum of energy from all incoming channels on both sides. For diffusive samples, the LDOS is uniform and the energy profile decays linearly as expected. However, for localized samples, we find that the LDOS drops sharply towards the middle of the sample and the energy profile does not follow the result of the local diffusion theory where the LDOS is assumed to be uniform. We analyze the field spectra into quasi-normal modes and found that the mode linewidth and the number of modes saturates as the sample length increases. Thus the Thouless number saturates while the dimensionless conductance g continues to fall with increasing length, indicating that the modes are localized near the boundaries. This is in contrast to the general believing that g and Thouless number follow the same scaling behavior. Previous measurements show that single parameter scaling (SPS) still holds in the same sample where the LDOS is suppressed te{shi2014microwave}. We explore the extension of SPS to the interior of the sample by analyzing statistics of the logrithm of the energy density ln W(x) and found that =-x/l where l is the transport mean free path. The result does not depend on the sample length, which is counterintuitive yet remarkably simple. More supprisingly, the linear fall-off of energy profile holds for totally disordered random 1D layered samples in simulations where the LDOS is uniform as well as for single mode random waveguide experiments and 1D nearly periodic samples where the LDOS is suppressed in the middle of the sample. The generalization of the transmission matrix to the interior of quasi-1D random samples, which is defined as the field matrix, and its eigenvalues statistics are also discussed. The maximum energy deposition at a location is not the intensity of the first transmission eigenchannel but the eigenvalue of the first energy density eigenchannels at that cross section, which can be much greater than the average value. The contrast, which is the ratio of the intensity at the focused point to the background intensity, in optimal focusing is determined by the participation number of the energy density eigenvalues and its inverse gives the variance of the energy density at that cross section in a single configuration. We have also studied topological states in photonic structures. We have demonstrated robust propagation of electromagnetic waves along reconfigurable pathways within a topological photonic metacrystal. Since the wave is confined within the domain wall, which is the boundary between two distinct topological insulating systems, we can freely steer the wave by reconstructing the photonic structure. Other topics, such as speckle pattern evolutions and the effects of boundary conditions on the statistics of transmission eigenvalues and energy profiles are also discussed.

High Resolution X-Ray Phase Contrast Imaging with Acoustic Tissue-Selective Contrast Enhancement

DTIC Science & Technology

2005-06-01

Ultrasonics Symp 1319 (1999). 17. Sarvazyan, A. P. Shear Wave Elasticity Imaging: A New Ultrasonic Technology of Medical Diagnostics. Ultrasound in...samples using acoustically modulated X-ray phase contrast imaging. 15. SUBJECT TERMS x-ray, ultrasound, phase contrast, imaging, elastography 16...x-rays, phase contrast imaging is based on phase changes as x-rays traverse a body resulting in wave interference that result in intensity changes in

Phase-contrast Hounsfield units of fixated and non-fixated soft-tissue samples

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

Willner, Marian; Fior, Gabriel; Marschner, Mathias

X-ray phase-contrast imaging is a novel technology that achieves high soft-tissue contrast. Although its clinical impact is still under investigation, the technique may potentially improve clinical diagnostics. In conventional attenuation-based X-ray computed tomography, radiological diagnostics are quantified by Hounsfield units. Corresponding Hounsfield units for phase-contrast imaging have been recently introduced, enabling a setup-independent comparison and standardized interpretation of imaging results. Thus far, the experimental values of few tissue types have been reported; these values have been determined from fixated tissue samples. This study presents phase-contrast Hounsfield units for various types of non-fixated human soft tissues. A large variety of tissuemore » specimens ranging from adipose, muscle and connective tissues to liver, kidney and pancreas tissues were imaged by a grating interferometer with a rotating-anode X-ray tube and a photon-counting detector. In addition, we investigated the effects of formalin fixation on the quantitative phase-contrast imaging results.« less

Phase-Contrast Hounsfield Units of Fixated and Non-Fixated Soft-Tissue Samples

PubMed Central

Willner, Marian; Fior, Gabriel; Marschner, Mathias; Birnbacher, Lorenz; Schock, Jonathan; Braun, Christian; Fingerle, Alexander A.; Noël, Peter B.; Rummeny, Ernst J.; Pfeiffer, Franz; Herzen, Julia

2015-01-01

X-ray phase-contrast imaging is a novel technology that achieves high soft-tissue contrast. Although its clinical impact is still under investigation, the technique may potentially improve clinical diagnostics. In conventional attenuation-based X-ray computed tomography, radiological diagnostics are quantified by Hounsfield units. Corresponding Hounsfield units for phase-contrast imaging have been recently introduced, enabling a setup-independent comparison and standardized interpretation of imaging results. Thus far, the experimental values of few tissue types have been reported; these values have been determined from fixated tissue samples. This study presents phase-contrast Hounsfield units for various types of non-fixated human soft tissues. A large variety of tissue specimens ranging from adipose, muscle and connective tissues to liver, kidney and pancreas tissues were imaged by a grating interferometer with a rotating-anode X-ray tube and a photon-counting detector. Furthermore, we investigated the effects of formalin fixation on the quantitative phase-contrast imaging results. PMID:26322638

Phase-contrast Hounsfield units of fixated and non-fixated soft-tissue samples

DOE PAGES

Willner, Marian; Fior, Gabriel; Marschner, Mathias; ...

2015-08-31

X-ray phase-contrast imaging is a novel technology that achieves high soft-tissue contrast. Although its clinical impact is still under investigation, the technique may potentially improve clinical diagnostics. In conventional attenuation-based X-ray computed tomography, radiological diagnostics are quantified by Hounsfield units. Corresponding Hounsfield units for phase-contrast imaging have been recently introduced, enabling a setup-independent comparison and standardized interpretation of imaging results. Thus far, the experimental values of few tissue types have been reported; these values have been determined from fixated tissue samples. This study presents phase-contrast Hounsfield units for various types of non-fixated human soft tissues. A large variety of tissuemore » specimens ranging from adipose, muscle and connective tissues to liver, kidney and pancreas tissues were imaged by a grating interferometer with a rotating-anode X-ray tube and a photon-counting detector. In addition, we investigated the effects of formalin fixation on the quantitative phase-contrast imaging results.« less

Obstructive sleep apnea due to extrathoracic tracheomalacia.

PubMed

Muzumdar, Hiren; Nandalike, K; Bent, J; Arens, Raanan

2013-02-01

We report obstructive sleep apnea in a 3-year-old boy with tracheomalacia secondary to tracheotomy that resolved after placement of a metallic stent in the region of tracheomalacia. The tracheal location of obstruction during sleep in this case contrasts with the usual location in the pharynx or, less often, the larynx. This case also demonstrates the utility of polysomnography in managing decannulation of tracheostomies.

Regional Differences in Collecting Freethought Books in American Public Libraries: A Case of Self-Censorship?

ERIC Educational Resources Information Center

Sloan, Stephen

2012-01-01

This study was conducted to determine if American public libraries located in an area of the country hostile to atheist (freethought) ideas collect atheist books at a lower rate than a region of the country more open to such ideas. The US General Social Survey was consulted to locate the contrasting regions. "New York Times" Best Seller…

Non-destructive evaluation of teeth restored with different composite resins using synchrotron based micro-imaging.

PubMed

Fatima, A; Kulkarni, V K; Banda, N R; Agrawal, A K; Singh, B; Sarkar, P S; Tripathi, S; Shripathi, T; Kashyap, Y; Sinha, A

2016-01-01

Application of high resolution synchrotron micro-imaging in microdefects studies of restored dental samples. The purpose of this study was to identify and compare the defects in restorations done by two different resin systems on teeth samples using synchrotron based micro-imaging techniques namely Phase Contrast Imaging (PCI) and micro-computed tomography (MCT). With this aim acquired image quality was also compared with routinely used RVG (Radiovisiograph). Crowns of human teeth samples were fractured mechanically involving only enamel and dentin, without exposure of pulp chamber and were divided into two groups depending on the restorative composite materials used. Group A samples were restored using a submicron Hybrid composite material and Group B samples were restored using a Nano-Hybrid restorative composite material. Synchrotron based PCI and MCT was performed with the aim of visualization of tooth structure, composite resin and their interface. The quantitative and qualitative comparison of phase contrast and absorption contrast images along with MCT on the restored teeth samples shows comparatively large number of voids in Group A samples. Quality assessment of dental restorations using synchrotron based micro-imaging suggests Nano-Hybrid resin restorations (Group B) are better than Group A.

Characterization of organic composition in snow and surface waters in the Athabasca Oil Sands Region, using ultrahigh resolution Fourier transform mass spectrometry.

PubMed

Yi, Y; Birks, S J; Cho, S; Gibson, J J

2015-06-15

This study was conducted to characterize the composition of dissolved organic compounds present in snow and surface waters in the Athabasca Oil Sands Region (AOSR) with the goal of identifying whether atmospherically-derived organic compounds present in snow are a significant contributor to the compounds detected in surface waters (i.e., rivers and lakes). We used electrospray ionization Fourier transform ion cyclotron resonance mass spectrometry (ESI-FTICR MS) to characterize the dissolved organic compound compositions of snow and surface water samples. The organic profiles obtained for the snow samples show compositional differences between samples from near-field sites (<5 km from oil sands activities) and those from more distant locations (i.e., far-field sites). There are also significant compositional differences between samples collected in near-field sites and surface water samples in the AOSR. The composition of dissolved organic compounds at the upstream Athabasca River site (i.e., Athabasca River at Athabasca) is found to be different from samples obtained from downstream sites in the vicinity of oil sands operations (i.e., Athabasca River at Fort McMurray and Athabasca River at Firebag confluence). The upstream Athabasca River sites tended to share some compositional similarities with far-field snow deposition, while the downstream Athabasca River sites are more similar to local lakes and tributaries. This contrast likely indicates the relative role of regional snowmelt contributions to the Athabasca River vs inputs from local catchments in the reach downstream of Fort McMurray. Copyright © 2015 Elsevier B.V. All rights reserved.

Magneto-photo-acoustic imaging

PubMed Central

Qu, Min; Mallidi, Srivalleesha; Mehrmohammadi, Mohammad; Truby, Ryan; Homan, Kimberly; Joshi, Pratixa; Chen, Yun-Sheng; Sokolov, Konstantin; Emelianov, Stanislav

2011-01-01

Magneto-photo-acoustic imaging, a technique based on the synergy of magneto-motive ultrasound, photoacoustic and ultrasound imaging, is introduced. Hybrid nanoconstructs, liposomes encapsulating gold nanorods and iron oxide nanoparticles, were used as a dual-contrast agent for magneto-photo-acoustic imaging. Tissue-mimicking phantom and macrophage cells embedded in ex vivo porcine tissue were used to demonstrate that magneto-photo-acoustic imaging is capable of visualizing the location of cells or tissues labeled with dual-contrast nanoparticles with sufficient contrast, excellent contrast resolution and high spatial resolution in the context of the anatomical structure of the surrounding tissues. Therefore, magneto-photo-acoustic imaging is capable of identifying the nanoparticle-labeled pathological regions from the normal tissue, providing a promising platform to noninvasively diagnose and characterize pathologies. PMID:21339883

Abnormal gel flotation caused by contrast media during adrenal vein sampling.

PubMed

Lima-Oliveira, Gabriel; Lippi, Giuseppe; Salvagno, Gian Luca; Gelati, Matteo; Bassi, Antonella; Contro, Alberto; Pizzolo, Francesca; Guidi, Gian Cesare

2016-10-15

During adrenal venous sampling (AVS) procedure, radiologists administer a contrast agent via the catheter to visualize the proper catheter position. A patient with primary aldosteronism diagnostic-hypothesis was admitted for AVS. A venogram was performed to
confirm the catheter's position with 2mL of Iopamidol 300 mg/mL. Samples were collected with syringe connected to a hydrophilic coated catheter by low-pressure aspiration from each of the four collection sites: inferior vena cava in the suprarenal portion, inferior vena cava in the infrarenal portion, left adrenal vein, and right adrenal vein; then immediately transferred from syringe to tubes with gel separator. All tubes were centrifuged at 1200 x g for 10 minutes. At the end of centrifugation process, primary blood tubes containing blood from inferior vena cava and left adrenal vein exhibited the standard gel separator barrier, while tubes from right adrenal vein showed abnormal flotation of gel separator. The radiologist confirmed the usage of 2.6 mL instead of 2.0 mL of Iopamidol 300 mg/mL. This iodinated contrast media, with 1.33 g/cm 3 of density, was used close to the right adrenal vein due to some difficulty to access it. The abnormal flotation of gel separator in samples taken from right adrenal vein can be explained by the usage of the iodinated
contrast media. We suggest using plain-tubes (without gel separator) for AVS in order to avoid preanalytical nonconformities. Moreover, a blood volume equivalent to twice the catheter extension should be discarded to eliminate residual contrast media before collection of samples for laboratory assays.

40 CFR 761.283 - Determination of the number of samples to collect and sample collection locations.

Code of Federal Regulations, 2012 CFR

2012-07-01

... sites at this example location: a loading dock, a transformer storage lot, and a disposal pit. The... (three samples). The non-liquid PCB remediation wastes present at the transformer storage lot are oily...

40 CFR 761.283 - Determination of the number of samples to collect and sample collection locations.

Code of Federal Regulations, 2010 CFR

2010-07-01

... sites at this example location: a loading dock, a transformer storage lot, and a disposal pit. The... (three samples). The non-liquid PCB remediation wastes present at the transformer storage lot are oily...

Variations in pore characteristics in high volatile bituminous coals: Implications for coal bed gas content

USGS Publications Warehouse

Mastalerz, Maria; Drobniak, A.; Strapoc, D.; Solano-Acosta, W.; Rupp, J.

2008-01-01

The Seelyville Coal Member of the Linton Formation (Pennsylvanian) in Indiana was studied to: 1) understand variations in pore characteristics within a coal seam at a single location and compare these variations with changes occurring between the same coal at different locations, 2) elaborate on the influence of mineral-matter and maceral composition on mesopore and micropore characteristics, and 3) discuss implications of these variations for coal bed gas content. The coal is high volatile bituminous rank with R0 ranging from 0.57% to 0.60%. BET specific surface areas (determined by nitrogen adsorption) of the coals samples studied range from 1.8 to 22.9??m2/g, BJH adsorption mesopore volumes from 0.0041 to 0.0339??cm3/g, and micropore volumes (determined by carbon dioxide adsorption) from 0.0315 to 0.0540??cm3/g. The coals that had the largest specific surface areas and largest mesopore volumes occur at the shallowest depths, whereas the smallest values for these two parameters occur in the deepest coals. Micropore volumes, in contrast, are not depth-dependent. In the coal samples examined for this study, mineral-matter content influenced both specific surface area as well as mesopore and micropore volumes. It is especially clear in the case of micropores, where an increase in mineral-matter content parallels the decrease of micropore volume of the coal. No obvious relationships were observed between the total vitrinite content and pore characteristics but, after splitting vitrinite into individual macerals, we see that collotelinite influences both meso- and micropore volume positively, whereas collodetrinite contributes to the reduction of mesopore and micropore volumes. There are large variations in gas content within a single coal at a single location. Because of this variability, the entire thickness of the coal must be desorbed in order to determine gas content reliably and to accurately calculate the level of gas saturation. ?? 2008 Elsevier B.V. All rights reserved.

Analyzing indirect secondary electron contrast of unstained bacteriophage T4 based on SEM images and Monte Carlo simulations

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

Ogura, Toshihiko, E-mail: t-ogura@aist.go.jp

2009-03-06

The indirect secondary electron contrast (ISEC) condition of the scanning electron microscopy (SEM) produces high contrast detection with minimal damage of unstained biological samples mounted under a thin carbon film. The high contrast image is created by a secondary electron signal produced under the carbon film by a low acceleration voltage. Here, we show that ISEC condition is clearly able to detect unstained bacteriophage T4 under a thin carbon film (10-15 nm) by using high-resolution field emission (FE) SEM. The results show that FE-SEM provides higher resolution than thermionic emission SEM. Furthermore, we investigated the scattered electron area within themore » carbon film under ISEC conditions using Monte Carlo simulation. The simulations indicated that the image resolution difference is related to the scattering width in the carbon film and the electron beam spot size. Using ISEC conditions on unstained virus samples would produce low electronic damage, because the electron beam does not directly irradiate the sample. In addition to the routine analysis, this method can be utilized for structural analysis of various biological samples like viruses, bacteria, and protein complexes.« less

Evaluating image reconstruction methods for tumor detection performance in whole-body PET oncology imaging

NASA Astrophysics Data System (ADS)

Lartizien, Carole; Kinahan, Paul E.; Comtat, Claude; Lin, Michael; Swensson, Richard G.; Trebossen, Regine; Bendriem, Bernard

2000-04-01

This work presents initial results from observer detection performance studies using the same volume visualization software tools that are used in clinical PET oncology imaging. Research into the FORE+OSEM and FORE+AWOSEM statistical image reconstruction methods tailored to whole- body 3D PET oncology imaging have indicated potential improvements in image SNR compared to currently used analytic reconstruction methods (FBP). To assess the resulting impact of these reconstruction methods on the performance of human observers in detecting and localizing tumors, we use a non- Monte Carlo technique to generate multiple statistically accurate realizations of 3D whole-body PET data, based on an extended MCAT phantom and with clinically realistic levels of statistical noise. For each realization, we add a fixed number of randomly located 1 cm diam. lesions whose contrast is varied among pre-calibrated values so that the range of true positive fractions is well sampled. The observer is told the number of tumors and, similar to the AFROC method, asked to localize all of them. The true positive fraction for the three algorithms (FBP, FORE+OSEM, FORE+AWOSEM) as a function of lesion contrast is calculated, although other protocols could be compared. A confidence level for each tumor is also recorded for incorporation into later AFROC analysis.

Cell Membrane Tracking in Living Brain Tissue Using Differential Interference Contrast Microscopy.

PubMed

Lee, John; Kolb, Ilya; Forest, Craig R; Rozell, Christopher J

2018-04-01

Differential interference contrast (DIC) microscopy is widely used for observing unstained biological samples that are otherwise optically transparent. Combining this optical technique with machine vision could enable the automation of many life science experiments; however, identifying relevant features under DIC is challenging. In particular, precise tracking of cell boundaries in a thick ( ) slice of tissue has not previously been accomplished. We present a novel deconvolution algorithm that achieves the state-of-the-art performance at identifying and tracking these membrane locations. Our proposed algorithm is formulated as a regularized least squares optimization that incorporates a filtering mechanism to handle organic tissue interference and a robust edge-sparsity regularizer that integrates dynamic edge tracking capabilities. As a secondary contribution, this paper also describes new community infrastructure in the form of a MATLAB toolbox for accurately simulating DIC microscopy images of in vitro brain slices. Building on existing DIC optics modeling, our simulation framework additionally contributes an accurate representation of interference from organic tissue, neuronal cell-shapes, and tissue motion due to the action of the pipette. This simulator allows us to better understand the image statistics (to improve algorithms), as well as quantitatively test cell segmentation and tracking algorithms in scenarios, where ground truth data is fully known.

Non-destructive mapping of grain orientations in 3D by laboratory X-ray microscopy

PubMed Central

McDonald, S. A.; Reischig, P.; Holzner, C.; Lauridsen, E. M.; Withers, P. J.; Merkle, A. P.; Feser, M.

2015-01-01

The ability to characterise crystallographic microstructure, non-destructively and in three-dimensions, is a powerful tool for understanding many aspects related to damage and deformation mechanisms in polycrystalline materials. To this end, the technique of X-ray diffraction contrast tomography (DCT) using monochromatic synchrotron and polychromatic laboratory X-ray sources has been shown to be capable of mapping crystal grains and their orientations non-destructively in 3D. Here we describe a novel laboratory-based X-ray DCT modality (LabDCT), enabling the wider accessibility of the DCT technique for routine use and in-depth studies of, for example, temporal changes in crystallographic grain structure non-destructively over time through ‘4D’ in situ time-lapse studies. The capability of the technique is demonstrated by studying a titanium alloy (Ti-β21S) sample. In the current implementation the smallest grains that can be reliably detected are around 40 μm. The individual grain locations and orientations are reconstructed using the LabDCT method and the results are validated against independent measurements from phase contrast tomography and electron backscatter diffraction respectively. Application of the technique promises to provide important insights related to the roles of recrystallization and grain growth on materials properties as well as supporting 3D polycrystalline modelling of materials performance. PMID:26494523

Non-destructive mapping of grain orientations in 3D by laboratory X-ray microscopy

NASA Astrophysics Data System (ADS)

McDonald, S. A.; Reischig, P.; Holzner, C.; Lauridsen, E. M.; Withers, P. J.; Merkle, A. P.; Feser, M.

2015-10-01

The ability to characterise crystallographic microstructure, non-destructively and in three-dimensions, is a powerful tool for understanding many aspects related to damage and deformation mechanisms in polycrystalline materials. To this end, the technique of X-ray diffraction contrast tomography (DCT) using monochromatic synchrotron and polychromatic laboratory X-ray sources has been shown to be capable of mapping crystal grains and their orientations non-destructively in 3D. Here we describe a novel laboratory-based X-ray DCT modality (LabDCT), enabling the wider accessibility of the DCT technique for routine use and in-depth studies of, for example, temporal changes in crystallographic grain structure non-destructively over time through ‘4D’ in situ time-lapse studies. The capability of the technique is demonstrated by studying a titanium alloy (Ti-β21S) sample. In the current implementation the smallest grains that can be reliably detected are around 40 μm. The individual grain locations and orientations are reconstructed using the LabDCT method and the results are validated against independent measurements from phase contrast tomography and electron backscatter diffraction respectively. Application of the technique promises to provide important insights related to the roles of recrystallization and grain growth on materials properties as well as supporting 3D polycrystalline modelling of materials performance.

Non-destructive mapping of grain orientations in 3D by laboratory X-ray microscopy.

PubMed

McDonald, S A; Reischig, P; Holzner, C; Lauridsen, E M; Withers, P J; Merkle, A P; Feser, M

2015-10-23

The ability to characterise crystallographic microstructure, non-destructively and in three-dimensions, is a powerful tool for understanding many aspects related to damage and deformation mechanisms in polycrystalline materials. To this end, the technique of X-ray diffraction contrast tomography (DCT) using monochromatic synchrotron and polychromatic laboratory X-ray sources has been shown to be capable of mapping crystal grains and their orientations non-destructively in 3D. Here we describe a novel laboratory-based X-ray DCT modality (LabDCT), enabling the wider accessibility of the DCT technique for routine use and in-depth studies of, for example, temporal changes in crystallographic grain structure non-destructively over time through '4D' in situ time-lapse studies. The capability of the technique is demonstrated by studying a titanium alloy (Ti-β21S) sample. In the current implementation the smallest grains that can be reliably detected are around 40 μm. The individual grain locations and orientations are reconstructed using the LabDCT method and the results are validated against independent measurements from phase contrast tomography and electron backscatter diffraction respectively. Application of the technique promises to provide important insights related to the roles of recrystallization and grain growth on materials properties as well as supporting 3D polycrystalline modelling of materials performance.

Sparse sampling and reconstruction for electron and scanning probe microscope imaging

DOEpatents

Anderson, Hyrum; Helms, Jovana; Wheeler, Jason W.; Larson, Kurt W.; Rohrer, Brandon R.

2015-07-28

Systems and methods for conducting electron or scanning probe microscopy are provided herein. In a general embodiment, the systems and methods for conducting electron or scanning probe microscopy with an undersampled data set include: driving an electron beam or probe to scan across a sample and visit a subset of pixel locations of the sample that are randomly or pseudo-randomly designated; determining actual pixel locations on the sample that are visited by the electron beam or probe; and processing data collected by detectors from the visits of the electron beam or probe at the actual pixel locations and recovering a reconstructed image of the sample.

Application of video-cameras for quality control and sampling optimisation of hydrological and erosion measurements in a catchment

NASA Astrophysics Data System (ADS)

Lora-Millán, Julio S.; Taguas, Encarnacion V.; Gomez, Jose A.; Perez, Rafael

2014-05-01

Long term soil erosion studies imply substantial efforts, particularly when there is the need to maintain continuous measurements. There are high costs associated to maintenance of field equipment keeping and quality control of data collection. Energy supply and/or electronic failures, vandalism and burglary are common causes of gaps in datasets, reducing their reach in many cases. In this work, a system of three video-cameras, a recorder and a transmission modem (3G technology) has been set up in a gauging station where rainfall, runoff flow and sediment concentration are monitored. The gauging station is located in the outlet of an olive orchard catchment of 6.4 ha. Rainfall is measured with one automatic raingauge that records intensity at one minute intervals. The discharge is measured by a flume of critical flow depth, where the water is recorded by an ultrasonic sensor. When the water level rises to a predetermined level, the automatic sampler turns on and fills a bottle at different intervals according to a program depending on the antecedent precipitation. A data logger controls the instruments' functions and records the data. The purpose of the video-camera system is to improve the quality of the dataset by i) the visual analysis of the measurement conditions of flow into the flume; ii) the optimisation of the sampling programs. The cameras are positioned to record the flow at the approximation and the gorge of the flume. In order to contrast the values of ultrasonic sensor, there is a third camera recording the flow level close to a measure tape. This system is activated when the ultrasonic sensor detects a height threshold, equivalent to an electric intensity level. Thus, only when there is enough flow, video-cameras record the event. This simplifies post-processing and reduces the cost of download of recordings. The preliminary contrast analysis will be presented as well as the main improvements in the sample program.

Retest of a Principal Components Analysis of Two Household Environmental Risk Instruments.

PubMed

Oneal, Gail A; Postma, Julie; Odom-Maryon, Tamara; Butterfield, Patricia

2016-08-01

Household Risk Perception (HRP) and Self-Efficacy in Environmental Risk Reduction (SEERR) instruments were developed for a public health nurse-delivered intervention designed to reduce home-based, environmental health risks among rural, low-income families. The purpose of this study was to test both instruments in a second low-income population that differed geographically and economically from the original sample. Participants (N = 199) were recruited from the Women, Infants, and Children (WIC) program. Paper and pencil surveys were collected at WIC sites by research-trained student nurses. Exploratory principal components analysis (PCA) was conducted, and comparisons were made to the original PCA for the purpose of data reduction. Instruments showed satisfactory Cronbach alpha values for all components. HRP components were reduced from five to four, which explained 70% of variance. The components were labeled sensed risks, unseen risks, severity of risks, and knowledge. In contrast to the original testing, environmental tobacco smoke (ETS) items was not a separate component of the HRP. The SEERR analysis demonstrated four components explaining 71% of variance, with similar patterns of items as in the first study, including a component on ETS, but some differences in item location. Although low-income populations constituted both samples, differences in demographics and risk exposures may have played a role in component and item locations. Findings provided justification for changing or reducing items, and for tailoring the instruments to population-level risks and behaviors. Although analytic refinement will continue, both instruments advance the measurement of environmental health risk perception and self-efficacy. © 2016 Wiley Periodicals, Inc. © 2016 Wiley Periodicals, Inc.

Corals Form Characteristic Associations with Symbiotic Nitrogen-Fixing Bacteria

PubMed Central

Lema, Kimberley A.; Willis, Bette L.

2012-01-01

The complex symbiotic relationship between corals and their dinoflagellate partner Symbiodinium is believed to be sustained through close associations with mutualistic bacterial communities, though little is known about coral associations with bacterial groups able to fix nitrogen (diazotrophs). In this study, we investigated the diversity of diazotrophic bacterial communities associated with three common coral species (Acropora millepora, Acropora muricata, and Pocillopora damicormis) from three midshelf locations of the Great Barrier Reef (GBR) by profiling the conserved subunit of the nifH gene, which encodes the dinitrogenase iron protein. Comparisons of diazotrophic community diversity among coral tissue and mucus microenvironments and the surrounding seawater revealed that corals harbor diverse nifH phylotypes that differ between tissue and mucus microhabitats. Coral mucus nifH sequences displayed high heterogeneity, and many bacterial groups overlapped with those found in seawater. Moreover, coral mucus diazotrophs were specific neither to coral species nor to reef location, reflecting the ephemeral nature of coral mucus. In contrast, the dominant diazotrophic bacteria in tissue samples differed among coral species, with differences remaining consistent at all three reefs, indicating that coral-diazotroph associations are species specific. Notably, dominant diazotrophs for all coral species were closely related to the bacterial group rhizobia, which represented 71% of the total sequences retrieved from tissue samples. The species specificity of coral-diazotroph associations further supports the coral holobiont model that bacterial groups associated with corals are conserved. Our results suggest that, as in terrestrial plants, rhizobia have developed a mutualistic relationship with corals and may contribute fixed nitrogen to Symbiodinium. PMID:22344646

Spatial patterns of DOC concentration and DOM optical properties in a Brazilian tropical river-wetland system

NASA Astrophysics Data System (ADS)

Dalmagro, Higo J.; Johnson, Mark S.; de Musis, Carlo R.; Lathuillière, Michael J.; Graesser, Jordan; Pinto-Júnior, Osvaldo B.; Couto, Eduardo G.

2017-08-01

The Cerrado (savanna) and Pantanal (wetland) biomes of Central Western Brazil have experienced significant development activity in recent decades, including extensive land cover conversion from natural ecosystems to agriculture and urban expansion. The Cuiabá River transects the Cerrado biome prior to inundating large areas of the Pantanal, creating one of the largest biodiversity hot spots in the world. We measured dissolved organic carbon (DOC) and the optical absorbance and fluorescence properties of dissolved organic matter (DOM) from 40 sampling locations spanning Cerrado and Pantanal biomes during wet and dry seasons. In the upper, more agricultural region of the basin, DOC concentrations were highest in the rainy season with more aromatic and humified DOM. In contrast, DOC concentrations and DOM optical properties were more uniform for the more urbanized middle region of the basin between wet and dry seasons, as well as across sample locations. In the lower region of the basin, wet season connectivity between the river and the Pantanal floodplain led to high DOC concentrations, a fourfold increase in humification index (HIX) (an indicator of DOM humification), and a 50% reduction in the spectral slope (SR). Basin-wide, wet season values for SR, HIX, and FI (fluorescence index) indicated an increasing representation of terrestrially derived DOM that was more humified. Parallel factor analysis identified two terrestrially derived components (C1 and C2) representing 77% of total fluorescing DOM (fDOM). A third, protein-like fDOM component increased markedly during the wet season within the more urban-impacted region.

Spatial and seasonal variations of Hexachlorocyclohexanes (HCHs) and hexachlorobenzene (HCB) in the Arctic atmosphere.

PubMed

Su, Yushan; Hung, Hayley; Blanchard, Pierrette; Patton, Gregory W; Kallenborn, Roland; Konoplev, Alexei; Fellin, Phil; Li, Henrik; Geen, Charles; Stern, Gary; Rosenberg, Bruno; Barrie, Leonard A

2006-11-01

Weekly high-volume air samples were collected between 2000 and 2003 at six Arctic sites, i.e., Alert, Kinngait, and Little Fox Lake (LFL) in Canada, Point Barrow in Alaska, Valkarkai in Russia, and Zeppelin in Norway. Hexachlorocyclohexanes (HCHs) and hexachlorobenzene (HCB) were quantified in all samples. Comparison showed that alpha-HCH and HCB were homogeneously distributed in the circumpolar atmosphere and uniform throughout the seasons. However, significantly higher atmospheric concentrations of alpha-HCH and HCB and strongertemperature dependence of alpha-HCH and gamma-HCH were found at LFL in Yukon (YK), which is unique among the sites by virtue of its high altitude and low latitude, resulting in higher precipitation rates and summer temperatures. Strong temperature dependence of alpha- and gamma-HCH at this location suggests that secondary emissions, i.e., re-evaporation from surfaces, were more important at this site than others. It is hypothesized that a higher precipitation rate at LFL facilitated the transfer of alpha-HCH from the atmosphere to surface media when technical HCH was still in use worldwide. On the other hand, higher temperature at LFL enhanced reevaporation to the atmosphere after the global ban of technical HCH. In contrast to alpha-HCH and HCB, larger spatial and seasonal differences were seen for gamma-HCH (a currently used pesticide), which likely reflect the influence of different primary contaminant sources on different Arctic locations. Fugacity ratios suggest a net deposition potential of HCB from air to seawater, whereas seawater/air exchange direction of alpha-HCH varies in the circumpolar environment.

Current levels and trends of selected EU Water Framework Directive priority substances in freshwater fish from the German environmental specimen bank.

PubMed

Fliedner, Annette; Lohmann, Nina; Rüdel, Heinz; Teubner, Diana; Wellmitz, Jörg; Koschorreck, Jan

2016-09-01

Under the German environmental specimen bank programme bream (Abramis brama) were sampled in six German rivers and analysed for the priority hazardous substances dicofol, hexabromocyclododecane (HBCDD), hexachlorobenzene (HCB), hexachlorobutadiene (HCBD), heptachlor + heptachlor epoxide (HC + HCE), polybrominated diphenylethers (PBDEs), polychlorinated dibenzo-p-dioxins and -furans and dioxin-like polychlorinated biphenyls (PCDD/Fs + dl-PCBs), and perfluorooctane sulfonic acid (PFOS). The aim was to assess compliance with the EU Water Framework Directive environmental quality standards for biota (EQSBiota) for the year 2013, and to analyse temporal trends for those substances that are of special concern. General compliance was observed for dicofol, HBCDD and HCBD whereas PBDEs exceeded the EQSBiota at all sites. For all other substances compliance in 2013 varied between locations. No assessment was possible for HC + HCE at some sites where the analytical sensitivity was not sufficient to cover the EQSBiota. Trend analysis showed decreasing linear trends for HCB and PFOS at most sampling sites between 1995 and 2014 indicating that the emission reduction measures are effective. Mostly decreasing trends or constant levels were also observed for PCDD/Fs and dl-PCBs. In contrast, increasing trends were detected for PBDEs and HBCDD which were especially pronounced at one Saar site located downstream of the industries and conurbation of Saarbrücken and Völklingen. This finding points to new sources of emissions which should be followed in the coming years. Copyright © 2016 The Authors. Published by Elsevier Ltd.. All rights reserved.

In Vivo Patellofemoral Contact Mechanics During Active Extension Using a Novel Dynamic MRI-based Methodology

PubMed Central

Borotikar, Bhushan S.; Sheehan, Frances T.

2017-01-01

Objectives To establish an in vivo, normative patellofemoral cartilage contact mechanics database acquired during voluntary muscle control using a novel dynamic magnetic resonance (MR) imaging-based computational methodology and validate the contact mechanics sensitivity to the known sub-millimeter methodological inaccuracies. Design Dynamic cine phase-contrast and multi-plane cine images were acquired while female subjects (n=20, sample of convenience) performed an open kinetic chain (knee flexion-extension) exercise inside a 3-Tesla MR scanner. Static cartilage models were created from high resolution three-dimensional static MR data and accurately placed in their dynamic pose at each time frame based on the cine-PC data. Cartilage contact parameters were calculated based on the surface overlap. Statistical analysis was performed using paired t-test and a one-sample repeated measures ANOVA. The sensitivity of the contact parameters to the known errors in the patellofemoral kinematics was determined. Results Peak mean patellofemoral contact area was 228.7±173.6mm2 at 40° knee angle. During extension, contact centroid and peak strain locations tracked medially on the femoral and patellar cartilage and were not significantly different from each other. At 30°, 35°, and 40° of knee extension, contact area was significantly different. Contact area and centroid locations were insensitive to rotational and translational perturbations. Conclusion This study is a first step towards unfolding the biomechanical pathways to anterior patellofemoral pain and OA using dynamic, in vivo, and accurate methodologies. The database provides crucial data for future studies and for validation of, or as an input to, computational models. PMID:24012620

Enhancement of the visibility of objects located below the surface of a scattering medium

DOEpatents

Demos, Stavros

2013-11-19

Techniques are provided for enhancing the visibility of objects located below the surface of a scattering medium such as tissue, water and smoke. Examples of such an object include a vein located below the skin, a mine located below the surface of the sea and a human in a location covered by smoke. The enhancement of the image contrast of a subsurface structure is based on the utilization of structured illumination. In the specific application of this invention to image the veins in the arm or other part of the body, the issue of how to control the intensity of the image of a metal object (such as a needle) that must be inserted into the vein is also addressed.

Lesions affecting the right hippocampal formation differentially impair short-term memory of spatial and nonspatial associations.

PubMed

Braun, Mischa; Weinrich, Christiane; Finke, Carsten; Ostendorf, Florian; Lehmann, Thomas-Nicolas; Ploner, Christoph J

2011-03-01

Converging evidence from behavioral and imaging studies suggests that within the human medial temporal lobe (MTL) the hippocampal formation may be particularly involved in recognition memory of associative information. However, it is unclear whether the hippocampal formation processes all types of associations or whether there is a specialization for processing of associations involving spatial information. Here, we investigated this issue in six patients with postsurgical lesions of the right MTL affecting the hippocampal formation and in ten healthy controls. Subjects performed a battery of delayed match-to-sample tasks with two delays (900/5,000 ms) and three set sizes. Subjects were requested to remember either single features (colors, locations, shapes, letters) or feature associations (color-location, color-shape, color-letter). In the single-feature conditions, performance of patients did not differ from controls. In the association conditions, a significant delay-dependent deficit in memory of color-location associations was found. This deficit was largely independent of set size. By contrast, performance in the color-shape and color-letter conditions was normal. These findings support the hypothesis that a region within the right MTL, presumably the hippocampal formation, does not equally support all kinds of visual memory but rather has a bias for processing of associations involving spatial information. Recruitment of this region during memory tasks appears to depend both on processing type (associative/nonassociative) and to-be-remembered material (spatial/nonspatial). Copyright © 2010 Wiley-Liss, Inc.

Definition of a putative pathological region in PARK2 associated with autism spectrum disorder through in silico analysis of its functional structure.

PubMed

Conceição, Inês C; Rama, Maria M; Oliveira, Bárbara; Café, Cátia; Almeida, Joana; Mouga, Susana; Duque, Frederico; Oliveira, Guiomar; Vicente, Astrid M

2017-04-01

The PARK2 gene encodes Parkin, a component of a multiprotein E3 ubiquitin ligase complex that targets substrate proteins for proteasomal degradation. PARK2 mutations are frequently associated with Parkinson's disease, but structural alterations have also been described in patients with neurodevelopmental disorders (NDD), suggesting a pathological effect ubiquitous to neurodevelopmental and neurodegenerative brain processes. The present study aimed to define the critical regions for NDD within PARK2. To clarify PARK2 involvement in NDDs, we examined the frequency and location of copy number variants (CNVs) identified in patients from our sample and reported in the literature and relevant databases, and compared with control populations. Overall, the frequency of PARK2 CNVs was higher in controls than in NDD cases. However, closer inspection of the CNV location in PARK2 showed that the frequency of CNVs targeting the Parkin C-terminal, corresponding to the ring-between-ring (RBR) domain responsible for Parkin activity, is significantly higher in NDD cases than in controls. In contrast, CNVs targeting the N-terminal of Parkin, including domains that regulate ubiquitination activity, are very common both in cases and in controls. Although PARK2 may be a pathological factor for NDDs, likely not all variants are pathogenic, and a conclusive assessment of PARK2 variant pathogenicity requires an accurate analysis of their location within the coding region and encoded functional domains.

Time reversal optical tomography locates fluorescent targets in a turbid medium

NASA Astrophysics Data System (ADS)

Wu, Binlin; Cai, W.; Gayen, S. K.

2013-03-01

A fluorescence optical tomography approach that extends time reversal optical tomography (TROT) to locate fluorescent targets embedded in a turbid medium is introduced. It uses a multi-source illumination and multi-detector signal acquisition scheme, along with TR matrix formalism, and multiple signal classification (MUSIC) to construct pseudo-image of the targets. The samples consisted of a single or two small tubes filled with water solution of Indocyanine Green (ICG) dye as targets embedded in a 250 mm × 250 mm × 60 mm rectangular cell filled with Intralipid-20% suspension as the scattering medium. The ICG concentration was 1μM, and the Intralipid-20% concentration was adjusted to provide ~ 1-mm transport length for both excitation wavelength of 790 nm and fluorescence wavelength around 825 nm. The data matrix was constructed using the diffusely transmitted fluorescence signals for all scan positions, and the TR matrix was constructed by multiplying data matrix with its transpose. A pseudo spectrum was calculated using the signal subspace of the TR matrix. Tomographic images were generated using the pseudo spectrum. The peaks in the pseudo images provided locations of the target(s) with sub-millimeter accuracy. Concurrent transmission TROT measurements corroborated fluorescence-TROT findings. The results demonstrate that TROT is a fast approach that can be used to obtain accurate three-dimensional position information of fluorescence targets embedded deep inside a highly scattering medium, such as, a contrast-enhanced tumor in a human breast.

Priming cases disturb visual search patterns in screening mammography

NASA Astrophysics Data System (ADS)

Lewis, Sarah J.; Reed, Warren M.; Tan, Alvin N. K.; Brennan, Patrick C.; Lee, Warwick; Mello-Thoms, Claudia

2015-03-01

Rationale and Objectives: To investigate the effect of inserting obvious cancers into a screening set of mammograms on the visual search of radiologists. Previous research presents conflicting evidence as to the impact of priming in scenarios where prevalence is naturally low, such as in screening mammography. Materials and Methods: An observer performance and eye position analysis study was performed. Four expert breast radiologists were asked to interpret two sets of 40 screening mammograms. The Control Set contained 36 normal and 4 malignant cases (located at case # 9, 14, 25 and 37). The Primed Set contained the same 34 normal and 4 malignant cases (in the same location) plus 2 "primer" malignant cases replacing 2 normal cases (located at positions #20 and 34). Primer cases were defined as lower difficulty cases containing salient malignant features inserted before cases of greater difficulty. Results: Wilcoxon Signed Rank Test indicated no significant differences in sensitivity or specificity between the two sets (P > 0.05). The fixation count in the malignant cases (#25, 37) in the Primed Set after viewing the primer cases (#20, 34) decreased significantly (Z = -2.330, P = 0.020). False-Negatives errors were mostly due to sampling in the Primed Set (75%) in contrast to in the Control Set (25%). Conclusion: The overall performance of radiologists is not affected by the inclusion of obvious cancer cases. However, changes in visual search behavior, as measured by eye-position recording, suggests visual disturbance by the inclusion of priming cases in screening mammography.

Patterns of rare and abundant marine microbial eukaryotes.

PubMed

Logares, Ramiro; Audic, Stéphane; Bass, David; Bittner, Lucie; Boutte, Christophe; Christen, Richard; Claverie, Jean-Michel; Decelle, Johan; Dolan, John R; Dunthorn, Micah; Edvardsen, Bente; Gobet, Angélique; Kooistra, Wiebe H C F; Mahé, Frédéric; Not, Fabrice; Ogata, Hiroyuki; Pawlowski, Jan; Pernice, Massimo C; Romac, Sarah; Shalchian-Tabrizi, Kamran; Simon, Nathalie; Stoeck, Thorsten; Santini, Sébastien; Siano, Raffaele; Wincker, Patrick; Zingone, Adriana; Richards, Thomas A; de Vargas, Colomban; Massana, Ramon

2014-04-14

Biological communities are normally composed of a few abundant and many rare species. This pattern is particularly prominent in microbial communities, in which most constituent taxa are usually extremely rare. Although abundant and rare subcommunities may present intrinsic characteristics that could be crucial for understanding community dynamics and ecosystem functioning, microbiologists normally do not differentiate between them. Here, we investigate abundant and rare subcommunities of marine microbial eukaryotes, a crucial group of organisms that remains among the least-explored biodiversity components of the biosphere. We surveyed surface waters of six separate coastal locations in Europe, independently considering the picoplankton, nanoplankton, and microplankton/mesoplankton organismal size fractions. Deep Illumina sequencing of the 18S rRNA indicated that the abundant regional community was mostly structured by organismal size fraction, whereas the rare regional community was mainly structured by geographic origin. However, some abundant and rare taxa presented similar biogeography, pointing to spatiotemporal structure in the rare microeukaryote biosphere. Abundant and rare subcommunities presented regular proportions across samples, indicating similar species-abundance distributions despite taxonomic compositional variation. Several taxa were abundant in one location and rare in other locations, suggesting large oscillations in abundance. The substantial amount of metabolically active lineages found in the rare biosphere suggests that this subcommunity constitutes a diversity reservoir that can respond rapidly to environmental change. We propose that marine planktonic microeukaryote assemblages incorporate dynamic and metabolically active abundant and rare subcommunities, with contrasting structuring patterns but fairly regular proportions, across space and time. Copyright © 2014 Elsevier Ltd. All rights reserved.

Diagnosis of pediatric gastric, small-bowel and colonic volvulus.

PubMed

Garel, Charles; Blouet, Marie; Belloy, Frederique; Petit, Thierry; Pelage, Jean-Pierre

2016-01-01

Digestive volvulus affects the stomach, small bowel and mobile segments of the colon and often has a developmental cause. Reference radiologic examinations include upper gastrointestinal contrast series for gastric volvulus, possibly with ultrasonography for small-bowel volvulus, and contrast enema for colonic volvulus. Treatment is usually surgical. This pictorial essay describes the embryological development and discusses the clinical and radiologic presentation of volvulus, depending on location, and details the appropriate radiologic examinations.

Strong population genetic structure and contrasting demographic histories for the small-spotted catshark (Scyliorhinus canicula) in the Mediterranean Sea

PubMed Central

Kousteni, V; Kasapidis, P; Kotoulas, G; Megalofonou, P

2015-01-01

Coastal and demersal chondrichthyans, such as the small-spotted catshark, are expected to exhibit genetic differentiation in areas of complex geomorphology like the Mediterranean Basin because of their limited dispersal ability. To test this hypothesis, we used a fragment of the mitochondrial cytochrome c oxidase subunit I gene and 12 nuclear microsatellite loci in order to investigate the genetic structure and historical demography of this species, and to identify potential barriers to gene flow. Samples were collected from the Balearic Islands, the Algerian Basin, the Ionian Sea, the Corinthian Gulf and various locations across the Aegean Sea. Additional sequences from the Atlantic and the Levantine Basin retrieved from GenBank were included in the mitochondrial DNA analysis. Both mitochondrial and nuclear microsatellite DNA data revealed a strong genetic subdivision, mainly between the western and eastern Mediterranean, whereas the Levantine Basin shared haplotypes with both areas. The geographic isolation of the Mediterranean basins seems to enforce the population genetic differentiation of the species, with the deep sea acting as a strong barrier to its dispersal. Contrasting historical demographic patterns were also observed in different parts of the species' distribution, most notably a population growth trend in the western Mediterranean/Atlantic area and a slight decreasing one in the Aegean Sea. The different effects of the Pleistocene glacial periods on the habitat availability may explain the contrasting demographic patterns observed. The current findings suggest that the small-spotted catshark exhibits several genetic stocks in the Mediterranean, although further study is needed. PMID:25469687

Core needle biopsy of soft tissue tumors, CEUS vs US guided: a pilot study.

PubMed

Coran, Alessandro; Di Maggio, Antonio; Rastrelli, Marco; Alberioli, Enrico; Attar, Shady; Ortolan, Paolo; Bortolanza, Carlo; Tosi, Annalisa; Montesco, Maria Cristina; Bezzon, Elisabetta; Rossi, Carlo Riccardo; Stramare, Roberto

2015-12-01

The purpose of this study was to evaluate the usefulness of contrast-enhanced ultrasonography (CEUS) in the bioptic sampling of soft tissue tumors (STT) compared with unenhanced ultrasonography alone. This is a prospective longitudinal study of 40 patients subjected to ultrasonography (US)-guided core needle biopsy (CNB) to characterize a suspected STT. Three series of bioptic samplings were carried out on each patient, respectively using unenhanced US alone and CEUS in both the areas of the tumor enhanced or not by the contrast medium. All bioptic samples underwent a histological evaluation and the results were analyzed by comparing the histology of the biopsy with the definitive diagnosis in 15 surgically excised samples. 27 (67.5 %) of the 40 patients completed the entire study procedure; in 19 cases (70.3 %) the three bioptic samplings gave unanimous results, also when compared to the surgical specimen; in seven cases (25.9 %) use of CEUS allowed to obtain additional or more accurate information about the mass in question, compared to simple US guidance without contrast; in one patient (3.7 %) sampling obtained using unenhanced ultrasonography guidance and in the areas enhanced by the contrast agent had precisely the same results of the surgical specimen. CEUS, due to its ability to evaluate microvascular areas, has proven to be a promising method in guiding bioptic sampling of soft tissue tumor, directing the needle to the most significant areas of the tumor. Given the small number of patients evaluated in our study, to achieve statistically significant results, it would be appropriate to obtain a larger sample size, since the very first results seem to be encouraging and to justify the increase of the population.

2015 Long-Term Hydrologic Monitoring Program Sampling and Analysis Results at Rio Blanco, Colorado

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

Findlay, Rick; Kautsky, Mark

2015-12-01

The U.S. Department of Energy (DOE) Office of Legacy Management conducted annual sampling at the Rio Blanco, Colorado, Site for the Long-Term Hydrologic Monitoring Program (LTHMP) on May 20–21, 2015. This report documents the analytical results of the Rio Blanco annual monitoring event, the trip report, and the data validation package. The groundwater and surface water monitoring samples were shipped to the GEL Group Inc. laboratories for conventional analysis of tritium and analysis of gamma-emitting radionuclides by high-resolution gamma spectrometry. A subset of water samples collected from wells near the Rio Blanco site was also sent to GEL Group Inc.more » for enriched tritium analysis. All requested analyses were successfully completed. Samples were collected from a total of four onsite wells, including two that are privately owned. Samples were also collected from two additional private wells at nearby locations and from nine surface water locations. Samples were analyzed for gamma-emitting radionuclides by high-resolution gamma spectrometry, and they were analyzed for tritium using the conventional method with a detection limit on the order of 400 picocuries per liter (pCi/L). Four locations (one well and three surface locations) were analyzed using the enriched tritium method, which has a detection limit on the order of 3 pCi/L. The enriched locations included the well at the Brennan Windmill and surface locations at CER-1, CER-4, and Fawn Creek 500 feet upstream.« less

A field test of point relascope sampling of down coarse woody material in managed stands in the Acadian Forest

Treesearch

John C. Brissette; Mark J. Ducey; Jeffrey H. Gove

2003-01-01

We field tested a new method for sampling down coarse woody material (CWM) using an angle gauge and compared it with the more traditional line intersect sampling (LIS) method. Permanent sample locations in stands managed with different silvicultural treatments within the Penobscot Experimental Forest (Maine, USA) were used as the sampling locations. Point relascope...

Rapid Regional Centroid Solutions

NASA Astrophysics Data System (ADS)

Wei, S.; Zhan, Z.; Luo, Y.; Ni, S.; Chen, Y.; Helmberger, D. V.

2009-12-01

The 2008 Wells Nevada Earthquake was recorded by 164 broadband USArray stations within a distance of 550km (5 degrees) with all azimuths uniformly sampled. To establish the source parameters, we applied the Cut and Paste (CAP) code to all the stations to obtain a mechanism (strike/dip/rake=35/41/-85) at a depth of 9km and Mw=5.9. Surface wave shifts range from -8s to 8s which are in good agreement with ambient seismic noise (ASN) predictions. Here we use this data set to test the accuracy of the number of stations needed to obtain adequate solutions (position of the compressional and tension axis) for mechanism. The stations were chosen at random where combinations of Pnl and surface waves were used to establish mechanism and depth. If the event is bracketed by two stations, we obtain an accurate magnitude with good solutions about 80% of the trials. Complete solutions from four stations or Pnl from 10 stations prove reliable in nearly all situations. We also explore the use of this dataset in locating the event using a combination of surface wave travel times and/or the full waveform inversion (CAPloc) that uses the CAP shifts to refine locations. If the mechanism is known (fixed) only a few stations is needed to locate an event to within 5km if date is available at less than 150km. In contrast, surface wave travel times (calibrated to within one second) produce amazing accurate locations with only 6 stations reasonably distributed. It appears this approach is easily automated as suggested by Scrivner and Helmberger (1995) who discussed travel times of Pnl and surface waves and the evolving of source accuracy as the various phases arrive.

Distribution of Organic Carbon in the Sediments of Xinxue River and the Xinxue River Constructed Wetland, China.

PubMed

Cao, Qingqing; Wang, Renqing; Zhang, Haijie; Ge, Xiuli; Liu, Jian

2015-01-01

Wetland ecosystems are represented as a significant reservoir of organic carbon and play an important role in mitigating the greenhouse effect. In order to compare the compositions and distribution of organic carbon in constructed and natural river wetlands, sediments from the Xinxue River Constructed Wetland and the Xinxue River, China, were sampled at two depths (0-15 cm and 15-25 cm) in both upstream and downstream locations. Three types of organic carbon were determined: light fraction organic carbon, heavy fraction organic carbon, and dissolved organic carbon. The results show that variations in light fraction organic carbon are significantly larger between upstream and downstream locations than they are between the two wetland types; however, the opposite trend is observed for the dissolved organic carbon. There are no significant differences in the distribution of heavy fraction organic carbon between the discrete variables (e.g., between the two depths, the two locations, or the two wetland types). However, there are significant cross-variable differences; for example, the distribution patterns of heavy fraction organic carbon between wetland types and depths, and between wetland types and locations. Correlation analysis reveals that light fraction organic carbon is positively associated with light fraction nitrogen in both wetlands, while heavy fraction organic carbon is associated with both heavy fraction nitrogen and the moisture content in the constructed wetland. The results of this study demonstrate that the constructed wetland, which has a relatively low background value of heavy fraction organic carbon, is gradually accumulating organic carbon of different types, with the level of accumulation dependent on the balance between carbon accumulation and carbon decomposition. In contrast, the river wetland has relatively stable levels of organic carbon.

Distribution of Organic Carbon in the Sediments of Xinxue River and the Xinxue River Constructed Wetland, China

PubMed Central

Cao, Qingqing; Wang, Renqing; Zhang, Haijie; Ge, Xiuli; Liu, Jian

2015-01-01

Wetland ecosystems are represented as a significant reservoir of organic carbon and play an important role in mitigating the greenhouse effect. In order to compare the compositions and distribution of organic carbon in constructed and natural river wetlands, sediments from the Xinxue River Constructed Wetland and the Xinxue River, China, were sampled at two depths (0–15 cm and 15–25 cm) in both upstream and downstream locations. Three types of organic carbon were determined: light fraction organic carbon, heavy fraction organic carbon, and dissolved organic carbon. The results show that variations in light fraction organic carbon are significantly larger between upstream and downstream locations than they are between the two wetland types; however, the opposite trend is observed for the dissolved organic carbon. There are no significant differences in the distribution of heavy fraction organic carbon between the discrete variables (e.g., between the two depths, the two locations, or the two wetland types). However, there are significant cross-variable differences; for example, the distribution patterns of heavy fraction organic carbon between wetland types and depths, and between wetland types and locations. Correlation analysis reveals that light fraction organic carbon is positively associated with light fraction nitrogen in both wetlands, while heavy fraction organic carbon is associated with both heavy fraction nitrogen and the moisture content in the constructed wetland. The results of this study demonstrate that the constructed wetland, which has a relatively low background value of heavy fraction organic carbon, is gradually accumulating organic carbon of different types, with the level of accumulation dependent on the balance between carbon accumulation and carbon decomposition. In contrast, the river wetland has relatively stable levels of organic carbon. PMID:26230255

Textural analysis of optical coherence tomography skin images: quantitative differentiation between healthy and cancerous tissues

NASA Astrophysics Data System (ADS)

Adabi, Saba; Conforto, Silvia; Hosseinzadeh, Matin; Noe, Shahryar; Daveluy, Steven; Mehregan, Darius; Nasiriavanaki, Mohammadreza

2017-02-01

Optical Coherence Tomography (OCT) offers real-time high-resolution three-dimensional images of tissue microstructures. In this study, we used OCT skin images acquired from ten volunteers, neither of whom had any skin conditions addressing the features of their anatomic location. OCT segmented images are analyzed based on their optical properties (attenuation coefficient) and textural image features e.g., contrast, correlation, homogeneity, energy, entropy, etc. Utilizing the information and referring to their clinical insight, we aim to make a comprehensive computational model for the healthy skin. The derived parameters represent the OCT microstructural morphology and might provide biological information for generating an atlas of normal skin from different anatomic sites of human skin and may allow for identification of cell microstructural changes in cancer patients. We then compared the parameters of healthy samples with those of abnormal skin and classified them using a linear Support Vector Machines (SVM) with 82% accuracy.

Seismic transect across the Lomonosov and Mendeleev Ridges: Constraints on the geological evolution of the Amerasia Basin, Arctic Ocean

NASA Astrophysics Data System (ADS)

Jokat, Wilfried; Ickrath, Michele; O'Connor, John

2013-10-01

We report on seismic and petrological data that provide new constraints on the geological evolution of the Amerasia Basin. A seismic reflection transect across the Makarov Basin, located between the Mendeleev and Lomonosov Ridges, shows a complete undisturbed sedimentary section of Mesozoic/Cenozoic age. In contrast to the Mendeleev Ridge, the margin of the Lomonosov Ridge is wide and shows horst and graben structures. We suggest that the Mendeleev Ridge is most likely volcanic in origin and support this finding with a 40Ar/39Ar isotopic age for a tholeiitic basalt sampled from the central Alpha/Mendeleev Ridge. Seismic reflection data for the Makarov Basin show no evidence of compressional features, consistent with the Lomonosov Ridge moving as a microplate in the Cenozoic. We propose that the Amerasia Basin moved as a single tectonic plate during the opening of the Eurasia Basin.

Photoacoustic tomography of foreign bodies in soft biological tissue.

PubMed

Cai, Xin; Kim, Chulhong; Pramanik, Manojit; Wang, Lihong V

2011-04-01

In detecting small foreign bodies in soft biological tissue, ultrasound imaging suffers from poor sensitivity (52.6%) and specificity (47.2%). Hence, alternative imaging methods are needed. Photoacoustic (PA) imaging takes advantage of strong optical absorption contrast and high ultrasonic resolution. A PA imaging system is employed to detect foreign bodies in biological tissues. To achieve deep penetration, we use near-infrared light ranging from 750 to 800 nm and a 5-MHz spherically focused ultrasonic transducer. PA images were obtained from various targets including glass, wood, cloth, plastic, and metal embedded more than 1 cm deep in chicken tissue. The locations and sizes of the targets from the PA images agreed well with those of the actual samples. Spectroscopic PA imaging was also performed on the objects. These results suggest that PA imaging can potentially be a useful intraoperative imaging tool to identify foreign bodies.

Children's acquisition of nouns and verbs in Italian: contrasting the roles of frequency and positional salience in maternal language.

PubMed

Longobardi, Emiddia; Rossi-Arnaud, Clelia; Spataro, Pietro; Putnick, Diane L; Bornstein, Marc H

2015-01-01

Because of its structural characteristics, specifically the prevalence of verb types in infant-directed speech and frequent pronoun-dropping, the Italian language offers an attractive opportunity to investigate the predictive effects of input frequency and positional salience on children's acquisition of nouns and verbs. We examined this issue in a sample of twenty-six mother-child dyads whose spontaneous conversations were recorded, transcribed, and coded at 1;4 and 1;8. The percentages of nouns occurring in the final position of maternal utterances at 1;4 predicted children's production of noun types at 1;8. For verbs, children's growth rates were positively predicted by the percentages of input verbs occurring in utterance-initial position, but negatively predicted by the percentages of verbs located in the final position of maternal utterances at 1;4. These findings clearly illustrate that the effects of positional salience vary across lexical categories.

A description of how metal pollution occurs in the Tinto-Odiel rias (Huelva-Spain) through the application of cluster analysis.

PubMed

Grande, J A; Borrego, J; Morales, J A; de la Torre, M L

2003-04-01

In the last few decades, the study of space-time distribution and variations of heavy metals in estuaries has been extensively studied as an environmental indicator. In the case described here, the combination of acid water from mines, industrial effluents and sea water plays a determining role in the evolutionary process of the chemical makeup of the water in the estuary of the Tinto and Odiel Rivers, located in the southwest of the Iberian Peninsula. Based on the statistical treatment of the data from the analysis of the water samples from this system, which has been affected by processes of industrial and mining pollution, the 16 variables analyzed can be grouped into two large families. Each family presents high, positive Pearson r values that suggest common origins (fluvial or sea) for the pollutants present in the water analyzed and allow their subsequent contrast through cluster analysis.

Application of a systemic approach to the study of pollution of the Tinto and Odiel rivers (Spain).

PubMed

Sainz, A; Grande, J A; De La Torre, M L

2005-03-01

The province of Huelva in the SW of Spain presents high environmental contrasts: together with the great abundance of natural spaces, it shows the impacts of historical natural resources exploitation processes. In the Ria of Huelva, the effluents of the chemical industries must be added to the contaminating inputs of the Tinto and Odiel rivers, coming from the acid drainage of the mines located in the Iberian Pyrite Belt. This forced the Environmental Agency (AMA) to elaborate in 1987 an Effluent Remediation Plan in order to negate unacceptable environmental impacts. The application of a "grey box" systemic analysis to the AMD pollution, undergone by the Tinto and Odiel rivers has allowed to set a conclusive explanation of the sampling results observed for a period of 11 years, thus making available an overall view of the polluting process and, above all, an explanation of its partial aspects.

A wavefront reconstruction method for 3-D cylindrical subsurface radar imaging.

PubMed

Flores-Tapia, Daniel; Thomas, Gabriel; Pistorius, Stephen

2008-10-01

In recent years, the use of radar technology has been proposed in a wide range of subsurface imaging applications. Traditionally, linear scan trajectories are used to acquire data in most subsurface radar applications. However, novel applications, such as breast microwave imaging and wood inspection, require the use of nonlinear scan trajectories in order to adjust to the geometry of the scanned area. This paper proposes a novel reconstruction algorithm for subsurface radar data acquired along cylindrical scan trajectories. The spectrum of the collected data is processed in order to locate the spatial origin of the target reflections and remove the spreading of the target reflections which results from the different signal travel times along the scan trajectory. The proposed algorithm was successfully tested using experimental data collected from phantoms that mimic high contrast subsurface radar scenarios, yielding promising results. Practical considerations such as spatial resolution and sampling constraints are discussed and illustrated as well.

Mercury bioaccumulation studies in the National Water-Quality Assessment Program--biological data from New York and South Carolina, 2005-2009

USGS Publications Warehouse

Beaulieu, Karen M.; Button, Daniel T.; Eikenberry, Barbara C. Scudder; Riva-Murray, Karen; Chasar, Lia C.; Bradley, Paul M.; Burns, Douglas A.

2012-01-01

The U.S. Geological Survey National Water-Quality Assessment Program conducted a multidisciplinary study from 2005–09 to investigate the bioaccumulation of mercury in streams from two contrasting environmental settings. Study areas were located in the central Adirondack Mountains region of New York and the Inner Coastal Plain of South Carolina. Fish, macroinvertebrates, periphyton (attached algae and associated material), detritus, and terrestrial leaf litter were collected. Fish were analyzed for total mercury; macroinvertebrates, periphyton, and terrestrial leaf litter were analyzed for total mercury and methylmercury; and select samples of fish, macroinvertebrates, periphyton, detritus, and terrestrial leaf litter were analyzed for stable isotopes of carbon (δ13C) and nitrogen (δ15N). This report presents methodology and data on total mercury, methylmercury, stable isotopes, and other ecologically relevant measurements in biological tissues.

Inventory of Drug Samples in a Health Care Institution

PubMed Central

Soucy, Geneviève; Bussières, Jean-François; Tardif, Lyne; Bailey, Benoît

2009-01-01

Background: Few data exist on the presence of drug samples in health care facilities. Although the use of drug samples has potential benefits, this practice is also controversial, as it can contribute to non-optimal drug use. The objective of this study was to evaluate the inventory of drug samples in a health care institution and to determine compliance with existing policies and procedures. Methods: This descriptive observational study was conducted in a university hospital centre from October 18 to November 1, 2007. A standardized data collection form was used for a physical inventory, which was intended to identify all drug samples available in the institution. The following information was recorded: number of locations where drug samples were found, primary patient care activity performed at each location, number of storage areas in the location, type of storage, presence of a lock, location of the key (if a lock was present), medical specialty, number of physicians and nurses likely to use the samples, reasons given for handing out samples, presence of a designated person to manage the samples, physical inventory (i.e., various details for each distribution unit), and declaration of samples to the pharmacy department. The inventory was conducted by 2 research assistants during day shifts. Results: A total of 84 locations were included in the inventory, and drug samples were found in 21 locations (with a total of 31 storage areas). All of the locations were intended for ambulatory patients (outpatient clinics and day centres). No drug samples were found in inpatient care units. The drug samples, which came from 62 different pharmaceutical companies, represented a total of 159 generic entities and 266 different brands. Of the distribution units for drug samples that were identified during this inventory, 59% were not on the hospital’s local formulary. Furthermore, only 3.5% of the distribution units had been declared to the pharmacy department, in accordance with established policy. The sample distribution units, including expired units, totalled 78 955 doses, with a total value of Can$48 783 (based on unit prices in effect in October 2007). Conclusion: This study presents an inventory of drug samples in an urban health care institution and reports compliance with the institution’s policies and procedures regarding drug samples. Samples were found only in outpatient clinics and represented 2.4 times the hospital’s floor stock of medications. Most of the samples inventoried were not listed on the hospital’s formulary. It appears that the use of drug samples is underestimated in hospital settings. Further studies are needed to evaluate the importance of drug samples and the risks associated with their use. PMID:22478908

Diversity and Vertical Distribution of Microbial Eukaryotes in the Snow, Sea Ice and Seawater Near the North Pole at the End of the Polar Night

PubMed Central

Bachy, Charles; López-García, Purificación; Vereshchaka, Alexander; Moreira, David

2011-01-01

Our knowledge about the microorganisms living in the high Arctic Ocean is still rudimentary compared to other oceans mostly because of logistical challenges imposed by its inhospitable climate and the presence of a multi-year ice cap. We have used 18S rRNA gene libraries to study the diversity of microbial eukaryotes in the upper part of the water column (0–170 m depth), the sea ice (0–1.5 m depth) and the overlying snow from samples collected in the vicinity of the North Pole (N88°35′, E015°59) at the very end of the long polar night. We detected very diverse eukaryotes belonging to Alveolata, Fungi, Amoebozoa, Viridiplantae, Metazoa, Rhizaria, Heterokonta, and Telonemia. Different alveolates (dinoflagellates and Marine Alveolate Groups I and II species) were the most abundant and diverse in gene libraries from water and sea ice, representing 80% of the total number of clones and operational taxonomic units. Only contaminants and/or species from continental ecosystems were detected in snow, suggesting wind- and animal- or human-mediated cosmopolitan dispersal of some taxa. By contrast, sea ice and seawater samples harbored a larger and more similar inter-sample protist diversity as compared with snow. The North Pole was found to harbor distinctive eukaryotic communities along the vertical gradient with an unparalleled diversity of core dinoflagellates, largely dominant in libraries from the water column, as compared to other oceanic locations. In contrast, phototrophic organisms typical of Arctic sea ice and plankton, such as diatoms and prasinophytes, were very rare in our samples. This was most likely due to a decrease of their populations after several months of polar night darkness and to the presence of rich populations of diverse grazers. Whereas strict phototrophs were scarce, we identified a variety of likely mixotrophic taxa, which supports the idea that mixotrophy may be important for the survival of diverse protists through the long polar night. PMID:21833337

Molecular imaging with targeted perfluorocarbon nanoparticles: Quantification of the concentration dependence of contrast enhancement for binding to sparse cellular epitopes

PubMed Central

Marsh, Jon N.; Partlow, Kathryn C.; Abendschein, Dana R.; Scott, Michael J.; Lanza, Gregory M.; Wickline, Samuel A.

2007-01-01

Targeted, liquid perfluorocarbon nanoparticles are effective agents for acoustic contrast enhancement of abundant cellular epitopes (e.g. fibrin in thrombi) and for lower prevalence binding sites, such as integrins associated with tumor neovasculature. In this study we sought to delineate the quantitative relationship between the extent of contrast enhancement of targeted surfaces and the density (and concentration) of bound perfluorocarbon (PFC) nanoparticles. Two dramatically different substrates were utilized for targeting. In one set of experiments, the surfaces of smooth, flat, avidin-coated agar disks were exposed to biotinylated nanoparticles to yield a thin layer of targeted contrast. For the second set of measurements, we targeted PFC nanoparticles applied in thicker layers to cultured smooth muscle cells expressing the transmembrane glycoprotein “tissue factor” at the cell surface. An acoustic microscope was used to characterize reflectivity for all samples as a function of bound PFC (determined via gas chromatography). We utilized a formulation of low-scattering nanoparticles having oil-based cores to compete against high-scattering PFC nanoparticles for binding, to elucidate the dependence of contrast enhancement on PFC concentration. The relationship between reflectivity enhancement and bound PFC content varied in a curvilinear fashion, and exhibited an apparent asymptote (approximately 16 dB and 9 dB enhancement for agar and cell samples, respectively) at the maximum concentrations (~150 μg and ~1000 μg PFOB for agar and cell samples, respectively). Samples targeted with only oil-based nanoparticles exhibited mean backscatter values that were nearly identical to untreated samples (<1 dB difference), confirming the oil particles’ low-scattering behavior. The results of this study indicate that substantial contrast enhancement with liquid perfluorocarbon nanoparticles can be realized even in cases of partial surface coverage (as might be encountered when targeting sparsely populated epitopes), or when targeting surfaces with locally irregular topography. Furthermore, it may be possible to assess the quantity of bound cellular epitopes through acoustic means. PMID:17434667

Simulation analyses of space use: Home range estimates, variability, and sample size

USGS Publications Warehouse

Bekoff, Marc; Mech, L. David

1984-01-01

Simulations of space use by animals were run to determine the relationship among home range area estimates, variability, and sample size (number of locations). As sample size increased, home range size increased asymptotically, whereas variability decreased among mean home range area estimates generated by multiple simulations for the same sample size. Our results suggest that field workers should ascertain between 100 and 200 locations in order to estimate reliably home range area. In some cases, this suggested guideline is higher than values found in the few published studies in which the relationship between home range area and number of locations is addressed. Sampling differences for small species occupying relatively small home ranges indicate that fewer locations may be sufficient to allow for a reliable estimate of home range. Intraspecific variability in social status (group member, loner, resident, transient), age, sex, reproductive condition, and food resources also have to be considered, as do season, habitat, and differences in sampling and analytical methods. Comparative data still are needed.

49 CFR 238.123 - Emergency roof access.

Code of Federal Regulations, 2012 CFR

2012-10-01

... access location shall be conspicuously marked with retroreflective material of contrasting color. As... material shall conspicuously mark the line along which the roof skin shall be cut; and (2) A sign plate...

Locatives and Existentials in L2 Spanish: The Acquisition of the Semantic Contrasts among "Ser", "Estar" and "Haber"

ERIC Educational Resources Information Center

Perpiñán, Silvia

2014-01-01

This study analyses the expression of locative and existential predicates elicited through an oral production task in the speech of two groups of learners of Spanish as a second language (L2) (first language English, n = 18; first language Moroccan Arabic, n = 14), and a native control group (n = 18). A total of 25,000 words were analysed, with…

Portable head computed tomography scanner--technology and applications: experience with 3421 scans.

PubMed

Carlson, Andrew P; Yonas, Howard

2012-10-01

The use of head computed tomography (CT) is standard in the management of acute brain injury; however, there are inherent risks of transport of critically ill patients. Portable CT can be brought to the patient at any location. We describe the clinical use of a portable head CT scanner (CereTom: NeuroLogica: Danvers, MA) that can be brought to the patient's bedside or to other locations such as the operating room or angiography suite. Between June of 2006 and December of 2009, a total of 3421 portable CTs were performed. A total of 3278 (95.8%) were performed in the neuroscience intensive care unit (ICU) for an average of 2.6 neuroscience ICU CT scans per day. Other locations where CTs were performed included other ICUs (n = 97), the operating room (n = 53), the emergency department (n = 1), and the angiography suite (n = 2). Most studies were non-contrasted head CT, though other modalities including xenon/CT, contrasted CT, and CT angiography were performed. Portable head CT can reliably and consistently be performed at the patient's bedside. This should lead to decreased transportation-related morbidity and improved rapid decision making in the ICU, OR, and other locations. Further studies to confirm this clinical advantage are needed. Copyright © 2011 by the American Society of Neuroimaging.

Soil Moisture, Coastline Curvature, and Sea Breeze Initiated Precipitation Over Florida

NASA Technical Reports Server (NTRS)

Baker, R. David; Lynn, Barry H.; Boone, Aaron; Tao, Wei-Kuo

1999-01-01

Land surface-atmosphere interaction plays a key role in the development of summertime convection and precipitation over the Florida peninsula. Land-ocean temperature contrasts induce sea-breeze circulations along both coasts. Clouds develop along sea-breeze fronts, and significant precipitation can occur during the summer months. However, other factors such as soil moisture distribution and coastline curvature may modulate the timing, location, and intensity of sea breeze initiated precipitation. Here, we investigate the role of soil moisture and coastline curvature on Florida precipitation using the 3-D Goddard Cumulus Ensemble (GCE) cloud model coupled with the Parameterization for Land-Atmosphere-Cloud Exchange (PLACE) land surface model. This study utilizes data from the Convection and Precipitation Electrification Experiment (CaPE) collected on 27 July 1991. Our numerical simulations suggest that a realistic distribution of soil moisture influences the location and intensity of precipitation but not the timing of precipitation. In contrast, coastline curvature affects the timing and location of precipitation but has little influence on peak rainfall rates. However, both factors (soil moisture and coastline curvature) are required to fully account for observed rainfall amounts.

Nonlinear Dynamics of the Nearshore Boundary Layer of a Large Lake (Lake Geneva)

NASA Astrophysics Data System (ADS)

Cimatoribus, Andrea A.; Lemmin, U.; Bouffard, D.; Barry, D. A.

2018-02-01

We examine nearshore and pelagic current variability in Lake Geneva, a large and deep lake in western Europe, using observations from several measurement locations and a three-dimensional numerical model for the period 2014-2016. Linear internal seiche modes excited by wind forcing clearly appear as peaks in the energy spectra for measurements in offshore locations. In contrast, spectra from the nearshore data, where currents interact with the lake bed, reveal a negligible contribution of internal seiches to the total kinetic energy. A similar contrast is seen in the spectra obtained from the numerical model at the same locations. Comparing the contribution of the different terms in the vertically averaged momentum equation from the modeling results shows that the nonlinear advective term dominates in the nearshore boundary layer. Its contribution decays with distance from shore. The width of this nearshore boundary layer, which may extend for several kilometers, seems to be mainly determined by local topography. Both field measurements and modeling results indicate that nonlinear dynamics are of primary importance in the nearshore boundary layer.

Short-Term Memory for Temporal Intervals: Contrasting Explanations of the Choose-Short Effect in Pigeons

ERIC Educational Resources Information Center

Pinto, Carlos; Machado, Armando

2011-01-01

To better understand short-term memory for temporal intervals, we re-examined the choose-short effect. In Experiment 1, to contrast the predictions of two models of this effect, the subjective shortening and the coding models, pigeons were exposed to a delayed matching-to-sample task with three sample durations (2, 6 and 18 s) and retention…

Language and memory for object location.

PubMed

Gudde, Harmen B; Coventry, Kenny R; Engelhardt, Paul E

2016-08-01

In three experiments, we investigated the influence of two types of language on memory for object location: demonstratives (this, that) and possessives (my, your). Participants first read instructions containing demonstratives/possessives to place objects at different locations, and then had to recall those object locations (following object removal). Experiments 1 and 2 tested contrasting predictions of two possible accounts of language on object location memory: the Expectation Model (Coventry, Griffiths, & Hamilton, 2014) and the congruence account (Bonfiglioli, Finocchiaro, Gesierich, Rositani, & Vescovi, 2009). In Experiment 3, the role of attention allocation as a possible mechanism was investigated. Results across all three experiments show striking effects of language on object location memory, with the pattern of data supporting the Expectation Model. In this model, the expected location cued by language and the actual location are concatenated leading to (mis)memory for object location, consistent with models of predictive coding (Bar, 2009; Friston, 2003). Copyright © 2016 The Authors. Published by Elsevier B.V. All rights reserved.

Hanford Site Environmental Surveillance Master Sampling Schedule for Calendar Year 2007

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

Bisping, Lynn E.

2007-01-31

This document contains the calendar year 2007 schedule for the routine collection of samples for the Surface Environmental Surveillance Project and Drinking Water Monitoring Project. Each section includes sampling locations, sampling frequencies, sample types, and analyses to be performed. In some cases, samples are scheduled on a rotating basis and may not be collected in 2007 in which case the anticipated year for collection is provided. Maps showing approximate sampling locations are included for media scheduled for collection in 2007.

Single-shot quantitative phase microscopy with color-multiplexed differential phase contrast (cDPC).

PubMed

Phillips, Zachary F; Chen, Michael; Waller, Laura

2017-01-01

We present a new technique for quantitative phase and amplitude microscopy from a single color image with coded illumination. Our system consists of a commercial brightfield microscope with one hardware modification-an inexpensive 3D printed condenser insert. The method, color-multiplexed Differential Phase Contrast (cDPC), is a single-shot variant of Differential Phase Contrast (DPC), which recovers the phase of a sample from images with asymmetric illumination. We employ partially coherent illumination to achieve resolution corresponding to 2× the objective NA. Quantitative phase can then be used to synthesize DIC and phase contrast images or extract shape and density. We demonstrate amplitude and phase recovery at camera-limited frame rates (50 fps) for various in vitro cell samples and c. elegans in a micro-fluidic channel.

Optimization of propagation-based x-ray phase-contrast tomography for breast cancer imaging

NASA Astrophysics Data System (ADS)

Baran, P.; Pacile, S.; Nesterets, Y. I.; Mayo, S. C.; Dullin, C.; Dreossi, D.; Arfelli, F.; Thompson, D.; Lockie, D.; McCormack, M.; Taba, S. T.; Brun, F.; Pinamonti, M.; Nickson, C.; Hall, C.; Dimmock, M.; Zanconati, F.; Cholewa, M.; Quiney, H.; Brennan, P. C.; Tromba, G.; Gureyev, T. E.

2017-03-01

The aim of this study was to optimise the experimental protocol and data analysis for in-vivo breast cancer x-ray imaging. Results are presented of the experiment at the SYRMEP beamline of Elettra Synchrotron using the propagation-based phase-contrast mammographic tomography method, which incorporates not only absorption, but also x-ray phase information. In this study the images of breast tissue samples, of a size corresponding to a full human breast, with radiologically acceptable x-ray doses were obtained, and the degree of improvement of the image quality (from the diagnostic point of view) achievable using propagation-based phase-contrast image acquisition protocols with proper incorporation of x-ray phase retrieval into the reconstruction pipeline was investigated. Parameters such as the x-ray energy, sample-to-detector distance and data processing methods were tested, evaluated and optimized with respect to the estimated diagnostic value using a mastectomy sample with a malignant lesion. The results of quantitative evaluation of images were obtained by means of radiological assessment carried out by 13 experienced specialists. A comparative analysis was performed between the x-ray and the histological images of the specimen. The results of the analysis indicate that, within the investigated range of parameters, both the objective image quality characteristics and the subjective radiological scores of propagation-based phase-contrast images of breast tissues monotonically increase with the strength of phase contrast which in turn is directly proportional to the product of the radiation wavelength and the sample-to-detector distance. The outcomes of this study serve to define the practical imaging conditions and the CT reconstruction procedures appropriate for low-dose phase-contrast mammographic imaging of live patients at specially designed synchrotron beamlines.

Using machine-learning to optimize phase contrast in a low-cost cellphone microscope

PubMed Central

Wartmann, Rolf; Schadwinkel, Harald; Heintzmann, Rainer

2018-01-01

Cellphones equipped with high-quality cameras and powerful CPUs as well as GPUs are widespread. This opens new prospects to use such existing computational and imaging resources to perform medical diagnosis in developing countries at a very low cost. Many relevant samples, like biological cells or waterborn parasites, are almost fully transparent. As they do not exhibit absorption, but alter the light’s phase only, they are almost invisible in brightfield microscopy. Expensive equipment and procedures for microscopic contrasting or sample staining often are not available. Dedicated illumination approaches, tailored to the sample under investigation help to boost the contrast. This is achieved by a programmable illumination source, which also allows to measure the phase gradient using the differential phase contrast (DPC) [1, 2] or even the quantitative phase using the derived qDPC approach [3]. By applying machine-learning techniques, such as a convolutional neural network (CNN), it is possible to learn a relationship between samples to be examined and its optimal light source shapes, in order to increase e.g. phase contrast, from a given dataset to enable real-time applications. For the experimental setup, we developed a 3D-printed smartphone microscope for less than 100 $ using off-the-shelf components only such as a low-cost video projector. The fully automated system assures true Koehler illumination with an LCD as the condenser aperture and a reversed smartphone lens as the microscope objective. We show that the effect of a varied light source shape, using the pre-trained CNN, does not only improve the phase contrast, but also the impression of an improvement in optical resolution without adding any special optics, as demonstrated by measurements. PMID:29494620

Microscopic dual-energy CT (microDECT): a flexible tool for multichannel ex vivo 3D imaging of biological specimens.

PubMed

Handschuh, S; Beisser, C J; Ruthensteiner, B; Metscher, B D

2017-07-01

Dual-energy computed tomography (DECT) uses two different x-ray energy spectra in order to differentiate between tissues, materials or elements in a single sample or patient. DECT is becoming increasingly popular in clinical imaging and preclinical in vivo imaging of small animal models, but there have been only very few reports on ex vivo DECT of biological samples at microscopic resolutions. The present study has three main aims. First, we explore the potential of microscopic DECT (microDECT) for delivering isotropic multichannel 3D images of fixed biological samples with standard commercial laboratory-based microCT setups at spatial resolutions reaching below 10 μm. Second, we aim for retaining the maximum image resolution and quality during the material decomposition. Third, we want to test the suitability for microDECT imaging of different contrast agents currently used for ex vivo staining of biological samples. To address these aims, we used microCT scans of four different samples stained with x-ray dense contrast agents. MicroDECT scans were acquired with five different commercial microCT scanners from four companies. We present a detailed description of the microDECT workflow, including sample preparation, image acquisition, image processing and postreconstruction material decomposition, which may serve as practical guide for applying microDECT. The MATLAB script (The Mathworks Inc., Natick, MA, USA) used for material decomposition (including a graphical user interface) is provided as a supplement to this paper (https://github.com/microDECT/DECTDec). In general, the presented microDECT workflow yielded satisfactory results for all tested specimens. Original scan resolutions have been mostly retained in the separate material fractions after basis material decomposition. In addition to decomposition of mineralized tissues (inherent sample contrast) and stained soft tissues, we present a case of double labelling of different soft tissues with subsequent material decomposition. We conclude that, in contrast to in vivo DECT examinations, small ex vivo specimens offer some clear advantages regarding technical parameters of the microCT setup and the use of contrast agents. These include a higher flexibility in source peak voltages and x-ray filters, a lower degree of beam hardening due to small sample size, the lack of restriction to nontoxic contrast agents and the lack of a limit in exposure time and radiation dose. We argue that microDECT, because of its flexibility combined with already established contrast agents and the vast number of currently unexploited stains, will in future represent an important technique for various applications in biological research. © 2017 The Authors Journal of Microscopy © 2017 Royal Microscopical Society.

Polarimetric imaging of biological tissues based on the indices of polarimetric purity.

PubMed

Van Eeckhout, Albert; Lizana, Angel; Garcia-Caurel, Enric; Gil, José J; Sansa, Adrià; Rodríguez, Carla; Estévez, Irene; González, Emilio; Escalera, Juan C; Moreno, Ignacio; Campos, Juan

2018-04-01

We highlight the interest of using the indices of polarimetric purity (IPPs) to the inspection of biological tissues. The IPPs were recently proposed in the literature and they result in a further synthetization of the depolarizing properties of samples. Compared with standard polarimetric images of biological samples, IPP-based images lead to larger image contrast of some biological structures and to a further physical interpretation of the depolarizing mechanisms inherent to the samples. In addition, unlike other methods, their calculation do not require advanced algebraic operations (as is the case of polar decompositions), and they result in 3 indicators of easy implementation. We also propose a pseudo-colored encoding of the IPP information that leads to an improved visualization of samples. This last technique opens the possibility of tailored adjustment of tissues contrast by using customized pseudo-colored images. The potential of the IPP approach is experimentally highlighted along the manuscript by studying 3 different ex-vivo samples. A significant image contrast enhancement is obtained by using the IPP-based methods, compared to standard polarimetric images. © 2017 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

Supplementary effects of higher levels of various disaccharides on processing yield, quality properties and sensory attributes of Chinese - style pork jerky.

PubMed

Chen, Chih-Ming; Lin, Hsien-Tang

2017-12-01

This study evaluated the supplementary effect of higher concentrations of various disaccharides on processing yield, major physicochemical properties, and sensory attributes of Chinese-style pork jerky (CSPJ). CSPJ samples were prepared by marinating sliced ham (4 mm) with three dissaccharides, including sucrose, lactose, and maltose, at 0%, 15%, 18%, 21%, and 24%. Subsequently, the CSPJ samples were dried and roasted. The moisture content, water activity, crude protein, moisture-to-protein ratio, pH, processing yield, shear force, color, and sensory attributes of the CSPJ samples were evaluated. The quality characteristics of CSPJ samples prepared with sucrose were more acceptable. By contrast, CSPJ samples prepared with lactose showed the lowest scores. However, the processing yield and moisture content were the highest for CSPJ samples prepared with lactose, which may be associated with improved benefits for cost reduction. Furthermore, sucrose and lactose supplementation resulted in contrasting quality characteristics; for example, CSPJ samples with sucrose and maltose supplementation had higher sensory scores for color than samples with lactose supplementation. Additionally, most quality characteristics of CSPJ samples with sucrose supplementation contrasted with those of the samples with lactose supplementation; for example, the samples with sucrose supplementation had higher scores for sensory attributes than those with lactose supplementation. Sucrose supplementation up to 21% to 24% was associated with the highest overall acceptability scores (5.19 to 5.80), enhanced quality characteristics, increased processing yield, and reduced production cost.

Data Validation Package - June 2016 Groundwater and Surface Water Sampling at the Green River, Utah, Disposal Site

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

Linard, Joshua; Price, Jeffrey

This event included annual sampling of groundwater and surface water locations at the Green River, Utah, Disposal Site. Sampling and analyses were conducted as specified in Sampling and Analysis Plan for US. Department of Energy Office of Legacy Management Sites (LMS/PRO/S04351, continually updated, http://energy.gov/lrnldownloads/sampling-and- analysis-plan-us-department-energy-office-legacy-management-sites). Samples were collected from 15 monitoring wells and two surface locations at the disposal site as specified in the draft 2011 Ground Water Compliance Action Plan for the Green River, Utah, Disposal Site. Planned monitoring locations are shown in Attachment 1, Sampling and Analysis Work Order. A duplicate sample was collected from location 0179. Onemore » equipment blank was collected during this sampling event. Water levels were measured at all monitoring wells that were sampled. See Attachment 2, Trip Reports for additional details. The analytical data and associated qualifiers can be viewed in environmental database reports and are also available for viewing with dynamic mapping via the GEMS (Geospatial Environmental Mapping System) website at http://gems.lm.doe.gov/#. No issues were identified during the data validation process that requires additional action or follow-up.« less

Diel and distributional abundance patterns of fish embryos and larvae in the lower Columbia and Deschutes rivers

USGS Publications Warehouse

Gadomski, D.M.; Barfoot, C.A.

1998-01-01

Diel and distributional abundance patterns of free embryos and larvae of fishes in the lower Columbia River Basin were investigated. Ichthyoplankton samples were collected in 1993 during day and night in the main-channel and a backwater of the lower Columbia River, and in a tributary, the Deschutes River. Fish embryos and larvae collected in the main-channel Columbia River were primarily (85.6%) of native taxa (peamouth Mylocheilus caurinus, northern squawfish Ptychocheilus oregonensis, suckers Catostomus spp., and sculpins Cottus spp.), with two introduced species (American shad Alosa sapidissima and common carp Cyprinus carpio) comprising a smaller percentage of the catch (13.3%). Similarly, in the Deschutes River native taxa [lampreys (Petromyzontidae), minnows (Cyprinidae), and suckers Catostomus spp.] dominated collections (99.5% of the catch). In contrast, 83.5% of embryos and larvae in the Columbia River backwater were of introduced taxa [American shad, common carp, and sunfishes (Centrarchidae)]. In all locations, all dominant taxa except sculpins were collected in significantly greater proportions at night. Taxon-specific differences in proportions of embryos and larvae collected at night can in some instances be related to life history styles. In the main-channel Columbia River, northern squawfish and peamouth were strongly nocturnal and high proportions still had yolksacs, suggesting that they had recently hatched and were drifting downriver to rearing areas. In contrast, sculpin abundances were similar during day and night, and sculpins mostly had depleted yolksacs, indicating sculpins were feeding and rearing in offshore limnetic habitats. Taxon-specific diel abundance patterns and their causes must be considered when designing effective sampling programs for fish embryos and larvae.

Seasonal succession leads to habitat-dependent differentiation in ribosomal RNA:DNA ratios among freshwater lake bacteria

DOE PAGES

Denef, Vincent J.; Fujimoto, Masanori; Berry, Michelle A.; ...

2016-04-29

Relative abundance profiles of bacterial populations measured by sequencing DNA or RNA of marker genes can widely differ. These differences, made apparent when calculating ribosomal RNA:DNA ratios, have been interpreted as variable activities of bacterial populations. However, inconsistent correlations between ribosomal RNA:DNA ratios and metabolic activity or growth rates have led to a more conservative interpretation of this metric as the cellular protein synthesis potential (PSP). Little is known, particularly in freshwater systems, about how PSP varies for specific taxa across temporal and spatial environmental gradients and how conserved PSP is across bacterial phylogeny. Here, we generated 16S rRNA genemore » sequencing data using simultaneously extracted DNA and RNA from fractionated (free-living and particulate) water samples taken seasonally along a eutrophic freshwater estuary to oligotrophic pelagic transect in Lake Michigan. In contrast to previous reports, we observed frequent clustering of DNA and RNA data from the same sample. Analysis of the overlap in taxa detected at the RNA and DNA level indicated that microbial dormancy may be more common in the estuary, the particulate fraction, and during the stratified period. Across spatiotemporal gradients, PSP was often conserved at the phylum and class levels. PSPs for specific taxa were more similar across habitats in spring than in summer and fall. This was most notable for PSPs of the same taxa when located in the free-living or particulate fractions, but also when contrasting surface to deep, and estuary to Lake Michigan communities. Our results show that community composition assessed by RNA and DNA measurements are more similar than previously assumed in freshwater systems. Furthermore, the similarity between RNA and DNA measurements and taxa-specific PSPs that drive community-level similarities are conditional on spatiotemporal factors.« less

Seasonal succession leads to habitat-dependent differentiation in ribosomal RNA:DNA ratios among freshwater lake bacteria

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

Denef, Vincent J.; Fujimoto, Masanori; Berry, Michelle A.

Relative abundance profiles of bacterial populations measured by sequencing DNA or RNA of marker genes can widely differ. These differences, made apparent when calculating ribosomal RNA:DNA ratios, have been interpreted as variable activities of bacterial populations. However, inconsistent correlations between ribosomal RNA:DNA ratios and metabolic activity or growth rates have led to a more conservative interpretation of this metric as the cellular protein synthesis potential (PSP). Little is known, particularly in freshwater systems, about how PSP varies for specific taxa across temporal and spatial environmental gradients and how conserved PSP is across bacterial phylogeny. Here, we generated 16S rRNA genemore » sequencing data using simultaneously extracted DNA and RNA from fractionated (free-living and particulate) water samples taken seasonally along a eutrophic freshwater estuary to oligotrophic pelagic transect in Lake Michigan. In contrast to previous reports, we observed frequent clustering of DNA and RNA data from the same sample. Analysis of the overlap in taxa detected at the RNA and DNA level indicated that microbial dormancy may be more common in the estuary, the particulate fraction, and during the stratified period. Across spatiotemporal gradients, PSP was often conserved at the phylum and class levels. PSPs for specific taxa were more similar across habitats in spring than in summer and fall. This was most notable for PSPs of the same taxa when located in the free-living or particulate fractions, but also when contrasting surface to deep, and estuary to Lake Michigan communities. Our results show that community composition assessed by RNA and DNA measurements are more similar than previously assumed in freshwater systems. Furthermore, the similarity between RNA and DNA measurements and taxa-specific PSPs that drive community-level similarities are conditional on spatiotemporal factors.« less

Comparative molecular epidemiology provides new insights into Zucchini yellow mosaic virus occurrence in France.

PubMed

Lecoq, H; Wipf-Scheibel, C; Nozeran, K; Millot, P; Desbiez, C

2014-06-24

Zucchini yellow mosaic virus (ZYMV, genus Potyvirus) causes important crop losses in cucurbits worldwide. In France, ZYMV epidemics are sporadic but occasionally very severe. This contrasts with Watermelon mosaic virus (WMV, genus Potyvirus) which causes regular and early epidemics. Factors influencing ZYMV epidemiology are still poorly understood. In order to gain new insights on the ecology and epidemiology of this virus, a 5-year multilocation trial was conducted in which ZYMV spread and populations were studied in each of the 20 plot/year combinations and compared with WMV. Search for ZYMV alternative hosts was conducted by testing weeds growing naturally around one plot and also by checking ZYMV natural infections in selected ornamental species. Although similar ZYMV populations were observed occasionally in the same plot in two successive years suggesting the occurrence of overwintering hosts nearby, only two Lamium amplexicaule plants were found to be infected by ZYMV of 3459 weed samples that were tested. The scarcity of ZYMV reservoirs contrasts with the frequent detection of WMV in the same samples. Since ZYMV and WMV have many aphid vectors in common and are transmitted with similar efficiencies, the differences observed in ZYMV and WMV reservoir abundances could be a major explanatory factor for the differences observed in the typology of ZYMV and WMV epidemics in France. Other potential ZYMV alternative hosts have been identified in ornamental species including begonia. Although possible in a few cases, exchanges of populations between different plots located from 500 m to 4 km apart seem uncommon. Therefore, the potential dissemination range of ZYMV by its aphid vectors seems to be rather limited in a fragmented landscape. Copyright © 2014 Elsevier B.V. All rights reserved.

Archeointensity determinations on Pre-Columbian potteries from La Ceiba and Santa Marta shelter-caves (Chiapas, Mexico).

NASA Astrophysics Data System (ADS)

Rodriguez-Ceja, Maria; Camps, Pierre; Goguitchaichvili, Avto; Poidras, Thierry; Nicol, Patrick

2014-05-01

Quite surprisingly, the abundance of archaeological baked clays found in the tropical area of Mesoamerica contrast with the small amount of archeomagnetic data available today for this area [Fanjat et al, EPSL, 2013; Alva-Valdivia et al, PEPI, 2010, Morales et al., EPS, 2009]. It seems especially difficult to try to establish a regional trend in the intensity variations. While they are few, the data are moreover of uneven quality as attested by a large scatter in experimental values during the Mesoamerican classic and post-classic periods (250-1521 AD) that cannot be explained by real fluctuations in the Earth's magnetic field [Fanjat et al, EPSL, 2013]. The present study is part of a large effort to provide reliable and perfectly dated archeointensity data for the tropical area of Mesoamerica. It focuses on Thellier-Thellier archeointensity measurements obtained from 87 small fragments from potsherds of 12 different potteries. These potteries were excavated from sedimentary sequences within two shelter-caves, La Ceiba and Santa Marta, located on the banks of Grijalva and La Venta rivers, respectively. Both are shelter-caves without constructed structures that were inhabited by humans groups. Samples were located in different stratigraphic levels, culturally well identified and well preserved due to long time sedimentation. Only samples with a homogenous color were pre-selected for the rock magnetic study performed prior to any attempt to estimate the archeointensity. This was done in order to assure, as far as possible, a uniform baking during the manufacture, which is supposed to be made in open sky fire, since no kiln construction has been found. The ceramics ages were achieved in 2 ways: for samples with organic material associated, a 14C dating was done. The rest of the samples were dated according to their typological characteristics, comparing with regional ceramic chronological classification. This includes characteristics such as the finishing surface type, decoration, polished type, color, clay characteristics, composition, baking types, form, and function. The ages of the selected samples enclose the entire classical and post-classical periods. Most of our selected samples yielded good, from a technical point of view, archeointensity estimates. These new archeointensity determinations are compared and discussed with the previous values obtained for this area.

Gadolinium Distribution in Cerebrospinal Fluid after Administration of a Gadolinium-based MR Contrast Agent in Humans.

PubMed

Berger, Florian; Kubik-Huch, Rahel A; Niemann, Tilo; Schmid, Hans Ruedi; Poetzsch, Michael; Froehlich, Johannes M; Beer, Jürg H; Thali, Michael J; Kraemer, Thomas

2018-05-08

Purpose To evaluate whether gadolinium penetrates human cerebrospinal fluid (CSF) after MR imaging (MRI) with a gadolinium-based contrast agent (GBCA). Materials and Methods For this retrospective study, the authors analyzed 60 CSF samples from 57 patients (median age, 50 years; range, 3-92 years) who underwent one contrast material-enhanced MRI examination with gadoterate meglumine within 60 days of CSF extraction between January and December 2016. CSF samples from patients who underwent MRI without contrast material administration (n = 22) or those who underwent contrast-enhanced MRI at least 1 year before extraction (n = 2) were analyzed and used as control samples. CSF measurements were performed with inductively coupled plasma mass spectrometry by monitoring the gadolinium 158 isotope. Statistical analyses were performed by using a preliminary Kruskal-Wallis test. Results Higher CSF gadolinium concentrations were detected within the first 8 hours after GBCA administration (mean concentration, 1152 ng/mL ± 734.6). Concentrations were lower between 8 and 48 hours (872 ng/mL ± 586). After 48 hours, gadolinium was almost completely cleared from CSF (121 ng/mL ± 296.3). All but two samples from the 24 control patients (median age, 60.5 years; range, 19-79 years) were negative for the presence of gadolinium. Those samples were from patients who had undergone GBCA-enhanced MRI examination more than a year before CSF extraction (0.1 and 0.2 ng/mL after 1 and 3 years, respectively). The concentrations in patients with chronic renal insufficiency (n = 3), cerebral toxoplasmosis (n = 1), and liver cirrhosis (n = 1) were higher than the mean concentrations. Conclusion Gadoterate meglumine can be detected in human CSF after intravenous administration. © RSNA, 2018.

Abnormal gel flotation caused by contrast media during adrenal vein sampling

PubMed Central

Lima-Oliveira, Gabriel; Lippi, Giuseppe; Salvagno, Gian Luca; Gelati, Matteo; Bassi, Antonella; Contro, Alberto; Pizzolo, Francesca; Guidi, Gian Cesare

2016-01-01

Introduction During adrenal venous sampling (AVS) procedure, radiologists administer a contrast agent via the catheter to visualize the proper catheter position. Materials and methods A patient with primary aldosteronism diagnostic-hypothesis was admitted for AVS. A venogram was performed to
confirm the catheter’s position with 2mL of Iopamidol 300 mg/mL. Samples were collected with syringe connected to a hydrophilic coated catheter by low-pressure aspiration from each of the four collection sites: inferior vena cava in the suprarenal portion, inferior vena cava in the infrarenal portion, left adrenal vein, and right adrenal vein; then immediately transferred from syringe to tubes with gel separator. All tubes were centrifuged at 1200 x g for 10 minutes. Results At the end of centrifugation process, primary blood tubes containing blood from inferior vena cava and left adrenal vein exhibited the standard gel separator barrier, while tubes from right adrenal vein showed abnormal flotation of gel separator. The radiologist confirmed the usage of 2.6 mL instead of 2.0 mL of Iopamidol 300 mg/mL. This iodinated contrast media, with 1.33 g/cm3 of density, was used close to the right adrenal vein due to some difficulty to access it. Conclusion The abnormal flotation of gel separator in samples taken from right adrenal vein can be explained by the usage of the iodinated
contrast media. We suggest using plain-tubes (without gel separator) for AVS in order to avoid preanalytical nonconformities. Moreover, a blood volume equivalent to twice the catheter extension should be discarded to eliminate residual contrast media before collection of samples for laboratory assays. PMID:27812311

A remanent and induced magnetization model of Magsat vector anomalies over the west African craton

NASA Technical Reports Server (NTRS)

Toft, P. B.; Haggerty, S. E.

1986-01-01

Scalar and vector Magsat anomalies over the west African craton are analyzed by forward and inverse models. A forward model of the Man shield is based on Liberia. Induced magnetization contrasts due to sporadic iron-formations and to regional metamorphic rocks, and a contrast in remanent magnetization within the lower crust are included. This combination reproduces the location, magnitude and adopted local zero level of anomalies in the initial Magsat maps. An inverse model of the Reguibat shield estimates the magnetization contrast of its lithosphere, and when magnetism is restricted to shallower than 75 km both shields can be represented by a susceptibility contrast of +0.02. A residual anomaly between the shields involves a relative deficiency of induced magnetization along with other causes.

A remanent and induced magnetization model of Magsat vector anomalies over the west African craton

NASA Astrophysics Data System (ADS)

Toft, P. B.; Haggerty, S. E.

1986-04-01

Scalar and vector Magsat anomalies over the west African craton are analyzed by forward and inverse models. A forward model of the Man shield is based on Liberia. Induced magnetization contrasts due to sporadic iron-formations and to regional metamorphic rocks, and a contrast in remanent magnetization within the lower crust are included. This combination reproduces the location, magnitude and adopted local zero level of anomalies in the initial Magsat maps. An inverse model of the Reguibat shield estimates the magnetization contrast of its lithosphere, and when magnetism is restricted to shallower than 75 km both shields can be represented by a susceptibility contrast of +0.02. A residual anomaly between the shields involves a relative deficiency of induced magnetization along with other causes.

The distribution and stratification of persistent organic pollutants and fatty acids in bottlenose dolphin (Tursiops truncatus) blubber.

PubMed

Ellisor, Debra; McLellan, William; Koopman, Heather; Schwacke, Lori; McFee, Wayne; Kucklick, John

2013-10-01

Blubber has been used for decades to monitor exposure of marine mammals to persistent organic pollutants (POPs). However, little is known about POP variability as a function of blubber depth and across the body of the animal. Remote blubber biopsy sampling (e.g, projectile biopsy) is the most common technique used to acquire samples from free-swimming animals, yet such techniques may result in variable sampling. It is important to understand whether blubber stratification or body location affects POP concentration or the concentration of other important blubber constituents such as fatty acids (FA). To investigate the influence of sampling depth and location on POP concentration, full depth blubber samples were taken from one stranded bottlenose dolphin (Tursiops truncatus) at six different body sites to assess variation in FA distribution and contaminant storage with body location. Three of the samples from different body locations were separated into histologically distinct layers to examine the effect of blubber depth and body location on POPs and FAs. In this individual, both POPs and FAs were heterogeneous with blubber depth and body location. POP concentrations were significantly greater in ventral (average ΣPBDEs 1350 ng/g lipid) and anterior (average ΣPCBs 28,700 ng/g lipid) body locations and greater in the superficial blubber layer (average ΣPCBs 35,500 ng/g lipid) when compared to the deep (8390 ng/g lipid) and middle (23,700 ng/g lipid) layers. Proportionally more dietary FAs were found in dorsal blubber and in middle and deep layers relative to other locations while the reverse was true for biosynthesized FAs. Stratification was further examined in blubber from the same body location in five additional stranded bottlenose dolphins. Although FAs were stratified with blubber depth, lipid-normalized POPs were not significantly different with depth, indicating that POP concentrations can vary in an individual with blubber depth though the direction of POP stratification is not consistent among individuals. Published by Elsevier B.V.

The role of large wood in retaining fine sediment, organic matter and plant propagules in a small, single-thread forest river

NASA Astrophysics Data System (ADS)

Osei, Nana A.; Gurnell, Angela M.; Harvey, Gemma L.

2015-04-01

This paper investigates associations among large wood accumulations, retained sediment, and organic matter and the establishment of a viable propagule bank within a forested reach of a lowland river, the Highland Water, UK. A wood survey within the 2-km study reach, illustrates that the quantity of wood retained within the channel is typical of relatively unmanaged river channels bordered by deciduous woodland and that the wood accumulations (jams) that are present are well developed, typically spanning the river channel and comprised of wood that is well decayed. Sediment samples were obtained in a stratified random design focusing on nine subreaches within which samples were aggregated from five different types of sampling location. Two of these locations were wood-associated (within and on bank faces immediately adjacent to wood jams), and the other three locations represented the broader river environment (gravel bars, bank faces, floodplain). The samples were analysed to establish their calibre, organic, and viable plant propagule content. The gravel bar sampling locations retained significantly coarser sediment containing a lower proportion of organic matter and viable propagules than the other four sampling locations. The two wood-related sampling locations retained sediment of intermediate calibre between the gravel bar and the bank-floodplain samples but they retained significantly more organic matter and viable propagules than were found in the other three sampling locations. In particular, the jam bank samples (areas of sediment accumulation against bank faces adjacent to wood jams) contained the highest number of propagules and the largest number of propagule species. These results suggest that retention of propagules, organic matter and relatively fine sediment in and around wood jams has the potential to support vegetation regeneration, further sediment retention, and as a consequence, landform development within woodland streams, although this process is arrested by grazing at the study site. These results also suggest that self-restoration using wood is a potentially cost-effective and far-reaching river restoration strategy but that its full effects develop gradually and require the establishment of a functioning wood budget coupled with grazing levels that are in balance with vegetation growth.

Personal exposures to asbestos fibers during brake maintenance of passenger vehicles.

PubMed

Cely-García, María Fernanda; Sánchez, Mauricio; Breysse, Patrick N; Ramos-Bonilla, Juan P

2012-11-01

Brake linings and brake pads are among the asbestos-containing products that are readily available in Colombia. When sold separated from their support, brake linings require extensive manipulation involving several steps that include drilling, countersinking, riveting, bonding, cutting, beveling, and grinding. Without this manipulation, brake linings cannot be installed in a vehicle. The manipulation process may release asbestos fibers, which may expose brake mechanics to the fibers. Three brake repair shops located in Bogotá (Colombia) were sampled for 3 or 4 consecutive days using US National Institute for Occupational Safety and Health (NIOSH) methods 7400 and 7402. Standard procedures for quality control were followed during the sampling process, and asbestos samples were analyzed by an American Industrial Hygiene Association accredited laboratory. Personal samples were collected to assess full-shift and short-term exposures. Area samples were also collected close to the brake-lining manipulation equipment and within office facilities. Activities were documented during the sampling process. Using Phase Contrast Microscopy Equivalent counts to estimate air asbestos concentrations, all personal samples [i.e. 8-h time-weighted averages (TWAs) and 30-min personal samples] were in compliance with the US Occupational Safety and Health Administration standards. Personal asbestos concentrations based on transmission electron microscopy counts were extremely high, ranging from 0.006 to 3.493 f cm(-3) for 8-h TWA and from 0.015 to 8.835 f cm(-3) for 30-min samples. All asbestos fibers detected were chrysotile. Cleaning facilities and grinding linings resulted in the highest asbestos exposures based on transmission electron microscopy counts. There were also some samples that did not comply with the NIOSH's recommended exposure limits. The results indicate that the brake mechanics sampled are exposed to extremely high asbestos concentrations (i.e. based on transmission electron microscopy counts), suggesting that this occupational group could be at excess risk of asbestos-related diseases.

Hydrogeochemical and stream sediment special reconnaissance report for the Deep Creek Mountains, Nevada and Utah

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

Qualheim, B.

1979-04-01

This report represents the results of the reconnaissance sampling of the Deep Creek Mountains of western Utah. The Deep Creek range is located in the northwest corner of the Delta NTMS 1:250,000 and the southwestern corner of the Tooele NTMS 1:250,000 sheets and covers an area of 1750 km/sup 2/. Samples collected in this study include dry and wet stream sediments and water from available streams, wells, and springs. The samples were analyzed for uranium, as well as 15 to 20 trace elements, using neutron activation techniques. In addition, field and laboratory measurements were made on the water samples. Analyticalmore » data and field measurements are presented in tabular hard copy and fiche format. Water-sample site locations, water-sample uranium concentrations, sediment-sample site locations, and sediment-sample uranium concentrations are shown on separate overlays.« less

Steinhaus’ Geometric Location Problem for Random Samples in the Plane.

DTIC Science & Technology

1982-05-11

NAL 411R A1, ’I 7 - I STEINHAUS ’ GEOMETRIC LOCATION PROBLEM FOR RANDOM SAMPLES IN THE PLANE By Dorit Hochbaum and J. Michael Steele TECHNICAL REPORT...DEPARTMENT OF STATISTICS -Dltrib’ytion/ STANFORD UNIVERSITY A-I.abilty Codes STANFORD, CALIFORNIA Dist Spciat ecial Steinhaus ’ Geometric Location Problem for...Random Samples in the Plane By Dorit Hochbaum and J. Michael Steele I. Introduction. The work of H. Steinhaus U wf94 as apparently the first explicit

Computed tomographic characteristics of the cisterna chyli in dogs.

PubMed

Birch, Sally; Barberet, Virginie; Bradley, Kate; Parsons, Kevin; Warren-Smith, Christopher

2014-01-01

Previous lymphangiographic studies have investigated the use of computed tomography (CT) for characterizing the thoracic duct and its tributaries in dogs. However, there is limited published information on the appearance of the canine cisterna chyli using CT. The objective of this retrospective study was to describe the features of the canine cisterna chyli in pre- and post-contrast abdominal CT studies. The presence, location, shape, maximum width, size compared with the aortic diameter (Ao:cisterna chyli ratio) and mean attenuation of the cisterna chyli were recorded from archived abdominal CT scans of 30 dogs. Breed, age, sex and neutering status were also noted. A cisterna chyli was identified in 26 of the dogs (87%). In 22 cases a cisterna chyli could be reliably identified prior to intravenous contrast administration and in all 26 cases in postcontrast images. The cisterna chyli was most commonly located right dorsolateral to the abdominal aorta between L1 and L4. Shape varied on transverse images from crescent-like to globular and maximum diameters ranged from 5 to 9 mm. The Ao:cisterna chyli ratio varied between 0.29 and 0.71 (mean value-males: 0.32; females: 0.38). On pre-contrast images the mean Hounsfield units were 21.3HU (range: -3.8 to 64.25). Mild enhancement of the cisterna chyli post-contrast was observed in 24 dogs (80%). Findings supported the use of pre- and post-contrast abdominal CT as a non-invasive method for assessing qualitative and quantitative characteristics of the canine cisterna chyli. © 2013 American College of Veterinary Radiology.

Focal switching of photochromic fluorescent proteins enables multiphoton microscopy with superior image contrast.

PubMed

Kao, Ya-Ting; Zhu, Xinxin; Xu, Fang; Min, Wei

2012-08-01

Probing biological structures and functions deep inside live organisms with light is highly desirable. Among the current optical imaging modalities, multiphoton fluorescence microscopy exhibits the best contrast for imaging scattering samples by employing a spatially confined nonlinear excitation. However, as the incident laser power drops exponentially with imaging depth into the sample due to the scattering loss, the out-of-focus background eventually overwhelms the in-focus signal, which defines a fundamental imaging-depth limit. Herein we significantly improve the image contrast for deep scattering samples by harnessing reversibly switchable fluorescent proteins (RSFPs) which can be cycled between bright and dark states upon light illumination. Two distinct techniques, multiphoton deactivation and imaging (MPDI) and multiphoton activation and imaging (MPAI), are demonstrated on tissue phantoms labeled with Dronpa protein. Such a focal switch approach can generate pseudo background-free images. Conceptually different from wave-based approaches that try to reduce light scattering in turbid samples, our work represents a molecule-based strategy that focused on imaging probes.

Focal switching of photochromic fluorescent proteins enables multiphoton microscopy with superior image contrast

PubMed Central

Kao, Ya-Ting; Zhu, Xinxin; Xu, Fang; Min, Wei

2012-01-01

Probing biological structures and functions deep inside live organisms with light is highly desirable. Among the current optical imaging modalities, multiphoton fluorescence microscopy exhibits the best contrast for imaging scattering samples by employing a spatially confined nonlinear excitation. However, as the incident laser power drops exponentially with imaging depth into the sample due to the scattering loss, the out-of-focus background eventually overwhelms the in-focus signal, which defines a fundamental imaging-depth limit. Herein we significantly improve the image contrast for deep scattering samples by harnessing reversibly switchable fluorescent proteins (RSFPs) which can be cycled between bright and dark states upon light illumination. Two distinct techniques, multiphoton deactivation and imaging (MPDI) and multiphoton activation and imaging (MPAI), are demonstrated on tissue phantoms labeled with Dronpa protein. Such a focal switch approach can generate pseudo background-free images. Conceptually different from wave-based approaches that try to reduce light scattering in turbid samples, our work represents a molecule-based strategy that focused on imaging probes. PMID:22876358

3D nanoscale imaging of the yeast, Schizosaccharomyces pombe, by full-field transmission x-ray microscopy at 5.4 keV

PubMed Central

Chen, Jie; Yang, Yunhao; Zhang, Xiaobo; Andrews, Joy C.; Pianetta, Piero; Guan, Yong; Liu, Gang; Xiong, Ying; Wu, Ziyu; Tian, Yangchao

2010-01-01

Three-dimensional (3D) nanoscale structures of the fission yeast, Schizosaccharomyces pombe, can be obtained by full-field transmission hard x-ray microscopy with 30 nm resolution using synchrotron radiation sources. Sample preparation is relatively simple and the samples are portable across various imaging environments, allowing for high throughput sample screening. The yeast cells were fixed and double stained with Reynold’s lead citrate and uranyl acetate. We performed both absorption contrast and Zernike phase contrast imaging on these cells in order to test this method. The membranes, nucleus and subcellular organelles of the cells were clearly visualized using absorption contrast mode. The x-ray images of the cells could be used to study the spatial distributions of the organelles in the cells. These results show unique structural information, demonstrating that hard x-ray microscopy is a complementary method for imaging and analyzing biological samples. PMID:20349228

Characterization of Preferential Ground-Water Seepage From a Chlorinated Hydrocarbon-Contaminated Aquifer to West Branch Canal Creek, Aberdeen Proving Ground, Maryland, 2002-04

USGS Publications Warehouse

Majcher, Emily H.; Phelan, Daniel J.; Lorah, Michelle M.; McGinty, Angela L.

2007-01-01

Wetlands act as natural transition zones between ground water and surface water, characterized by the complex interdependency of hydrology, chemical and physical properties, and biotic effects. Although field and laboratory demonstrations have shown efficient natural attenuation processes in the non-seep wetland areas and stream bottom sediments of West Branch Canal Creek, chlorinated volatile organic compounds are present in a freshwater tidal creek at Aberdeen Proving Ground, Maryland. Volatile organic compound concentrations in surface water indicate that in some areas of the wetland, preferential flow paths or seeps allow transport of organic compounds from the contaminated sand aquifer to the overlying surface water without undergoing natural attenuation. From 2002 through 2004, the U.S. Geological Survey, in cooperation with the Environmental Conservation and Restoration Division of the U.S. Army Garrison, Aberdeen Proving Ground, characterized preferential ground-water seepage as part of an ongoing investigation of contaminant distribution and natural attenuation processes in wetlands at this site. Seep areas were discrete and spatially consistent during thermal infrared surveys in 2002, 2003, and 2004 throughout West Branch Canal Creek wetlands. In these seep areas, temperature measurements in shallow pore water and sediment more closely resembled those in ground water than those in nearby surface water. Generally, pore water in seep areas contaminated with chlorinated volatile organic compounds had lower methane and greater volatile organic compound concentrations than pore water in non-seep wetland sediments. The volatile organic compounds detected in shallow pore water in seeps were spatially similar to the dominant volatile organic compounds in the underlying Canal Creek aquifer, with both parent and anaerobic daughter compounds detected. Seep locations characterized as focused seeps contained the highest concentrations of chlorinated parent compounds, relatively low concentrations of chlorinated daughter compounds, and insignificant concentrations of methane in shallow pore water samples. These seeps were primarily along the creek edge or formed a dendritic-like pattern between the wetland and creek channel. In contrast, seep locations characterized as diffuse seeps contained relatively high concentrations of chlorinated daughter compounds (or a mixture of daughter and parent compounds) and detectable methane concentrations in shallow pore water samples. These seeps were primarily along the wetland boundary. Qualitative thermal infrared surveys coupled with quantitative verification of temperature differences, and screening for volatile organic compound and methane concentrations proved to be effective tools in determining the overall extent of preferential seepage. Hydrologic and physical properties of wetland sediments were characterized at two focused and one diffuse seep location. In the seeps with focused discharge, measured seepage was consistent over the tidal cycle, whereas more variability with tidal fluctuation was measured in the diffuse seep location. At all locations, areas were identified within the general seep boundaries where discharge was minimal. In all cases, the geometric mean of non-zero vertical flux measurements was greater than those previously reported in the non-seep wetland sediments using flow-net analysis. Flux was greater in the focused discharge areas than in the diffuse discharge area, and all fluxes were within the range reported in the literature for wetland discharge. Vertical hydraulic conductivity estimated from seepage flux and a mean vertical gradient at seeps with focused discharge resulted in a minimum hydraulic conductivity two orders of magnitude greater than those estimated in the non-seep sediment. In contrast, vertical conductivity estimates at a diffuse seep were similar to estimates along a nearby line of section through a non-seep area. Horizontal hydraulic cond

40 CFR 80.1653 - Recordkeeping.

Code of Federal Regulations, 2014 CFR

2014-07-01

... this subpart O: (i) The location, date, time, and storage tank or truck identification for each sample... analytical testing: (i) The location, date, time, and storage tank or truck identification for each sample..., time, and storage tank or truck identification for each sample collected. (B) The name and title of the...

78 FR 11171 - Proposed Information Collection Request; Comment Request; RadNet (Renewal)

Federal Register 2010, 2011, 2012, 2013, 2014

2013-02-15

...) Evaluate whether the proposed collection of information is necessary for the proper performance of the functions of the Agency, including whether the information will have practical utility; (ii) evaluate the... request descriptive information pertaining to sample location, e.g., sample type, sample location, length...

Sampling strategies for radio-tracking coyotes

USGS Publications Warehouse

Smith, G.J.; Cary, J.R.; Rongstad, O.J.

1981-01-01

Ten coyotes radio-tracked for 24 h periods were most active at night and moved little during daylight hours. Home-range size determined from radio-locations of 3 adult coyotes increased with the number of locations until an asymptote was reached at about 35-40 independent day locations or 3 6 nights of hourly radio-locations. Activity of the coyote did not affect the asymptotic nature of the home-range calculations, but home-range sizes determined from more than 3 nights of hourly locations were considerably larger than home-range sizes determined from daylight locations. Coyote home-range sizes were calculated from daylight locations, full-night tracking periods, and half-night tracking periods. Full- and half-lnight sampling strategies involved obtaining hourly radio-locations during 12 and 6 h periods, respectively. The half-night sampling strategy was the best compromise for our needs, as it adequately indexed the home-range size, reduced time and energy spent, and standardized the area calculation without requiring the researcher to become completely nocturnal. Sight tracking also provided information about coyote activity and sociability.

Finite Element Modeling of Transient Head Field Associated with Partially Penetrating, Slug Tests in a Heterogeneous Aquifer with Low Permeability, Stratigraphic Zones and Faults

NASA Astrophysics Data System (ADS)

Cheng, J.; Johnson, B.; Everett, M.

2003-12-01

Preliminary field work shows slug interference tests using an array of multilevel active and monitoring wells have potential of permitting enhanced aquifer characterization. Analysis of these test data, however, ultimately will rely on numerical geophysical inverse models. In order to gain insight as well as to provide synthetic data sets, we use a 3-D finite element analysis (code:FEHM-LANL) to explore the effect of idealized, low permeability, stratigraphical and structural (faults) heterogeneities on the transient head field associated with a slug test in a packer-isolated interval of an open borehole. The borehole and packers are modeled explicitly; wellbore storage is selected to match values of field tests. The homogeneous model exhibits excellent agreement with that of the semi-analytical model of Liu and Butler (1995). Models are axisymmetric with a centrally located slugged interval within a homogenous, isotropic, confined aquifer with embedded, horizontal or vertical zones of lower permeability that represent low permeability strata or faults, respectively. Either one or two horizontal layers are located opposite the borehole packers, which is a common situation at the field site; layer thickness (0.15-0.75 m), permeability contrast (up to 4 orders of magnitude contrast) and lateral continuity of layers are varied between models. The effect of a "hole" in a layer also is assessed. Fault models explore effects of thickness (0.05-0.75 m) and permeability contrast as well as additional effects associated with the offset of low permeability strata. Results of models are represented most clearly by contour maps of time of arrival and normalized amplitude of peak head perturbation, but transient head histories at selected locations provide additional insight. Synthesis of the models is on-going but a few points can be made at present. Spatial patterns are distinctive and allow easy discrimination between stratigraphic and structural impedance features. Time delays and amplitude reduction increase nonlinearly with increasing permeability contrast. The capacity to discriminate the effect of layer thickness decreases as permeability contrast increases.

Millennium-scale crossdating and inter-annual climate sensitivities of standing California redwoods.

PubMed

Carroll, Allyson L; Sillett, Stephen C; Kramer, Russell D

2014-01-01

Extremely decay-resistant wood and fire-resistant bark allow California's redwoods to accumulate millennia of annual growth rings that can be useful in biological research. Whereas tree rings of Sequoiadendron giganteum (SEGI) helped formalize the study of dendrochronology and the principle of crossdating, those of Sequoia sempervirens (SESE) have proven much more difficult to decipher, greatly limiting dendroclimatic and other investigations of this species. We overcame these problems by climbing standing trees and coring trunks at multiple heights in 14 old-growth forest locations across California. Overall, we sampled 1,466 series with 483,712 annual rings from 120 trees and were able to crossdate 83% of SESE compared to 99% of SEGI rings. Standard and residual tree-ring chronologies spanning up to 1,685 years for SESE and 1,538 years for SEGI were created for each location to evaluate crossdating and to examine correlations between annual growth and climate. We used monthly values of temperature, precipitation, and drought severity as well as summer cloudiness to quantify potential drivers of inter-annual growth variation over century-long time series at each location. SESE chronologies exhibited a latitudinal gradient of climate sensitivities, contrasting cooler northern rainforests and warmer, drier southern forests. Radial growth increased with decreasing summer cloudiness in northern rainforests and a central SESE location. The strongest dendroclimatic relationship occurred in our southernmost SESE location, where radial growth correlated negatively with dry summer conditions and exhibited responses to historic fires. SEGI chronologies showed negative correlations with June temperature and positive correlations with previous October precipitation. More work is needed to understand quantitative relationships between SEGI radial growth and moisture availability, particularly snowmelt. Tree-ring chronologies developed here for both redwood species have numerous scientific applications, including determination of tree ages, accurate dating of fire-return intervals, archaeology, analyses of stable isotopes, long-term climate reconstructions, and quantifying rates of carbon sequestration.

Geographical and temporal variation in environmental conditions affects nestling growth but not immune function in a year-round breeding equatorial lark.

PubMed

Ndithia, Henry K; Bakari, Samuel N; Matson, Kevin D; Muchai, Muchane; Tieleman, B Irene

2017-01-01

Variation in growth and immune function within and among populations is often associated with specific environmental conditions. We compared growth and immune function in nestlings of year-round breeding equatorial Red - capped Lark Calandrella cinerea from South Kinangop, North Kinangop and Kedong (Kenya), three locations that are geographically close but climatically distinct. In addition, we studied growth and immune function of lark nestlings as a function of year - round variation in breeding intensity and rain within one location. We monitored mass, wing, and tarsus at hatching (day 1) and at 4, 7, and 10 days post - hatch, and we quantified four indices of immune function (haptoglobin, agglutination, lysis and nitric oxide) using blood samples collected on day 10. Nestling body mass and size at hatching, which presumably reflect the resources that females allocated to their eggs, were lowest in the most arid location, Kedong. Contrary to our predictions, nestlings in Kedong grew faster than nestlings in the two other cooler and wetter locations of South and North Kinangop. During periods of peak reproduction within Kedong, nestlings were heavier at hatching, but they did not grow faster over the first 10 days post - hatch. In contrast, rainfall, which did not relate to timing of breeding, had no effect on hatching mass, but more rain did coincide with faster growth post - hatch. Finally, we found no significant differences in nestling immune function, neither among locations nor with the year - round variation within Kedong. Based on these results, we hypothesize that female body condition determines nestling mass and size at hatching, but other independent environmental conditions subsequently shape nestling growth. Overall, our results suggest that environmental conditions related to food availability for nestlings are relatively unimportant to the timing of breeding in equatorial regions, while these same conditions do have consequences for nestling size and growth.

Observation of Isotope Ratios (δ2H, δ18O, 87Sr/86Sr) of Tap Water in Urban Environments

NASA Astrophysics Data System (ADS)

Mancuso, C. J.; Tipple, B. J.; Ehleringer, J. R.

2014-12-01

Urban environments are centers for rapidly growing populations. In order to meet the culinary water needs of these areas, municipal water departments use water from multiple locations and/or sources, often piped differentially to different locations within a municipality. This practice creates isotopically distinct locations within an urban area and therefore provides insight to urban water management practices. In our study we selected urban locations in the Salt Lake Valley, UT (SLV) and San Francisco Bay Area, CA (SFB) where we hypothesized geographically distinct water isotopic ratio differences existed. Within the SLV, municipal waters come from the same mountainous region, but are derived from different geologically distinct watersheds. In contrast, SFB waters are derived from regionally distinct water sources. We hypothesized that the isotope ratios of tap waters would differ based upon known municipal sources. To test this, tap water samples were collected throughout the urban regions in SLV and SFB and analyzed for δ2H, δ18O and 87Sr/86Sr isotope ratios. Seasonal collections were also made to assess if isotope ratios differed throughout the year. Within SLV and SFB, different regions were characterized by distinct paired δ18O and 87Sr/86Sr values. These different realms also agreed with known differences in municipal water supplies within the general geographic region. Waters from different cities within Marin County showed isotopic differences, consistent with water derived from different local reservoirs. Seasonal variation was observed in paired δ18O and 87Sr/86Sr values of tap water for some locations within SLV and SFB, indicating management decisions to shift from one water source to another depending on demand and available resources. Our study revealed that the δ18O and 87Sr/86Sr values of tap waters in an urban region can exhibit significant differences despite close spatial proximity if districts differ in their use of local versus transported waters.

Millennium-Scale Crossdating and Inter-Annual Climate Sensitivities of Standing California Redwoods

PubMed Central

Carroll, Allyson L.; Sillett, Stephen C.; Kramer, Russell D.

2014-01-01

Extremely decay-resistant wood and fire-resistant bark allow California’s redwoods to accumulate millennia of annual growth rings that can be useful in biological research. Whereas tree rings of Sequoiadendron giganteum (SEGI) helped formalize the study of dendrochronology and the principle of crossdating, those of Sequoia sempervirens (SESE) have proven much more difficult to decipher, greatly limiting dendroclimatic and other investigations of this species. We overcame these problems by climbing standing trees and coring trunks at multiple heights in 14 old-growth forest locations across California. Overall, we sampled 1,466 series with 483,712 annual rings from 120 trees and were able to crossdate 83% of SESE compared to 99% of SEGI rings. Standard and residual tree-ring chronologies spanning up to 1,685 years for SESE and 1,538 years for SEGI were created for each location to evaluate crossdating and to examine correlations between annual growth and climate. We used monthly values of temperature, precipitation, and drought severity as well as summer cloudiness to quantify potential drivers of inter-annual growth variation over century-long time series at each location. SESE chronologies exhibited a latitudinal gradient of climate sensitivities, contrasting cooler northern rainforests and warmer, drier southern forests. Radial growth increased with decreasing summer cloudiness in northern rainforests and a central SESE location. The strongest dendroclimatic relationship occurred in our southernmost SESE location, where radial growth correlated negatively with dry summer conditions and exhibited responses to historic fires. SEGI chronologies showed negative correlations with June temperature and positive correlations with previous October precipitation. More work is needed to understand quantitative relationships between SEGI radial growth and moisture availability, particularly snowmelt. Tree-ring chronologies developed here for both redwood species have numerous scientific applications, including determination of tree ages, accurate dating of fire-return intervals, archaeology, analyses of stable isotopes, long-term climate reconstructions, and quantifying rates of carbon sequestration. PMID:25029026

Benthic macrofauna data for San Francisco Bay, California, September 1986

USGS Publications Warehouse

Schemel, Laurence E.; Thompson, J.K.; Harmon, J.G.; Yost, B.T.

1995-01-01

Benthic macrofauna were collected during September 1986 to evaluate locations for long-term monitoring stations as part of the U.S. Geological Survey Regional Effects Monitoring Program in San Francisco Bay, California. Three to ten replicate samples were collected with a modified Van Veen sampler (0.05 m2 area) at ten locations. One box core sample (0.06 m2 area) was collected at seven to the ten locations. Six of the box core samples were split into an upper 10 cm sample and a deeper sample before analysis. Macrofauna specimens were identified to the lowest possible taxon, usually genus and species, then counted. An average of 88 percent of the benthic macrofauna specimens were identified to the species level. The fraction identified varied among stations from 54 to 98 percent. Nematodes and oligochaetes accounted for most of the unidentified specimens. Relative to the total number of species identified in five replicates at each location, an average of 90 percent of the species were collected with three replicates. In general, species with high to moderate abundances were present in all replicates, and species collected only after three or more replicates averaged less than one specimen per replicate. Results from the box cores showed that the dominant species were most abundant in the upper 10 cm, the depth of sediment that can be adequately sampled with a modified Van Veen sampler. On the basis of the number of species and their abundances at each location, seven of the ten locations were selected for sampling in the regular program, which began in March 1987.

Porosity of the Marcellus Shale: A contrast matching small-angle neutron scattering study

USGS Publications Warehouse

Bahadur, Jitendra; Ruppert, Leslie F.; Pipich, Vitaliy; Sakurovs, Richard; Melnichenko, Yuri B.

2018-01-01

Neutron scattering techniques were used to determine the effect of mineral matter on the accessibility of water and toluene to pores in the Devonian Marcellus Shale. Three Marcellus Shale samples, representing quartz-rich, clay-rich, and carbonate-rich facies, were examined using contrast matching small-angle neutron scattering (CM-SANS) at ambient pressure and temperature. Contrast matching compositions of H2O, D2O and toluene, deuterated toluene were used to probe open and closed pores of these three shale samples. Results show that although the mean pore radius was approximately the same for all three samples, the fractal dimension of the quartz-rich sample was higher than for the clay-rich and carbonate-rich samples, indicating different pore size distributions among the samples. The number density of pores was highest in the clay-rich sample and lowest in the quartz-rich sample. Contrast matching with water and toluene mixtures shows that the accessibility of pores to water and toluene also varied among the samples. In general, water accessed approximately 70–80% of the larger pores (>80 nm radius) in all three samples. At smaller pore sizes (~5–80 nm radius), the fraction of accessible pores decreases. The lowest accessibility to both fluids is at pore throat size of ~25 nm radii with the quartz-rich sample exhibiting lower accessibility than the clay- and carbonate-rich samples. The mechanism for this behaviour is unclear, but because the mineralogy of the three samples varies, it is likely that the inaccessible pores in this size range are associated with organics and not a specific mineral within the samples. At even smaller pore sizes (~<2.5 nm radius), in all samples, the fraction of accessible pores to water increases again to approximately 70–80%. Accessibility to toluene generally follows that of water; however, in the smallest pores (~<2.5 nm radius), accessibility to toluene decreases, especially in the clay-rich sample which contains about 30% more closed pores than the quartz- and carbonate-rich samples. Results from this study show that mineralogy of producing intervals within a shale reservoir can affect accessibility of pores to water and toluene and these mineralogic differences may affect hydrocarbon storage and production and hydraulic fracturing characteristics

High-contrast X-ray micro-radiography and micro-CT of ex-vivo soft tissue murine organs utilizing ethanol fixation and large area photon-counting detector

PubMed Central

Dudak, Jan; Zemlicka, Jan; Karch, Jakub; Patzelt, Matej; Mrzilkova, Jana; Zach, Petr; Hermanova, Zuzana; Kvacek, Jiri; Krejci, Frantisek

2016-01-01

Using dedicated contrast agents high-quality X-ray imaging of soft tissue structures with isotropic micrometre resolution has become feasible. This technique is frequently titled as virtual histology as it allows production of slices of tissue without destroying the sample. The use of contrast agents is, however, often an irreversible time-consuming procedure and despite the non-destructive principle of X-ray imaging, the sample is usually no longer usable for other research methods. In this work we present the application of recently developed large-area photon counting detector for high resolution X-ray micro-radiography and micro-tomography of whole ex-vivo ethanol-preserved mouse organs. The photon counting detectors provide dark-current-free quantum-counting operation enabling acquisition of data with virtually unlimited contrast-to-noise ratio (CNR). Thanks to the very high CNR even ethanol-only preserved soft-tissue samples without addition of any contrast agent can be visualized in great detail. As ethanol preservation is one of the standard steps of tissue fixation for histology, the presented method can open a way for widespread use of micro-CT with all its advantages for routine 3D non-destructive soft-tissue visualisation. PMID:27461900

Multiple mechanisms quench passive spiral galaxies

NASA Astrophysics Data System (ADS)

Fraser-McKelvie, Amelia; Brown, Michael J. I.; Pimbblet, Kevin; Dolley, Tim; Bonne, Nicolas J.

2018-02-01

We examine the properties of a sample of 35 nearby passive spiral galaxies in order to determine their dominant quenching mechanism(s). All five low-mass (M⋆ < 1 × 1010 M⊙) passive spiral galaxies are located in the rich Virgo cluster. This is in contrast to low-mass spiral galaxies with star formation, which inhabit a range of environments. We postulate that cluster-scale gas stripping and heating mechanisms operating only in rich clusters are required to quench low-mass passive spirals, and ram-pressure stripping and strangulation are obvious candidates. For higher mass passive spirals, while trends are present, the story is less clear. The passive spiral bar fraction is high: 74 ± 15 per cent, compared with 36 ± 5 per cent for a mass, redshift and T-type matched comparison sample of star-forming spiral galaxies. The high mass passive spirals occur mostly, but not exclusively, in groups, and can be central or satellite galaxies. The passive spiral group fraction of 74 ± 15 per cent is similar to that of the comparison sample of star-forming galaxies at 61 ± 7 per cent. We find evidence for both quenching via internal structure and environment in our passive spiral sample, though some galaxies have evidence of neither. From this, we conclude no one mechanism is responsible for quenching star formation in passive spiral galaxies - rather, a mixture of mechanisms is required to produce the passive spiral distribution we see today.

Sensitivity enhancement and contrasting information provided by free radicals in oriented-sample NMR of bicelle-reconstituted membrane proteins.

PubMed

Tesch, Deanna M; Nevzorov, Alexander A

2014-02-01

Elucidating structure and topology of membrane proteins (MPs) is essential for unveiling functionality of these important biological constituents. Oriented-sample solid-state NMR (OS-NMR) is capable of providing such information on MPs under nearly physiological conditions. However, two dimensional OS-NMR experiments can take several days to complete due to long longitudinal relaxation times combined with the large number of scans to achieve sufficient signal sensitivity in biological samples. Here, free radicals 5-DOXYL stearic acid, TEMPOL, and CAT-1 were added to uniformly (15)N-labeled Pf1 coat protein reconstituted in DMPC/DHPC bicelles, and their effect on the longitudinal relaxation times (T1Z) was investigated. The dramatically shortened T1Z's allowed for the signal gain per unit time to be used for either: (i) up to a threefold reduction of the total experimental time at 99% magnetization recovery or (ii) obtaining up to 74% signal enhancement between the control and radical samples during constant experimental time at "optimal" relaxation delays. In addition, through OS-NMR and high-field EPR studies, free radicals were able to provide positional constraints in the bicelle system, which provide a description of the location of each residue in Pf1 coat protein within the bicellar membranes. This information can be useful in the determination of oligomerization states and immersion depths of larger membrane proteins. Copyright © 2013 Elsevier Inc. All rights reserved.

Genetic structure of Pilosocereus gounellei (Cactaceae) as revealed by AFLP marker to guide proposals for improvement and restoration of degraded areas in Caatinga biome.

PubMed

Monteiro, E R; Strioto, D K; Meirelles, A C S; Mangolin, C A; Machado, M F P S

2015-12-15

Amplified fragment length polymorphism (AFLP) analysis was used to evaluate DNA polymorphism in Pilosocereus gounellei with the aim of differentiating samples grown in different Brazilian semiarid regions. Seven primer pairs were used to amplify 703 AFLP markers, of which 700 (99.21%) markers were polymorphic. The percentage of polymorphic markers ranged from 95.3% for the primer combination E-AAG/M-CTT to 100% for E-ACC/M-CAT, E-ACC/M-CAA, E-AGC/M-CAG, E-ACT/M-CTA, and E-AGG/M-CTG. The largest number of informative markers (126) was detected using the primer combination E-AAC/M-CTA. Polymorphism of the amplified DNA fragments ranged from 72.55% (in sample from Piauí State) to 82.79% (in samples from Rio Grande Norte State), with an average of 75.39%. Despite the high genetic diversity of AFLP markers in xiquexique, analysis using the STRUCTURE software identified relatively homogeneous clusters of xiquexique from the same location, indicating a differentiation at the molecular level, among the plant samples from different regions of the Caatinga biome. The AFLP methodology identified genetically homogeneous and contrasting plants, as well as plants from different regions with common DNA markers. Seeds from such plants can be used for further propagation of plants for establishment of biodiversity conservation units and restoration of degraded areas of the Caatinga biome.

PYCNOIB: Biodiversity and Biogeography of Iberian Pycnogonids

PubMed Central

Soler-Membrives, Anna; Munilla, Tomás

2015-01-01

Biodiversity and biogeographic studies comparing the distribution patterns of benthic marine organisms across the Iberian Atlantic and Mediterranean waters are scarce. The Pycnogonida (sea spiders) are a clear example of both endemicity and diversity, and are considered a key taxon to study and monitor biogeographic and biodiversity patterns. This is the first review that compiles data about abundance and diversity of Iberian pycnogonids and examines their biogeographic patterns and bathymetric constraints using GIS tools. A total of 17762 pycnogonid records from 343 localities were analyzed and were found to contain 65 species, 21 genera and 12 families. Achelia echinata and Ammothella longipes (family Acheliidae) were the most abundant comprising ~80% of the total records. The Acheliidae is also the most speciose in Iberian waters with 15 species. In contrast, the family Nymphonidae has 7 species but is significantly less abundant (<1% of the total records) than Acheliidae. Species accumulation curves indicate that further sampling would increase the number of Iberian species records. Current sampling effort suggests that the pycnogonid fauna of the Mediterranean region may be richer than that of the Atlantic. The Strait of Gibraltar and the Alboran Sea are recognized as species-rich areas that act as buffer zones between the Atlantic and Mediterranean boundaries. The deep waters surrounding the Iberian Peninsula are poorly surveyed, with only 15% of the sampling sites located below 1000 m. Further deep-water sampling is needed mainly on the Iberian Mediterranean side. PMID:25781483

Ozone trends in Great Smoky Mountains National Park over the past two decades: Implications for plants and ecosystems

EPA Science Inventory

Hourly ozone data from five sampling locations in Great Smoky Mountains National Park and one low elevation location adjacent to the Park in NC were analyzed over the period 1989 to 2012 for diurnal and season trends. Sampling locations spanned an elevational range from 564 m at...

40 CFR 761.304 - Determining sample location.

Code of Federal Regulations, 2010 CFR

2010-07-01

.... (a) For 1 square meter non-porous surface areas having the same size and shape, it is permissible to sample the same 10 cm by 10 cm location or position in each identical 1 square meter area. This location or position is determined in accordance with § 761.306 or § 761.308. (b) If some 1 square meter...

40 CFR 761.304 - Determining sample location.

Code of Federal Regulations, 2013 CFR

2013-07-01

.... (a) For 1 square meter non-porous surface areas having the same size and shape, it is permissible to sample the same 10 cm by 10 cm location or position in each identical 1 square meter area. This location or position is determined in accordance with § 761.306 or § 761.308. (b) If some 1 square meter...

40 CFR 761.304 - Determining sample location.

Code of Federal Regulations, 2011 CFR

2011-07-01

.... (a) For 1 square meter non-porous surface areas having the same size and shape, it is permissible to sample the same 10 cm by 10 cm location or position in each identical 1 square meter area. This location or position is determined in accordance with § 761.306 or § 761.308. (b) If some 1 square meter...

40 CFR 761.304 - Determining sample location.

Code of Federal Regulations, 2014 CFR

2014-07-01

.... (a) For 1 square meter non-porous surface areas having the same size and shape, it is permissible to sample the same 10 cm by 10 cm location or position in each identical 1 square meter area. This location or position is determined in accordance with § 761.306 or § 761.308. (b) If some 1 square meter...

40 CFR 761.304 - Determining sample location.

Code of Federal Regulations, 2012 CFR

2012-07-01

.... (a) For 1 square meter non-porous surface areas having the same size and shape, it is permissible to sample the same 10 cm by 10 cm location or position in each identical 1 square meter area. This location or position is determined in accordance with § 761.306 or § 761.308. (b) If some 1 square meter...

High-resolution analysis of selection sweeps identified between fine-wool Merino and coarse-wool Churra sheep breeds.

PubMed

Gutiérrez-Gil, Beatriz; Esteban-Blanco, Cristina; Wiener, Pamela; Chitneedi, Praveen Krishna; Suarez-Vega, Aroa; Arranz, Juan-Jose

2017-11-07

With the aim of identifying selection signals in three Merino sheep lines that are highly specialized for fine wool production (Australian Industry Merino, Australian Merino and Australian Poll Merino) and considering that these lines have been subjected to selection not only for wool traits but also for growth and carcass traits and parasite resistance, we contrasted the OvineSNP50 BeadChip (50 K-chip) pooled genotypes of these Merino lines with the genotypes of a coarse-wool breed, phylogenetically related breed, Spanish Churra dairy sheep. Genome re-sequencing datasets of the two breeds were analyzed to further explore the genetic variation of the regions initially identified as putative selection signals. Based on the 50 K-chip genotypes, we used the overlapping selection signals (SS) identified by four selection sweep mapping analyses (that detect genetic differentiation, reduced heterozygosity and patterns of haplotype diversity) to define 18 convergence candidate regions (CCR), five associated with positive selection in Australian Merino and the remainder indicating positive selection in Churra. Subsequent analysis of whole-genome sequences from 15 Churra and 13 Merino samples identified 142,400 genetic variants (139,745 bi-allelic SNPs and 2655 indels) within the 18 defined CCR. Annotation of 1291 variants that were significantly associated with breed identity between Churra and Merino samples identified 257 intragenic variants that caused 296 functional annotation variants, 275 of which were located across 31 coding genes. Among these, four synonymous and four missense variants (NPR2_His847Arg, NCAPG_Ser585Phe, LCORL_Asp1214Glu and LCORL_Ile1441Leu) were included. Here, we report the mapping and genetic variation of 18 selection signatures that were identified between Australian Merino and Spanish Churra sheep breeds, which were validated by an additional contrast between Spanish Merino and Churra genotypes. Analysis of whole-genome sequencing datasets allowed us to identify divergent variants that may be viewed as candidates involved in the phenotypic differences for wool, growth and meat production/quality traits between the breeds analyzed. The four missense variants located in the NPR2, NCAPG and LCORL genes may be related to selection sweep regions previously identified and various QTL reported in sheep in relation to growth traits and carcass composition.

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

Kagias, M.; Cartier, S.; Wang, Z.

X-ray phase contrast imaging enables the measurement of the electron density of a sample with high sensitivity compared to the conventional absorption contrast. This is advantageous for the study of dose-sensitive samples, in particular, for biological and medical investigations. Recent developments relaxed the requirement for the beam coherence, such that conventional X-ray sources can be used for phase contrast imaging and thus clinical applications become possible. One of the prominent phase contrast imaging methods, Talbot-Lau grating interferometry, is limited by the manufacturing, alignment, and photon absorption of the analyzer grating, which is placed in the beam path in front ofmore » the detector. We propose an alternative improved method based on direct conversion charge integrating detectors, which enables a grating interferometer to be operated without an analyzer grating. Algorithms are introduced, which resolve interference fringes with a periodicity of 4.7 μm recorded with a 25 μm pitch Si microstrip detector (GOTTHARD). The feasibility of the proposed approach is demonstrated by an experiment at the TOMCAT beamline of the Swiss Light Source on a polyethylene sample.« less

Laboratory-based x-ray phase-contrast tomography enables 3D virtual histology

NASA Astrophysics Data System (ADS)

Töpperwien, Mareike; Krenkel, Martin; Quade, Felix; Salditt, Tim

2016-09-01

Due to the large penetration depth and small wavelength hard x-rays offer a unique potential for 3D biomedical and biological imaging, combining capabilities of high resolution and large sample volume. However, in classical absorption-based computed tomography, soft tissue only shows a weak contrast, limiting the actual resolution. With the advent of phase-contrast methods, the much stronger phase shift induced by the sample can now be exploited. For high resolution, free space propagation behind the sample is particularly well suited to make the phase shift visible. Contrast formation is based on the self-interference of the transmitted beam, resulting in object-induced intensity modulations in the detector plane. As this method requires a sufficiently high degree of spatial coherence, it was since long perceived as a synchrotron-based imaging technique. In this contribution we show that by combination of high brightness liquid-metal jet microfocus sources and suitable sample preparation techniques, as well as optimized geometry, detection and phase retrieval, excellent three-dimensional image quality can be obtained, revealing the anatomy of a cobweb spider in high detail. This opens up new opportunities for 3D virtual histology of small organisms. Importantly, the image quality is finally augmented to a level accessible to automatic 3D segmentation.

Three-dimensional visualization of the microvasculature of bile duct ligation-induced liver fibrosis in rats by x-ray phase-contrast imaging computed tomography

NASA Astrophysics Data System (ADS)

Xuan, Ruijiao; Zhao, Xinyan; Hu, Doudou; Jian, Jianbo; Wang, Tailing; Hu, Chunhong

2015-07-01

X-ray phase-contrast imaging (PCI) can substantially enhance contrast, and is particularly useful in differentiating biological soft tissues with small density differences. Combined with computed tomography (CT), PCI-CT enables the acquisition of accurate microstructures inside biological samples. In this study, liver microvasculature was visualized without contrast agents in vitro with PCI-CT using liver fibrosis samples induced by bile duct ligation (BDL) in rats. The histological section examination confirmed the correspondence of CT images with the microvascular morphology of the samples. By means of the PCI-CT and three-dimensional (3D) visualization technique, 3D microvascular structures in samples from different stages of liver fibrosis were clearly revealed. Different types of blood vessels, including portal veins and hepatic veins, in addition to ductular proliferation and bile ducts, could be distinguished with good sensitivity, excellent specificity and excellent accuracy. The study showed that PCI-CT could assess the morphological changes in liver microvasculature that result from fibrosis and allow characterization of the anatomical and pathological features of the microvasculature. With further development of PCI-CT technique, it may become a novel noninvasive imaging technique for the auxiliary analysis of liver fibrosis.

Accelerated radial Fourier-velocity encoding using compressed sensing.

PubMed

Hilbert, Fabian; Wech, Tobias; Hahn, Dietbert; Köstler, Herbert

2014-09-01

Phase Contrast Magnetic Resonance Imaging (MRI) is a tool for non-invasive determination of flow velocities inside blood vessels. Because Phase Contrast MRI only measures a single mean velocity per voxel, it is only applicable to vessels significantly larger than the voxel size. In contrast, Fourier Velocity Encoding measures the entire velocity distribution inside a voxel, but requires a much longer acquisition time. For accurate diagnosis of stenosis in vessels on the scale of spatial resolution, it is important to know the velocity distribution of a voxel. Our aim was to determine velocity distributions with accelerated Fourier Velocity Encoding in an acquisition time required for a conventional Phase Contrast image. We imaged the femoral artery of healthy volunteers with ECG-triggered, radial CINE acquisition. Data acquisition was accelerated by undersampling, while missing data were reconstructed by Compressed Sensing. Velocity spectra of the vessel were evaluated by high resolution Phase Contrast images and compared to spectra from fully sampled and undersampled Fourier Velocity Encoding. By means of undersampling, it was possible to reduce the scan time for Fourier Velocity Encoding to the duration required for a conventional Phase Contrast image. Acquisition time for a fully sampled data set with 12 different Velocity Encodings was 40 min. By applying a 12.6-fold retrospective undersampling, a data set was generated equal to 3:10 min acquisition time, which is similar to a conventional Phase Contrast measurement. Velocity spectra from fully sampled and undersampled Fourier Velocity Encoded images are in good agreement and show the same maximum velocities as compared to velocity maps from Phase Contrast measurements. Compressed Sensing proved to reliably reconstruct Fourier Velocity Encoded data. Our results indicate that Fourier Velocity Encoding allows an accurate determination of the velocity distribution in vessels in the order of the voxel size. Thus, compared to normal Phase Contrast measurements delivering only mean velocities, no additional scan time is necessary to retrieve meaningful velocity spectra in small vessels. Copyright © 2013. Published by Elsevier GmbH.

Physical properties and rock physics models of sediment containing natural and laboratory-formed methane gas hydrate

USGS Publications Warehouse

Winters, W.J.; Pecher, I.A.; Waite, W.F.; Mason, D.H.

2004-01-01

This paper presents results of shear strength and acoustic velocity (p-wave) measurements performed on: (1) samples containing natural gas hydrate from the Mallik 2L-38 well, Mackenzie Delta, Northwest Territories; (2) reconstituted Ottawa sand samples containing methane gas hydrate formed in the laboratory; and (3) ice-bearing sands. These measurements show that hydrate increases shear strength and p-wave velocity in natural and reconstituted samples. The proportion of this increase depends on (1) the amount and distribution of hydrate present, (2) differences, in sediment properties, and (3) differences in test conditions. Stress-strain curves from the Mallik samples suggest that natural gas hydrate does not cement sediment grains. However, stress-strain curves from the Ottawa sand (containing laboratory-formed gas hydrate) do imply cementation is present. Acoustically, rock physics modeling shows that gas hydrate does not cement grains of natural Mackenzie Delta sediment. Natural gas hydrates are best modeled as part of the sediment frame. This finding is in contrast with direct observations and results of Ottawa sand containing laboratory-formed hydrate, which was found to cement grains (Waite et al. 2004). It therefore appears that the microscopic distribution of gas hydrates in sediment, and hence the effect of gas hydrate on sediment physical properties, differs between natural deposits and laboratory-formed samples. This difference may possibly be caused by the location of water molecules that are available to form hydrate. Models that use laboratory-derived properties to predict behavior of natural gas hydrate must account for these differences.

Land Use Influences Niche Size and the Assimilation of Resources by Benthic Macroinvertebrates in Tropical Headwater Streams

PubMed Central

Parreira de Castro, Diego Marcel; Reis de Carvalho, Débora; Pompeu, Paulo dos Santos; Moreira, Marcelo Zacharias; Nardoto, Gabriela Bielefeld; Callisto, Marcos

2016-01-01

It is well recognized that assemblage structure of stream macroinvertebrates changes with alterations in catchment or local land use. Our objective was to understand how the trophic ecology of benthic macroinvertebrate assemblages responds to land use changes in tropical streams. We used the isotope methodology to assess how energy flow and trophic relations among macroinvertebrates were affected in environments affected by different land uses (natural cover, pasture, sugar cane plantation). Macroinvertebrates were sampled and categorized into functional feeding groups, and available trophic resources were sampled and evaluated for the isotopic composition of 13C and 15N along streams located in the Cerrado (neotropical savanna). Streams altered by pasture or sugar cane had wider and more overlapped trophic niches, which corresponded to more generalist feeding habits. In contrast, trophic groups in streams with native vegetation had narrower trophic niches with smaller overlaps, suggesting greater specialization. Pasture sites had greater ranges of resources exploited, indicating higher trophic diversity than sites with natural cover and sugar cane plantation. We conclude that agricultural land uses appears to alter the food base and shift macroinvertebrate assemblages towards more generalist feeding behaviors and greater overlap of the trophic niches. PMID:26934113

The influence of human settlement on the distribution and diversity of iron-oxidizing bacteria belonging to the Gallionellaceae in tropical streams

PubMed Central

Reis, Mariana P.; Ávila, Marcelo P.; Costa, Patrícia S.; Barbosa, Francisco A. R.; Laanbroek, Hendrikus J.; Chartone-Souza, Edmar; Nascimento, Andréa M. A.

2014-01-01

Among the neutrophilic iron-oxidizing bacteria (FeOB), Gallionella is one of the most abundant genera in freshwater environments. By applying qPCR and DGGE based on 16S rRNA gene-directed primers targeting Gallionellaceae, we delineated the composition and abundance of the Gallionellaceae-related FeOB community in streams differentially affected by metal mining, and explored the relationships between these community characteristics and environmental variables. The sampling design included streams historically impacted by mining activity and a non-impacted stream. The sediment and water samples harbored a distinct community represented by Gallionella, Sideroxydans, and Thiobacillus species. Sequences affiliated with Gallionella were exclusively observed in sediments impacted by mining activities, suggesting an adaptation of this genus to these environments. In contrast, Sideroxydans-related sequences were found in all sediments including the mining impacted locations. The highest and lowest relative frequencies of Gallionellaceae-related FeOB were associated with the lowest and highest concentrations of Fe, respectively. The data enclosed here clearly show distinct species-specific ecological niches, with Gallionella species dominating in sediments impacted by anthropogenic activities over Sideroxydans species. PMID:25505456

Characterization of an Invertebrate-Type Dopamine Receptor of the American Cockroach, Periplaneta americana

PubMed Central

Troppmann, Britta; Balfanz, Sabine; Krach, Christian; Baumann, Arnd; Blenau, Wolfgang

2014-01-01

We have isolated a cDNA coding for a putative invertebrate-type dopamine receptor (Peadop2) from P. americana brain by using a PCR-based strategy. The mRNA is present in samples from brain and salivary glands. We analyzed the distribution of the PeaDOP2 receptor protein with specific affinity-purified polyclonal antibodies. On Western blots, PeaDOP2 was detected in protein samples from brain, subesophageal ganglion, thoracic ganglia, and salivary glands. In immunocytochemical experiments, we detected PeaDOP2 in neurons with their somata being located at the anterior edge of the medulla bilaterally innervating the optic lobes and projecting to the ventro-lateral protocerebrum. In order to determine the functional and pharmacological properties of the cloned receptor, we generated a cell line constitutively expressing PeaDOP2. Activation of PeaDOP2-expressing cells with dopamine induced an increase in intracellular cAMP. In contrast, a C-terminally truncated splice variant of this receptor did not exhibit any functional property by itself. The molecular and pharmacological characterization of the first dopamine receptor from P. americana provides the basis for forthcoming studies focusing on the significance of the dopaminergic system in cockroach behavior and physiology. PMID:24398985