Training interpretation biases among individuals with symptoms of obsessive compulsive disorder.

PubMed

Clerkin, Elise M; Teachman, Bethany A

2011-09-01

The current study tested the causal premise underlying cognitive models of obsessive compulsive disorder (OCD) that negative interpretations of intrusive thoughts lead to the distress and impairment associated with symptoms of OCD. Specifically, we sought to determine: (a) whether it was possible to train healthier (defined as more benign/less threatening) interpretations regarding the significance of intrusive thoughts; and (b) whether there was a link between modifying negative interpretations and subsequent emotional vulnerability to an OC stressor. A nonclinical sample of students high in OC symptoms completed either a Positive (n = 50) or Neutral (n = 50) interpretation training procedure designed to alter OC-relevant interpretations and beliefs. As expected, participants in the Positive (versus Neutral) training condition endorsed healthier OC-relevant interpretations and beliefs following training. Additionally, when controlling for baseline affect, participants in the Positive (versus Neutral) training condition reported less negative affect during the OC-stressor task (at the level of a non-significant trend) and reported less desire to perform neutralizing activities. In general, results provide some support for cognitive models of obsessions and suggest that negative interpretations of intrusive thoughts may be causally related to symptoms of OCD. Published by Elsevier Ltd.

Thermal Expansivity Between 150 and 800°C of Hydrothermally Altered Conduit Dyke Samples from USDP-4 Drill Core (Mt Unzen, Shimabara, Japan)

NASA Astrophysics Data System (ADS)

Yilmaz, T. I.; Hess, K. U.; Vasseur, J.; Wadsworth, F. B.; Gilg, H. A.; Nakada, S.; Dingwell, D. B.

2017-12-01

When hot magma intrudes the crust, the surrounding rocks expand. Similarly, the cooling magma contracts. The expansion and contraction of these multiphase materials is not simple and often requires empirical constraint. Therefore, we constrained the thermal expansivity of Unzen dome and conduit samples using a NETZSCH® DIL 402C. Following experiments, those samples were scanned using a Phoenix v|tome|x m to observe the cracks that may have developed during the heating and cooling. The dome samples do not show petrological or chemical signs of alteration. However, the alteration of the conduit dykes is represented by the occurrence of the main secondary phases such as chlorite, sulfides, carbonates, R1 (Reichweite parameter) illite-smectite, and kaolinite. These alteration products indicate an (I) early weak to moderate argillic magmatic alteration, and a (II) second stage weak to moderate propylitic hydrothermal alteration. The linear thermal expansion coefficient aL of the dome material is K-1 between 150° and 800°C and shows a sharp peak of up to K-1 around the alpha-beta-quartz-transition ( 573°C). In contrast, aL of the hydrothermally altered conduit samples starts to increase around 180° and reaches K-1 at 400°C. We interpret this effect as being due to the water content of the kaolinite and the R1 illite-smectite, which induces larger expansions per degree temperature change. Furthermore, the altered conduit samples show a more pronounced increases of aL between 500 and 650°C of up to peaks at K-1, which is generated by the breakdown of chlorite, iron-rich dolomite solid solutions, calcite, and pyrite. We use a 1D conductive model of heat transfer to explore how the country rock around the Unzen conduit zone would heat up after intrusion. In turn, we convert these temperature profiles to thermal stress profiles, assuming the edifice is largely undeformable. We show that these high linear thermal expansion coefficients of the hydrothermally altered conduit rocks may large induce thermal stresses in the surrounding host rock and therefore promotes cracking, which may in turn lead to edifice instability.

Shock-transformation of whitlockite to merrillite and the implications for meteoritic phosphate

DOE PAGES

Adcock, C. T.; Tschauner, O.; Hausrath, E. M.; ...

2017-03-06

Meteorites represent the only samples available for study on Earth of a number of planetary bodies. The minerals within meteorites therefore hold the key to addressing numerous questions about our solar system. Of particular interest is the Ca-phosphate mineral merrillite, the anhydrous end-member of the merrillite-whitlockite solid solution series. For example, the anhydrous nature of merrillite in Martian meteorites has been interpreted as evidence of water-limited late-stage Martian melts. However, recent research on apatite in the same meteorites suggests higher water content in melts. One complication of using meteorites rather than direct samples is the shock compression all meteorites havemore » experienced, which can alter meteorite mineralogy. Here we show whitlockite transformation into merrillite by shock-compression levels relevant to meteorites, including Martian meteorites. The results open the possibility that at least part of meteoritic merrillite may have originally been H + -bearing whitlockite with implications for interpreting meteorites and the need for future sample return.« less

Shock-transformation of whitlockite to merrillite and the implications for meteoritic phosphate

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

Adcock, C. T.; Tschauner, O.; Hausrath, E. M.

Meteorites represent the only samples available for study on Earth of a number of planetary bodies. The minerals within meteorites therefore hold the key to addressing numerous questions about our solar system. Of particular interest is the Ca-phosphate mineral merrillite, the anhydrous end-member of the merrillite-whitlockite solid solution series. For example, the anhydrous nature of merrillite in Martian meteorites has been interpreted as evidence of water-limited late-stage Martian melts. However, recent research on apatite in the same meteorites suggests higher water content in melts. One complication of using meteorites rather than direct samples is the shock compression all meteorites havemore » experienced, which can alter meteorite mineralogy. Here we show whitlockite transformation into merrillite by shock-compression levels relevant to meteorites, including Martian meteorites. The results open the possibility that at least part of meteoritic merrillite may have originally been H + -bearing whitlockite with implications for interpreting meteorites and the need for future sample return.« less

Shock-transformation of whitlockite to merrillite and the implications for meteoritic phosphate

PubMed Central

Adcock, C. T.; Tschauner, O.; Hausrath, E. M.; Udry, A.; Luo, S. N.; Cai, Y.; Ren, M.; Lanzirotti, A.; Newville, M.; Kunz, M.; Lin, C.

2017-01-01

Meteorites represent the only samples available for study on Earth of a number of planetary bodies. The minerals within meteorites therefore hold the key to addressing numerous questions about our solar system. Of particular interest is the Ca-phosphate mineral merrillite, the anhydrous end-member of the merrillite–whitlockite solid solution series. For example, the anhydrous nature of merrillite in Martian meteorites has been interpreted as evidence of water-limited late-stage Martian melts. However, recent research on apatite in the same meteorites suggests higher water content in melts. One complication of using meteorites rather than direct samples is the shock compression all meteorites have experienced, which can alter meteorite mineralogy. Here we show whitlockite transformation into merrillite by shock-compression levels relevant to meteorites, including Martian meteorites. The results open the possibility that at least part of meteoritic merrillite may have originally been H+-bearing whitlockite with implications for interpreting meteorites and the need for future sample return. PMID:28262701

Storage effects on quantity and composition of dissolved organic carbon and nitrogen of lake water, leaf leachate and peat soil water.

PubMed

Heinz, Marlen; Zak, Dominik

2018-03-01

This study aimed to evaluate the effects of freezing and cold storage at 4 °C on bulk dissolved organic carbon (DOC) and nitrogen (DON) concentration and SEC fractions determined with size exclusion chromatography (SEC), as well as on spectral properties of dissolved organic matter (DOM) analyzed with fluorescence spectroscopy. In order to account for differences in DOM composition and source we analyzed storage effects for three different sample types, including a lake water sample representing freshwater DOM, a leaf litter leachate of Phragmites australis representing a terrestrial, 'fresh' DOM source and peatland porewater samples. According to our findings one week of cold storage can bias DOC and DON determination. Overall, the determination of DOC and DON concentration with SEC analysis for all three sample types were little susceptible to alterations due to freezing. The findings derived for the sampling locations investigated here may not apply for other sampling locations and/or sample types. However, DOC size fractions and DON concentration of formerly frozen samples should be interpreted with caution when sample concentrations are high. Alteration of some optical properties (HIX and SUVA 254 ) due to freezing were evident, and therefore we recommend immediate analysis of samples for spectral analysis. Copyright © 2017 Elsevier Ltd. All rights reserved.

Palaeomagnetism in the Sines massif (SW Iberia) revisited: evidences for Late Cretaceous hydrothermal alteration and associated partial remagnetization

NASA Astrophysics Data System (ADS)

Ribeiro, P.; Silva, P. F.; Moita, P.; Kratinová, Z.; Marques, F. O.; Henry, B.

2013-10-01

This study revisits the palaeomagnetism of the Sines massif (˜76 Ma) in the southwestern Iberian Margin (Portugal). The palaeomagnetic analysis was complemented by a comprehensive study of the magnetic mineralogy by means of rock magnetic measurements and petrographic observations. The overall dispersion of palaeomagnetic directions (declination ranging between ˜N0° and ˜N50°) and their migration observed during stepwise demagnetizations have revealed the superposition of remanence components. We interpret this complex palaeomagnetic behaviour as related to the regional hydrothermalism associated with the last stages of Late Cretaceous magmatic activity. This environment favoured mineralogical alteration and a partial chemical remagnetization, giving in most samples a composite magnetization, which has been erroneously interpreted as the primary one in a previous study, then leading to a questionable model for Cretaceous Iberia rotation. Nonetheless, for some samples a single component has been isolated. Interesting rock magnetic properties and microscopic observations point to a well-preserved magnetic mineralogy for these samples, with magnetite clearly of primary origin. The associated ChRM mean direction (D/I = 3.9°/46.5°, α95 = 1.7°, N = 31 samples) then represents the true primary magnetization of the Sines massif. This new palaeomagnetic direction and the corresponding palaeomagnetic pole (long = 332.0°, lat = -79.5°, A95 = 1.7°) agrees with those from the other palaeomagnetic works for the same period and region (e.g. the Sintra and Monchique massifs), yielding a lack of significant rotation of Iberia relative to stable Europe since the uppermost Late Cretaceous (Campanian-Maastrichtian).

Analysis of terrestrial and Martian volcanic compositions using thermal emission spectroscopy

NASA Astrophysics Data System (ADS)

Wyatt, Michael Bruce

2002-11-01

This dissertation comprises four separate parts that address the Mars Global Surveyor (MGS) Thermal Emission Spectrometer (TES) investigation objective of determining and mapping the composition and distribution of surface minerals and rocks on Mars from orbit. In Part 1, laboratory thermal infrared spectra (5 25 μm, at 2 cm-1 spectral sampling), deconvolved modal mineralogies, and derived mineral and bulk rock chemistries of basalt, basaltic andesite, andesite, and dacite were used to evaluate and revise volcanic rock classification schemes. Multiple steps of classification were required to distinguish volcanic rocks, reflecting the mineralogic diversity and continuum of compositions that exists in volcanic rock types. In Part 2, laboratory spectral data were convolved to TES 10 cm-1 sampling to ascertain whether adequate results for volcanic rock classification can be obtained with lower spectral resolution, comparable to that obtained from Mars orbit. Modeled spectra, modeled modal mineralogies, and derived bulk rock chemistries at low (10 cm-1) spectral sampling provide good matches to measured and high (2 cm-1) spectral sampling modeled values. These results demonstrate the feasibility of using similar techniques and classification schemes for the interpretation of terrestrial laboratory samples and TES-resolution data. In Part 3, new deconvolved mineral abundances from TES data and terrestrial basalts using a spectral end-member set representing minerals common in unaltered and low-temperature aqueously altered basalts were used to reclassify martian surface lithologies. The new formulations maintain the dominance of unaltered basalt in the southern highlands, but indicate the northern lowlands can be interpreted as weathered basalt. The coincidence between locations of altered basalt and a previously suggested northern ocean basin implies that lowland plains materials may be basalts altered under submarine conditions and/or weathered basaltic sediment transported into this depocenter. In Part 4, results from the previous parts are applied to examine the distribution of TES-derived surface compositions in the Oxia Palus region on Mars through high-spatial resolution mapping. Features of interest within Oxia Palus include volcanic/sedimentary materials in southern Acidalia Planitia, low-albedo crater floors and wind streaks in western Arabia Terra, and channel outflow deposits of the Mars Pathfinder (MP) landing site.

Aragonite-Calcite Inversion During Biogenic Carbonate Sampling: Considerations for Interpreting Isotopic Measurements in Paleoclimate Studies

NASA Astrophysics Data System (ADS)

Waite, A. J.; Swart, P. K.

2011-12-01

As aragonite is the metastable polymorph of calcium carbonate, it lends itself to monotropic inversion to the more stable polymorph, calcite. This inversion is possible through an increase in the temperature and pressure conditions to which the sample is exposed and, although first noted nearly a century ago, has been primarily discussed in the context of sample roasting prior to analyses in paleoclimatological studies. Over the last several decades, however, researchers have found evidence to suggest that the friction associated with the sampling of biogenic carbonates via milling/drilling also induces inversion. Furthermore, this inversion may be associated with a shift in measured oxygen isotopic values and ultimately have significant implications for the interpretation of paleoclimatic reconstructions. Despite this, the isotopic heterogeneity of biogenic aragonite skeletons makes the effects of inversion challenging to test and the subject remains underrepresented in the literature. Here we present a first order study into the effects of milling on both the mineralogy and isotopic compositions measured in sclerosponges, corals, and molluscs. X-Ray diffraction analysis of samples hand ground with a mortar and pestle reveal 100% aragonitic skeletons. Conversely, samples milled with a computerized micromill show measurable inversion to calcite. On average, percent inversion of aragonite to calcite for individual specimens was 15% for sclerosponges, 16% for corals, and 9% for molluscs. Isotopic data from these specimens show that the higher the percentage of aragonite inverted to calcite, the more depleted the measured oxygen isotopic values. In the largest of the datasets (sclerosponges), it is evident that the range of oxygen isotope values from milled samples (-0.02 to +0.84%) exceeds the range in values for those samples which were hand ground and showed no inversion (+0.53 to +0.90%). This, coupled with the strong correlation between the two variables, suggests that the isotopic depletion is tied to the polymorphic inversion of aragonite to calcite, and not just random chance based on natural isotopic variability in the skeleton. There appears to be no relationship between the percent inversion and carbon isotopic composition. Elemental ratios also appear to remain stable during the heating and inversion process. The findings of this and published studies present, in many cases, conflicting views of the isotopic fractionation associated with inversion of aragonite to calcite. Discrepancies such as this likely result from subtle differences in sampling protocol related to instruments, drill bits, skeletal density, and possibly even laboratory conditions like temperature and humidity, further complicating our understanding and interpretation of such observations. Preliminary investigation suggests that altering milling conditions or wet milling may reduce the extent of alteration. Unfortunately, milling/drilling remains one of the only practical methods of sampling biogenic carbonates at a high resolution for paleoclimate work and, as such, caution should be taken in the interpretation of oxygen isotopic measurements from specimens of this nature.

MSL SAM-like Analyses of Hawaiian Altered Basaltic Materials: Implications for Analyses by the Mars Science Laboratory

NASA Astrophysics Data System (ADS)

McAdam, A.; Eigenbrode, J. L.; Young, K. E.; Bleacher, J. E.; Knudson, C. A.; Rogers, D.; Glotch, T. D.; Sutter, B.; Mahaffy, P. R.; Navarro-Gonzalez, R.; Downs, R. T.

2015-12-01

Samples of basaltic materials were collected during several traverses of the Kau Desert on the leeward side of the Kilauea Volcano, Hawaii, conducted by the Remote, In Situ, and Synchrotron Studies for Science and Exploration (RIS4E) team, a node of the Solar System Exploration and Research Virtual Institute (SSERVI) program. Some of these samples had been exposed to circumneutral to slightly acidic alteration conditions from exposure to fog/rain, and acidic fog/rain, while others had been exposed to more acidic conditions due to proximity to fumaroles. The samples consisted of basalts with coatings, sands and soils, and ash, and were collected using organically clean protocols to enable investigation of organic chemistry and organic-mineral associations, in addition to mineralogy. The Mars Science Laboratory (MSL) rover has analyzed basaltic materials inferred to have been altered under conditions ranging from circumneutral to acidic, but several aspects of the Sample Analysis at Mars (SAM) instrument suite results are still being investigated and analyses of relevant terrestrial analogs can play an important role in interpretation of the data. For example, all materials analyzed to date have a significant amorphous component. Comparisons of the mineralogy obtained with the MSL CheMin instrument and volatiles evolved during SAM analyses indicate that, by mass balance, some portion of the volatiles, such as SO2 and H2O, are likely associated with this component. Many of the RIS4E samples also have a significant amorphous component, and field x-ray diffraction (XRD) and x-ray fluorescence (XRF) data indicate differences in the chemistry of this material in samples exposed to different alteration conditions. Preliminary SAM-like analyses indicate that the amorphous materials in some of these samples evolve volatiles such as H2O and SO2 during heating. Here we will discuss these results, and others, obtained through SAM-like analyses of selected samples.

Late diagenetic indicators of buried oil and gas. 2: Direct detection experiment at Cement and Garza fields, Oklahoma and Texas, using enhanced LANDSAT 1 and 2 images

NASA Technical Reports Server (NTRS)

Donovan, T. J.; Termain, P. A.; Henry, M. E. (Principal Investigator)

1979-01-01

The author has identified the following significant results. The Cement oil field, Oklahoma, was a test site for an experiment designed to evaluate LANDSAT's capability to detect an alteration zone in surface rocks caused by hydrocarbon microseepage. Loss of iron and impregnation of sandstone by carbonate cements and replacement of gypsum by calcite were the major alteration phenomena at Cement. The bedrock alterations were partially masked by unaltered overlying beds, thick soils, and dense natural and cultivated vegetation. Interpreters, biased by detailed ground truth, were able to map the alteration zone subjectively using a magnified, filtered, and sinusoidally stretched LANDSAT composite image; other interpreters, unbiased by ground truth data, could not duplicate that interpretation.

Accounting for Ecohydrologic Separation Alters Interpreted Catchment Hydrology

NASA Astrophysics Data System (ADS)

Cain, M. R.; Ward, A. S.; Hrachowitz, M.

2017-12-01

Recent studies have demonstrated that in in some catchments, compartmentalized pools of water supply either plant transpiration (poorly mobile water) or streamflow and groundwater (highly mobile water), a phenomenon referred to as ecohydrologic separation. Although the literature has acknowledged that omission of ecohydrologic separation in hydrological models may influence estimates of residence times of water and solutes, no study has investigated how and when this compartmentalization might alter interpretations of fluxes and storages within a catchment. In this study, we develop two hydrochemical lumped rainfall-runoff models, one which incorporates ecohydrologic separation and one which does not for a watershed at the H.J. Andrews Experimental Forest (Oregon, USA), the study site where ecohydrologic separation was first observed. The models are calibrated against stream discharge, as well as stream chloride concentration. The objectives of this study are (1) to compare calibrated parameters and identifiability across models, (2) to determine how and when compartmentalization of water in the vadose zone might alter interpretations of fluxes and stores within the catchment, and (3) to identify how and when these changes alter residence times. Preliminary results suggest that compartmentalization of the vadose zone alters interpretations of fluxes and storages in the catchment and improves our ability to simulate solute transport.

Short-wave infrared reflectance investigation of sites of paleobiological interest: applications for Mars exploration.

PubMed

Brown, Adrian; Walter, Malcolm; Cudahy, Thomas

2004-01-01

Rover missions to the rocky bodies of the Solar System and especially to Mars require lightweight, portable instruments that use minimal power, require no sample preparation, and provide suitably diagnostic mineralogical information to an Earth-based exploration team. Short-wave infrared (SWIR) spectroscopic instruments such as the Portable Infrared Mineral Analyser (PIMA, Integrated Spectronics Pty Ltd., Baulkham Hills, NSW, Australia) fulfill all these requirements. We describe an investigation of a possible Mars analogue site using a PIMA instrument. A survey was carried out on the Strelley Pool Chert, an outcrop of stromatolitic, silicified Archean carbonate and clastic succession in the Pilbara Craton, interpreted as being modified by hydrothermal processes. The results of this study demonstrate the capability of SWIR techniques to add significantly to the geological interpretation of such hydrothermally altered outcrops. Minerals identified include dolomite, white micas such as illite-muscovite, and chlorite. In addition, the detection of pyrophyllite in a bleached and altered unit directly beneath the succession suggests acidic, sulfur-rich hydrothermal activity may have interacted with the silicified sediments of the Strelley Pool Chert.

Measuring Flow Rate in Crystalline Bedrock Wells Using the Dissolved Oxygen Alteration Method.

PubMed

Vitale, Sarah A; Robbins, Gary A

2017-07-01

Determination of vertical flow rates in a fractured bedrock well can aid in planning and implementing hydraulic tests, water quality sampling, and improving interpretations of water quality data. Although flowmeters are highly accurate in flow rate measurement, the high cost and logistics may be limiting. In this study the dissolved oxygen alteration method (DOAM) is expanded upon as a low-cost alternative to determine vertical flow rates in crystalline bedrock wells. The method entails altering the dissolved oxygen content in the wellbore through bubbler aeration, and monitoring the vertical advective movement of the dissolved oxygen over time. Measurements were taken for upward and downward flows, and under ambient and pumping conditions. Vertical flow rates from 0.06 to 2.30 Lpm were measured. To validate the method, flow rates determined with the DOAM were compared to pump discharge rates and found to be in agreement within 2.5%. © 2017, National Ground Water Association.

Cancer Genome Interpreter annotates the biological and clinical relevance of tumor alterations.

PubMed

Tamborero, David; Rubio-Perez, Carlota; Deu-Pons, Jordi; Schroeder, Michael P; Vivancos, Ana; Rovira, Ana; Tusquets, Ignasi; Albanell, Joan; Rodon, Jordi; Tabernero, Josep; de Torres, Carmen; Dienstmann, Rodrigo; Gonzalez-Perez, Abel; Lopez-Bigas, Nuria

2018-03-28

While tumor genome sequencing has become widely available in clinical and research settings, the interpretation of tumor somatic variants remains an important bottleneck. Here we present the Cancer Genome Interpreter, a versatile platform that automates the interpretation of newly sequenced cancer genomes, annotating the potential of alterations detected in tumors to act as drivers and their possible effect on treatment response. The results are organized in different levels of evidence according to current knowledge, which we envision can support a broad range of oncology use cases. The resource is publicly available at http://www.cancergenomeinterpreter.org .

Local and Global Resting State Activity in the Noradrenergic and Dopaminergic Pathway Modulated by Reboxetine and Amisulpride in Healthy Subjects

PubMed Central

Wiegers, Maike; Walter, Martin; Abler, Birgit; Graf, Heiko

2016-01-01

Background: Various psychiatric populations are currently investigated with resting state fMRI, with the aim of individualizing diagnostics and treatment options and improving treatment outcomes. Many of these studies are conducted in large naturalistic samples, providing rich insights regarding disease-related neural alterations, but with the common psychopharmacological medication limiting interpretations of the results. We therefore investigated the effects of common noradrenergic and anti-dopaminergic medications on local and global resting state activity (rs-activity) in healthy volunteers to further the understanding of the respective effects independent from disease-related alterations. Methods: Within a randomized, double-blind, placebo-controlled crossover design, we investigated 19 healthy male subjects by resting state fMRI after the intake of reboxetine (4mg/d), amisulpride (200mg/d), and placebo for 7 days each. Treatment-related differences in local and global rs-activity were measured by the fractional amplitude of low frequency fluctuations (fALFF) and resting state functional connectivity (rs-FC). Results: fALFF revealed alterations of local rs-activity within regions of the core noradrenergic pathway, including the locus coeruleus under reboxetine, correlated with its plasma levels. Moreover, reboxetine led to increased rs-FC between regions within this pathway, i.e. the locus coeruleus, tectum, thalamus, and amygdala. Amisulpride modulated local rs-activity of regions within the dopaminergic pathway, with the altered signal in the putamen correlating with amisulpride plasma levels. Correspondingly, amisulpride increased rs-FC between regions of the dopaminergic pathway comprising the substantia nigra and putamen. Conclusion: Our data provide evidence of how psychopharmacological agents alter local and global rs-activity within the respective neuroanatomical pathways in healthy subjects, which may help with interpreting data in psychiatric populations. PMID:26209860

Evaluation of the effects of alteration and leaching on Sm Nd and Lu Hf systematics in submarine mafic rocks

NASA Astrophysics Data System (ADS)

Thompson, Patricia M. E.; Kempton, Pamela D.; Kerr, Andrew C.

2008-08-01

Nd and Hf isotope systematics of oceanic basaltic rocks are often assumed to be largely immune to the effects of hydrothermal alteration. We have tested this assumption by comparing Nd and Hf isotope data for acid-leached Cretaceous oceanic basalts from Gorgona and DSDP Leg 15 with unleached data on the same rocks. Hf isotope values and Lu/Hf ratios are relatively unaffected by leaching, but 143Nd/ 144Nd values of leached samples are significantly higher than those of unleached fractions of the same sample in most cases. Furthermore, the Sm/Nd ratios of the majority of leached samples are 10-40% greater than those of unleached samples. X-ray diffraction studies indicate that selective removal of secondary minerals, such as smectite, during the acid leaching process is responsible for the fractionation of Sm/Nd ratios. These results have implications for interpretation of the Hf-Nd isotope systematics of ancient submarine rocks (older than ~ 50 Ma), as (1) the age-corrected 143Nd/ 144Nd ratio may not be representative of the primary magmatic signature and (2) the uncertainty of the age-corrected ɛNd value may exceed the assumed analytical precision.

Alterations in hematologic indices during long-duration spaceflight.

PubMed

Kunz, Hawley; Quiriarte, Heather; Simpson, Richard J; Ploutz-Snyder, Robert; McMonigal, Kathleen; Sams, Clarence; Crucian, Brian

2017-01-01

Although a state of anemia is perceived to be associated with spaceflight, to date a peripheral blood hematologic assessment of red blood cell (RBC) indices has not been performed during long-duration space missions. This investigation collected whole blood samples from astronauts participating in up to 6-months orbital spaceflight, and returned those samples (ambient storage) to Earth for analysis. As samples were always collected near undock of a returning vehicle, the delay from collection to analysis never exceeded 48 h. As a subset of a larger immunologic investigation, a complete blood count was performed. A parallel stability study of the effect of a 48 h delay on these parameters assisted interpretation of the in-flight data. We report that the RBC and hemoglobin were significantly elevated during flight, both parameters deemed stable through the delay of sample return. Although the stability data showed hematocrit to be mildly elevated at +48 h, there was an in-flight increase in hematocrit that was ~3-fold higher in magnitude than the anticipated increase due to the delay in processing. While susceptible to the possible influence of dehydration or plasma volume alterations, these results suggest astronauts do not develop persistent anemia during spaceflight.

Biostratigraphic and chemostratigraphic correlation of Neoproterozoic sedimentary successions: upper Tindir Group, northwestern Canada, as a test case

NASA Technical Reports Server (NTRS)

Kaufman, A. J.; Knoll, A. H.; Awramik, S. M.

1992-01-01

Recent advances in Proterozoic micropaleontology and sedimentary isotope geochemistry suggest that improved interbasinal correlation of Neoproterozoic (1000-540 Ma) successions is possible. Because widely varying interpretations of its age have been suggested and no reliable radiometric dates or paleomagnetic data are available, the upper Tindir Group of northwestern Canada provides an opportunity to test this hypothesis. The age of these strata is of paleontological importance because silicified carbonates near the top of the group contain disc-shaped-scale microfossils that may provide insights into the early evolution of biomineralization. A reinterpretation of upper Tindir microfossil assemblages suggests a late Riphean age. Although diagenesis and contact metamorphism have altered the isotopic compositions of some carbonates, least altered samples indicate that delta 13C of contemporaneous seawater was at least +4.7%, typical of Neoproterozoic, but not Cambrian, carbonates. Strontium isotopic compositions of the least altered samples yield values of approximately 0.7065, which can be uniquely correlated with late Riphean seawater. Together, micropaleontology and the isotopic tracers of C and Sr constrain the upper Tindir carbonates and their unique fossils to be late Riphean, likely between 620 and 780 Ma.

Effects of mother lode-type gold mineralization on 187Os/188Os and platinum group element concentrations in peridotite: Alleghany District, California

USGS Publications Warehouse

Walker, R.J.; Böhlke, J.K.; McDonough, W.F.; Li, Ji

2007-01-01

Osmium isotope compositions and concentrations of Re, platinum group elements (PGE), and Au were determined for host peridotites (serpentinites and barzburgites) and hydrothermally altered ultramafic wall rocks associated with Mother Lode-type hydrothermal gold-quartz vein mineralization in the Alleghany district, California. The host peridotites have Os isotope compositions and Re, PGE, and Au abundances typical of the upper mantle at their presumed formation age during the late Proterozoic or early Paleozoic. The hydrothermally altered rocks have highly variable initial Os isotope compositions with ??os, values (% deviation of 187OS/188OS from the chondritic average calculated for the approx. 120 Ma time of mineralization) ranging from -1.4 to -8.3. The lowest Os isotope compositions are consistent with Re depletion of a chondritic source (e.g., the upper mantle) at ca. 1.6 Ga. Most of the altered samples are enriched in Au and have depleted and fractionated abundances of Re and PGE relative to their precursor peridotites. Geoehemical characteristics of the altered samples suggest that Re and some PGE were variably removed from the ultramafic rocks during the mineralization event. In addition to Re, the Pt and Pd abundances of the most intensely altered rocks appear to have been most affected by mineralization. The 187Os-depleted isotopic compositions of some altered rocks are interpreted to be a result of preferential 187Os loss via destruction of Re-rich phases during the event. For these rocks, Os evidently is not a useful tracer of the mineralizing fluids. The results do, however, provide evidence for differential mobility of these elements, and mobility of 187Os relative to the initial bulk Os isotope composition during hydrothermal metasomatic alteration of ultramafic rocks. ?? 2007 Society of Economic Geologists, Inc.

Correlation lengths of the wigner-crystal order in a two-dimensional electron system at high magnetic fields.

PubMed

Ye, P D; Engel, L W; Tsui, D C; Lewis, R M; Pfeiffer, L N; West, K

2002-10-21

The insulator terminating the fractional quantum Hall series at low Landau level filling nu is generally taken to be a pinned Wigner crystal (WC), and exhibits a microwave resonance that is interpreted as a WC pinning mode. For a high quality sample at several densities, n, we find maxima in resonance peak frequency, f(pk), vs magnetic field, B. L, the correlation length of WC order, is calculated from f(pk). For each n, L vs nu tends at low nu toward a line with positive intercept; the fit is accurate over as much as a factor of 5 range of nu. The linear behavior is interpreted as due to B compressing the electron wave functions, to alter the effective electron-impurity interaction.

Revised interpretations of stable C and O patterns in carbonate rocks resulting from meteoric diagenesis

NASA Astrophysics Data System (ADS)

Swart, Peter K.; Oehlert, Amanda M.

2018-02-01

A positive correlation between the δ13C and δ18O values of carbonate rocks is a screening tool widely used to identify the overprint of meteoric diagenesis on the original isotopic composition of a sample. In particular, it has been suggested that systematic change from negative to positive δ13C and δ18O values with increasing depth in the core is an indicator of alteration within the zone of mixing between meteoric and marine waters. In this paper, we propose that such covariance is not generated within the traditionally defined mixing zone, and that positive correlations between δ13C and δ18O values in marine carbonates are not necessarily indicators of meteoric alteration. This new interpretation is based on data collected from the shallow sub-surface of the Bahamas, a region unequivocally influenced by meteoric waters to depths of at least 200 m below the current sediment-water interface. The classic interpretation of the diagenetic environments, based on changes in the δ13C and δ18O values, would suggest the maximum penetration of freshwater occurs between 65 and 100 m below seafloor. Below these depths, a strong positive covariation between the δ13C and δ18O values exists, and would traditionally be defined as the mixing zone. However, based upon known changes in sea level, the penetration of the freshwater lens extends significantly below this limit. We contend that the zone showing covariance of δ13C and δ18O values is actually altered within the freshwater lens, and not the mixing zone as previously proposed. The co-varying trend in δ13C and δ18O values is the result of diagenetic processes occurring at the interface between vadose and phreatic zones. Significantly greater rates of recrystallization and neomorphism are driven by the increased rates of oxidation of organic matter at this transition with progressively less alteration occurring with increasing depth. As sea level oscillates, the position of this interface moves through the deposit, causing cumulative alteration throughout the section. Hence, we propose that the covariation between δ13C and δ18O values is a consequence of varying degrees of alteration, rather than the result of diagenesis occurring within the zone where marine and freshwater fluids mix. Furthermore, within the pervasively altered vadose zone, there is little correlation between δ13C and δ18O values, and therefore covariation between δ13C and δ18O values is not an unequivocal indicator of meteoric diagenesis.

A Simplified View of the Geochemical Diversity Surrounding Home Plate

NASA Technical Reports Server (NTRS)

Yen, A. S.; Morris, R. V.; Clark, B. C.; Gellert, R.

2008-01-01

The Home Plate feature (Fig. 1) within the Inner Basin of the Columbia Hills consists of layered rocks and has been interpreted as an accumulation of pyroclastic deposits [1]. Samples analyzed by the Alpha Particle X-ray Spectrometer within 25 meters of the eastern margin of Home Plate exhibit a strikingly diverse range of geochemical compositions, including the highest levels of Mg, Si, K, Zn, and Ni measured at Gusev Crater. This wide range of chemical variability across the 40+ samples analyzed on and near Home Plate can be represented by contributions from only six primary components. This reconstruction is not reflected in the M ssbauer mineralogy suggesting that significant alteration of the contributing components has occurred.

Hydrothermal Signatures at Gale Crater, Mars, and Possible In-Situ Formation of Tridymite

NASA Astrophysics Data System (ADS)

Yen, A. S.; Morris, R. V.; Gellert, R.; Berger, J. A.; Sutter, B.; Downs, R. T.; Bristow, T.; Treiman, A. H.; Ming, D. W.; Achilles, C.; Blake, D. F.; Chipera, S.; Clark, B. C.; Craig, P.; Morrison, S. M.; Rampe, E. B.; Schmidt, M. E.; Schwenzer, S. P.; Thompson, L. M.; Vaniman, D.

2017-12-01

The occurrence of tridymite, a high temperature SiO2 polymorph definitively identified by the Curiosity rover in the Buckskin mudstone sample at Gale crater, Mars, has been attributed to detrital accumulation of rhyolitic material. This interpretation of a detrital origin is revisited in light of the observation that the tridymite-hosting sediments appear to have interacted with the same fluids that produced alteration halos in the overlying sandstone. The alteration halos in the Stimson sandstone are light-toned, elevated silica zones within 50 cm of a central fracture. They have likely experienced chemical leaching under acidic conditions resulting in depletion of metals (including Al), retention of Ti, formation of amorphous iron sulfates, 50% reduction of the pyroxene:plagioclase ratio, a factor of two increase in the Fe/Mn ratio, and passive enrichment of Si. This alteration is not constrained (nor precluded) to have occurred at elevated temperatures, but there are abundant indicators of hydrothermal activity within Gale crater. High concentrations of Ge, Zn, Ni, Pb, Cu, Se and Ga in a variety of samples analyzed by the Alpha Particle X-ray Spectrometer are indicative of mobility in hydrothermal solutions. Mineralogy of Gale crater samples determined by the CheMin X-ray diffraction instrument includes phases which may be associated with hydrothermal activity (smectites, anhydrite, hematite), but definitive detections of mineral assemblages that are necessarily hydrothermal in origin remain absent. The nearly identical patterns of enriched and depleted elements of the Stimson alteration halos (relative to parent rocks) and the tridymite-bearing unit (relative to typical mudstone samples) require the consideration of co-genetic origins. Cristobalite, a SiO2 polymorph stable above 1470°C found in the Buckskin sample, is known to form in hydrothermal solutions at temperatures well below its stability field (Henderson et al., 1971). Formation of well-crystalline tridymite at temperatures below its thermodynamic stability range (870-1470°C) has not been established, but cannot be excluded. Thus, the possibility that the fluids responsible for the passive enrichment of silica in the Stimson alteration halos also resulted in the in-situ formation of tridymite deserves further consideration.

Geochemical results of a hydrothermally altered area at Baker Creek, Blaine County, Idaho

USGS Publications Warehouse

Erdman, James A.; Moye, Falma J.; Theobald, Paul K.; McCafferty, Anne E.; Larsen, Richard K.

2001-01-01

The area immediately east of Baker Creek, Blaine County, Idaho, is underlain by a thick section of mafic to intermediate lava flows of the Eocene Challis Volcanic Group. Widespread propylitic alteration surrounds a zone of argillic alteration and an inner core of phyllic alteration. Silicified breccia is present along an east-trending fault within the zone of phyllic alteration. As part of a reconnaissance geochemical survey, soils and plants were sampled. Several species of plants (Douglas-fir [ Pseudotsuga menziesii ], mountain big sagebrush [ Artemisia tridentata ssp. vaseyana ], and elk sedge [ Carex geyerii ]) were collected from 10 upland localities and stream sediments, panned concentrates, and aquatic mosses were collected from 16 drainage basin localities all of which were generally within the area of alteration. Geochemical results yielded anomalous concentrations of molybenum, zinc, silver, and lead in at least half of the seven different sample media and of gold, thallium, arsenic, antimony, manganese, boron, cadmium, bismuth, copper, and beryllium in from one to four of the various media. Part of this suite of elements? silver, gold, arsenic, antimony, thallium, and manganese? suggests that the mineralization in the area is epithermal. Barite and pyrite (commonly botryoidal-framboidal) are widespread throughout the area sampled. Visible gold and pyromorphite (a secondary lead mineral) were identified in only one small drainage basin, but high levels of gold were detected in aquatic mosses over a larger area. Data from the upland and stream sampling indicate two possible mineralized areas. The first mineralized area was identified by a grab sample from an outcrop of quartz stockwork that contained 50 ppb Au, 1.5 ppm Ag, and 50 ppm Mo. Although the soil and plant species that were sampled in the area indicated mineralized bedrock, the Douglas-fir samples were the best indicators of the silver anomaly. The second possible mineralized area centers on the fault-controlled silicified breccia that is most likely the source of anomalous silver and molybdenum levels identified in the soils; silver, molybdenum, and manganese in stream sediments; thallium in Douglas-fir; bismuth and silver in concentrates; and gold, silver, arsenic, antimony, and molybdenum and lead in aquatic mosses. An interpretation of regional aeromagnetic data delineated the subsurface extent of shallow, steeply dipping magnetic sources inferred to be shallower parts of an Eocene batholith thought to underlie much of the Baker Creek area. The Eocene intrusive event(s) may have served as the heat source(s) that caused the hydrothermal alteration. Examination of core from a 1,530-ft-deep (466 m) hole drilled in 1982 confirmed a bedrock source for the anomalous silver and base-metal suite at the quartz stockwork location, and indicated subeconomic levels of molybdenum.

Ape Conservation Physiology: Fecal Glucocorticoid Responses in Wild Pongo pygmaeus morio following Human Visitation

PubMed Central

Muehlenbein, Michael P.; Ancrenaz, Marc; Sakong, Rosman; Ambu, Laurentius; Prall, Sean; Fuller, Grace; Raghanti, Mary Ann

2012-01-01

Nature-based tourism can generate important revenue to support conservation of biodiversity. However, constant exposure to tourists and subsequent chronic activation of stress responses can produce pathological effects, including impaired cognition, growth, reproduction, and immunity in the same animals we are interested in protecting. Utilizing fecal samples (N = 53) from 2 wild habituated orangutans (Pongo pygmaeus morio) (in addition to 26 fecal samples from 4 wild unhabituated orangutans) in the Lower Kinabatangan Wildlife Sanctuary of Sabah, Malaysian Borneo, we predicted that i) fecal glucocorticoid metabolite concentrations would be elevated on the day after tourist visitation (indicative of normal stress response to exposure to tourists on the previous day) compared to samples taken before or during tourist visitation in wild, habituated orangutans, and ii) that samples collected from habituated animals would have lower fecal glucocorticoid metabolites than unhabituated animals not used for tourism. Among the habituated animals used for tourism, fecal glucocorticoid metabolite levels were significantly elevated in samples collected the day after tourist visitation (indicative of elevated cortisol production on the previous day during tourist visitation). Fecal glucocorticoid metabolite levels were also lower in the habituated animals compared to their age-matched unhabituated counterparts. We conclude that the habituated animals used for this singular ecotourism project are not chronically stressed, unlike other species/populations with documented permanent alterations in stress responses. Animal temperament, species, the presence of coping/escape mechanisms, social confounders, and variation in amount of tourism may explain differences among previous experiments. Acute alterations in glucocorticoid measures in wildlife exposed to tourism must be interpreted conservatively. While permanently altered stress responses can be detrimental, preliminary results in these wild habituated orangutans suggest that low levels of predictable disturbance can likely result in low physiological impact on these animals. PMID:22438916

Ape conservation physiology: fecal glucocorticoid responses in wild Pongo pygmaeus morio following human visitation.

PubMed

Muehlenbein, Michael P; Ancrenaz, Marc; Sakong, Rosman; Ambu, Laurentius; Prall, Sean; Fuller, Grace; Raghanti, Mary Ann

2012-01-01

Nature-based tourism can generate important revenue to support conservation of biodiversity. However, constant exposure to tourists and subsequent chronic activation of stress responses can produce pathological effects, including impaired cognition, growth, reproduction, and immunity in the same animals we are interested in protecting. Utilizing fecal samples (N = 53) from 2 wild habituated orangutans (Pongo pygmaeus morio) (in addition to 26 fecal samples from 4 wild unhabituated orangutans) in the Lower Kinabatangan Wildlife Sanctuary of Sabah, Malaysian Borneo, we predicted that i) fecal glucocorticoid metabolite concentrations would be elevated on the day after tourist visitation (indicative of normal stress response to exposure to tourists on the previous day) compared to samples taken before or during tourist visitation in wild, habituated orangutans, and ii) that samples collected from habituated animals would have lower fecal glucocorticoid metabolites than unhabituated animals not used for tourism. Among the habituated animals used for tourism, fecal glucocorticoid metabolite levels were significantly elevated in samples collected the day after tourist visitation (indicative of elevated cortisol production on the previous day during tourist visitation). Fecal glucocorticoid metabolite levels were also lower in the habituated animals compared to their age-matched unhabituated counterparts. We conclude that the habituated animals used for this singular ecotourism project are not chronically stressed, unlike other species/populations with documented permanent alterations in stress responses. Animal temperament, species, the presence of coping/escape mechanisms, social confounders, and variation in amount of tourism may explain differences among previous experiments. Acute alterations in glucocorticoid measures in wildlife exposed to tourism must be interpreted conservatively. While permanently altered stress responses can be detrimental, preliminary results in these wild habituated orangutans suggest that low levels of predictable disturbance can likely result in low physiological impact on these animals.

Evidence for Acid-Sulfate Alteration in the Pahrump Hills Region, Gale Crater, Mars

NASA Technical Reports Server (NTRS)

Rampe, E. B.; Ming, D. W.; Blake, D. F.; Morris, R. V.; Bish, D. L.; Bristow, T. F.; Crisp, J. A.; Morookian, J. M.; Vaniman. D. T.; Chipera, S. J.;

Interpreting stress responses during routine toxicity studies: a review of the biology, impact, and assessment.

PubMed

Everds, Nancy E; Snyder, Paul W; Bailey, Keith L; Bolon, Brad; Creasy, Dianne M; Foley, George L; Rosol, Thomas J; Sellers, Teresa

2013-01-01

Stress often occurs during toxicity studies. The perception of sensory stimuli as stressful primarily results in catecholamine release and activation of the hypothalamic-pituitary-adrenal (HPA) axis to increase serum glucocorticoid concentrations. Downstream effects of these neuroendocrine signals may include decreased total body weights or body weight gain; food consumption and activity; altered organ weights (e.g., thymus, spleen, adrenal); lymphocyte depletion in thymus and spleen; altered circulating leukocyte counts (e.g., increased neutrophils with decreased lymphocytes and eosinophils); and altered reproductive functions. Typically, only some of these findings occur in a given study. Stress responses should be interpreted as secondary (indirect) rather than primary (direct) test article-related findings. Determining whether effects are the result of stress requires a weight-of-evidence approach. The evaluation and interpretation of routinely collected data (standard in-life, clinical pathology, and anatomic pathology endpoints) are appropriate and generally sufficient to assess whether or not changes are secondary to stress. The impact of possible stress-induced effects on data interpretation can partially be mitigated by toxicity study designs that use appropriate control groups (e.g., cohorts treated with vehicle and subjected to the same procedures as those dosed with test article), housing that minimizes isolation and offers environmental enrichment, and experimental procedures that minimize stress and sampling and analytical bias. This article is a comprehensive overview of the biological aspects of the stress response, beginning with a Summary (Section 1) and an Introduction (Section 2) that describes the historical and conventional methods used to characterize acute and chronic stress responses. These sections are followed by reviews of the primary systems and parameters that regulate and/or are influenced by stress, with an emphasis on parameters evaluated in toxicity studies: In-life Procedures (Section 3), Nervous System (Section 4), Endocrine System (Section 5), Reproductive System (Section 6), Clinical Pathology (Section 7), and Immune System (Section 8). The paper concludes (Section 9) with a brief discussion on Minimizing Stress-Related Effects (9.1.), and a final section explaining why Parameters routinely measured are appropriate for assessing the role of stress in toxicology studies (9.2.).

Absolute Paleointensity Study of Miocene Tiva Canyon Tuff, Yucca Mountain, Nevada

NASA Astrophysics Data System (ADS)

Patiman, A.; Bowles, J.

2014-12-01

Unoriented samples from the ~12.7 Ma Tiva Canyon (TC) tuff from Yucca Mountain, Nevada are studied in terms of magnetic properties and geomagnetic paleointensity. The magnetic mineralogy and magnetic properties of the TC tuff have previously been well documented, and the remanence-carrier in ~15-m thick zones at the top and bottom of the unit is dominantly is single domain (SD) to superparamagnetic (SP) magnetite, which may be considered ideal for absolute paleointensity studies. Among one of the several episodic volcanic eruptions of the Southwestern Nevada Volcanic Field (SWNVF), the welded TC tuff belongs to the Paintbrush Group. Here we present magnetic properties from two previously unreported sections of the TC tuff, as well as Thellier-type absolute paleointensity estimates. Samples were collected from the lower ~7 m at the base of the flow. Magnetic properties studied include hysteresis, bulk magnetic susceptibility, frequency-dependent susceptibility, and anhysteretic remanent magnetization acquisition. Magnetic property results are consistent with earlier work, showing that the main magnetic mineral is magnetite. SP samples are dominant from the lower ~1 m to ~3.6 m basal unit while the middle unit of ~3.7 m to 7.0 m mainly consists of SD samples. The paleointensity results are closely tied to the stratigraphic height and magnetic properties linked to domain state. The SD samples have consistent absolute paleointensity values 32.40±0.22 uT, VADM 5.74*1022 A.m2 and behaved ideally during paleointensity experiments. The SP samples have consistently higher paleointensity and less ideal behavior, but would likely pass many traditional quality-control tests. Since the magnetite has been interpreted to form by precipitation out of the glass post-emplacement, but at temperatures higher than the Curie temperature, we tentatively interpret the SD remanence to be a primary thermal remanent magnetization and the paleointensity result to be a valid estimate of geomagnetic paleointensity for the Miocene. Post-emplacement vapor-phase alteration might be expected to alter magnetic mineralogy and magnetization, and has been reported in the upper portions of the TC tuff, but not in the lower sections discussed here.

Tobacco exposure-related alterations in DNA methylation and gene expression in human monocytes: the Multi-Ethnic Study of Atherosclerosis (MESA)

PubMed Central

Reynolds, Lindsay M.; Lohman, Kurt; Pittman, Gary S.; Barr, R. Graham; Chi, Gloria C.; Kaufman, Joel; Wan, Ma; Bell, Douglas A.; Blaha, Michael J.; Rodriguez, Carlos J.; Liu, Yongmei

2017-01-01

ABSTRACT Alterations in DNA methylation and gene expression in blood leukocytes are potential biomarkers of harm and mediators of the deleterious effects of tobacco exposure. However, methodological issues, including the use of self-reported smoking status and mixed cell types have made previously identified alterations in DNA methylation and gene expression difficult to interpret. In this study, we examined associations of tobacco exposure with DNA methylation and gene expression, utilizing a biomarker of tobacco exposure (urine cotinine) and CD14+ purified monocyte samples from 934 participants of the community-based Multi-Ethnic Study of Atherosclerosis (MESA). Urine cotinine levels were measured using an immunoassay. DNA methylation and gene expression were measured with microarrays. Multivariate linear regression was used to test for associations adjusting for age, sex, race/ethnicity, education, and study site. Urine cotinine levels were associated with methylation of 176 CpGs [false discovery rate (FDR)<0.01]. Four CpGs not previously identified by studies of non-purified blood samples nominally replicated (P value<0.05) with plasma cotinine-associated methylation in 128 independent monocyte samples. Urine cotinine levels associated with expression of 12 genes (FDR<0.01), including increased expression of P2RY6 (Beta ± standard error = 0.078 ± 0.008, P = 1.99 × 10−22), a gene previously identified to be involved in the release of pro-inflammatory cytokines. No cotinine-associated (FDR<0.01) methylation profiles significantly (FDR<0.01) correlated with cotinine-associated (FDR<0.01) gene expression profiles. In conclusion, our findings i) identify potential monocyte-specific smoking-associated methylation patterns and ii) suggest that alterations in methylation may not be a main mechanism regulating gene expression in monocytes in response to cigarette smoking. PMID:29166816

Alteration minerals in impact-generated hydrothermal systems - Exploring host rock variability

NASA Astrophysics Data System (ADS)

Schwenzer, Susanne P.; Kring, David A.

2013-09-01

Impact-generated hydrothermal systems have been previously linked to the alteration of Mars’ crust and the production of secondary mineral assemblages seen from orbit. The sensitivity of the resultant assemblages has not yet been evaluated as a function of precursor primary rock compositions. In this work, we use thermochemical modeling to explore the variety of minerals that could be produced by altering several known lithologies based on martian meteorite compositions. For a basaltic host rock lithology (Dhofar 378, Humphrey) the main alteration phases are feldspar, zeolite, pyroxene, chlorite, clay (nontronite, kaolinite), and hematite; for a lherzolithic host rock lithology (LEW 88516) the main alteration phases are amphibole, serpentine, chlorite, clay (nontronite, kaolinite), and hematite; and for an ultramafic host rock lithology (Chassigny) the main minerals are secondary olivine, serpentine, magnetite, quartz, and hematite. These assemblages and proportions of phases in each of those cases depend on W/R and temperature. Integrating geologic, hydrologic and alteration mineral evidence, we have developed a model to illustrate the distribution of alteration assemblages that occur in different levels of an impact structure. At the surface, hot, hydrous alteration affects the ejecta and melt sheet producing clay and chlorite. Deeper in the subsurface and depending on the permeability of the rock, a variety of minerals - smectite, chlorite, serpentine, amphiboles and hematite - are produced in a circulating hydrothermal system. These modeled mineral distributions should assist with interpretation of orbital observations and help guide surface exploration by rovers and sample return assets.

U-Pb zircon and 40Ar/39Ar geochronology of sericite from hydrothermal alteration zones: new constraints for the timing of Ediacaran gold mineralization in the Sukhaybarat area, western Afif terrane, Saudi Arabia

NASA Astrophysics Data System (ADS)

Harbi, Hesham M.; Ali, Kamal A.; McNaughton, Neal J.; Andresen, Arild

2018-04-01

The Sukhaybarat East and Red Hill deposits, in the northeastern part of the Arabian Shield, are mesothermal vein-type gold deposits hosted by late Cryogenian-Ediacaran intrusive rocks of the Idah suites (diorite, tonalite, granodiorite) and, at Sukhaybarat East, also by Ediacaran metasedimentary rocks. Gold mineralization comprises quartz-arsenopyrite veins (Sukhaybarat East), quartz-carbonate-pyrite veins (Red Hill), and subordinate gold-base metal sulfide veins. In the Red Hill deposit, alteration is complicated due to multiple overprinting hydrothermal events and is characteristically affected by pervasive, pink quartz-K-feldspar-hematite alteration which is overprinted by potassic alteration characterized by a quartz-biotite-carbonate-muscovite/sericite-rutile-apatite assemblage. This assemblage is associated with molybdenite veins which appear to form late in the paragenetic sequence and may represent either evolution of the ore fluid composition, or a later, unrelated mineralized fluids. Hydrothermal alteration at the Sukhaybarat East deposit is dominated by quartz-carbonate-sericite-arsenopyrite assemblages. Zircon from ore-hosting tonalite at Sukhaybarat East yields a U-Pb age of 629 ± 6 Ma, and biotite from the same rock gives an 40Ar/39Ar age of 622 ± 23 Ma. The 40Ar/39Ar age is within the uncertainty range for the U-Pb age of the host intrusion and is interpreted as a minimally disturbed cooling age for the tonalite. In the Red Hill area, granodiorite was emplaced at 615 ± 5 Ma, whereas muscovite/sericite separated from a mineralized sample of a quartz-carbonate-pyrite vein, that was overprinted by molybdenite-bearing veinlets, yields an 40Ar/39Ar age of 597 ± 8 Ma. We interpreted this age to represent the maximum age of the molybdenite mineralization and the probable minimum age of gold mineralization in the Red Hill deposit.

Effects of titanomagnetite reordering processes on thermal demagnetization and paleointensity experiments

NASA Astrophysics Data System (ADS)

Bowles, Julie A.; Jackson, Mike J.

2016-12-01

Titanomagnetite (Fe3-xTixO4, 0 ≤ x ≤ 1) is a common, naturally occurring magnetic mineral critical to many paleomagnetic studies. Underlying most interpretations is the assumption that, lacking chemical alteration, Curie temperature (Tc) remains constant. However, recent work has demonstrated that Tc of many natural titanomagnetites varies strongly as a function of thermal history, independent of chemical alteration. This is inferred to arise from reordering of cations and/or vacancies in the crystal structure, and changes occur at temperatures and times relevant to standard paleomagnetic thermal treatments. Because changes take place at T < Tc, they have the potential to dramatically affect thermal remanence acquisition or demagnetization, impacting interpretation of paleomagnetic results. Here we have modeled the effects of reordering on standard thermal demagnetization and paleointensity experiments. Results suggest that Tc changes during laboratory heating make it impossible to accurately measure the unblocking temperature spectrum without modifying it. Samples with a starting Tc0 less than the closure temperature (Tclose) for the reordering process will develop a high-temperature "tail" that did not exist prior to heating. Samples with a starting Tc0 > Tclose will have their original Tb spectrum truncated at T ≈ Tclose. Predicted behavior during Thellier-type paleointensity experiments results in only modest deviations in NRM-lost or pTRM*-gained from the nonreordering case. Much larger deviations are predicted for pTRM checks. Compared to paleointensity results from titanomagnetite-bearing pyroclastic deposits, modeled nonideal behavior occurs in the same temperature intervals, but is much more systematic. Reordering is likely one contributing factor to failure of paleointensity experiments.

Uses of vitrinite reflectance in determining thermal history in sedimentary basins

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

Castano, J.R.

1985-02-01

Vitrinite reflectance (VR), adapted from coal petrology, came into routine use in the petroleum industry in the late 1960s. Initially, the principal goal was to help establish the VR limits for oil and gas generation. Subsequently, VR has become accepted as the most useful measure of burial history and paleotemperature, largely because VR affords the most practical means of measuring the progression of organic metamorphism. VR is used to correlate other measures of thermal history such as chemical maturity parameters, Rock-Eval t/sub max/, and burial-history reconstruction. VR can aid in identifying unconformities, geopressured sections, and thermally altered zones. Combined withmore » good temperature data, the determination of VR equivalents from temperature and burial time are used to evaluate the relationship of depth to log VR obtained directly. The time and temperature required for maturation in Tertiary basins stresses the interplay of both factors in the maturation process. Reflectance has been employed in deciphering the burial history and tectonic evolution of many areas, including structurally complex regions as the Alps and the Wyoming Overthrust Belt. Interpretational problems that arise include: (1) VR can be altered by the absorption of hydrogen-rich materials, oxidation, and natural coking; (2) the presence of reworked and caved organic matter produces multiple reflectance populations; and (3) vitrinite is sometimes difficult to distinguish from solid hydrocarbons and some inerts if the particle size is small. Most of these problems are resolved at the microscope. Interpretation is improved significantly by analyzing a series of samples rather than an isolated sample.« less

Natural fumarolic alteration of fluorapatite, olivine, and basaltic glass, and implications for habitable environments on Mars.

PubMed

Hausrath, Elisabeth M; Tschauner, Oliver

2013-11-01

Fumaroles represent a very important potential habitat on Mars because they contain water and nutrients. Global deposition of volcanic sulfate aerosols may also have been an important soil-forming process affecting large areas of Mars. Here we identify alteration from the Senator fumarole, northwest Nevada, USA, and in low-temperature environments near the fumarole to help interpret fumarolic and acid vapor alteration of rocks and soils on Mars. We analyzed soil samples and fluorapatite, olivine, and basaltic glass placed at and near the fumarole in in situ mineral alteration experiments designed to measure weathering under natural field conditions. Using synchrotron X-ray diffraction, we clearly observe hydroxyl-carbonate-bearing fluorapatite as a fumarolic alteration product of the original material, fluorapatite. The composition of apatites as well as secondary phosphates has been previously used to infer magmatic conditions as well as fumarolic conditions on Mars. To our knowledge, the observations reported here represent the first documented instance of formation of hydroxyl-carbonate-bearing apatite from fluorapatite in a field experiment. Retreat of olivine surfaces, as well as abundant NH4-containing minerals, was also characteristic of fumarolic alteration. In contrast, alteration in the nearby low-temperature environment resulted in formation of large pits on olivine surfaces, which were clearly distinguishable from the fumarolic alteration. Raman signatures of some fumarolically impacted surfaces are consistent with detection of the biological molecules chlorophyll and scytenomin, potentially useful biosignatures. Observations of altered minerals on Mars may therefore help identify the environment of formation and understand the aqueous history and potential habitability of that planet.

Elephant Moraine 96029, a very mildly aqueously altered and heated CM carbonaceous chondrite: Implications for the drivers of parent body processing

NASA Astrophysics Data System (ADS)

Lee, Martin R.; Lindgren, Paula; King, Ashley J.; Greenwood, Richard C.; Franchi, Ian A.; Sparkes, Robert

2016-08-01

Elephant Moraine (EET) 96029 is a CM carbonaceous chondrite regolith breccia with evidence for unusually mild aqueous alteration, a later phase of heating and terrestrial weathering. The presence of phyllosilicates and carbonates within chondrules and the fine-grained matrix indicates that this meteorite was aqueously altered in its parent body. Features showing that water-mediated processing was arrested at a very early stage include a matrix with a low magnesium/iron ratio, chondrules whose mesostasis contains glass and/or quench crystallites, and a gehlenite-bearing calcium- and aluminium-rich inclusion. EET 96029 is also rich in Fe,Ni metal relative to other CM chondrites, and more was present prior to its partial replacement by goethite during Antarctic weathering. In combination, these properties indicate that EET 96029 is one of the least aqueously altered CMs yet described (CM2.7) and so provides new insights into the original composition of its parent body. Following aqueous alteration, and whilst still in the parent body regolith, the meteorite was heated to ∼400-600 °C by impacts or solar radiation. Heating led to the amorphisation and dehydroxylation of serpentine, replacement of tochilinite by magnetite, loss of sulphur from the matrix, and modification to the structure of organic matter that includes organic nanoglobules. Significant differences between samples in oxygen isotope compositions, and water/hydroxyl contents, suggests that the meteorite contains lithologies that have undergone different intensities of heating. EET 96029 may be more representative of the true nature of parent body regoliths than many other CM meteorites, and as such can help interpret results from the forthcoming missions to study and return samples from C-complex asteroids.

Insights into magmatic processes and hydrothermal alteration of in situ superfast spreading ocean crust at ODP/IODP site 1256 from a cluster analysis of rock magnetic properties

NASA Astrophysics Data System (ADS)

Dekkers, Mark J.; Heslop, David; Herrero-Bervera, Emilio; Acton, Gary; Krasa, David

2014-08-01

We analyze magnetic properties from Ocean Drilling Program (ODP)/Integrated ODP (IODP) Hole 1256D (6°44.1' N, 91°56.1' W) on the Cocos Plate in ˜15.2 Ma oceanic crust generated by superfast seafloor spreading, the only drill hole that has sampled all three oceanic crust layers in a tectonically undisturbed setting. Fuzzy c-means cluster analysis and nonlinear mapping are utilized to study down-hole trends in the ratio of the saturation remanent magnetization and the saturation magnetization, the coercive force, the ratio of the remanent coercive force and coercive force, the low-field magnetic susceptibility, and the Curie temperature, to evaluate the effects of magmatic and hydrothermal processes on magnetic properties. A statistically robust five cluster solution separates the data predominantly into three clusters that express increasing hydrothermal alteration of the lavas, which differ from two distinct clusters mainly representing the dikes and gabbros. Extensive alteration can obliterate magnetic property differences between lavas, dikes, and gabbros. The imprint of thermochemical alteration on the iron-titanium oxides is only partially related to the porosity of the rocks. Thus, the analysis complements interpretation based on electrofacies analysis. All clusters display rock magnetic characteristics compatible with an ability to retain a stable natural remanent magnetization suggesting that the entire sampled sequence of ocean crust can contribute to marine magnetic anomalies. Paleointensity determination is difficult because of the propensity of oxyexsolution during laboratory heating and/or the presence of intergrowths. The upper part of the extrusive sequence, the granoblastic dikes, and moderately altered gabbros may contain a comparatively uncontaminated thermoremanent magnetization.

MixHMM: Inferring Copy Number Variation and Allelic Imbalance Using SNP Arrays and Tumor Samples Mixed with Stromal Cells

PubMed Central

Schulz, Vincent; Chen, Min; Tuck, David

2010-01-01

Background Genotyping platforms such as single nucleotide polymorphism (SNP) arrays are powerful tools to study genomic aberrations in cancer samples. Allele specific information from SNP arrays provides valuable information for interpreting copy number variation (CNV) and allelic imbalance including loss-of-heterozygosity (LOH) beyond that obtained from the total DNA signal available from array comparative genomic hybridization (aCGH) platforms. Several algorithms based on hidden Markov models (HMMs) have been designed to detect copy number changes and copy-neutral LOH making use of the allele information on SNP arrays. However heterogeneity in clinical samples, due to stromal contamination and somatic alterations, complicates analysis and interpretation of these data. Methods We have developed MixHMM, a novel hidden Markov model using hidden states based on chromosomal structural aberrations. MixHMM allows CNV detection for copy numbers up to 7 and allows more complete and accurate description of other forms of allelic imbalance, such as increased copy number LOH or imbalanced amplifications. MixHMM also incorporates a novel sample mixing model that allows detection of tumor CNV events in heterogeneous tumor samples, where cancer cells are mixed with a proportion of stromal cells. Conclusions We validate MixHMM and demonstrate its advantages with simulated samples, clinical tumor samples and a dilution series of mixed samples. We have shown that the CNVs of cancer cells in a tumor sample contaminated with up to 80% of stromal cells can be detected accurately using Illumina BeadChip and MixHMM. Availability The MixHMM is available as a Python package provided with some other useful tools at http://genecube.med.yale.edu:8080/MixHMM. PMID:20532221

Investigating Weathering of Basaltic Materials in Gale Crater, Mars: A Combined Laboratory, Modeling and Terrestrial Field Approach

NASA Technical Reports Server (NTRS)

Hausrath, Elisabeth; Ralston, Stephanie J.; Bamisile, Toluwalope; Ming, Douglas; Peretyazhko, Tanya; Rampe, Elizabeth; Gainey, Seth

2017-01-01

Recent observations from Gale Crater, Mars document past aqueous alteration both in the formation of the Stimson sandstone unit, as well as in the formation of altered fractures within that unit. Geochemical and mineralogical data from Curiosity also suggest Fe-rich amorphous weathering products are present in most samples measured to date. Here we interpret conditions of possible past weathering in Gale Crater using a combination of field, laboratory, and modeling work. In order to better understand secondary Fe-rich phases on Mars, we are examining formation of weathering products in high Fe and Mg and low Al serpentine soils in the Klamath Mountains, CA. We have isolated potential weathering products from these soils, and are analyzing them using synchrotron µXRF and µXRD as well as FullPat for a direct comparison to analyses from Gale Crater. In order to interpret the implications of the persistence of potential secondary Fe-containing phases on Mars, we are also measuring the dissolution rates of the secondary weathering products allophane, Fe-rich allophane, and hisingerite. Ongoing dissolution experiments of these materials suggest that they dissolve significantly more rapidly than more crystalline secondary minerals with similar chemical compositions. Finally, to quantify the specific conditions of past aqueous alteration in Gale Crater we are performing reactive transport modeling of a range of possible past environmental conditions. Specifically, we are testing the conditions under which a Stimson unit-like material forms from a parent material similar to Rocknest or Bagnold eolian deposits, and the conditions under which observed altered fracture zones form from a Stimson unit-like parent material. Our modeling results indicate that the formation of the Stimson unit is consistent with leaching of an eolian deposit with a solution of pH = 6-8, and that formation of the altered fracture zones is consistent with leaching with a very acidic (pH = 2-3) high sulfate solution containing Ca. These results suggest circumneutral pH conditions during authigenesis or early diagenesis in the Stimson formation sediments followed by diagenetic alteration by very acidic solutions along fracture zones.

Potassium Isotopes as a New Tracer of Seafloor Hydrothermal Alteration: The Bay of Islands Ophiolite

NASA Astrophysics Data System (ADS)

Parendo, C. A.; Jacobsen, S. B.; Wang, K.

2016-12-01

Hydrothermal circulation at and around oceanic spreading ridges results in elemental exchange between seawater and oceanic crust, with profound implications for both the ionic composition of seawater and the elemental composition of various solid-Earth reservoirs over geological time. Potassium is among the elements known to be mobile during hydrothermal alteration. Here we investigate the isotopic character of this K exchange by obtaining high-precision 41K/39K data for 6 samples from the Bay of Islands Ophiolite, Newfoundland, Canada—a piece of ca. 485 Ma oceanic crust that was affected by seafloor hydrothermal alteration prior to being obducted. Our 41K/39K analyses are generated using an Isoprobe-P MC-ICPMS equipped with a hexapole collision and reaction cell, which essentially eliminates interferences from the K-isotope mass spectrum. The analyses have an external reproducibility of about 0.07‰ (2SD). We find that the 41K/39K ratios of the ophiolite rocks span a range of approximately 0.70‰ and covary with previously determined 87Sr/86Sr ratios. The stratigraphically deepest, least-altered sample (an olivine gabbro) has a 41K/39K ratio within error of that typically observed in common igneous rocks. The stratigraphically higher, more-altered samples (which include hornblende gabbro, plagiogranite, diabase, and basalt) have 41K/39K ratios that are markedly heavier. This variability in 41K/39K ratios is interpreted to reflect variable addition of seawater K to the rocks. A simple open-system water-rock interaction calculation shows that the covariation between 41K/39K and 87Sr/86Sr can be plausibly explained as the result of hydrothermal alteration. The simplest scenario assumes that the 41K/39K ratio of seawater at the time of interest was similar to its present-day value, in which case the calculation suggests that isotopically heavy seawater K is added to oceanic crust with little fractionation—i.e., an effective fractionation factor near 0.0‰. The findings of this study indicate that 41K/39K ratios will be useful in future efforts to constrain the hydrothermal flux of the marine K cycle, to identify ancient fragments of oceanic crust, and to track oceanic crust as it is subducted, incorporated into the mantle, and sampled by arc, ocean island, and mid-ocean ridge volcanism.

Complexities of gut microbiome dysbiosis in the context of HIV infection and antiretroviral therapy

PubMed Central

Li, Sam X.; Armstrong, Abigail J. S.; Neff, C. Preston; Shaffer, Michael; Lozupone, Catherine A.; Palmer, Brent E.

2016-01-01

HIV infection is associated with an altered gut microbiome that is not consistently restored with effective antiretroviral therapy (ART). Interpretation of the specific microbiome changes observed during HIV infection is complicated by factors like population, sample type, and ART – each of which may have dramatic effects on gut bacteria. Understanding how these factors shape the microbiome during HIV infection (which we refer to as the HIV-associated microbiome) is critical for defining its role in HIV disease, and for developing therapies that restore gut health during infection. PMID:26940481

Electrical conductivity of Icelandic deep geothermal reservoirs: insight from HT-HP laboratory experiments

NASA Astrophysics Data System (ADS)

Nono, Franck; Gibert, Benoit; Loggia, Didier; Parat, Fleurice; Azais, Pierre; Cichy, Sarah

2016-04-01

Although the Icelandic geothermal system has been intensively investigated over the years, targeting increasingly deeper reservoirs (i.e. under supercritical conditions) requires a good knowledge of the behaviour of physical properties of the host rock in order to better interpret large scale geophysical observations. In particular, the interpretation of deep electrical soundings remains controversial as only few studies have investigated the influence of altered minerals and pore fluid properties on electrical properties of rocks at high temperature and pressure. In this study, we investigate the electrical conductivity of drilled samples from different Icelandic geothermal fields at elevated temperature, confining pressure and pore pressure conditions (100°C < T < 600°C, confining pressure up to 100 MPa and pore pressure up to 35 MPa). The investigated rocks are composed of hyaloclastites, dolerites and basalts taken from depths of about 800 m for the hyaloclastites, to almost 2500 m for the dolerites. They display different porosity structures, from vuggy and intra-granular to micro-cracked porosities, and have been hydrothermally alterated in the chlorite to amphibolite facies. Electrical conductivity measurements are first determined at ambient conditions as a function of pore fluid conductivity in order to establish their relationships with lithology and pore space topology, prior to the high pressure and temperature measurements. Cementation factor varies from 1.5 for the dolerites to 2.83 for the basalt, reflecting changes in the shape of the conductive channels. The surface conductivities, measured at very low fluid conductivity, increases with the porosity and is correlated with the cation exchange capacity. At high pressure and temperature, we used the two guard-ring electrodes system. Measurements have been performed in dry and saturated conditions as a function of temperature and pore pressure. The supercritical conditions have been investigated and temperature cycles have been performed systematically. Dry electrical conductivity measurements show for most of the samples irreversible changes when temperatures exceed 500°C. These changes are interpreted as destabilization/dehydration of alteration minerals that could lead to the presence of a conductive fluid phase in the samples. Very low and high salinity (NaCl) electrical conductivity measurements have been performed as a function of temperature. At supercritical conditions, electrical conductivity at low salinity is not pore pressure dependent and surface conduction is preponderant. At saturated conditions, the rock's electrical conductivity increases linearly (as a function of T-1) until 350°C. Above 350°C, the conductivity decreases. All rock types exhibit the same increasing rate. This work was funded by the of the EC project IMAGE (Integrated Methods for Advanced Geothermal Exploration, grant agreement No. 608553).

Origin of orogenic remagnetizations in Mississippian carbonates, Sawtooth Range, Montana

NASA Astrophysics Data System (ADS)

O'Brien, V. J.; Moreland, K. M.; Elmore, R. D.; Engel, M. H.; Evans, M. A.

2007-06-01

Paleomagnetic results are presented from Mississippian Madison Group carbonates in the Sawtooth Range, northwestern Montana. Samples were collected from sites along two east-west trending transects perpendicular to the thrust faults in the Sun River Canyon and in the North and South Forks of the Teton River and from three folds. The Madison Group contains a widespread characteristic remanent magnetization (ChRM) that resides in magnetite with southerly declinations and moderately steep up inclinations. Tilt test results suggest that the ChRM is pretilting in the thrust sheets and Teton anticline but syntilting in the Clary Coulee and Swift Dam folds. The ChRMs all have the same characteristics and were probably caused by the same remagnetization event, yet the tilt test results are different. One explanation involves the difference in fold types between the Teton anticline (fault bend fold geometry) and the Clary Coulee and Swift Dam folds (fault propagation fold geometries). The deformation that produced the two geometries could have caused variations in strain/stress, which may have altered an original pretilting into a syntilting ChRM. A mean paleopole for the three pretilting tilt test results (67.2°N, 177.9°E; A95 = 13.1°) suggests remanence acquisition in the late Jurassic-early Tertiary. The ChRM is interpreted as a chemical remanent magnetization (CRM). Geochemical studies indicate that the Mississippian carbonates were altered by evolved fluids with radiogenic 87Sr/86Sr values, and petrographic analysis indicates that hydrocarbons migrated through the carbonates. The CRM is interpreted to be related to alteration by one of these fluids.

A novel molecular diagnostics platform for somatic and germline precision oncology.

PubMed

Cabanillas, Rubén; Diñeiro, Marta; Castillo, David; Pruneda, Patricia C; Penas, Cristina; Cifuentes, Guadalupe A; de Vicente, Álvaro; Durán, Noelia S; Álvarez, Rebeca; Ordóñez, Gonzalo R; Cadiñanos, Juan

2017-07-01

Next-generation sequencing (NGS) opens new options in clinical oncology, from therapy selection to genetic counseling. However, realization of this potential not only requires succeeding in the bioinformatics and interpretation of the results, but also in their integration into the clinical practice. We have developed a novel NGS diagnostic platform aimed at detecting (1) somatic genomic alterations associated with the response to approved targeted cancer therapies and (2) germline mutations predisposing to hereditary malignancies. Next-generation sequencing libraries enriched in the exons of 215 cancer genes (97 for therapy selection and 148 for predisposition, with 30 informative for both applications), as well as selected introns from 17 genes involved in drug-related rearrangements, were prepared from 39 tumors (paraffin-embedded tissues/cytologies), 36 germline samples (blood) and 10 cell lines using hybrid capture. Analysis of NGS results was performed with specifically developed bioinformatics pipelines. The platform detects single-nucleotide variants (SNVs) and insertions/deletions (indels) with sensitivity and specificity >99.5% (allelic frequency ≥0.1), as well as copy-number variants (CNVs) and rearrangements. Somatic testing identified tailored approved targeted drugs in 35/39 tumors (89.74%), showing a diagnostic yield comparable to that of leading commercial platforms. A somatic EGFR p.E746_S752delinsA mutation in a mediastinal metastasis from a breast cancer prompted its anatomopathologic reassessment, its definite reclassification as a lung cancer and its treatment with gefitinib (partial response sustained for 15 months). Testing of 36 germline samples identified two pathogenic mutations (in CDKN2A and BRCA2 ). We propose a strategy for interpretation and reporting of results adaptable to the aim of the request, the availability of tumor and/or normal samples and the scope of the informed consent. With an adequate methodology, it is possible to translate to the clinical practice the latest advances in precision oncology, integrating under the same platform the identification of somatic and germline genomic alterations.

Hydrothermal reequilibration of igneous magnetite in altered granitic plutons and its implications for magnetite classification schemes: Insights from the Handan-Xingtai iron district, North China Craton

NASA Astrophysics Data System (ADS)

Wen, Guang; Li, Jian-Wei; Hofstra, Albert H.; Koenig, Alan E.; Lowers, Heather A.; Adams, David

2017-09-01

Magnetite is a common mineral in igneous rocks and has been used as an important petrogenetic indicator as its compositions and textures reflect changing physiochemical parameters such as temperature, oxygen fugacity and melt compositions. In upper crustal settings, igneous rocks are often altered by hydrothermal fluids such that the original textures and compositions of igneous magnetite may be partly or completely obliterated, posing interpretive problems in petrological and geochemical studies. In this paper, we present textural and compositional data of magnetite from variably albitized granitoid rocks in the Handan-Xingtai district, North China Craton to characterize the hydrothermal reequilibration of igneous magnetite. Four types of magnetite have been identified in the samples studied: pristine igneous magnetite (type 1), reequilibrated porous magnetite (type 2), reequilibrated nonporous magnetite (type 3), and hydrothermal magnetite (type 4). Pristine igneous magnetite contains abundant well-developed ilmenite exsolution lamellae that are largely replaced by titanite during subsequent hydrothermal alteration. The titanite has a larger molar volume than its precursor ilmenite and thus causes micro-fractures in the host magnetite grains, facilitating dissolution and reprecipitation of magnetite. During sodic alteration, the igneous magnetite is extensively replaced by type 2 and type 3 magnetite via fluid-induced dissolution and reprecipitation. Porous type 2 magnetite is the initial replacement product of igneous magnetite and is subsequently replaced by the nonoporous type 3 variety as its surface area is reduced and compositional equilibrium with the altering fluid is achieved. Hydrothermal type 4 magnetite is generally euhedral and lacks exsolution lamellae and porosity, and is interpreted to precipitate directly from the ore-forming fluids. Hydrothermal reequilibration of igneous magnetite has led to progressive chemical purification, during which trace elements such as Ti, Al, Mg, Zn, and Cr contents decrease dramatically (up to 2-3 orders of magnitude different), coupled with significant increase in iron concentrations from less than 64 wt.% to higher than 70 wt.%. Results presented here show that magnetite is much more susceptible to textural and compositional reequilibration than previously thought. The reequilibrated magnetite has geochemical patterns that may be distinctively different from its precursor, making existing discrimination plots questionable when applied to genetic interpretation. Based on textural characterization and high-resolution in situ compositional analyses, we propose that the Fe versus V/Ti diagram can be more confidently used to discriminate between pristine igneous magnetite, reequilibrated magnetite, and hydrothermal magnetite.

Natural Fumarolic Alteration of Fluorapatite, Olivine, and Basaltic Glass, and Implications for Habitable Environments on Mars

PubMed Central

Tschauner, Oliver

2013-01-01

Abstract Fumaroles represent a very important potential habitat on Mars because they contain water and nutrients. Global deposition of volcanic sulfate aerosols may also have been an important soil-forming process affecting large areas of Mars. Here we identify alteration from the Senator fumarole, northwest Nevada, USA, and in low-temperature environments near the fumarole to help interpret fumarolic and acid vapor alteration of rocks and soils on Mars. We analyzed soil samples and fluorapatite, olivine, and basaltic glass placed at and near the fumarole in in situ mineral alteration experiments designed to measure weathering under natural field conditions. Using synchrotron X-ray diffraction, we clearly observe hydroxyl-carbonate-bearing fluorapatite as a fumarolic alteration product of the original material, fluorapatite. The composition of apatites as well as secondary phosphates has been previously used to infer magmatic conditions as well as fumarolic conditions on Mars. To our knowledge, the observations reported here represent the first documented instance of formation of hydroxyl-carbonate-bearing apatite from fluorapatite in a field experiment. Retreat of olivine surfaces, as well as abundant NH4-containing minerals, was also characteristic of fumarolic alteration. In contrast, alteration in the nearby low-temperature environment resulted in formation of large pits on olivine surfaces, which were clearly distinguishable from the fumarolic alteration. Raman signatures of some fumarolically impacted surfaces are consistent with detection of the biological molecules chlorophyll and scytenomin, potentially useful biosignatures. Observations of altered minerals on Mars may therefore help identify the environment of formation and understand the aqueous history and potential habitability of that planet. Key Words: Fumaroles—Mars—Olivine—Acidophile—Geothermal—Search for life (biosignatures)—Synchrotron X-ray diffraction. Astrobiology 13, 1049–1064. PMID:24283927

Laser probe /sup 40/Ar//sup 39/Ar and conventional K/Ar dating of illites associated with the McClean Uranium deposits, N. Saskatchewan, Canada

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

Bray, C.J.; Spooner, E.T.C.; Hall, C.M.

Mineralization at McClean occurs in elongate pods at the unconformity between the Athabasca sandstone sequence and the underlying Archean/Aphebian basement. Laser probe /sup 40/Ar//sup 39/Ar and conventional K/Ar dates were obtained on illites from the following environments (i) alteration halo around high grade U(-Ni-Co) mineralization, (ii) recrystallized sedimentary layers within the sandstone sequence, (iii) interstitial to quartz grains in sandstone, and (iv) regolith. The alteration halo illites gave ages between 1321+/-44 and 1002+/-33 Ma (n=20) which are in good agreement with published U-Pb dates on other U deposits in the area. One sample was analyzed twice, and gave a significantmore » age difference of 20 Ma. Hence the age range is interpreted as being either a reflection of variable argon retentivity or due to continued hydrothermal activity (i.e. U mineralization) or a combination of both. Dates obtained on (ii), (iii) and (iv) were 1438-1038 (n=8), 1459-1113 (n=3) and 1482-1262 (n=6) Ma respectively. The older ages are in good agreement with a published Rb-Sr whole rock age of 1470 Ma on tuffaceous sediments from the Athabasca group. The spread to younger ages is interpreted as due to resetting by the hot (approx. 200/sup 0/C) formation water which transported the U, and variable argon retentivity. Diffusion studies on a single sample of illite from the sedimentary sequence indicate a low blocking temperature of about 140/sup 0/C and imply that there have been very low temperatures in the area for the last 1000 Ma.« less

Amplification volume reduction on DNA database samples using FTA™ Classic Cards.

PubMed

Wong, Hang Yee; Lim, Eng Seng Simon; Tan-Siew, Wai Fun

2012-03-01

The DNA forensic community always strives towards improvements in aspects such as sensitivity, robustness, and efficacy balanced with cost efficiency. Therefore our laboratory decided to study the feasibility of PCR amplification volume reduction using DNA entrapped in FTA™ Classic Card and to bring cost savings to the laboratory. There were a few concerns the laboratory needed to address. First, the kinetics of the amplification reaction could be significantly altered. Second, an increase in sensitivity might affect interpretation due to increased stochastic effects even though they were pristine samples. Third, statics might cause FTA punches to jump out of its allocated well into another thus causing sample-to-sample contamination. Fourth, the size of the punches might be too small for visual inspection. Last, there would be a limit to the extent of volume reduction due to evaporation and the possible need of re-injection of samples for capillary electrophoresis. The laboratory had successfully optimized a reduced amplification volume of 10 μL for FTA samples. Copyright © 2011 Elsevier Ireland Ltd. All rights reserved.

Review at a multidisciplinary tumor board impacts critical management decisions of pediatric patients with cancer.

PubMed

Thenappan, Arun; Halaweish, Ihab; Mody, Rajen J; Smith, Ethan A; Geiger, James D; Ehrlich, Peter F; Jasty Rao, Rama; Hutchinson, Raymond; Yanik, Gregory; Rabah, Raja M; Heider, Amer; Stoll, Tammy; Newman, Erika A

2017-02-01

Optimal cancer care requires a multidisciplinary approach. The purpose of the current study was to evaluate the impact of a multidisciplinary tumor board on the treatment plans of children with solid tumors. The records of 158 consecutive patients discussed at a formal multidisciplinary pediatric tumor board between July 2012 and April 2014 were reviewed. Treatment plans were based on clinical practice guidelines and on current Children's Oncology Group protocols. Alterations in radiologic, pathologic, surgical, and medical interpretations were analyzed to determine the impact on changes in recommendations for clinical management. Overall, 55 of 158 children (35%) had alterations in radiologic, pathologic, medical, or surgical interpretation of clinical data following multidisciplinary discussion. Of these, 64% had changes to the initial recommendation for clinical management. Review of imaging studies resulted in interpretation changes in 30 of 158 patients studied (19%), with 12 clinical management changes. Six of 158 patients (3.9%) had changes in pathologic interpretation, with four patients (2.5%) requiring treatment changes. In eight patients (5%), a change in medical management was recommended, while in 11 patients (7%) there were changes in surgical management that were based solely on discussion and not on interpretation of imaging or pathology. Formal multidisciplinary review led to alterations in interpretation of clinical data in 35% of patients, and the majority led to changes in recommendations for treatment. Comprehensive multidisciplinary tumor board incorporated into the care of children with cancer provides additional perspectives for families and care providers when delineating optimal treatment plans. © 2016 Wiley Periodicals, Inc.

Post-impact alteration of the Manson impact structure

NASA Technical Reports Server (NTRS)

Crossey, L. J.; Mccarville, P.

1993-01-01

Core materials from the Manson impact site (Manson, Iowa) are examined in order to evaluate post-impact alteration processes. Diagenetic interpretation of post-impact events is based on petrologic, mineralogic, and geochemical investigation of core materials including the following: target strata, disturbed and disrupted strata, ejecta, breccias, microbreccias, and impact melt. The diagenetic study utilizes research cores obtained by the continental scientific drilling project (CSDP) at the Manson structure, as well as core and cuttings of related materials. Samples include impactites (breccias, microbreccias, and melt material), crater fill material (sedimentary clast breccias), disturbed and disrupted target rocks, and reference target material (Amoco Eisheid No. 1 materials). The study of multiple cores will permit development of a regional picture of post-impact thermal history. The specific objectives are as follows: (1) provide a detailed description of authigenic and alteration mineralogy from diverse lithologies encountered in research drill cores at the Manson impact structure, and (2) identify and relate significant post-impact mineral alteration to post-impact thermal regime (extent and duration). Results will provide mineralogical and geochemical constraints on models for post-impact processes including the following: infilling of the crater depression; cooling and hydrothermal alteration of melt rocks; and subsequent long-term, low-temperature alteration of target rocks, breccias, and melt rocks. Preliminary petrologic and x-ray diffraction examination of fracture linings and void fillings from research core M1 indicate the presence of quartz, chlorite, mixed-layer clays, gypsum/anhydrite, calcite, and minor pyrite.

SERE: single-parameter quality control and sample comparison for RNA-Seq.

PubMed

Schulze, Stefan K; Kanwar, Rahul; Gölzenleuchter, Meike; Therneau, Terry M; Beutler, Andreas S

2012-10-03

Assessing the reliability of experimental replicates (or global alterations corresponding to different experimental conditions) is a critical step in analyzing RNA-Seq data. Pearson's correlation coefficient r has been widely used in the RNA-Seq field even though its statistical characteristics may be poorly suited to the task. Here we present a single-parameter test procedure for count data, the Simple Error Ratio Estimate (SERE), that can determine whether two RNA-Seq libraries are faithful replicates or globally different. Benchmarking shows that the interpretation of SERE is unambiguous regardless of the total read count or the range of expression differences among bins (exons or genes), a score of 1 indicating faithful replication (i.e., samples are affected only by Poisson variation of individual counts), a score of 0 indicating data duplication, and scores >1 corresponding to true global differences between RNA-Seq libraries. On the contrary the interpretation of Pearson's r is generally ambiguous and highly dependent on sequencing depth and the range of expression levels inherent to the sample (difference between lowest and highest bin count). Cohen's simple Kappa results are also ambiguous and are highly dependent on the choice of bins. For quantifying global sample differences SERE performs similarly to a measure based on the negative binomial distribution yet is simpler to compute. SERE can therefore serve as a straightforward and reliable statistical procedure for the global assessment of pairs or large groups of RNA-Seq datasets by a single statistical parameter.

SERE: Single-parameter quality control and sample comparison for RNA-Seq

PubMed Central

2012-01-01

Background Assessing the reliability of experimental replicates (or global alterations corresponding to different experimental conditions) is a critical step in analyzing RNA-Seq data. Pearson’s correlation coefficient r has been widely used in the RNA-Seq field even though its statistical characteristics may be poorly suited to the task. Results Here we present a single-parameter test procedure for count data, the Simple Error Ratio Estimate (SERE), that can determine whether two RNA-Seq libraries are faithful replicates or globally different. Benchmarking shows that the interpretation of SERE is unambiguous regardless of the total read count or the range of expression differences among bins (exons or genes), a score of 1 indicating faithful replication (i.e., samples are affected only by Poisson variation of individual counts), a score of 0 indicating data duplication, and scores >1 corresponding to true global differences between RNA-Seq libraries. On the contrary the interpretation of Pearson’s r is generally ambiguous and highly dependent on sequencing depth and the range of expression levels inherent to the sample (difference between lowest and highest bin count). Cohen’s simple Kappa results are also ambiguous and are highly dependent on the choice of bins. For quantifying global sample differences SERE performs similarly to a measure based on the negative binomial distribution yet is simpler to compute. Conclusions SERE can therefore serve as a straightforward and reliable statistical procedure for the global assessment of pairs or large groups of RNA-Seq datasets by a single statistical parameter. PMID:23033915

Auto-FPFA: An Automated Microscope for Characterizing Genetically Encoded Biosensors.

PubMed

Nguyen, Tuan A; Puhl, Henry L; Pham, An K; Vogel, Steven S

2018-05-09

Genetically encoded biosensors function by linking structural change in a protein construct, typically tagged with one or more fluorescent proteins, to changes in a biological parameter of interest (such as calcium concentration, pH, phosphorylation-state, etc.). Typically, the structural change triggered by alterations in the bio-parameter is monitored as a change in either fluorescent intensity, or lifetime. Potentially, other photo-physical properties of fluorophores, such as fluorescence anisotropy, molecular brightness, concentration, and lateral and/or rotational diffusion could also be used. Furthermore, while it is likely that multiple photo-physical attributes of a biosensor might be altered as a function of the bio-parameter, standard measurements monitor only a single photo-physical trait. This limits how biosensors are designed, as well as the accuracy and interpretation of biosensor measurements. Here we describe the design and construction of an automated multimodal-microscope. This system can autonomously analyze 96 samples in a micro-titer dish and for each sample simultaneously measure intensity (photon count), fluorescence lifetime, time-resolved anisotropy, molecular brightness, lateral diffusion time, and concentration. We characterize the accuracy and precision of this instrument, and then demonstrate its utility by characterizing three types of genetically encoded calcium sensors as well as a negative control.

Statistical transformation and the interpretation of inpatient glucose control data from the intensive care unit.

PubMed

Saulnier, George E; Castro, Janna C; Cook, Curtiss B

2014-05-01

Glucose control can be problematic in critically ill patients. We evaluated the impact of statistical transformation on interpretation of intensive care unit inpatient glucose control data. Point-of-care blood glucose (POC-BG) data derived from patients in the intensive care unit for 2011 was obtained. Box-Cox transformation of POC-BG measurements was performed, and distribution of data was determined before and after transformation. Different data subsets were used to establish statistical upper and lower control limits. Exponentially weighted moving average (EWMA) control charts constructed from April, October, and November data determined whether out-of-control events could be identified differently in transformed versus nontransformed data. A total of 8679 POC-BG values were analyzed. POC-BG distributions in nontransformed data were skewed but approached normality after transformation. EWMA control charts revealed differences in projected detection of out-of-control events. In April, an out-of-control process resulting in the lower control limit being exceeded was identified at sample 116 in nontransformed data but not in transformed data. October transformed data detected an out-of-control process exceeding the upper control limit at sample 27 that was not detected in nontransformed data. Nontransformed November results remained in control, but transformation identified an out-of-control event less than 10 samples into the observation period. Using statistical methods to assess population-based glucose control in the intensive care unit could alter conclusions about the effectiveness of care processes for managing hyperglycemia. Further study is required to determine whether transformed versus nontransformed data change clinical decisions about the interpretation of care or intervention results. © 2014 Diabetes Technology Society.

Statistical Transformation and the Interpretation of Inpatient Glucose Control Data From the Intensive Care Unit

PubMed Central

Saulnier, George E.; Castro, Janna C.

2014-01-01

Glucose control can be problematic in critically ill patients. We evaluated the impact of statistical transformation on interpretation of intensive care unit inpatient glucose control data. Point-of-care blood glucose (POC-BG) data derived from patients in the intensive care unit for 2011 was obtained. Box–Cox transformation of POC-BG measurements was performed, and distribution of data was determined before and after transformation. Different data subsets were used to establish statistical upper and lower control limits. Exponentially weighted moving average (EWMA) control charts constructed from April, October, and November data determined whether out-of-control events could be identified differently in transformed versus nontransformed data. A total of 8679 POC-BG values were analyzed. POC-BG distributions in nontransformed data were skewed but approached normality after transformation. EWMA control charts revealed differences in projected detection of out-of-control events. In April, an out-of-control process resulting in the lower control limit being exceeded was identified at sample 116 in nontransformed data but not in transformed data. October transformed data detected an out-of-control process exceeding the upper control limit at sample 27 that was not detected in nontransformed data. Nontransformed November results remained in control, but transformation identified an out-of-control event less than 10 samples into the observation period. Using statistical methods to assess population-based glucose control in the intensive care unit could alter conclusions about the effectiveness of care processes for managing hyperglycemia. Further study is required to determine whether transformed versus nontransformed data change clinical decisions about the interpretation of care or intervention results. PMID:24876620

Aeromagnetic and Gravity Maps of the Central Marysvale Volcanic Field, Southwestern Utah

USGS Publications Warehouse

Campbell, David L.; Steven, Thomas A.; Cunningham, Charles G.; Rowley, Peter D.

1999-01-01

Gravity and aeromagnetic features in the Marysvale volcanic field result from the composite effects of many factors, including rock composition, style of magmatic emplacement, type and intensity of rock alteration, and effects of structural evolution. Densities and magnetic properties measured on a suite of rock samples from the Marysvale volcanic field differ in systematic ways. Generally, the measured densities, magnetic susceptibilities, and natural remanent magnetizations all increase with mafic index, but decrease with degree of alteration, and for tuffs, with degree of welding. Koenigsberger Q indices show no such systematic trends. The study area is divided into three geophysical domains. The northern domain is dominated by aeromagnetic lows that probably reflect reversed-polarity volcanic flows. There are no intermediate-sized magnetic highs in the northern domain that might reflect plutons. The northern domain has a decreasing-to-the-south gravity gradient that reflects the Pavant Range homocline. The central domain has gravity lows that reflect altered rocks in calderas and low-density plutons of the Marysvale volcanic field. Its aeromagnetic signatures consist of rounded highs that reflect plutons and birdseye patterns that reflect volcanic flows. In many places the birdseyes are attenuated, indicating that the flows there have been hydrothermally altered. We interpret the central domain to reflect an east-trending locus of plutons in the Marysvale volcanic field. The southern domain has intermediate gravity fields, indicating somewhat denser rocks there than in the central domain, and high-amplitude aeromagnetic birdseyes that reflect unaltered volcanic units. The southern domain contains no magnetic signatures that we interpret to reflect plutons. Basin-and-range tectonism has overprinted additional gravity features on the three domains. A deep gravity low follows the Sevier and Marysvale Valleys, reflecting grabens there. The gravity gradient in the north reflects the southern flank of a structural dome that led to the Pavant Range homocline and whose southern edge lies along the Clear Creek downwarp.

Magmatic geochemistry and relict textures in blueschist-eclogite facies rocks on the island of Syros, Greece

NASA Astrophysics Data System (ADS)

Schumacher, J. C.; Brady, J. B.; Prinkey, D. R.; Walton, A. J.; Able, L. M.; Sinitsin, A. G.; Cheney, J. T.

2004-05-01

The island of Syros is part of the Attic-Cycladic blueschist belt and high-P mineral assemblages indicating peak metamorphic conditions of at least 15-16 kbar and 500 C are common. Two main marble units, which locally contain Mississippian fossils, are partly dolomitic, contain abundant calcite pseudomorphs after aragonite (Dixon, 1969), and are intercalated with the glaucophane (Glau)-schists, retrograde greenschists, and minor quartzites and Mn-cherts. Discrete, fault-bounded packages of blueschist/eclogite-facies mafic rocks with minor serpentinite are also present. The mineral compositions and assemblages in marbles and associated rocks tightly constrain the metamorphic P, T and the fluid compositions and suggest X(H2O) in the range 0.97-0.99. In general, the mafic rocks have a variety of textures and modes, but most are either fine-grained, blueschists with a well-developed fabric (S approx.=L) or coarse-grained (>1 cm), massive omphacite- or Glau-rich rocks. Based on textures, mineralogy and field relations, previous workers (Dixon and Ridley, 1987) have interpreted the mafic rocks as meta-basalt and metagabbros. Evidence of pillow structures, as well as metamorphosed alteration zones which are interpreted as evidence of ocean-floor metamorphism (?) have survived locally. We obtained whole-rock XRF and INAA analyses for fine- and coarse-grained mafic and felsic rocks and some mica-rich samples. Low chemical index of alteration (CIA) for most samples suggest very minor weathering. On a TAS diagram, mafic rocks span the basalt - basaltic andesite - trachy-basalt - basaltic trachy-andesite fields. REE patterns generally fall between 10-100 times chondrite and show flat to moderately LREE-enriched patterns. Coarse-grained rocks have positive Eu anomalies, consistent with their interpretation by other investigators as fractionally crystallized gabbros. Felsic rocks (now epidote-mica-schists) that are associated with the metamorphosed gabbros have negative Eu anomalies, and modeling of the REEs suggests that the felsic rocks represent residual melts during the crystallization of the gabbros. The low CIA-values indicate that the mica-schist precursors lacked significant clay material. The presence of abundant epidote (Zo) is consistent with a feldspar-rich (magmatic) protolith for the mica-schists.

Clarifying Evidence-Based Medicine in Educational and Therapeutic Experiences of Clinical Faculty Members: A Qualitative Study in Iran.

PubMed

Safari, Yahya

2015-03-26

Although evidence-based medicine has been a significant part of recent research efforts to reform the health care system, it requires an assessment of real life community and patient. The present study strives to clarify the concept of evidence-based medicine in educational and therapeutic experiences of clinical faculty members of Kermanshah University of Medical Sciences (2014). It was a qualitative study of phenomenology. The population consists of 12 clinical faculty members of Kermanshah University Medical Sciences. Sampling was carried out using a purposeful method. Sample volume was determined using adequacy of samples' law. Data gathering occurred through semi-structured interviews. Collaizzi pattern was employed for data interpretation concurrent with data gathering. interpreting the data, three main themes were extracted. They include: 1. Unawareness and disuse (unaware of the concept, disuse, referral to colleagues, experiment prescription) 2. Conscious or unconscious use (using journals and scientific websites, aware of the process). 3. Beliefs (belief or disbelief in necessity). It sounds essential to change the behavior of clinical faculty members from passive to active with respect to employing evidence-based medicine as well as to alter negative attitudes into positive ones. In so doing, systematic training program aiming at behavior changing is necessary. Also, providing dissent facilities and infrastructures and removing barriers to the use of EBM can be effective.

Direct measurement of 3D elastic anisotropy on rocks from the Ivrea zone (Southern Alps, NW Italy)

NASA Astrophysics Data System (ADS)

Pros, Z.; Lokajíček, T.; Přikryl, R.; Klíma, K.

2003-07-01

Lower crustal and upper mantle rocks exposed at the earth's surface present direct possibility to measure their physical properties that must be, in other cases, interpreted using indirect methods. The results of these direct measurements can be then used for the corrections of models based on the indirect data. Elastic properties are among the most important parameters studied in geophysics and employed in many fields of earth sciences. In laboratory, dynamic elastic properties are commonly tested in three mutually perpendicular directions. The spatial distribution of P- and S-wave velocities are then computed using textural data, modal composition, density and elastic constants. During such computation, it is virtually impossible to involve all microfabric parameters like different types of microcracking, micropores, mineral alteration or quality of grain boundaries. In this study, complete 3D ultrasonic transmission of spherical samples in 132 independent directions at several levels of confining pressure up to 400 MPa has been employed for study of selected mafic and ultrabasic rocks sampled in and nearby Balmuccia ultrabasic massif (Ivrea zone, Southern Alps, NW Italy). This method revealed large directional variance of maximum P-wave velocity and different symmetries (orthorhombic vs. transversal isotropic) of elastic waves 3D distribution that has not been recorded on these rocks before. Moreover, one dunite sample exhibits P-wave velocity approaching to that of olivine single crystal being interpreted as influence of CPO.

The Multispectral Microscopic Imager: Integrating Microimaging with Spectroscopy for the In-Situ Exploration of the Moon

NASA Technical Reports Server (NTRS)

Nunez, J. I.; Farmer, J. D.; Sellar, R. G.; Allen, Carlton C.

2010-01-01

To maximize the scientific return, future robotic and human missions to the Moon will need to have in-situ capabilities to enable the selection of the highest value samples for returning to Earth, or a lunar base for analysis. In order to accomplish this task efficiently, samples will need to be characterized using a suite of robotic instruments that can provide crucial information about elemental composition, mineralogy, volatiles and ices. Such spatially-correlated data sets, which place mineralogy into a microtextural context, are considered crucial for correct petrogenetic interpretations. . Combining microscopic imaging with visible= nearinfrared reflectance spectroscopy, provides a powerful in-situ approach for obtaining mineralogy within a microtextural context. The approach is non-destructive and requires minimal mechanical sample preparation. This approach provides data sets that are comparable to what geologists routinely acquire in the field, using a hand lens and in the lab using thin section petrography, and provide essential information for interpreting the primary formational processes in rocks and soils as well as the effects of secondary (diagenetic) alteration processes. Such observations lay a foundation for inferring geologic histories and provide "ground truth" for similar instruments on orbiting satellites; they support astronaut EVA activities and provide basic information about the physical properties of soils required for assessing associated health risks, and are basic tools in the exploration for in-situ resources to support human exploration of the Moon.

Untangling Magmatic Processes and Hydrothermal Alteration of in situ Superfast Spreading Ocean Crust at ODP/IODP Site 1256 with Fuzzy c-means Cluster Analysis of Rock Magnetic Properties

NASA Astrophysics Data System (ADS)

Dekkers, M. J.; Heslop, D.; Herrero-Bervera, E.; Acton, G.; Krasa, D.

2014-12-01

Ocean Drilling Program (ODP)/Integrated ODP (IODP) Hole 1256D (6.44.1' N, 91.56.1' W) on the Cocos Plate occurs in 15.2 Ma oceanic crust generated by superfast seafloor spreading. Presently, it is the only drill hole that has sampled all three oceanic crust layers in a tectonically undisturbed setting. Here we interpret down-hole trends in several rock-magnetic parameters with fuzzy c-means cluster analysis, a multivariate statistical technique. The parameters include the magnetization ratio, the coercivity ratio, the coercive force, the low-field susceptibility, and the Curie temperature. By their combined, multivariate, analysis the effects of magmatic and hydrothermal processes can be evaluated. The optimal number of clusters - a key point in the analysis because there is no a priori information on this - was determined through a combination of approaches: by calculation of several cluster validity indices, by testing for coherent cluster distributions on non-linear-map plots, and importantly by testing for stability of the cluster solution from all possible starting points. Here, we consider a solution robust if the cluster allocation is independent of the starting configuration. The five-cluster solution appeared to be robust. Three clusters are distinguished in the extrusive segment of the Hole that express increasing hydrothermal alteration of the lavas. The sheeted dike and gabbro portions are characterized by two clusters, both with higher coercivities than in lava samples. Extensive alteration, however, can obliterate magnetic property differences between lavas, dikes, and gabbros. The imprint of thermochemical alteration on the iron-titanium oxides is only partially related to the porosity of the rocks. All clusters display rock magnetic characteristics in line with a stable NRM. This implies that the entire sampled sequence of ocean crust can contribute to marine magnetic anomalies. Determination of the absolute paleointensity with thermal techniques is not straightforward because of the propensity of oxyexsolution during laboratory heating and/or the presence of intergrowths. The upper part of the extrusive sequence, the granoblastic portion of the dikes, and moderately altered gabbros may contain a comparatively uncontaminated thermoremanent magnetization.

Bioinformatics tools for the analysis of NMR metabolomics studies focused on the identification of clinically relevant biomarkers.

PubMed

Puchades-Carrasco, Leonor; Palomino-Schätzlein, Martina; Pérez-Rambla, Clara; Pineda-Lucena, Antonio

2016-05-01

Metabolomics, a systems biology approach focused on the global study of the metabolome, offers a tremendous potential in the analysis of clinical samples. Among other applications, metabolomics enables mapping of biochemical alterations involved in the pathogenesis of diseases, and offers the opportunity to noninvasively identify diagnostic, prognostic and predictive biomarkers that could translate into early therapeutic interventions. Particularly, metabolomics by Nuclear Magnetic Resonance (NMR) has the ability to simultaneously detect and structurally characterize an abundance of metabolic components, even when their identities are unknown. Analysis of the data generated using this experimental approach requires the application of statistical and bioinformatics tools for the correct interpretation of the results. This review focuses on the different steps involved in the metabolomics characterization of biofluids for clinical applications, ranging from the design of the study to the biological interpretation of the results. Particular emphasis is devoted to the specific procedures required for the processing and interpretation of NMR data with a focus on the identification of clinically relevant biomarkers. © The Author 2015. Published by Oxford University Press. For Permissions, please email: journals.permissions@oup.com.

The Evolution of Darwinism.

ERIC Educational Resources Information Center

Stebbins, G. Ledyard; Ayala, Francisco J.

1985-01-01

Recent developments in molecular biology and new interpretations of the fossil record are gradually altering and adding to Charles Darwin's theory, which has been the standard view of the process of evolution for 40 years. Several of these developments and interpretations are identified and discussed. (JN)

Historical Maps Potential on the Assessment of the Hydromorphological Changes in Large Rivers: Towards Sustainable Rivers Management under Altered Flows

NASA Astrophysics Data System (ADS)

Kuriqi, Alban; Rosário Fernandes, M.; Santos, Artur; Ferreira, M. Teresa

2017-04-01

Hydromorphological patterns changes in large rivers, result from a long history of human interventions. In this study, we evaluate the causes and effects of hydromorphological alterations in the Iberian Minho River using a planform change analysis. We performed a temporal comparison using historical maps (nineteen century) and contemporaneous maps. The studied river was divided in 2.5 km long river stretches in a total of 25 sampling units. The historical maps were initially georeferenced for the WGS84 coordinate system. We used Geographic Information System (GIS) to extract the hydromorphological features and to store and organised the spatial data. The hydromorphological features (sinuosity index, braiding intensity, river corridor and active channel width, lotic and lentic habitats) were mapped by visual interpretation of the historical and the contemporaneous maps on a scale 1:2500 by applying the same methodology. Also, we analysed certain Indicators of Hydrological Alteration (IHA) based on pre- and post-dam daily streamflow data obtained from the Spanish Water Information System (SIA). The results revealed a significant reduction in the active channel width and all sinuosity indexes representing an overall degradation of river conditions. We also noticed a drastic diminution in the number and total area of lentic habitats causing fish habitat shifts. Changes were less evident in upstream sampling units due to diverse Land Use/Land Cover (LULC) changes combine with some geological constraints. These responses were consistent with reductions in mean annual discharge, flood disturbance decrease and minimum flow increase during the summer season. This work allows to understand the evolutionary trajectory of large fluvial system over more than 100 years and to implement concrete measures for sustainable river management. Keywords: historical maps, large rivers, flow alteration, sinuosity index, lotic and lentic habitats, regulated rivers, river restoration.

Thermal Infrared Emission Spectroscopy of Synthetic Allophane and its Potential Formation on Mars

NASA Technical Reports Server (NTRS)

Rampe, E. B.; Kraft, M. D.; Sharp, T. G.; Golden, D. C.; Ming, Douglas W.

2010-01-01

Allophane is a poorly-crystalline, hydrous aluminosilicate with variable Si/Al ratios approx.0.5-1 and a metastable precursor of clay minerals. On Earth, it forms rapidly by aqueous alteration of volcanic glass under neutral to slightly acidic conditions [1]. Based on in situ chemical measurements and the identification of alteration phases [2-4], the Martian surface is interpreted to have been chemically weathered on local to regional scales. Chemical models of altered surfaces detected by the Mars Exploration Rover Spirit in Gusev crater suggest the presence of an allophane-like alteration product [3]. Thermal infrared (TIR) spectroscopy and spectral deconvolution models are primary tools for determining the mineralogy of the Martian surface [5]. Spectral models of data from the Thermal Emission Spectrometer (TES) indicate a global compositional dichotomy, where high latitudes tend to be enriched in a high-silica material [6,7], interpreted as high-silica, K-rich volcanic glass [6,8]. However, later interpretations proposed that the high-silica material may be an alteration product (such as amorphous silica, clay minerals, or allophane) and that high latitude surfaces are chemically weathered [9-11]. A TIR spectral library of pure minerals is available for the public [12], but it does not contain allophane spectra. The identification of allophane on the Martian surface would indicate high water activity at the time of its formation and would help constrain the aqueous alteration environment [13,14]. The addition of allophane to the spectral library is necessary to address the global compositional dichotomy. In this study, we characterize a synthetic allophane by IR spectroscopy, X-ray diffraction (XRD), and transmission electron microscopy (TEM) to create an IR emission spectrum of pure allophane for the Mars science community to use in Martian spectral models.

Alteration and chemical U-Th-total Pb dating of heterogeneous high-uranium zircon from a pegmatite from the Aduiskii massif, middle Urals, Russia

NASA Astrophysics Data System (ADS)

Zamyatin, Dmitry A.; Shchapova, Yuliya V.; Votyakov, Sergey L.; Nasdala, Lutz; Lenz, Christoph

2017-09-01

The U-Th-Pb isotope system in the accessory mineral zircon may be disturbed, as for instance by the secondary loss of radiogenic lead. The recognition of such alteration is crucial for the sound interpretation of geochronology results, in particular for chemical dating by means of an electron probe micro-analyser (EPMA). Here we present the example of high-U zircon samples from a granite pegmatite from the Aduiskii Massif, Middle Urals, Russia. The structural and chemical heterogeneity of samples was characterised by EPMA, including joint probability distribution (JPD) analysis of back-scattered electrons (BSE), cathodoluminescence (CL) and U M β images, and by Raman and photoluminescence (PL) spectroscopy. We found a high-U interior region (U up to 11.4 wt%) without any obvious indication of alteration. This domain has stoichiometric composition, and its Raman spectrum is similar to that of amorphous ZrSiO4. In addition, altered lower-U regions are present that are non-stoichiometric and contain non-formula elements such as Ca, Al, Fe, and water up to several wt%. Their Raman spectra yielded a band near 760-810 cm-1 which is not related to any ZrSiO4 vibration; we assign it tentatively to the symmetric stretching of (UO2)2+ groups. This assignment is supported by the observation of a fairly intense PL phenomenon whose spectral position and vibrational-coupling structure strongly indicates a uranyl-related emission. Altered zones were formed by both fluid-driven diffusion reaction and coupled dissolution-reprecipitation processes. The variation of BSE and CL intensities in amorphous high-U zircon is controlled by its chemical composition and the presence of water and uranyl groups. We have determined a weighted mean EPMA age of 246 ± 2 Ma, which agrees reasonably well with previous dating results for the Aduiskii Massif.

Mineral and Lithology Mapping of Drill Core Pulps Using Visible and Infrared Spectrometry

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

Taylor, G. R., E-mail: G.Taylor@unsw.edu.au

2000-12-15

A novel approach for using field spectrometry for determining both the mineralogy and the lithology of drill core pulps (powders) is developed and evaluated. The methodology is developed using material from a single drillhole through a mineralized sequence of rocks from central New South Wales. Mineral library spectra are used in linear unmixing routines to determine the mineral abundances in drill core pulps that represent between 1 m and 3 m of core. Comparison with X-Ray Diffraction (XRD) analyses shows that for most major constituents, spectrometry provides an estimate of quantitative mineralogy that is as reliable as that provided bymore » XRD. Confusion between the absorption features of calcite and those of chlorite causes the calcite contents determined by spectrometry to be unreliable. Convex geometry is used to recognize the spectra of those samples that are extreme and are representative of unique lithologies. Linear unmixing is used to determine the abundance of these lithologies in each drillhole sample and these abundances are used to interpret the geology of the drillhole. The interpreted geology agrees well with conventional drillhole logs of the visible geology and photographs of the split core. The methods developed provide a quick and cost-effective way of determining the lithology and alteration mineralogy of drill core pulps.« less

Impact-Facilitated Hydrothermal Alteration in the Rim of Endeavour Crater, Mars

NASA Technical Reports Server (NTRS)

Mittlefehldt, D. W.; Schroeder, C.; Farrand, W. H.; Crumpler, L. S.; Yen, A. S.

2017-01-01

Endeavour crater, a Noachian-aged, 22 km diameter impact structure on Meridiani Planum, Mars, has been investigated by the Mars Exploration Rover Opportunuity for over 2000 sols (Mars days). The rocks of the western rim region (oldest to youngest) are: (i) the pre-impact Matijevic fm.; (ii) rim-forming Shoemaker fm. polymict impact breccias; (iii) Grasberg fm., fine-grained sediments draping the lower slopes; and (iv) Burns fm., sulfate-rich sandstones that onlap the Grasberg fm. The rim is segmented and transected by radial fracture zones. Evidence for fluid-mediated alteration includes m-scale detections of phyllosilicates from orbit, and cm-scale variations in rock/soil composition/mineralogy documented by the Opportunity instrument suite. The m-scale phyllosilicate detections include Fe(3+)-Mg and aluminous smectites that occur in patches in the Matijevic and Shoemaker fms. Rock compositions do not reveal substantial differences for smectite-bearing compared to smectite-free rocks. Interpretation: large-scale hydrothermal alteration powered by impact-deposited heat acting on limited water supplies engendered mineralogic transfomations under low water/rock, near-isochemical conditions. The cm-scale alterations, localized in fracture zones, occurred at higher water/rock as evidenced by enhanced Si and Al contents through leaching of more soluble elements, and deposition of Mg, Ni and Mn sulphates and halogen salts in soils. Visible/near infrared reflectance of narrow curvilinear red zones indicate higher nanophase ferric oxide contents and possibly hydration compared to surrounding outcrops. Broad fracture zones on the rim have reflectance features consistent with development of ferric oxide minerals. Interpretation: water fluxing through the fractures in a hydrothermal system resulting from the impact engendered alteration and leaching under high water/rock conditions. Late, localized alteration is documented by Ca-sulfate-rich veins that are not confined to fracture zones; some cross-cut the Grasberg fm. Interpretation: late fluid mobilization of soluble elements, likely in a later alteration event.

The effect of prior hydrothermal alteration on the melting behaviour during rhyolite formation in Yellowstone, and its importance in the generation of low-δ18O magmas

NASA Astrophysics Data System (ADS)

Troch, Juliana; Ellis, Ben S.; Harris, Chris; Ulmer, Peter; Bachmann, Olivier

2018-01-01

Constraining the contribution of crustal lithologies to silicic magmas has important implications for understanding the dynamics of these potentially highly explosive systems. Low-δ18O rhyolite lavas erupted after caldera-forming events in Yellowstone have been interpreted as the products of bulk crustal melting of previously deposited and hydrothermally altered rhyolitic material in the down-dropped caldera roof. For lack of compositional data, the "self-cannibalisation bulk melting"-theory relies on the assumption that hydrothermally altered materials are near-cotectic and hydrous (>3 wt% H2O) and will therefore readily melt at temperatures below 850 °C. In this study, we examine the drillcores Y2, Y9 and Y13 from a USGS drilling campaign in Yellowstone in order to characterise the hydrothermally altered material in terms of major and trace elements, oxygen isotopes and water contents. Rhyolite δ18O values can decrease from "normal" (+5.8 to +6.1‰) on the surface to as low as -5‰ at depths of 100-160 m and probably lower as a function of increasing temperature with depth. While material in the drillcores is variably altered and silicified, oxygen isotope exchange in these samples is not accompanied by systematic changes in major and trace element composition and is independent of uptake of water. More than 75% of the drillcore samples have <0.5 wt% H2O, making water the most limiting factor during melting. Modelled melting curves using rhyolite-MELTS suggest a maximum of 35% melt can be created at 850 °C, and that bulk melting would require extremely high temperatures >1100 °C. Therefore, large-scale bulk melting is unrealistic and low-δ18O rhyolite magmas more likely result from assimilation of <30% partially melted altered crust with low δ18O into a normal-δ18O rhyolite magma from the main reservoir. This mechanism is supported by isotopic mass-balance models as well as thermal and volumetric constraints, and may be similarly applicable to other low-δ18O settings worldwide.

The synovial microenvironment of osteoarthritic joints alters RNA-seq expression profiles of human primary articular chondrocytes

PubMed Central

Lewallen, Eric A.; Bonin, Carolina A.; Li, Xin; Smith, Jay; Karperien, Marcel; Larson, A. Noelle; Lewallen, David G.; Cool, Simon M.; Westendorf, Jennifer J.; Krych, Aaron J.; Leontovich, Alexey A.; Im, Hee-Jeong; van Wijnen, Andre J.

2018-01-01

Osteoarthritis (OA) is a disabling degenerative joint disease that prompts pain with limited treatment options. To permit early diagnosis and treatment of OA, a high resolution mechanistic understanding of human chondrocytes in normal and diseased states is necessary. In this study, we assessed the biological effects of OA-related changes in the synovial microenvironment on chondrocytes embedded within anatomically intact cartilage from joints with different pathological grades by next generation RNA-sequencing (RNA-seq). We determined the transcriptome of primary articular chondrocytes derived from pristine knees and ankles, as well as from joints affected by OA. The GALAXY bioinformatics platform was used to facilitate biological interpretations. Comparisons of patient samples by k-means, hierarchical clustering and principal component analysis reveal that primary chondrocytes exhibit OA grade-related differences in gene expression, including genes involved in cell-adhesion, ECM production and immune response. We conclude that diseased synovial microenvironments in joints with different histopathological OA grades directly alter gene expression in chondrocytes. One ramification of this finding is that sampling anatomically intact cartilage from OA joints is not an ideal source of healthy chondrocytes, nor should they be used to generate a normal baseline for the molecular characterization of diseased joints. PMID:27378743

The landscape of actionable genomic alterations in cell-free circulating tumor DNA from 21,807 advanced cancer patients.

PubMed

Zill, Oliver A; Banks, Kimberly C; Fairclough, Stephen R; Mortimer, Stefanie; Vowles, James V; Mokhtari, Reza; Gandara, David R; Mack, Philip C; Odegaard, Justin I; Nagy, Rebecca J; Baca, Arthur M; Eltoukhy, Helmy; Chudova, Darya I; Lanman, Richard B; Talasaz, AmirAli

2018-05-18

Cell-free DNA (cfDNA) sequencing provides a non-invasive method for obtaining actionable genomic information to guide personalized cancer treatment, but the presence of multiple alterations in circulation related to treatment and tumor heterogeneity complicate the interpretation of the observed variants. Experimental Design: We describe the somatic mutation landscape of 70 cancer genes from cfDNA deep-sequencing analysis of 21,807 patients with treated, late-stage cancers across >50 cancer types. To facilitate interpretation of the genomic complexity of circulating tumor DNA in advanced, treated cancer patients, we developed methods to identify cfDNA copy-number driver alterations and cfDNA clonality. Patterns and prevalence of cfDNA alterations in major driver genes for non-small cell lung, breast, and colorectal cancer largely recapitulated those from tumor tissue sequencing compendia (TCGA and COSMIC; r=0.90-0.99), with the principle differences in alteration prevalence being due to patient treatment. This highly sensitive cfDNA sequencing assay revealed numerous subclonal tumor-derived alterations, expected as a result of clonal evolution, but leading to an apparent departure from mutual exclusivity in treatment-naïve tumors. Upon applying novel cfDNA clonality and copy-number driver identification methods, robust mutual exclusivity was observed among predicted truncal driver cfDNA alterations (FDR=5x10 -7 for EGFR and ERBB2 ), in effect distinguishing tumor-initiating alterations from secondary alterations. Treatment-associated resistance, including both novel alterations and parallel evolution, was common in the cfDNA cohort and was enriched in patients with targetable driver alterations (>18.6% patients). Together these retrospective analyses of a large cfDNA sequencing data set reveal subclonal structures and emerging resistance in advanced solid tumors. Copyright ©2018, American Association for Cancer Research.

X-Ray Computed Tomography: The First Step in Mars Sample Return Processing

NASA Technical Reports Server (NTRS)

Welzenbach, L. C.; Fries, M. D.; Grady, M. M.; Greenwood, R. C.; McCubbin, F. M.; Zeigler, R. A.; Smith, C. L.; Steele, A.

2017-01-01

The Mars 2020 rover mission will collect and cache samples from the martian surface for possible retrieval and subsequent return to Earth. If the samples are returned, that mission would likely present an opportunity to analyze returned Mars samples within a geologic context on Mars. In addition, it may provide definitive information about the existence of past or present life on Mars. Mars sample return presents unique challenges for the collection, containment, transport, curation and processing of samples [1] Foremost in the processing of returned samples are the closely paired considerations of life detection and Planetary Protection. In order to achieve Mars Sample Return (MSR) science goals, reliable analyses will depend on overcoming some challenging signal/noise-related issues where sparse martian organic compounds must be reliably analyzed against the contamination background. While reliable analyses will depend on initial clean acquisition and robust documentation of all aspects of developing and managing the cache [2], there needs to be a reliable sample handling and analysis procedure that accounts for a variety of materials which may or may not contain evidence of past or present martian life. A recent report [3] suggests that a defined set of measurements should be made to effectively inform both science and Planetary Protection, when applied in the context of the two competing null hypotheses: 1) that there is no detectable life in the samples; or 2) that there is martian life in the samples. The defined measurements would include a phased approach that would be accepted by the community to preserve the bulk of the material, but provide unambiguous science data that can be used and interpreted by various disciplines. Fore-most is the concern that the initial steps would ensure the pristine nature of the samples. Preliminary, non-invasive techniques such as computed X-ray tomography (XCT) have been suggested as the first method to interrogate and characterize the cached samples without altering the materials [1,2]. A recent report [4] indicates that XCT may minimally alter samples for some techniques, and work is needed to quantify these effects, maximizing science return from XCT initial analysis while minimizing effects.

Principles of Designing Interpretable Optogenetic Behavior Experiments

ERIC Educational Resources Information Center

Allen, Brian D.; Singer, Annabelle C.; Boyden, Edward S.

2015-01-01

Over the last decade, there has been much excitement about the use of optogenetic tools to test whether specific cells, regions, and projection pathways are necessary or sufficient for initiating, sustaining, or altering behavior. However, the use of such tools can result in side effects that can complicate experimental design or interpretation.…

Clinical Interpretation of Variants in Cancer (CIViC) Knowledgebase | Informatics Technology for Cancer Research (ITCR)

Cancer.gov

CIViC is an open access, open source, community-driven web resource for Clinical Interpretation of Variants in Cancer. Our goal is to enable precision medicine by providing an educational forum for dissemination of knowledge and active discussion of the clinical significance of cancer genome alterations.

Analysis of genomic alterations in neuroblastoma by multiplex ligation-dependent probe amplification and array comparative genomic hybridization: a comparison of results.

PubMed

Combaret, Valérie; Iacono, Isabelle; Bréjon, Stéphanie; Schleiermacher, Gudrun; Pierron, Gäelle; Couturier, Jérôme; Bergeron, Christophe; Blay, Jean-Yves

2012-12-01

In cases of neuroblastoma, recurring genetic alterations--losses of the 1p, 3p, 4p, and 11q and/or gains of 1q, 2p, and 17q chromosome arms--are currently used to define the therapeutic strategy in therapeutic protocols for low- and intermediate-risk patients. Different genome-wide analysis techniques, such as array comparative genomic hybridization (aCGH) or multiplex ligation-dependent probe amplification (MLPA), have been suggested for detecting chromosome segmental abnormalities. In this study, we compared the results of the two technologies in the analyses of the DNA of tumor samples from 91 neuroblastoma patients. Similar results were obtained with the two techniques for 75 samples (82%). In five cases (5.5%), the MLPA results were not interpretable. Discrepancies between the aCGH and MLPA results were observed in 11 cases (12%). Among the discrepancies, a 18q21.2-qter gain and 16p11.2 and 11q14.1-q14.3 losses were detected only by aCGH. The MLPA results showed that the 7p, 7q, and 14q chromosome arms were affected in six cases, while in two cases, 2p and 17q gains were observed; these results were confirmed by neither aCGH nor fluorescence in situ hybridization (FISH) analysis. Because of the higher sensitivity and specificity of genome-wide information, reasonable cost, and shorter time of aCGH analysis, we recommend the aCGH procedure for the analysis of genomic alterations in neuroblastoma. Copyright © 2012 Elsevier Inc. All rights reserved.

Geology and hydrothermal alteration at the Madh adh Dhahab epithermal precious-metal deposit, Kingdom of Saudi Arabia

USGS Publications Warehouse

Doebrich, J.L.; LeAnderson, J.P.

1984-01-01

Vein-related alteration consisting of quartz-sericite-pyrite, chloritic, argillic, and silicic halos was superimposed on broad zones of pervasive silicic, potassic, and argillic alteration that surrounds the rhyolite intrusive body. Quartz-sericite-pyrite alteration associated with the earliest stage of mineralization was followed by broad, pervasive, stratigraphically controlled potassic alteration. Subsequent mineralization was accompanied by quartz-sericitepyrite alteration and was followed by the main stage of mineralization that formed strong chloritic alteration halos. Development of broad zones and halos of argillic alteration also may have been related to the main stage of mineralization. Development of silicic halos was characteristic of the late stages of mineralization. Broad, pervasive propylitic alteration was then superimposed on all alteration types and represents cooling and inward encroachment of the hydrothermal system. All alteration, except the early silicic alteration is interpreted to have been related to circulating meteoric fluids heated by the rhyolite.

A novel sample preparation method to avoid influence of embedding medium during nano-indentation

NASA Astrophysics Data System (ADS)

Meng, Yujie; Wang, Siqun; Cai, Zhiyong; Young, Timothy M.; Du, Guanben; Li, Yanjun

2013-02-01

The effect of the embedding medium on the nano-indentation measurements of lignocellulosic materials was investigated experimentally using nano-indentation. Both the reduced elastic modulus and the hardness of non-embedded cell walls were found to be lower than those of the embedded samples, proving that the embedding medium used for specimen preparation on cellulosic material during nano-indentation can modify cell-wall properties. This leads to structural and chemical changes in the cell-wall constituents, changes that may significantly alter the material properties. Further investigation was carried out to detect the influence of different vacuum times on the cell-wall mechanical properties during the embedding procedure. Interpretation of the statistical analysis revealed no linear relationships between vacuum time and the mechanical properties of cell walls. The quantitative measurements confirm that low-viscosity resin has a rapid penetration rate early in the curing process. Finally, a novel sample preparation method aimed at preventing resin diffusion into lignocellulosic cell walls was developed using a plastic film to wrap the sample before embedding. This method proved to be accessible and straightforward for many kinds of lignocellulosic material, but is especially suitable for small, soft samples.

Does neuroanatomy account for superior temporal dysfunction in early psychosis? A multimodal MRI investigation

PubMed Central

Pettersson-Yeo, William; Benetti, Stefania; Frisciata, Silvia; Catani, Marco; Williams, Steve C.R.; Allen, Paul; McGuire, Philip; Mechelli, Andrea

2015-01-01

Background Neuroimaging studies of ultra-high risk (UHR) and first-episode psychosis (FEP) have revealed widespread alterations in brain structure and function. Recent evidence suggests there is an intrinsic relationship between these 2 types of alterations; however, there is very little research linking these 2 modalities in the early stages of psychosis. Methods To test the hypothesis that functional alteration in UHR and FEP participants would be associated with corresponding structural alteration, we examined brain function and structure in these participants as well as in a group of healthy controls using multimodal MRI. The data were analyzed using statistical parametric mapping. Results We included 24 participants in the FEP group, 18 in the UHR group and 21 in the control group. Patients in the FEP group showed a reduction in functional activation in the left superior temporal gyrus relative to controls, and the UHR group showed intermediate values. The same region showed a corresponding reduction in grey matter volume in the FEP group relative to controls. However, while the difference in grey matter volume remained significant after including functional activation as a covariate of no interest, the reduction in functional activation was no longer evident after including grey matter volume as a covariate of no interest. Limitations Our sample size was relatively small. All participants in the FEP group and 2 in the UHR group had received antipsychotic medication, which may have impacted neurofunction and/or neuroanatomy. Conclusion Our results suggest that superior temporal dysfunction in early psychosis is accounted for by a corresponding alteration in grey matter volume. This finding has important implications for the interpretation of functional alteration in early psychosis. PMID:25338016

Attempt to model laboratory-scale diffusion and retardation data.

PubMed

Hölttä, P; Siitari-Kauppi, M; Hakanen, M; Tukiainen, V

2001-02-01

Different approaches for measuring the interaction between radionuclides and rock matrix are needed to test the compatibility of experimental retardation parameters and transport models used in assessing the safety of the underground repositories for the spent nuclear fuel. In this work, the retardation of sodium, calcium and strontium was studied on mica gneiss, unaltered, moderately altered and strongly altered tonalite using dynamic fracture column method. In-diffusion of calcium into rock cubes was determined to predict retardation in columns. In-diffusion of calcium into moderately and strongly altered tonalite was interpreted using a numerical code FTRANS. The code was able to interprete in-diffusion of weakly sorbing calcium into the saturated porous matrix. Elution curves of calcium for the moderately and strongly altered tonalite fracture columns were explained adequately using FTRANS code and parameters obtained from in-diffusion calculations. In this paper, mass distribution ratio values of sodium, calcium and strontium for intact rock are compared to values, previously obtained for crushed rock from batch and crushed rock column experiments. Kd values obtained from fracture column experiments were one order of magnitude lower than Kd values from batch experiments.

Accomplishing Mars exploration goals by returning a simple "locality" sample

NASA Astrophysics Data System (ADS)

McKay, G.; Draper, D.; Bogard, D.; Agee, C.; Ming, D.; Jones, J.

A major stumbling block to a Mars sample return (MSR) mission is cost. This problem is greatly exacerbated by using elaborate rovers, sophisticated on-board instruments, and complex sample selection techniques to maximize diversity. We argue that many key science goals of the Mars Exploration Program may be accomplished by returning a simple "locality" sample from a well-chosen landing site. Such a sample , collected by a simple scoop, would consist of local regolith containing soil, windblown fines, and lithic fragments (plus Martian atmosphere). Even the simplest sample return mission could revolutionize our understanding of Mars, without the need for expensive rovers or sophisticated on-board instruments. We expect that by the time a MSR mission could be flown, information from the Mars Odyssey, Mars Express, 2003 Mars Exploration Rovers, and 2005 Mars Reconnaissance Orbiter will be sufficient to choose a good landing site. Returned samples of Martian regolith have the potential to answer key questions of fundamental importance to the Mars Exploration Program: The search for life; the role and history of water and other volatiles; interpreting remotely-sensed spectral data; and understanding the planet as a system. A locality sample can further the search for life by identifying trace organics, biogenic elements and their isotopic compositions, evidence for water such as hydrous minerals or cements, the Martian soil oxidant, and trace biomarkers. Learning the nature and timing of atmosphere-soil-rock interactions will improve understanding of the role and history of water. An atmosphere sample will reveal fundamental information about current atmospheric processes. Information about the mineralogy and lithology of sample materials, the extent of impact gardening, and the nature of dust coatings and alteration rinds will provide much-needed ground truth for interpreting remotely-sensed data, including Mars Pathfinder. Basic planetology questions that might be answered include the compositions and ages of the highlands or lowlands, and how wet Mars was, and at what time in its history. By bringing a simple locality sample back for analysis in the world's best labs, using the world's most sophisticated state-of-the-art instruments, we can make break-through progress in addressing fundamental questions about Mars.

Characterization of terrestrial hydrothermal alteration products with Mars analog instrumentation: Implications for current and future rover investigations

NASA Astrophysics Data System (ADS)

Black, Sarah R.; Hynek, Brian M.

2018-06-01

Interpretation of Martian geology relies heavily on our understanding of terrestrial analog deposits and our ability to obtain comprehensive and accurate mineralogical compositions. Many previous studies of terrestrial hydrothermal deposits relied on limited datasets and/or did not use instruments analogous to those deployed on Mars. We analyzed 100 hydrothermally altered basalts from Costa Rica, Nicaragua, and Iceland with Mars analog Visible to Short Wave Infrared (VSWIR) spectroscopy, X-ray Diffraction (XRD), and Raman laser spectrometry. Alteration mineralogy consisted of amorphous and crystalline SiO2 (cristobalite, tridymite, quartz), Ca/Al/Fe/Mg-sulfates (gypsum, anhydrite, alunite, jarosite, hexahydrite, alunogen), Fe-, Ti-, and Mg-oxides/hydroxides (hematite, goethite, anatase/brookite, brucite), elemental sulfur, and phyllosilicates (montmorillonite, kaolinite). Results indicate VSWIR is best suited for identification of X-ray amorphous materials such as hydrated SiO2 and phyllosilicates, while XRD is best utilized for highly ordered crystalline materials such as sulfates, crystalline SiO2 polymorphs, elemental sulfur, and Mg-hydroxides identification. Surprisingly, XRD had the lowest identification rates for Fe-oxides/hydroxides (42% compared to 61% and 75% for VNIR and Raman, respectively), and nearly equal identification rates as VSWIR for kaolinite (76% for VSWIR, 71% for XRD). Identification of phyllosilicates in XRD, while possible, is not as effective as VSWIR without extensive sample preparation. Our observed identification rates may be attributed to the relative abundance of materials-Fe-oxides/hydroxides being present as surface coatings, the presence of large amounts of kaolinite in some samples, and an increased particle size for kaolinite relative to other clays. Elemental sulfur and Fe- and Ti-oxides/hydroxides were more readily identified with Raman. With NASA's current focus on habitability, hydrothermally altered areas-which we know to host a wide range of microbial life here on Earth-are of high interest and it is likely that future rovers will encounter similar mineral assemblages. Therefore, future rovers would benefit from using a combination of these methods and expanding the VSWIR sampling range to the full 300-2500 nm to conduct a comprehensive mineralogical investigation.

Detecting truly clonal alterations from multi-region profiling of tumours

PubMed Central

Werner, Benjamin; Traulsen, Arne; Sottoriva, Andrea; Dingli, David

2017-01-01

Modern cancer therapies aim at targeting tumour-specific alterations, such as mutations or neo-antigens, and maximal treatment efficacy requires that targeted alterations are present in all tumour cells. Currently, treatment decisions are based on one or a few samples per tumour, creating uncertainty on whether alterations found in those samples are actually present in all tumour cells. The probability of classifying clonal versus sub-clonal alterations from multi-region profiling of tumours depends on the earliest phylogenetic branching event during tumour growth. By analysing 181 samples from 10 renal carcinoma and 11 colorectal cancers we demonstrate that the information gain from additional sampling falls onto a simple universal curve. We found that in colorectal cancers, 30% of alterations identified as clonal with one biopsy proved sub-clonal when 8 samples were considered. The probability to overestimate clonal alterations fell below 1% in 7/11 patients with 8 samples per tumour. In renal cell carcinoma, 8 samples reduced the list of clonal alterations by 40% with respect to a single biopsy. The probability to overestimate clonal alterations remained as high as 92% in 7/10 renal cancer patients. Furthermore, treatment was associated with more unbalanced tumour phylogenetic trees, suggesting the need of denser sampling of tumours at relapse. PMID:28344344

Detecting truly clonal alterations from multi-region profiling of tumours

NASA Astrophysics Data System (ADS)

Werner, Benjamin; Traulsen, Arne; Sottoriva, Andrea; Dingli, David

2017-03-01

Modern cancer therapies aim at targeting tumour-specific alterations, such as mutations or neo-antigens, and maximal treatment efficacy requires that targeted alterations are present in all tumour cells. Currently, treatment decisions are based on one or a few samples per tumour, creating uncertainty on whether alterations found in those samples are actually present in all tumour cells. The probability of classifying clonal versus sub-clonal alterations from multi-region profiling of tumours depends on the earliest phylogenetic branching event during tumour growth. By analysing 181 samples from 10 renal carcinoma and 11 colorectal cancers we demonstrate that the information gain from additional sampling falls onto a simple universal curve. We found that in colorectal cancers, 30% of alterations identified as clonal with one biopsy proved sub-clonal when 8 samples were considered. The probability to overestimate clonal alterations fell below 1% in 7/11 patients with 8 samples per tumour. In renal cell carcinoma, 8 samples reduced the list of clonal alterations by 40% with respect to a single biopsy. The probability to overestimate clonal alterations remained as high as 92% in 7/10 renal cancer patients. Furthermore, treatment was associated with more unbalanced tumour phylogenetic trees, suggesting the need of denser sampling of tumours at relapse.

Is Tridymite at Gale Crater Evidence for Silicic Volcanism on Mars?

NASA Technical Reports Server (NTRS)

Morris, Richard V.; Vaniman, David T.; Ming, Douglas W.; Graff, Trevor G.; Downs, Robert T.; Fendrich, Kim; Mertzman, Stanley A.

2016-01-01

The X-ray diffraction (XRD) instrument (CheMin) onboard the MSL rover Curiosity detected 17 wt% of the SiO2 polymorph tridymite (relative to bulk sample) for the Buckskin drill sample (73 wt% SiO2) obtained from sedimentary rock in the Murray formation at Gale Crater, Mars. Other detected crystalline materials are plagioclase, sanidine, cristobalite, cation-deficient magnetite, and anhydrite. XRD amorphous material constitutes approx. 60 wt% of bulk sample, and the position of its broad diffraction peak near approx. 26 deg. 2-theta is consistent with opal-A. Tridymite is a lowpressure, high-temperature mineral (approx. 870 to 1670 deg. C) whose XRD-identified occurrence on the Earth is usually associated with silicic (e.g., rhyolitic) volcanism. High SiO2 deposits have been detected at Gale crater by remote sensing from martian orbit and interpreted as opal-A on the basis H2O and Si-OH spectral features. Proposed opal-A formation pathways include precipitation of silica from lake waters and high-SiO2 residues of acid-sulfate leaching. Tridymite is nominally anhydrous and would not exhibit these spectral features. We have chemically and spectrally analyzed rhyolitic samples from New Mexico and Iwodake volcano (Japan). The glassy (by XRD) NM samples have H2O spectral features similar to opal-A. The Iwodake sample, which has been subjected to high-temperature acid sulfate leaching, also has H2O spectral features similar to opal-A. The Iwodake sample has approx. 98 wt% SiO2 and 1% wt% TiO2 (by XRF), tridymite (>80 wt.% of crystalline material without detectable quartz by XRD), and H2O and Si-OH spectral features. These results open the working hypothesis that the opal-A-like high-SiO2 deposits at Gale crater detected from martian orbit are products of alteration associated with silicic volcanism. The presence or absence of tridymite will depend on lava crystallization temperatures (NM) and post crystallization alteration temperatures (Iwodake).

Conodont color alteration index and upper Paleozoic thermal history of the Amazonas Basin, Brazil

NASA Astrophysics Data System (ADS)

Cardoso, Cassiane Negreiros; Sanz-López, Javier; Blanco-Ferrera, Silvia; Lemos, Valesca Brasil; Scomazzon, Ana Karina

2015-12-01

The conodont color alteration index (CAI) was determined in elements from core samples of the Frasnian Barreirinha Formation (one well) and of the Pennsylvanian-Permian Tapajós Group (twenty three wells and one limestone quarry) in the Amazonas Basin. The thermal history of the basin is analyzed using the CAI value distribution represented in maps and stratigraphic sections through correlation schemes, and in conjunction with previously published data. The pattern of palaeotemperatures for CAI values of 1.5-3 is coincident with organic matter maturation under a sedimentary overburden providing diagenetic conditions in the oil/gas window. Locally, conodonts show metamorphism (CAI value of 6-7) in relation to the intrusion of diabase bodies in beds including high geothermal gradient evaporites. Microtextural alteration on the surface conodonts commonly shows several types of overgrowth microtextures developed in diagenetic conditions. Locally, recrystallization in conodonts with a high CAI value is congruent with contact metamorphism in relation to Mesozoic intrusions. The CAI values of 1.5 or 2 observed close to the surface in several areas of the basin may be interpreted in relation to a high thermal palaeogradient derived from the magmatic episode or/and to the local denudation of the upper part of the Paleozoic succession prior to this thermal event.

Cognitive Emotion Regulation Strategies Associated With the DSM-5 Posttraumatic Stress Disorder Criteria.

PubMed

Kaczkurkin, Antonia N; Zang, Yinyin; Gay, Natalie G; Peterson, Alan L; Yarvis, Jeffrey S; Borah, Elisa V; Dondanville, Katherine A; Hembree, Elizabeth A; Litz, Brett T; Mintz, Jim; Young-McCaughan, Stacey; Foa, Edna B

2017-08-01

Maladaptive cognitive emotion regulation strategies have been proposed to contribute to the maintenance of posttraumatic stress disorder (PTSD). Prior work has focused on the relationship between these strategies and PTSD as a whole, rather than on how they are related to each PTSD symptom cluster. The purpose of the current study was to determine whether cognitive emotion regulation strategies are predictive of certain PTSD symptom clusters under the Diagnostic and Statistical Manual of Mental Disorders 5th ed. (DSM-5; American Psychiatric Association, 2013) criteria (intrusive thoughts, avoidance, negative alterations in cognitions and mood, and hyperarousal). Participants included 365 treatment-seeking, active-duty military personnel with PTSD. The negative alterations in cognitions and mood cluster were associated with dysfunctional cognitions: greater negative cognitions about the self, negative cognitions about the world, and self-blame, as well as catastrophizing (Rc2 = .519). The negative alterations in cognitions and mood cluster did not show a strong relationship with blaming others, possibly due to the complex nature of self- and other-blame in this primarily deployment-related PTSD sample. Finally, the intrusive thoughts cluster was associated with catastrophizing (Rc2 = .211), suggesting an association between frequent intrusive memories and excessively negative interpretation of those memories. Copyright © 2017 International Society for Traumatic Stress Studies.

The Ultramafic Complex of Reinfjord: from the Magnetic Petrology to the Interpretation of the Magnetic Anomalies

NASA Astrophysics Data System (ADS)

Pastore, Zeudia; McEnroe, Suzanne; Church, Nathan; Fichler, Christine; ter Maat, Geertje W.; Fumagalli, Patrizia; Oda, Hirokuni; Larsen, Rune B.

2017-04-01

A 3D model of the geometry of the Reinfjord complex integrating geological and petrophysical data with high resolution aeromagnetic, ground magnetic and gravity data is developed. The Reinfjord ultramafic complex in northern Norway is one of the major ultramafic complexes of the Neoproterozoic Seiland Igneous Province (SIP). This province, now embedded in the Caledonian orogen, was emplaced deep in the crust (30 km of depth) and is believed to represent a section of the deep plumbing system of a large igneous province. The Reinfjord complex consists of three magmatic series formed during multiple recharging events resulting in the formation of a cylindrically zoned complex with a slightly younger dunite core surrounded by wehrlite and lherzolite units. Gabbros and gneiss form the host rock. The ultramafic complex has several distinct magnetic anomalies which do not match the mapped lithological boundaries, but are correlated with changes in magnetic susceptibilities. In particular, the deviating densities and magnetic susceptibilities at the northern side of the complex are interpreted to be due to serpentinization. Detailed studies of magnetic anomalies and magnetic properties of samples can provide a powerful tool for mapping petrological changes. Samples can have wide range of magnetic properties depending on composition, amount of ferromagnetic minerals, grain sizes and microstructures. Later geological processes such as serpentinization can alter this signal. Therefore a micro-scale study of magnetic anomalies at the thin section scale was carried out to understand better the link between the magnetic petrology and the magnetic anomalies. Serpentinization can significantly enhance the magnetic properties and therefore change the nature of the magnetic anomaly. The detailed gravity and magnetic model here presented shows the subsurface structure of the ultramafic complex refining the geological interpretation of the magnetic sources within it, and the local effects of serpentinization.

X-ray tomography as a non-destructive tool for evaluating the preservation of primary isotope signatures and mineralogy of Mesozoic fossils

NASA Astrophysics Data System (ADS)

Santillan, J. D.; Boyce, J. W.; Eagle, R.; Martin, T.; Tuetken, T.; Eiler, J.

2010-12-01

The stable isotope compositions of carbonate and phosphate components in fossil teeth and bone are widely used to infer information on paleoclimate and the physiology of extinct organisms. Recently the potential for measuring the body temperatures of extinct vertebrates from analyses of 13C-18O bond ordering in fossil teeth has been demonstrated (Eagle et al. 2010). The interpretation of these isotopic signatures relies on an assessment of the resistance of fossil bioapatite to alteration, as diffusion within, and partial recrystallization, or replacement of the original bioapatite will lead to measured compositions that represent mixtures between primary and secondary phases and/or otherwise inaccurate apparent temperatures. X-ray computed tomography (CT) allows 3-D density maps of teeth to be made at micron-scale resolution. Such density maps have the potential to record textural evidence for alteration, recrystallization, or replacement of enamel. Because it is non-destructive, CT can be used prior to stable isotope analysis to identify potentially problematic samples without consuming or damaging scientifically significant specimens. As a test, we have applied CT to tooth fragments containing both dentin and enamel from Late Jurassic sauropods and a Late Cretaceous theropod that yielded a range of clumped isotope temperatures from anomalously high ˜60oC to physiologically plausible ≤40oC. This range of temperatures suggests partial, high-temperature modification of some specimens, but possible preservation of primary signals in others. Three-dimensional CT volumes generated using General Electric Phoenix|x-ray CT instruments were compared with visible light and back-scattered electron images of the same samples. The tube-detector combination used for the CT study consisted of a 180 kV nanofocus transmission tube coupled with a 127 micron pixel pitch detector ( ˜3-12μ m voxel edges), allowing us to clearly map out alteration zones in high contrast, while reducing edge effects and beam hardening artifacts. CT images of these teeth show a range of replacement textures. One tooth -- thought to be the least altered -- shows only localized positive density anomalies near fractures, while a second -- thought to be highly altered -- contains high-density replacement mineralization. A third tooth -- one suspected of possible partial alteration -- shows a network of rectilinear density anomalies in the enamel similar to 2-D transmitted light and back-scattered electron images. This may represent recrystallization or replacement of the primary bioapatite. Unlike 2-D imaging techniques, 3-D volumes can be used to quickly and easily make quantitative measurements of the volumes of altered and unaltered materials: For example, in the enamel of sample 3, we observe a ratio of high density to low density material of ˜ 3:2.

Clarifying Evidence-Based Medicine in Educational and Therapeutic Experiences of Clinical Faculty Members: A Qualitative Study in Iran

PubMed Central

Safari, Yahya

2015-01-01

Introduction: Although evidence-based medicine has been a significant part of recent research efforts to reform the health care system, it requires an assessment of real life community and patient. The present study strives to clarify the concept of evidence-based medicine in educational and therapeutic experiences of clinical faculty members of Kermanshah University of Medical Sciences (2014). Materials and Methods: It was a qualitative study of phenomenology. The population consists of 12 clinical faculty members of Kermanshah University Medical Sciences. Sampling was carried out using a purposeful method. Sample volume was determined using adequacy of samples’ law. Data gathering occurred through semi-structured interviews. Collaizzi pattern was employed for data interpretation concurrent with data gathering. Results: interpreting the data, three main themes were extracted. They include: 1. Unawareness and disuse (unaware of the concept, disuse, referral to colleagues, experiment prescription) 2. Conscious or unconscious use (using journals and scientific websites, aware of the process). 3. Beliefs (belief or disbelief in necessity). Conclusion: It sounds essential to change the behavior of clinical faculty members from passive to active with respect to employing evidence-based medicine as well as to alter negative attitudes into positive ones. In so doing, systematic training program aiming at behavior changing is necessary. Also, providing dissent facilities and infrastructures and removing barriers to the use of EBM can be effective. PMID:26153205

Geochemical data for stream-sediment, heavy-mineral-concentrate and rock samples collected from the Fortyseven Creek gold-arsenic-antimony-tungsten prospect, southwestern Alaska

USGS Publications Warehouse

Gray, John E.; Lee, G.K.; O'Leary, R. M.; Theodorakos, P.M.

1999-01-01

In the summer of 1991, we conducted a reconnaissance geochemical survey around the Fortyseven Creek Au-As-Sb-W prospect that is located in the southwestern part of the Sleetmute quadrangle. At that time, this project was a small part of a more comprehensive Alaska Mineral Resource Assessment Program (AMRAP) study of the Sleemute quadrangle. AMRAP studies were conducted by the U.S. Geological Survey (USGS) to fulfill requirements of the Alaska National Interests Lands Conservation Act (Public Law 96-487, 1980) to survey certain federal lands to determine their mineral potential. Although AMRAP is no longer in operation, this study represents a small topical study that was conducted during the Sleetmute quadrangle AMRAP study. The objective of the Fortyseven Creek work was to characterize the geochemistry of samples collected downstream from the Fortyseven Creek prospect, as well as mineralized and altered rock samples collected from the prospect. In this report, we describe the samples collected in 1991, the methods used for the analysis of the samples, and the geochemical data for these samples. The data in this report are also available in digital form on computer diskette in Gray and others (1999). An interpretation of these data appears in Gray and others (1998).

The magnifying glass - A feature space local expansion for visual analysis. [and image enhancement

NASA Technical Reports Server (NTRS)

Juday, R. D.

1981-01-01

The Magnifying Glass Transformation (MGT) technique is proposed, as a multichannel spectral operation yielding visual imagery which is enhanced in a specified spectral vicinity, guided by the statistics of training samples. An application example is that in which the discrimination among spectral neighbors within an interactive display may be increased without altering distant object appearances or overall interpretation. A direct histogram specification technique is applied to the channels within the multispectral image so that a subset of the spectral domain occupies an increased fraction of the domain. The transformation is carried out by obtaining the training information, establishing the condition of the covariance matrix, determining the influenced solid, and initializing the lookup table. Finally, the image is transformed.

Possible Bacteria in Nakhla

NASA Technical Reports Server (NTRS)

McKay, David S., Jr.; Westall, F.; Wentworth, S. W.; Thomas-Keptra, K.

1999-01-01

Mars Agueous Alteration Nakhla contains alteration products in an extensive network of which fill cracks, veins, and void spaces, composed of smectite, although in some cases they are amorphous and gel-like. Strong evidence presented show that these alteration products developed on Mars: some veins are offset by impact faulting of olivine followed by annealing of the olivine, and veins near the fusion crust show partial vesicle development suggesting heating and volatile liberation. The smectite-containing cracks and veins are interpreted as low temperature aqueous alteration on Mars. We have been studying these veins with optical microscopy and high resolution SEM.

Europa's surface radiation environment and considerations for in-situ sampling and biosignature detection

NASA Astrophysics Data System (ADS)

Nordheim, T.; Paranicas, C.; Hand, K. P.

2017-12-01

Jupiter's moon Europa is embedded deep within the Jovian magnetosphere and is thus exposed to bombardment by charged particles, from thermal plasma to more energetic particles at radiation belt energies. In particular, energetic charged particles are capable of affecting the uppermost layer of surface material on Europa, in some cases down to depths of several meters (Johnson et al., 2004; Paranicas et al., 2009, 2002). Examples of radiation-induced surface alteration include sputtering, radiolysis and grain sintering; processes that are capable of significantly altering the physical properties of surface material. Radiolysis of surface ices containing sulfur-bearing contaminants from Io has been invoked as a possible explanation for hydrated sulfuric acid detected on Europa's surface (Carlson et al., 2002, 1999) and radiolytic production of oxidants represents a potential source of energy for life that could reside within Europa's sub-surface ocean (Chyba, 2000; Hand et al., 2007; Johnson et al., 2003; Vance et al., 2016). Accurate knowledge of Europa's surface radiation environment is essential to the interpretation of space and Earth-based observations of Europa's surface and exosphere. Furthermore, future landed missions may seek to sample endogenic material emplaced on Europa's surface to investigate its chemical composition and to search for biosignatures contained within. Such material would likely be sampled from the shallow sub-surface, and thus, it becomes crucial to know to which degree this material is expected to have been radiation processed.Here we will present modeling results of energetic electron and proton bombardment of Europa's surface, including interactions between these particles and surface material. In addition, we will present predictions for biosignature destruction at different geographical locations and burial depths and discuss the implications of these results for surface sampling by future missions to Europa's surface.

Improving efficiency and reliability of environmental DNA analysis for silver carp

USGS Publications Warehouse

Amberg, Jon J.; McCalla, S. Grace; Monroe, Emy; Lance, Richard; Baerwaldt, Kelly; Gaikowski, Mark P.

2015-01-01

Natural resource agencies have established surveillance programs which use environmental DNA (eDNA) for the early detection of bighead carp Hypophthalmichthys nobilis and silver carp Hypophthalmichthys molitrix before they establish populations within the Great Lakes. This molecular monitoring technique must be highly accurate and precise for confident interpretation and also efficient, both in detection threshold and cost. Therefore, we compared two DNA extraction techniques and compared a new quantitative PCR (qPCR) assay with the conventional PCR (cPCR) assay used by monitoring programs. Both the qPCR and cPCR assays were able to amplify the DNA of silver carp present in environmental samples taken from locations where mixed populations of bigheaded carps existed. However, the qPCR assay had substantially fewer PCR positive samples which were subsequently determined not to contain DNA of bigheaded carps than the cPCR assay. Additionally, the qPCR assay was able to amplify the DNA of bigheaded carps even in the presence of inhibitors that blocked amplification with cPCR. Also, the selection of an appropriate DNA extraction method can significantly alter the efficiency of eDNA surveillance programs by lowering detection limits and by decreasing costs associated with sample processing. The results reported herein are presently being incorporated into eDNA surveillance programs to decrease the costs, increase DNA yield and increase the confidence that assays are amplifying the target DNA. These results are critical to enhancing our ability to accurately and confidently interpret the results reported from monitoring programs using eDNA for early detection of invasive species.

Porphyry Cu indicator minerals in till as an exploration tool: Example from the giant pebble porphyry Cu-Au-Mo deposit, Alaska, USA

USGS Publications Warehouse

Kelley, Karen D.; Eppinger, Robert G.; Lang, J.; Smith, Steven M.; Fey, David L.

2011-01-01

Porphyry Cu indicator minerals are mineral species in clastic sediments that indicate the presence of mineralization and hydrothermal alteration associated with porphyry Cu and associated skarn deposits. Porphyry Cu indicator minerals recovered from shallow till samples near the giant Pebble Cu-Au-Mo porphyry deposit in SW Alaska, USA, include apatite, andradite garnet, Mn-epidote, visible gold, jarosite, pyrite, and cinnabar. Sulphide minerals other than pyrite are absent from till, most likely due to the oxidation of the till. The distribution of till samples with abundant apatite and cinnabar suggest sources other than the Pebble deposit. With three exceptions, all till samples up-ice of the Pebble deposit contain 40grains/10kg) are in close proximity to smaller porphyry and skarn occurrences in the region. The distribution of Mn-epidote closely mimics the distribution of garnet in the till samples and further supports the interpretation that these minerals most likely reflect skarns associated with the porphyry deposits. All but two till samples, including those up-ice from the deposit, contain some gold grains. However, tills immediately west and down-ice of Pebble contain more abundant gold grains, and the overall number of grains decreases in the down-ice direction. Furthermore, all samples in the immediate vicinity of Pebble contain more than 65% pristine and modified grains compared to mostly re-shaped grains in distal samples. The pristine gold in till reflects short transport distances and/or liberation of gold during in-situ weathering of transported chalcopyrite grains. Jarosite is also abundant (1-2 500 grains/10kg) in samples adjacent to and up to 7 km down-ice from the deposit. Most jarosite grains are rounded and preliminary Ar/Ar dates suggest the jarosite formed prior to glaciation and it implies that a supergene cap existed over Pebble West. Assuming this interpretation is accurate, it suggests a shallow level of erosion of the Pebble deposit by glacial processes. Overall the results of this study indicate that porphyry Cu indicator minerals in till samples may be useful in the exploration for porphyry deposits in SW Alaska.

Implications of sodium mass balance for interpreting the calcium cycle of a forested ecosystem

Treesearch

Scott W. Bailey; Donald C. Buso; Gene E. Likens

2003-01-01

Disturbance of forest ecosystems, such as that caused by harvesting or acid deposition, is thought to alter the ability of the ecosystem to retain nutrients. Although many watershed studies have suggested depletion of available calcium (Ca) pools, interpretation of ecosystem Ca mass balance has been limited by the difficulty in obtaining mineral weathering flux...

Ground Penetrating Radar Investigation of Sinter Deposits at Old Faithful Geyser and Immediately Adjacent Hydrothermal Features, Yellowstone National Park, Wyoming, USA

NASA Astrophysics Data System (ADS)

Foley, D.; Lynne, B. Y.; Jaworowski, C.; Heasler, H.; Smith, G.; Smith, I.

2015-12-01

Ground Penetrating Radar (GPR) was used to evaluate the characteristics of the shallow subsurface siliceous sinter deposits around Old Faithful Geyser. Zones of fractures, areas of subsurface alteration and pre-eruption hydrologic changes at Old Faithful Geyser and surrounding hydrothermal mounds were observed. Despite being viewed directly by about 3,000,000 people a year, shallow subsurface geologic and hydrologic conditions on and near Old Faithful Geyser are poorly characterized. GPR transects of 5754 ft (1754m) show strong horizontal to sub-horizontal reflections, which are interpreted as 2.5 to 4.5 meters of sinter. Some discontinuities in reflections are interpreted as fractures in the sinter, some of which line up with known hydrothermal features and some of which have little to no surface expression. Zones with moderate and weak amplitude reflections are interpreted as sinter that has been hydrothermally altered. Temporal changes from stronger to weaker reflections are correlated with the eruption cycle of Old Faithful Geyser, and are interpreted as post-eruption draining of shallow fractures, followed by pre-eruption fracture filling with liquid or vapor thermal fluids.

Post‐mortem oxygen isotope exchange within cultured diatom silica

PubMed Central

Sloane, Hilary J.; Rickaby, Rosalind E.M.; Cox, Eileen J.; Leng, Melanie J.

2017-01-01

Rationale Potential post‐mortem alteration to the oxygen isotope composition of biogenic silica is critical to the validity of palaeoclimate reconstructions based on oxygen isotope ratios (δ18O values) from sedimentary silica. We calculate the degree of oxygen isotope alteration within freshly cultured diatom biogenic silica in response to heating and storing in the laboratory. Methods The experiments used freshly cultured diatom silica. Silica samples were either stored in water or dried at temperatures between 20 °C and 80 °C. The mass of affected oxygen and the associated silica‐water isotope fractionation during alteration were calculated by conducting parallel experiments using endmember waters with δ18O values of −6.3 to −5.9 ‰ and −36.3 to −35.0 ‰. Dehydroxylation and subsequent oxygen liberation were achieved by stepwise fluorination with BrF5. The 18O/16O ratios were measured using a ThermoFinnigan MAT 253 isotope ratio mass spectrometer. Results Significant alterations in silica δ18O values were observed, most notably an increase in the δ18O values following drying at 40–80 °C. Storage in water for 7 days between 20 and 80 °C also led to significant alteration in δ18O values. Mass balance calculations suggest that the amount of affected oxygen is positively correlated with temperature. The estimated oxygen isotope fractionation during alteration is an inverse function of temperature, consistent with the extrapolation of models for high‐temperature silica‐water oxygen isotope fractionation. Conclusions Routinely used preparatory methods may impart significant alterations to the δ18O values of biogenic silica, particularly when dealing with modern cultured or field‐collected material. The significance of such processes within natural aquatic environments is uncertain; however, there is potential that similar processes also affect sedimentary diatoms, with implications for the interpretation of biogenic silica‐hosted δ18O palaeoclimate records. PMID:28792631

MEPAG Recommendations for a 2018 Mars Sample Return Caching Lander - Sample Types, Number, and Sizes

NASA Technical Reports Server (NTRS)

Allen, Carlton C.

2011-01-01

The return to Earth of geological and atmospheric samples from the surface of Mars is among the highest priority objectives of planetary science. The MEPAG Mars Sample Return (MSR) End-to-End International Science Analysis Group (MEPAG E2E-iSAG) was chartered to propose scientific objectives and priorities for returned sample science, and to map out the implications of these priorities, including for the proposed joint ESA-NASA 2018 mission that would be tasked with the crucial job of collecting and caching the samples. The E2E-iSAG identified four overarching scientific aims that relate to understanding: (A) the potential for life and its pre-biotic context, (B) the geologic processes that have affected the martian surface, (C) planetary evolution of Mars and its atmosphere, (D) potential for future human exploration. The types of samples deemed most likely to achieve the science objectives are, in priority order: (1A). Subaqueous or hydrothermal sediments (1B). Hydrothermally altered rocks or low temperature fluid-altered rocks (equal priority) (2). Unaltered igneous rocks (3). Regolith, including airfall dust (4). Present-day atmosphere and samples of sedimentary-igneous rocks containing ancient trapped atmosphere Collection of geologically well-characterized sample suites would add considerable value to interpretations of all collected rocks. To achieve this, the total number of rock samples should be about 30-40. In order to evaluate the size of individual samples required to meet the science objectives, the E2E-iSAG reviewed the analytical methods that would likely be applied to the returned samples by preliminary examination teams, for planetary protection (i.e., life detection, biohazard assessment) and, after distribution, by individual investigators. It was concluded that sample size should be sufficient to perform all high-priority analyses in triplicate. In keeping with long-established curatorial practice of extraterrestrial material, at least 40% by mass of each sample should be preserved to support future scientific investigations. Samples of 15-16 grams are considered optimal. The total mass of returned rocks, soils, blanks and standards should be approximately 500 grams. Atmospheric gas samples should be the equivalent of 50 cubic cm at 20 times Mars ambient atmospheric pressure.

Using Reactive Transport Modeling to Understand Formation of the Stimson Sedimentary Unit and Altered Fracture Zones at Gale Crater, Mars

NASA Technical Reports Server (NTRS)

Hausrath, E. M.; Ming, D. W.; Peretyazhko, T.; Rampe, E. B.

2017-01-01

Water flowing through sediments at Gale Crater, Mars created environments that were likely habitable, and sampled basin-wide hydrological systems. However, many questions remain about these environments and the fluids that generated them. Measurements taken by the Mars Science Laboratory Curiosity of multiple fracture zones can help constrain the environments that formed them because they can be compared to nearby associated parent material (Figure 1). For example, measurements of altered fracture zones from the target Greenhorn in the Stimson sandstone can be compared to parent material measured in the nearby Big Sky target, allowing constraints to be placed on the alteration conditions that formed the Greenhorn target from the Big Sky target. Similarly, CheMin measurements of the powdered < 150 micron fraction from the drillhole at Big Sky and sample from the Rocknest eolian deposit indicate that the mineralogies are strikingly similar. The main differences are the presence of olivine in the Rocknest eolian deposit, which is absent in the Big Sky target, and the presence of far more abundant Fe oxides in the Big Sky target. Quantifying the changes between the Big Sky target and the Rocknest eolian deposit can therefore help us understand the diagenetic changes that occurred forming the Stimson sedimentary unit. In order to interpret these aqueous changes, we performed reactive transport modeling of 1) the formation of the Big Sky target from a Rocknest eolian deposit-like parent material, and 2) the formation of the Greenhorn target from the Big Sky target. This work allows us to test the relationships between the targets and the characteristics of the aqueous conditions that formed the Greenhorn target from the Big Sky target, and the Big Sky target from a Rocknest eolian deposit-like parent material.

A synonymous mutation in TCOF1 causes Treacher Collins syndrome due to mis-splicing of a constitutive exon.

PubMed

Macaya, D; Katsanis, S H; Hefferon, T W; Audlin, S; Mendelsohn, N J; Roggenbuck, J; Cutting, G R

2009-08-01

Interpretation of the pathogenicity of sequence alterations in disease-associated genes is challenging. This is especially true for novel alterations that lack obvious functional consequences. We report here on a patient with Treacher Collins syndrome (TCS) found to carry a previously reported mutation, c.122C > T, which predicts p.A41V, and a novel synonymous mutation, c.3612A > C. Pedigree analysis showed that the c.122C > T mutation segregated with normal phenotypes in multiple family members while the c.3612A > C was de novo in the patient. Analysis of TCOF1 RNA in lymphocytes showed a transcript missing exon 22. These results show that TCS in the patient is due to haploinsufficiency of TCOF1 caused by the synonymous de novo c.3612A > C mutation. This study highlights the importance of clinical and pedigree evaluation in the interpretation of known and novel sequence alterations. 2009 Wiley-Liss, Inc.

The importance of proper bioinformatics analysis and clinical interpretation of tumor genomic profiling: a case study of undifferentiated sarcoma and a constitutional pathogenic BRCA2 mutation and an MLH1 variant of uncertain significance.

PubMed

Varga, Elizabeth; Chao, Elizabeth C; Yeager, Nicholas D

2015-09-01

Next-generation sequencing (NGS) technology is increasingly utilized to identify therapeutic targets for patients with malignancy. This technology also has the capability to reveal the presence of constitutional genetic alterations, which may have significant implications for patients and their family members. Here we present the case of a 23 year old Caucasian patient with recurrent undifferentiated sarcoma who had NGS-based tumor analysis using an assay which simultaneously analyzed the entire coding sequence of 236 cancer-related genes (3769 exons) plus 47 introns from 19 genes often rearranged or altered in cancer. Pathogenic alterations were reported in tumor as the predicted protein alterations, BRCA2 "R645fs*15″ and MLH1 "E694*". Because constitutional BRCA2 and MLH1 gene mutations are associated with Hereditary Breast Ovarian Cancer Syndrome (HBOCS) and Lynch syndrome respectively, sequence analysis of DNA isolated from peripheral blood was performed. The presence of the alterations, BRCA2 c.1929delG and MLH1 c.2080G>T, corresponding to the previously reported predicted protein alterations, were confirmed by Sanger sequencing in the constitutional DNA. An additional DNA finding was reported in this analysis, MLH1 c.2081A>C at the neighboring nucleotide. Further evaluation of the family revealed that all alterations were paternally inherited and the two MLH1 substitutions were in cis, more appropriately referred to as MLH1 c.2080_2081delGAinsTC, which is classified as a variant of uncertain significance. This case illustrates important considerations related to appropriate interpretation of NGS tumor results and follow-up of patients with potentially deleterious constitutional alterations.

Jurassic Lake T'oo'dichi': a large alkaline, saline lake, Morrison Formation, eastern Colorado Plateau

USGS Publications Warehouse

Turner, C.E.; Fishman, N.S.

1991-01-01

Recognition of alkaline, saline-lake deposits in the Morrison Formation significantly alters interpretations of depositional environments of this formation, and it also has important implications for paleoclimatic interpretation. Late Jurassic climate was apparently much more arid than had previously been thought. In fact, sedimentologic evidence suggests that the lake basin was typically dry for extended periods and enjoyed only brief wet intervals. This conclusion has important consequences for environmental interpretation of the habitat that was favorable for large herbivorous dinosaurs, which thrived in the Late Jurassic. -from Authors

Petrological and geochemical compositions of beach sands of the Barton and Weaver peninsulas of King George Island, West Antarctica: implications for provenance and deglacial history

NASA Astrophysics Data System (ADS)

Lee, Y. I.; Lim, H. S.; Choi, T.

2017-12-01

We studied the provenance of beach sediments of the Baton and Weaver peninsulas of King George Island, the South Shetland Islands of West Antarctica. The studied beach sand sediments of the both peninsulas are predominantly composed of volcanic-rock fragment, followed by altered grain and plutonic rock fragment in that order. In rock fragments, the volcanic rock fragments are about four times more than the plutonic rock fragments. The median quartz-feldspar-rock fragment (Q-F-R) ratios of the beach sands of the Weaver and Barton peninsulas are Q3.4-F5.5-R99.1 and Q0.5-F2.7-R96.8, respectively. These beach sands may have been originated from basaltic andesite-andesite distributed in the ice-free areas of the Barton and Weaver peninsulas and granodiorite of the Barton Peninsula. According to the geochemistry of the beach sand sediments of the two peninsulas, most of the sand samples are interpreted as originating from intermediate rocks that have experienced little chemical weathering. Taking together the modal composition and geochemical composition of the beach sand samples, the tectonic setting of the source area is interpreted as a magmatic arc setting. This interpretation is consistent with geology of the ice-free areas of the Barton and Weaver peninsulas and the tectonic setting of King George Island. However, the sand samples of the Barton Peninsula southern beach and the Weaver Peninsula beach were not derived from basement rocks currently exposed in the ice-free areas of the corresponding peninsula, but were formerly glaciomarine sediments derived from erosion of ice-covered subglacial basement rocks and transported to the submerged glacier grounding line prior to deglaciation. Sand sediments derived from wave erosion of basement rocks of paleoshoreline might have been mixed with these glaciomarine sediments. King George Island became uplifted due to deglaciation 6,000 years ago. The studied beach sediments might have been reworked after the uplift of the King George Island to the present level. Accordingly, the studied beach sand sediments of the Barton and Weaver peninsulas are interpreted to be a palimpsest deposit comprising a mixture of originally glaciomarine sediments accumulated in the shallow fjord post the Last Glacial Maximum and some detritus supplied to the beaches since deglaciation.

Sperm chromatin alterations in fertile and subfertile bulls.

PubMed

Souza, Elisson Terêncio; Silva, Cláudio Vieira; Travençolo, Bruno Augusto Nassif; Alves, Benner Geraldo; Beletti, Marcelo Emílio

2018-06-01

Alterations in sperm chromatin have been related with subfertility in several mammals. In this study, chromatin alteration types (Base, Basal half, Central axis, Dispersed, and Whole) were assessed by toluidine blue (TB) staining, 6-diamidino-2-fenilindole (DAPI) and anti-protamine 1 antibody (anti-PR1) labeling in sperm samples of fertile and subfertile bulls. Semen samples were obtained from bulls kept in Artificial Insemination Center (fertile bulls) or from bulls subjected to scrotal insulation (subfertile bulls). The percentage of chromatin alterations identified by TB was similar (P > 0.05) in semen samples of fertile and subfertile bulls. In contrast, a greater (P < 0.01) chromatin decondensation and heterogeneity were recorded in semen samples of subfertile bulls. In DAPI and anti-PR1 methods, the subfertile bulls samples had a higher (P < 0.05) percentage of alteration in the base as well as overall chromatin alterations (P < 0.05). Moreover, the chromatin alterations recorded with TB, DAPI, and anti-PR1 were compared in semen samples of fertile and subfertile bulls. In fertile bulls, the overall chromatin alterations were similar (P > 0.05) among the methods In contrast, semen samples of subfertile bulls had a higher (P < 0.05) percentage of overall chromatin alterations when labeled with DAPI. In conclusion, our findings shown that all dye tested had specific sperm stainability and can be feasible to monitor subfertility condition in bulls. Also, different chromatin alteration types in sperm samples of fertile and suberftile bulls were recorded. Copyright © 2018 Society for Biology of Reproduction & the Institute of Animal Reproduction and Food Research of Polish Academy of Sciences in Olsztyn. Published by Elsevier B.V. All rights reserved.

Chemical data and statistical interpretations for rocks and ores from the Ranger uranium mine, Northern Territory, Australia

USGS Publications Warehouse

Nash, J. Thomas; Frishman, David

1983-01-01

Analytical results for 61 elements in 370 samples from the Ranger Mine area are reported. Most of the rocks come from drill core in the Ranger No. 1 and Ranger No. 3 deposits, but 20 samples are from unmineralized drill core more than 1 km from ore. Statistical tests show that the elements Mg, Fe, F, Be, Co, Li, Ni, Pb, Sc, Th, Ti, V, CI, As, Br, Au, Ce, Dy, La Sc, Eu, Tb, Yb, and Tb have positive association with uranium, and Si, Ca, Na, K, Sr, Ba, Ce, and Cs have negative association. For most lithologic subsets Mg, Fe, Li, Cr, Ni, Pb, V, Y, Sm, Sc, Eu, and Yb are significantly enriched in ore-bearing rocks, whereas Ca, Na, K, Sr, Ba, Mn, Ce, and Cs are significantly depleted. These results are consistent with petrographic observations on altered rocks. Lithogeochemistry can aid exploration, but for these rocks requires methods that are expensive and not amenable to routine use.

The Effects of Feeding on Hematological and Plasma Biochemical Profiles in Green (Chelonia mydas) and Kemp's Ridley (Lepidochelys kempii) Sea Turtles

PubMed Central

Anderson, Eric T.; Minter, Larry J.; Clarke, Elsburgh O.; Mroch, Raymond M.; Beasley, Jean F.; Harms, Craig A.

2011-01-01

In mammals, lipemic blood from sampling too soon after an animal feeds can have substantial effects on biochemical values. Plasma biochemical values in reptiles may be affected by species, age, season, and nutritional state. However, fasting status is not routinely considered when sampling reptile blood. In this paper, we evaluated 2-hour postprandial blood collection in two sea turtle species to investigate the effects of feeding on hematological and plasma biochemical values. Feeding had no significant effects on hematological values in either species, nor did it have an effect on plasma biochemistry values in Kemp's ridley sea turtles. In postprandial green turtles, total protein, albumin, ALP, AST, ALT, amylase, and cholesterol increased significantly, and chloride decreased significantly. Although statistically significant changes were observed, the median percent differences between pre- and postprandial values did not exceed 10% for any of these analytes and would not likely alter the clinical interpretation. PMID:21776356

Re-Os Systematics and HSE Distribution in Metal from Ochansk (H4) Chondrite

NASA Technical Reports Server (NTRS)

Smoliar, M. I.; Horan, M. F.; Alexander, C. M. OD.; Walker, R. J.

2003-01-01

Previous studies of the Re-Os systematics of chondrites have documented considerable variation in the Re/Os ratios of whole rock samples. For some whole rock chondrites, Re-Os systematics display large deviations from the primitive isochron that are considerably larger than deviations in other isotope systems. Possible interpretation of these facts is that the Re-Os system in chondrites is particularly sensitive to post-formation alteration processes, thus providing a useful tool to examine such processes. Significant variations that have been detected in highly siderophile element (HSE) patterns for ordinary chondrites support this conclusion. We report Re-Os isotope data for metal separates from the Ochansk H4 chondrite coupled with abundance data for Ru, Pd, Ir, and Pt, determined in the same samples by isotope dilution. We chose this meteorite mainly because it is an observed fall with minimal signs of weathering, and its low metamorphic grade (H4) and shock stage (S3).

The functional spectrum of low-frequency coding variation.

PubMed

Marth, Gabor T; Yu, Fuli; Indap, Amit R; Garimella, Kiran; Gravel, Simon; Leong, Wen Fung; Tyler-Smith, Chris; Bainbridge, Matthew; Blackwell, Tom; Zheng-Bradley, Xiangqun; Chen, Yuan; Challis, Danny; Clarke, Laura; Ball, Edward V; Cibulskis, Kristian; Cooper, David N; Fulton, Bob; Hartl, Chris; Koboldt, Dan; Muzny, Donna; Smith, Richard; Sougnez, Carrie; Stewart, Chip; Ward, Alistair; Yu, Jin; Xue, Yali; Altshuler, David; Bustamante, Carlos D; Clark, Andrew G; Daly, Mark; DePristo, Mark; Flicek, Paul; Gabriel, Stacey; Mardis, Elaine; Palotie, Aarno; Gibbs, Richard

2011-09-14

Rare coding variants constitute an important class of human genetic variation, but are underrepresented in current databases that are based on small population samples. Recent studies show that variants altering amino acid sequence and protein function are enriched at low variant allele frequency, 2 to 5%, but because of insufficient sample size it is not clear if the same trend holds for rare variants below 1% allele frequency. The 1000 Genomes Exon Pilot Project has collected deep-coverage exon-capture data in roughly 1,000 human genes, for nearly 700 samples. Although medical whole-exome projects are currently afoot, this is still the deepest reported sampling of a large number of human genes with next-generation technologies. According to the goals of the 1000 Genomes Project, we created effective informatics pipelines to process and analyze the data, and discovered 12,758 exonic SNPs, 70% of them novel, and 74% below 1% allele frequency in the seven population samples we examined. Our analysis confirms that coding variants below 1% allele frequency show increased population-specificity and are enriched for functional variants. This study represents a large step toward detecting and interpreting low frequency coding variation, clearly lays out technical steps for effective analysis of DNA capture data, and articulates functional and population properties of this important class of genetic variation.

Are fixed grain size ratios useful proxies for loess sedimentation dynamics? Experiences from Remizovka, Kazakhstan

NASA Astrophysics Data System (ADS)

Schulte, Philipp; Sprafke, Tobias; Rodrigues, Leonor; Fitzsimmons, Kathryn E.

2018-04-01

Loess-paleosol sequences (LPS) are sensitive terrestrial archives of past aeolian dynamics and paleoclimatic changes within the Quaternary. Grain size (GS) analysis is commonly used to interpret aeolian dynamics and climate influences on LPS, based on granulometric parameters such as specific GS classes, ratios of GS classes and statistical manipulation of GS data. However, the GS distribution of a loess sample is not solely a function of aeolian dynamics; rather complex polygenetic depositional and post-depositional processes must be taken into account. This study assesses the reliability of fixed GS ratios as proxies for past sedimentation dynamics using the case study of Remizovka in southeast Kazakhstan. Continuous sampling of the upper 8 m of the profile, which shows extremely weak pedogenic alteration and is therefore dominated by primary aeolian activity, indicates that fixed GS ratios do not adequately serve as proxies for loess sedimentation dynamics. We find through the calculation of single value parameters, that "true" variations within sensitive GS classes are masked by relative changes of the more frequent classes. Heatmap signatures provide the visualization of GS variability within LPS without significant data loss within the measured classes of a sample, or across all measured samples. We also examine the effect of two different commonly used laser diffraction devices on GS ratio calculation by duplicate measurements, the Beckman Coulter (LS13320) and a Malvern Mastersizer Hydro (MM2000), as well as the applicability and significance of the so-called "twin peak ratio" previously developed on samples from the same section. The LS13320 provides higher resolution results than the MM2000, nevertheless the GS ratios related to variations in the silt-sized fraction were comparable. However, we could not detect a twin peak within the coarse silt as detected in the original study using the same device. Our GS measurements differ from previous works at Remizovka in several instances, calling into question the interpretation of paleoclimatic implications using GS data alone.

Magnetic susceptibility of the South African Agouron scientific drillcores quantifies iron and sulfur alteration relevant to geochemical oxygenation proxies

NASA Astrophysics Data System (ADS)

Raub, T. D.; Nayak, P. M.; Tikoo, S. M.; Johnson, J. E.; Peek, S.; Fischer, W. W.; Kirschvink, J. L.

2010-12-01

Various geochemical characteristics of sedimentary iron- and sulfur-bearing minerals motivate early- to late-oxygenation hypotheses from South African and Australian scientific drillcores. Most intervals of these drillcores appear to be remagnetized (in some cases multiple times); and ~2.0 Ga magnetic sulfide crystallization is particularly pervasive in carbonaceous siltstones of the ca. 2.7-2.2 Ga Griqualand margin of Kaapvaal craton. Robust interpretation of trace element abundances suggesting “whiffs” to “pervasive” levels of late Archean oxygen depends upon systematics of presumed depositional iron speciation; so multiple iron- and sulfur-mineral-altering events affecting existing drillcore records call straightforward interpretations into question. We report ca. 10,000 magnetic susceptibility measurements and associated detailed rock-magnetic results from all lithologies of Archean basinal and slope facies in drillcores GKP and GKF and relatively younger and shallower facies in Paleoproterozoic drillcores GEC and GTF. Specific carbonaceous siltstone and carbonate intervals are less-altered as revealed by coherent and relatively low magnetic susceptibilities: geochemical and biomarker interpretations based upon data from these intervals should be preferred to those from others. Magnetic susceptibility tracks subtle facies variation in drillcore GTF diamictite and suggests highly-structured Paleoproterozoic glacioeustatic sequence architecture consistent with assignment of Makganyene glaciation and its associated geochemical signature to a ca. 2.2 Ga “Snowball Earth” ice age.

miRNA expression profiling in formalin-fixed paraffin-embedded endometriosis and ovarian cancer samples

PubMed Central

Braicu, Ovidiu-Leonard; Budisan, Liviuta; Buiga, Rares; Jurj, Ancuta; Achimas-Cadariu, Patriciu; Pop, Laura Ancuta; Braicu, Cornelia; Irimie, Alexandru; Berindan-Neagoe, Ioana

2017-01-01

Endometriosis is an inflammatory pathology associated with a negative effect on life quality. Recently, this pathology was connected to ovarian cancer, in particular with endometrioid ovarian cancer. microRNAs (miRNAs) are a class of RNA transcripts ~19–22 nucleotides in length, the altered miRNA pattern being connected to pathological status. miRNAs are highly stable transcripts, and these can be assessed from formalin-fixed paraffin-embedded (FFPE) samples leading to the identification of miRNAs that could be developed as diagnostic and prognostic biomarkers, in particular those involved in malignant transformation. The aim of our study was to evaluate miRNA expression pattern in FFPE samples from endometriosis and ovarian cancer patients using PCR-array technology and also to compare the differential expression pattern in ovarian cancer versus endometriosis. For the PCR-array study, we have used nine macrodissected FFPE samples from endometriosis tissue, eight samples of ovarian cancers and five normal ovarian tissues. Quantitative real-time PCR (qRT-PCR) was used for data validation in a new patient cohort of 17 normal samples, 33 endometriosis samples and 28 ovarian cancer macrodissected FFPE samples. Considering 1.5-fold expression difference as a cut-off level and a P-value <0.05, we have identified four miRNAs being overexpressed in endometrial tissue, while in ovarian cancer 15 were differentially expressed (nine overexpressed and six downregulated). The expression level was confirmed by qRT-PCR for miR-93, miR-141, miR-155, miR-429, miR-200c, miR-205 and miR-492. Using the interpretative program Ingenuity Pathway Analysis revealed several deregulated pathways due to abnormal miRNA expression in endometriosis and ovarian cancer, which in turn is responsible for pathogenesis; this differential expression of miRNAs can be exploited as a therapeutic target. A higher number of altered miRNAs were detected in endometriosis versus ovarian cancer tissue, most of them being linked with epithelial-to-mesenchymal transition. PMID:28894379

Experimentally Shocked and Altered Basalt: Laboratory Analogs for Calibration of Mars Remote Sensing and In Situ Data

NASA Technical Reports Server (NTRS)

Bell, M. S.

2015-01-01

Calciumphosphate (likely chloroapatite) is formed in the alteration experiments and is more abundant in the altered and shocked sample probably due to increased surface area exposed to alteration fluids resulting from shock damage in the form of both brittle and structural deformation to the starting material (Figs 1 & 3). Apatite forms in basic conditions so the closed system alteration experiment must be buffered by the basalt starting material to create a fluid chemistry environment evolving from neutral at the start to alkaline after 21 days at 160 C. Plagioclase feldspar in the unshocked sample (Fig. 2) has undergone a solid-state transformation to maskelynite, a disordered phase that is not manifest in the XRD pattern of the shocked sample (Fig.4). Olivine and ulvospinel that are present in the starting material can be detected by XRD in the shocked and altered sample (Fig. 4). Tungsten from the sample holder used in the shock experiments dominates the XRD pattern of the shocked and altered sample (Fig. 4). Samples were weighed after the alteration experiments to determine mass loss and predict the amount of material available for the planned analyses from the shock experiments. Within the constraints of these experiments, mass loss is negligible. The samples will next be characterized by Moessbauer and Vis-Near IR spectroscopy, the results of which will be compared to the Mars Exploration Rovers and Mars Reconnaissance Orbiter data sets respectively.

Experimentally Shocked and Altered Basalt: Laboratory Analogs for Calibration of Mars Remote Sensing and In Situ Data

NASA Technical Reports Server (NTRS)

Bell, M. S.

2015-01-01

Calcium phosphate (likely chloroapatite) is formed in the alteration experiments and is more abundant in the altered and shocked sample probably due to increased surface area exposed to alteration fluids resulting from shock damage in the form of both brittle and structural deformation to the starting material (Figs 1 & 3). Apatite forms in basic conditions so the closed system alteration experiment must be buffered by the basalt starting material to create a fluid chemistry environment evolving from neutral at the start to alkaline after 21 days at 160 degrees Centigrade. Plagioclase feldspar in the unshocked sample (Fig. 2) has undergone a solid-state transformation to maskelynite, a disordered phase that is not manifest in the X-ray diffraction pattern of the shocked sample (Fig.4). Olivine and ulvospinel that are present in the starting material can be detected by X-ray diffraction in the shocked and altered sample (Fig. 4). Tungsten from the sample holder used in the shock experiments dominates the X-ray diffraction pattern of the shocked and altered sample (Fig. 4). Samples were weighed after the alteration experiments to determine mass loss and predict the amount of material available for the planned analyses from the shock experiments. Within the constraints of these experiments, mass loss is negligible. The samples will next be characterized by Moessbauer and Vis-Near Infrared spectroscopy, the results of which will be compared to the Mars Exploration Rovers and Mars Reconnaissance Orbiter data sets respectively.

Paleointensity in ignimbrites and other volcaniclastic flows

NASA Astrophysics Data System (ADS)

Bowles, J. A.; Gee, J. S.; Jackson, M. J.

2011-12-01

Ash flow tuffs (ignimbrites) are common worldwide, frequently contain fine-grained magnetite hosted in the glassy matrix, and often have high-quality 40Ar/39Ar ages. This makes them attractive candidates for paleointensity studies, potentially allowing for a substantial increase in the number of well-dated paleointensity estimates. However, the timing and nature of remanence acquisition in ignimbrites are not sufficiently understood to allow confident interpretation of paleointensity data from ash flows. The remanence acquisition may be a complex function of mineralogy and thermal history. Emplacement conditions and post-emplacement processes vary considerably between and within tuffs and may potentially affect the ability to recover ancient field intensity information. To better understand the relevant magnetic recording assemblage(s) and remanence acquisition processes we have collected samples from two well-documented historical ignimbrites, the 1980 ash flows at Mt. St. Helens (MSH), Washington, and the 1912 flows from Mt. Katmai in the Valley of Ten Thousand Smokes (VTTS), Alaska. Data from these relatively small, poorly- to non-welded historical flows are compared to the more extensive and more densely welded 0.76 Ma Bishop Tuff. This sample set enables us to better understand the geologic processes that destroy or preserve paleointensity information so that samples from ancient tuffs may be selected with care. Thellier-type paleointensity experiments carried out on pumice blocks sampled from the MSH flows resulted in a paleointensity of 55.8 μT +/- 0.8 (1 standard error). This compares favorably with the actual value of 56.0 μT. Excluded specimens of poor technical quality were dominantly from sites that were either emplaced at low temperature (<350°C) or were subject to post-emplacement hydrothermal alteration. The VTTS experienced much more wide-spread low-temperature hydrothermal activity than did MSH. Pumice-bearing ash matrix samples from this locality are characterized by at least two magnetic phases, one of which appears to carry a chemical remanent magnetization. Paleointensities derived from the second phase give results that vary widely but which may be correlated with degree of hydrothermal alteration or hydration. Preliminary data from the Bishop Tuff suggests that vapor-phase alteration at high (>600°C) temperatures does not corrupt the paleointensity signal, and additional data will be presented which explores this more fully.

Laser-induced breakdown spectroscopy for elemental characterization of calcitic alterations on cave walls.

PubMed

Bassel, Léna; Motto-Ros, Vincent; Trichard, Florian; Pelascini, Frédéric; Ammari, Faten; Chapoulie, Rémy; Ferrier, Catherine; Lacanette, Delphine; Bousquet, Bruno

2017-01-01

Cave walls are affected by different kinds of alterations involving preservative issues in the case of ornate caves, in particular regarding the rock art covering the walls. In this context, coralloids correspond to a facies with popcorn-like aspect belonging to the speleothem family, mostly composed of calcium carbonate. The elemental characterization indicates the presence of elements that might be linked to the diagenesis and the expansion of the alterations as demonstrated by prior analyses on stalagmites. In this study, we report the use of laser-induced breakdown spectroscopy (LIBS) to characterize the elemental composition of one coralloid sample with a portable instrument allowing punctual measurements and a laboratory mapping setup delivering elemental images with spatial resolution at the micrometric scale, being particularly attentive to Mg, Sr, and Si identified as elements of interest. The complementarity of both instruments allows the determination of the internal structure of the coralloid. Although a validation based on a reference technique is necessary, LIBS data reveal that the external layer of the coralloid is composed of laminations correlated to variations of the LIBS signal of Si. In addition, an interstitial layer showing high LIBS signals for Fe, Al, and Si is interpreted to be a detrital clay interface between the external and the internal part of the coralloid. These preliminary results sustain a possible formation scenario of the coralloid by migration of the elements from the bedrock.

Improved Metabolic Health Alters Host Metabolism in Parallel with Changes in Systemic Xeno-Metabolites of Gut Origin

PubMed Central

Fiehn, Oliver; Chandler, Carol J.; Burnett, Dustin J.; Souza, Elaine C.; Casazza, Gretchen A.; Gustafson, Mary B.; Keim, Nancy L.; Newman, John W.; Hunter, Gary R.; Fernandez, Jose R.; Garvey, W. Timothy; Harper, Mary-Ellen; Hoppel, Charles L.; Meissen, John K.; Take, Kohei; Adams, Sean H.

2014-01-01

Novel plasma metabolite patterns reflective of improved metabolic health (insulin sensitivity, fitness, reduced body weight) were identified before and after a 14–17 wk weight loss and exercise intervention in sedentary, obese insulin-resistant women. To control for potential confounding effects of diet- or microbiome-derived molecules on the systemic metabolome, sampling was during a tightly-controlled feeding test week paradigm. Pairwise and multivariate analysis revealed intervention- and insulin-sensitivity associated: (1) Changes in plasma xeno-metabolites (“non-self” metabolites of dietary or gut microbial origin) following an oral glucose tolerance test (e.g. higher post-OGTT propane-1,2,3-tricarboxylate [tricarballylic acid]) or in the overnight-fasted state (e.g., lower γ-tocopherol); (2) Increased indices of saturated very long chain fatty acid elongation capacity; (3) Increased post-OGTT α-ketoglutaric acid (α-KG), fasting α-KG inversely correlated with Matsuda index, and altered patterns of malate, pyruvate and glutamine hypothesized to stem from improved mitochondrial efficiency and more robust oxidation of glucose. The results support a working model in which improved metabolic health modifies host metabolism in parallel with altering systemic exposure to xeno-metabolites. This highlights that interpretations regarding the origins of peripheral blood or urinary “signatures” of insulin resistance and metabolic health must consider the potentially important contribution of gut-derived metabolites toward the host's metabolome. PMID:24416208

A field method for making a quantitative estimate of altered tuff in sandstone

USGS Publications Warehouse

Cadigan, R.A.

1954-01-01

The use of benzidine to identify altered tuff in sandstone is practical for field or field laboratory studies associated with stratigraphic correlations, mineral deposit investigations, or paleogeographic interpretations. The method is based on the ability of saturated benzidine (C12H12N2) solution to produce a blue stain on montmorillonite-bearing tuff grains. The method is substantiated by the results of microscopic, X-ray spectrometer, and spectrographic tests which lead to the conclusion that: (1) the benzidine stain test differentiates grains of different composition, (2) the white or gray grains which are stained a uniform blue color are fragments of altered tuff, and (3) white or gray grains which stain in a few small spots are probably silicified tuff. The amount of sand grains taken from a hand specimen or an outcrop which will be held by a penny is spread out on a nonabsorbent white surface and soaked with benzidine for 5 minutes. The approximate number blue grains and the average grain size are used in a chart to determine a reference number which measures relative order of abundance. The chart, based on a volume relationship, corrects for the variation in the number of grains in the sample as the grain size varies. Practical use of the method depends on a knowledge of several precautionary measures as well as an understanding of the limitations of benzidine staining tests.

Stress-induced release of GUT peptides in young women classified as restrained or unrestrained eaters.

PubMed

Hilterscheid, Esther; Laessle, Reinhold

2015-12-01

Basal release of GUT peptides has been found to be altered in restrained eaters. Stress-induced secretion, however, has not yet been described, but could be a biological basis of overeating that exposes restrained eaters to a higher risk of becoming obese. The aim of the present study was to compare restrained and unrestrained eaters with respect to stress-induced release of the GUT peptides ghrelin and PYY. 46 young women were studied. Blood sampling for peptides was done before and after the Trier Social Stress Test. Ghrelin secretion after stress was significantly elevated in the restrained eaters, whereas no significant differences were detected for PYY. Stress-induced release of GUT peptides can be interpreted as a cause as well as a consequence of restrained eating.

Modern Subsurface Bacteria in Pristine 2.7 Ga-Old Fossil Stromatolite Drillcore Samples from the Fortescue Group, Western Australia

PubMed Central

Gérard, Emmanuelle; Moreira, David; Philippot, Pascal; Van Kranendonk, Martin J.; López-García, Purificación

2009-01-01

Background Several abiotic processes leading to the formation of life-like signatures or later contamination with actual biogenic traces can blur the interpretation of the earliest fossil record. In recent years, a large body of evidence showing the occurrence of diverse and active microbial communities in the terrestrial subsurface has accumulated. Considering the time elapsed since Archaean sedimentation, the contribution of subsurface microbial communities postdating the rock formation to the fossil biomarker pool and other biogenic remains in Archaean rocks may be far from negligible. Methodology/Principal Findings In order to evaluate the degree of potential contamination of Archean rocks by modern microorganisms, we looked for the presence of living indigenous bacteria in fresh diamond drillcores through 2,724 Myr-old stromatolites (Tumbiana Formation, Fortescue Group, Western Australia) using molecular methods based on the amplification of small subunit ribosomal RNA genes (SSU rDNAs). We analyzed drillcore samples from 4.3 m and 66.2 m depth, showing signs of meteoritic alteration, and also from deeper “fresh” samples showing no apparent evidence for late stage alteration (68 m, 78.8 m, and 99.3 m). We also analyzed control samples from drilling and sawing fluids and a series of laboratory controls to establish a list of potential contaminants introduced during sample manipulation and PCR experiments. We identified in this way the presence of indigenous bacteria belonging to Firmicutes, Actinobacteria, and Alpha-, Beta-, and Gammaproteobacteria in aseptically-sawed inner parts of drillcores down to at least 78.8 m depth. Conclusions/Significance The presence of modern bacterial communities in subsurface fossil stromatolite layers opens the possibility that a continuous microbial colonization had existed in the past and contributed to the accumulation of biogenic traces over geological timescales. This finding casts shadow on bulk analyses of early life remains and makes claims for morphological, chemical, isotopic, and biomarker traces syngenetic with the rock unreliable in the absence of detailed contextual analyses at microscale. PMID:19396360

Sequential extraction techniques applied to a porphyry copper deposit in the basin and range province

USGS Publications Warehouse

Filipek, L.H.; Theobald, P.K.

1981-01-01

Samples of minus-80-mesh (<180 ??m) stream sediment, rock containing exposed fracture coatings, and jarosite and chrysocolla were collected from an area surrounding the North Silver Bell porphyry Cu deposit near Tucson, Arizona. The samples were subjected to a series of extractions in a scheme originally designed for use on samples from humid or sub-humid environments, in which the following fractions can effectively be separated: (1) carbonates and exchangeable metals; (2) Mn oxides; (3) organic compounds and sulfides; (4) hydrous Fe oxides; and (5) residual crystalline minerals. Jarosite and chrysocolla, two major minerals of the North Silver Bell area, were found to dissolve over two or more steps of the extraction scheme. The results represent only a limited number of samples from one copper deposit. Nevertheless, they do suggest that in a semiarid to arid environment, where mechanical dispersion of such minerals predominates, uncritical assignment of unique phases, such as Mn oxides or organics to a given extraction would lead to false interpretations of weathering processes. However, the relative proportions of elements dissolved in each step of the jarosite and chrysocolla extractions could be used as a "fingerprint" for recognition of the presence of these two minerals in the stream-sediment and rock samples. The relative abundance of hydrous Fe oxide and jarosite and the alteration zoning could be mapped using data from jarosite and chrysocolla extractions. Manganese oxides were also found to have a greater influence on Zn than on Cu or Pb during supergene alteration. The rapid change in relative importance of the first (1M-acetic acid) extraction for Cu, Zn, and Pb near the mineralized zone suggested the occurrence of minor hydromorphic processes within the stream sediments. Thus, the acetic acid extraction proved the most effective for pinpointing mineralization in sediments. In contrast, the residual fraction had the longest dispersion train, suggesting that total metal concentrations are most effective in arid environments for reconnaissance surveys. ?? 1981.

Measuring vascular reactivity with breath-holds after stroke: a method to aid interpretation of group-level BOLD signal changes in longitudinal fMRI studies.

PubMed

Geranmayeh, Fatemeh; Wise, Richard J S; Leech, Robert; Murphy, Kevin

2015-05-01

Blood oxygenation level-dependent (BOLD) contrast functional magnetic resonance imaging (fMRI) is a widely used technique to map brain function, and to monitor its recovery after stroke. Since stroke has a vascular etiology, the neurovascular coupling between cerebral blood flow and neural activity may be altered, resulting in uncertainties when interpreting longitudinal BOLD signal changes. The purpose of this study was to demonstrate the feasibility of using a recently validated breath-hold task in patients with stroke, both to assess group level changes in cerebrovascular reactivity (CVR) and to determine if alterations in regional CVR over time will adversely affect interpretation of task-related BOLD signal changes. Three methods of analyzing the breath-hold data were evaluated. The CVR measures were compared over healthy tissue, infarcted tissue and the peri-infarct tissue, both sub-acutely (∼2 weeks) and chronically (∼4 months). In this cohort, a lack of CVR differences in healthy tissue between the patients and controls indicates that any group level BOLD signal change observed in these regions over time is unlikely to be related to vascular alterations. CVR was reduced in the peri-infarct tissue but remained unchanged over time. Therefore, although a lack of activation in this region compared with the controls may be confounded by a reduced CVR, longitudinal group-level BOLD changes may be more confidently attributed to neural activity changes in this cohort. By including this breath-hold-based CVR assessment protocol in future studies of stroke recovery, researchers can be more assured that longitudinal changes in BOLD signal reflect true alterations in neural activity. © 2015 The Authors Human Brain Mapping Published by Wiley Periodicals, Inc.

Tumoural specimens for forensic purposes: comparison of genetic alterations in frozen and formalin-fixed paraffin-embedded tissues.

PubMed

Ananian, Viviana; Tozzo, Pamela; Ponzano, Elena; Nitti, Donato; Rodriguez, Daniele; Caenazzo, Luciana

2011-05-01

In certain circumstances, tumour tissue specimens are the only DNA resource available for forensic DNA analysis. However, cancer tissues can show microsatellite instability and loss of heterozygosity which, if concerning the short tandem repeats (STRs) used in the forensic field, can cause misinterpretation of the results. Moreover, though formalin-fixed paraffin-embedded tissues (FFPET) represent a large resource for these analyses, the quality of the DNA obtained from this kind of specimen can be an important limit. In this study, we evaluated the use of tumoural tissue as biological material for the determination of genetic profiles in the forensic field, highlighting which STR polymorphisms are more susceptible to tumour genetic alterations and which of the analysed tumours show a higher genetic variability. The analyses were conducted on samples of the same tissues conserved in different storage conditions, to compare genetic profiles obtained by frozen tissues and formalin-fixed paraffin-embedded tissues. The importance of this study is due to the large number of specimens analysed (122), the large number of polymorphisms analysed for each specimen (39), and the possibility to compare, many years after storage, the same tissue frozen and formalin-fixed paraffin-embedded. In the comparison between the genetic profiles of frozen tumour tissues and FFPET, the same genetic alterations have been reported in both kinds of specimens. However, FFPET showed new alterations. We conclude that the use of FFPET requires greater attention than frozen tissues in the results interpretation and great care in both pre-extraction and extraction processes.

Quantification of diagenetic overprint processes deduced from fossil carbonate shells and laboratory-based hydrothermal alteration experiments

NASA Astrophysics Data System (ADS)

Griesshaber, Erika; Casella, Laura; Mavromatis, Vasileios; Dietzel, Martin; Immenhauser, Adrian; Schmahl, Wolfgang

2016-04-01

Benthic and nektonic marine biogenic carbonate archives represent the foundation of numerous studies aiming at reconstructions of past climate dynamics and environmental change. However, living organisms are not in thermodynamic equilibrium and create local chemical environments where physiologic processes such as biomineralization takes place. After the death of the organism the former physiologic disequilibrium conditions are not sustained any more and all biological tissues are altered by equilibration according to the surrounding environment: diagenesis. With increasing diagenetic alteration, the biogenic structure and fingerprint fades away and is replaced by inorganic features. Thus, recrystallization of organism-specific microstructure is a clear indicator for diagenetic overprint. Microstructural data, which mirror recrystallization, are of great value for interpreting geochemical proxies for paleo-environment reconstruction. Despite more than a century of research dealing with carbonate diagenesis, many of the controlling processes and factors are only understood in a qualitative manner. One of the main issues is that diagenetically altered carbonates are usually present as the product of a complex preceding diagenetic pathway with an unknown number of intermediate steps. In this contribution we present and discuss laboratory based alteration experiments with the aim to investigate time-series data sets in a controlled manner. We conducted hydrothermal alteration experiments with modern Arctica islandica (bivalvia) and Notosaria nigricans (brachiopoda) in order to mimic diagenetic overprint. We explore first the potential of electron backscattered diffraction (EBSD) measurements together with statistical data evaluation as a tool to quantify diagenetic alteration of carbonate skeletons. Subsequently, we compare microstructural patterns obtained from experimentally altered shell material with those of fossil specimens that have undergone variable degrees of diagenetic overprint. We intend to come up with a process-oriented understanding of alteration parameters and products as the change in microstructure, texture and mineral phase needs a careful action when it comes to the interpretation of paleoclimate reconstruction data.

Reflectance Spectra of Titan Tholins at Cryogenic Temperatures and Implications for Compositional Interpretation of Red Objects in the Outer Solar System

NASA Technical Reports Server (NTRS)

Roush, T. L.; Dalton, J. B.

2002-01-01

We report the visual and near-infrared (0.4-2.5 micron) laboratory bi-directional reflectance of Titan tholin at cryogenic temperatures (approx. 100-300 K). When compared with room temperature measurements, the visual and near-infrared color of Titan tholin becomes slightly redder by approx. 5% at low temperatures in the 0.4-1.3 micron region. We estimate the influence of these colr changes on the interpretation of the Centaur Pholus and find that the modest color changes will not significantly alter existing interpretations.

Establishing Interpretive Consistency When Mixing Approaches: Role of Sampling Designs in Evaluations

ERIC Educational Resources Information Center

Collins, Kathleen M. T.; Onwuegbuzie, Anthony J.

2013-01-01

The goal of this chapter is to recommend quality criteria to guide evaluators' selections of sampling designs when mixing approaches. First, we contextualize our discussion of quality criteria and sampling designs by discussing the concept of interpretive consistency and how it impacts sampling decisions. Embedded in this discussion are…

Prevalence of Mixed-Methods Sampling Designs in Social Science Research

ERIC Educational Resources Information Center

Collins, Kathleen M. T.

2006-01-01

The purpose of this mixed-methods study was to document the prevalence of sampling designs utilised in mixed-methods research and to examine the interpretive consistency between interpretations made in mixed-methods studies and the sampling design used. Classification of studies was based on a two-dimensional mixed-methods sampling model. This…

Experimental Approaches to Understanding Surficial Processes on Mars: The Stony Brook Experience 2000-2016

NASA Astrophysics Data System (ADS)

McLennan, S. M.; Dehouck, E.; Hurowitz, J.; Lindsley, D. H.; Schoonen, M. A.; Tosca, N. J.; Zhao, Y. Y. S.

2016-12-01

Starting with Pathfinder and Global Surveyor, recent missions to Mars have provided great opportunity for low-temperature experimental geochemistry investigations of the Martian sedimentary record by providing geochemical and mineralogical data that can be used as meaningful tests for experiments. These missions have documented a long-lived, complex and dynamic sedimentary rock cycle, including "source-to-sink" sedimentary systems and global paleoenvironmental transitions through time. We designed and constructed an experimental facility, beginning in 2000, specifically to evaluate surficial processes on Mars. Our experimental philosophy has been to (1) keep apparatus simple and flexible, and if feasible maintain sample access during experiments; (2) use starting materials (minerals, rocks) close to known Mars compositions (often requiring synthesis); (3) address sedimentary processes supported by geological investigations at Mars; (4) begin with experiments at standard conditions so they are best supported by thermodynamics; (5) support experiments with thermodynamic-kinetic-mass balance modeling in both design and interpretation, and by high quality chemical, mineralogical and textural lab analyses; (6) interpret results in the context of measurements made at Mars. Although eliciting much comment in proposal and manuscript reviews, we have not attempted to slavishly maintain "Mars conditions", doing so only to the degree required by variables being tested in any given experiments. Among the problems we have addressed are (1) Amazonian alteration of rock surfaces; (2) Noachian-Hesperian chemical weathering; (3) epithermal alteration of `evolved' igneous rocks; (4) mineral surface chemical reactivity from aeolian abrasion; (5) evaporation of mafic brines; (6) early diagenesis of sedimentary iron mineralogy; (7) trace element and halogen behavior during chemical weathering and diagenesis; (8) photochemical influences on halogen distribution and speciation; (9) post-depositional stability of sedimentary amorphous materials.

ERTS data user investigation to develop a multistage forest sampling inventory system

NASA Technical Reports Server (NTRS)

Langley, P. G.; Vanroessel, J. W. (Principal Investigator); Wert, S. L.

1973-01-01

The author has identified the following significant results. A system to provide precision annotation of predetermined forest inventory sampling units on the ERTS-1 MSS images was developed. In addition, an annotation system for high altitude U2 photographs was completed. MSS bulk image accuracy is good enough to allow the use of one square mile sampling units. IMANCO image analyzer interpretation work for small scale images demonstrated the need for much additional analyses. Continuing image interpretation work for the next reporting period is concentrated on manual image interpretation work as well as digital interpretation system development using the computer compatible tapes.

TREHS (Temporary Rivers Ecological and Hydrological Status): new software for investigating the degree of hydrologic alteration of temporary streams.

NASA Astrophysics Data System (ADS)

Gallart, Francesc; Llorens, Pilar; Cid, Núria; latron, Jérôme; Bonada, Núria; Prat, Narcís

2017-04-01

The evaluation of the hydrological alteration of a stream due to human activities is a first step to assess its overall quality and to design management strategies for its potential restoration. This task is currently made comparing impacted against unimpacted hydrographs, with the help of software tools, such as the IHA (Indicators of Hydrologic Alteration). Then, the environmental evaluation of the hydrological alteration is to be made in terms of its expectable menace for the original biological communities and/or its help for the spread of invasive species. However, when the regime of the target stream is not perennial, there are four main difficulties for implementing methods for assessing hydrological alteration: i) the main hydrological features relevant for biological communities in a temporary stream are not quantitative (discharges) but qualitative (temporal patterns of states such as flowing water, stagnant pools or lack of surface water), ii) stream flow records do not inform on the temporal occurrence of stagnant pools, which act as refugees for many species during the cessation of flow, iii) as most of the temporary streams are ungauged, the evaluation of their regime must be determined by using alternative methods such as remote sensing or citizen science, and iv) the biological quality assessment of the ecological status of a temporary stream must be conducted following a sampling schedule adapted to the flow regime and using adequate reference conditions. In order to overcome these challenges using an operational approach, the TREHS freely available software tool has been developed within the EU LIFE TRIVERS project (LIFE13 ENV/ES/000341). This software allows for the input of information coming from flow simulations obtained using any rainfall-runoff model (to set an unimpacted reference stream regime) and compares them with the information obtained from flow gauging records, interviews made to local citizens, instantaneous observations made by individuals, and by interpretation of aerial photographs. Up to six metrics defining the permanence of water flow, the presence of stagnant pools and their temporal patterns of occurrence are used to determine the natural and observed river regime, and to assess the degree of hydrological alteration. Here, given the lack of agreed standards to evaluate the ecological relevance of the observed alterations, the thresholds that define quality class boundaries are provisional and may be updated using expert knowledge. Finally, the software characterizes the differences between the natural and actual regimes, performs a diagnosis of the hydrological status (degree of hydrologic alteration) along with an assessment of the significance and robustness of the diagnosis, and recommends the best period for biological quality samplings.

Reconciling deep seismic refraction and reflection data from the grenvillian-appalachian boundary in western New England

USGS Publications Warehouse

Hughes, S.; Luetgert, J.H.; Christensen, N.I.

1993-01-01

The Grenvillian-Appalachian boundary is characterized by pervasive mylonitic deformation and retrograde alteration of a suite of imbricated allochthonous and parautochthonous gneisses that were thrust upon the Grenvillian continental margin during the lower Paleozoic. Seismic reflection profiling across this structural boundary zone reveals prominent dipping reflectors interpreted as overthrust basement slices (parautochthons) of the Green Mountain Anticlinorium. In contrast, a seismic refraction study of the Grenvillian-Appalachian boundary reveals a sub-horizontally layered seismic velocity model that is difficult to reconcile with the pronounced sub-vertical structures observed in the Green mountains. A suite of rock samples was collected from the Green Mountain Anticlinorium and measured at high pressures in the laboratory to determine the seismic properties of these allochthonous and parautochthonous gneisses. The laboratory-measured seismic velocities agree favorably with the modelled velocity structure across the Grenvillian-Appalachian boundary suggesting that the rock samples are reliable indicators of the rock mass as whole. Samples of the parautochthonous Grenvillian basement exposed in the Green Mountains have lower velocities, by about 0.5 km/s, than lithologically equivalent units exposed in the eastern Adirondack Highlands. Velocity reduction in the Green Mountain parautochthons can be accounted for by retrograde metamorphic alteration (hydration) of the paragneisses. Seismic anisotropies, ranging from 2 to 12%, in the mylonitized Green Mountain paragneisses may also contribute to the observation of lower seismic velocities, where the direction of ray propagation is normal to the foliation. The velocity properties of the Green Mountain paragneisses are thus insufficiently different from the mantling Appalachian allochthons to permit their resolution by the Ontario-New York-New England seismic refraction profile. ?? 1993.

Martian regolith geochemistry and sampling techniques

NASA Technical Reports Server (NTRS)

Clark, B. C.

1988-01-01

Laboratory study of samples of the intermediate and fine-grained regolith, including duricrust peds, is a fundamental prerequisite for understanding the types of physical and chemical weathering processes on Mars. The extraordinary importance of such samples is their relevance to understanding past changes in climate, availability (and possible physical state) of water, eolian forces, the thermal and chemical influences of volcanic and impact processes, and the inventory and fates of Martian volatiles. Fortunately, this regolith material appears to be ubiquitous over the Martian surface, and should be available at many different landing sites. Viking data has been interpreted to indicate a smectite-rich regolith material, implying extensive weathering involving aqueous activity and geochemical alteration. An all-igneous source of the Martian fines has also been proposed. The X-ray fluorescence measurement data set can now be fully explained in terms of a simple two-component model. The first component is silicate, having strong geochemical similarities with Shergottites, but not other SNC meteorites. The second component is salt. Variations in these components could produce silicate and salt-rich beds, the latter being of high potential importance for microenvironments in which liquid water (brines) could exist. It therefore would be desirable to scan the surface of the regolith for such prospects.

Martian regolith geochemistry and sampling techniques

NASA Astrophysics Data System (ADS)

Clark, B. C.

Laboratory study of samples of the intermediate and fine-grained regolith, including duricrust peds, is a fundamental prerequisite for understanding the types of physical and chemical weathering processes on Mars. The extraordinary importance of such samples is their relevance to understanding past changes in climate, availability (and possible physical state) of water, eolian forces, the thermal and chemical influences of volcanic and impact processes, and the inventory and fates of Martian volatiles. Fortunately, this regolith material appears to be ubiquitous over the Martian surface, and should be available at many different landing sites. Viking data has been interpreted to indicate a smectite-rich regolith material, implying extensive weathering involving aqueous activity and geochemical alteration. An all-igneous source of the Martian fines has also been proposed. The X-ray fluorescence measurement data set can now be fully explained in terms of a simple two-component model. The first component is silicate, having strong geochemical similarities with Shergottites, but not other SNC meteorites. The second component is salt. Variations in these components could produce silicate and salt-rich beds, the latter being of high potential importance for microenvironments in which liquid water (brines) could exist. It therefore would be desirable to scan the surface of the regolith for such prospects.

Nuclear morphology for the detection of alterations in bronchial cells from lung cancer: an attempt to improve sensitivity and specificity.

PubMed

Fafin-Lefevre, Mélanie; Morlais, Fabrice; Guittet, Lydia; Clin, Bénédicte; Launoy, Guy; Galateau-Sallé, Françoise; Plancoulaine, Benoît; Herlin, Paulette; Letourneux, Marc

2011-08-01

To identify which morphologic or densitometric parameters are modified in cell nuclei from bronchopulmonary cancer based on 18 parameters involving shape, intensity, chromatin, texture, and DNA content and develop a bronchopulmonary cancer screening method relying on analysis of sputum sample cell nuclei. A total of 25 sputum samples from controls and 22 bronchial aspiration samples from patients presenting with bronchopulmonary cancer who were professionally exposed to cancer were used. After Feulgen staining, 18 morphologic and DNA content parameters were measured on cell nuclei, via image cytom- etry. A method was developed for analyzing distribution quantiles, compared with simply interpreting mean values, to characterize morphologic modifications in cell nuclei. Distribution analysis of parameters enabled us to distinguish 13 of 18 parameters that demonstrated significant differences between controls and cancer cases. These parameters, used alone, enabled us to distinguish two population types, with both sensitivity and specificity > 70%. Three parameters offered 100% sensitivity and specificity. When mean values offered high sensitivity and specificity, comparable or higher sensitivity and specificity values were observed for at least one of the corresponding quantiles. Analysis of modification in morphologic parameters via distribution analysis proved promising for screening bronchopulmonary cancer from sputum.

The effects of altered intrathoracic pressure on resting cerebral blood flow and its response to visual stimulation

PubMed Central

Hayen, Anja; Herigstad, Mari; Kelly, Michael; Okell, Thomas W.; Murphy, Kevin; Wise, Richard G.; Pattinson, Kyle T.S.

2013-01-01

Investigating how intrathoracic pressure changes affect cerebral blood flow (CBF) is important for a clear interpretation of neuroimaging data in patients with abnormal respiratory physiology, intensive care patients receiving mechanical ventilation and in research paradigms that manipulate intrathoracic pressure. Here, we investigated the effect of experimentally increased and decreased intrathoracic pressures upon CBF and the stimulus-evoked CBF response to visual stimulation. Twenty healthy volunteers received intermittent inspiratory and expiratory loads (plus or minus 9 cmH2O for 270 s) and viewed an intermittent 2 Hz flashing checkerboard, while maintaining stable end-tidal CO2. CBF was recorded with transcranial Doppler sonography (TCD) and whole-brain pseudo-continuous arterial spin labeling magnetic resonance imaging (PCASL MRI). Application of inspiratory loading (negative intrathoracic pressure) showed an increase in TCD-measured CBF of 4% and a PCASL-measured increase in grey matter CBF of 5%, but did not alter mean arterial pressure (MAP). Expiratory loading (positive intrathoracic pressure) did not alter CBF, while MAP increased by 3%. Neither loading condition altered the perfusion response to visual stimulation in the primary visual cortex. In both loading conditions localized CBF increases were observed in the somatosensory and motor cortices, and in the cerebellum. Altered intrathoracic pressures, whether induced experimentally, therapeutically or through a disease process, have possible significant effects on CBF and should be considered as a potential systematic confound in the interpretation of perfusion-based neuroimaging data. PMID:23108273

New techniques for the quantification and modeling of remotely sensed alteration and linear features in mineral resource assessment studies

USGS Publications Warehouse

Trautwein, C.M.; Rowan, L.C.

1987-01-01

Linear structural features and hydrothermally altered rocks that were interpreted from Landsat data have been used by the U.S. Geological Survey (USGS) in regional mineral resource appraisals for more than a decade. In the past, linear features and alterations have been incorporated into models for assessing mineral resources potential by manually overlaying these and other data sets. Recently, USGS research into computer-based geographic information systems (GIS) for mineral resources assessment programs has produced several new techniques for data analysis, quantification, and integration to meet assessment objectives.

Clues on Acid-Sulfate Alteration and Hematite Formation on Earth and Mars From Iron Isotopic Analyses of Terrestrial Analogues From Hawaii

NASA Technical Reports Server (NTRS)

Nie, N. X.; Dauphas, N.; Morris, R. V

2017-01-01

The Mars Exploration Rover mission revealed the presence of rocks and minerals indicative of water-rock interactions on Mars. A range of mineralogies have been identified, including hematite spherules (i.e., blueberries), jarosite, Mg-, Ca-sulfates, silica-rich materials and silicate relics from basaltic rocks. The mineral assemblages have been interpreted to be derived from acid-sulfate alteration of basaltic materials. Indeed, the chemical compositions of rocks and soils at Home Plate in Gusev Crater follow the trends expected for acid-sulfate alteration.

Semantic processing in the left versus right cerebral hemispheres following unilateral hand contractions.

PubMed

Turner, Casey E; Hahn, Michael E; Kellogg, Ronald T

2017-03-01

Unilateral hand contractions increase activation in the motor cortex of the contralateral hemisphere, providing a means to alter the relative degree of activation in the right hemisphere versus the left hemisphere through spreading activation. Prior research reported enhanced verbal creativity as measured by performance on remote associate problems in Hebrew from left-hand contractions (right-hemisphere activation). We sought to extend the previous findings to English problems and to homograph interpretation. In Experiment 1, unilateral hand contractions in fact altered performance on the English remote associates, but in the direction of improved performance following right-hand contractions and left-hemisphere activation. In Experiment 2, the probability of retrieving atypical interpretations of homographs with multiple meanings was least likely for left-hemisphere dominant strong right handers, but the hand contraction manipulation had no effect.

Rare earth element geochemistry of shallow carbonate outcropping strata in Saudi Arabia: Application for depositional environments prediction

NASA Astrophysics Data System (ADS)

Eltom, Hassan A.; Abdullatif, Osman M.; Makkawi, Mohammed H.; Eltoum, Isam-Eldin A.

2017-03-01

The interpretation of depositional environments provides important information to understand facies distribution and geometry. The classical approach to interpret depositional environments principally relies on the analysis of lithofacies, biofacies and stratigraphic data, among others. An alternative method, based on geochemical data (chemical element data), is advantageous because it can simply, reproducibly and efficiently interpret and refine the interpretation of the depositional environment of carbonate strata. Here we geochemically analyze and statistically model carbonate samples (n = 156) from seven sections of the Arab-D reservoir outcrop analog of central Saudi Arabia, to determine whether the elemental signatures (major, trace and rare earth elements [REEs]) can be effectively used to predict depositional environments. We find that lithofacies associations of the studied outcrop (peritidal to open marine depositional environments) possess altered REE signatures, and that this trend increases stratigraphically from bottom-to-top, which corresponds to an upward shallowing of depositional environments. The relationship between REEs and major, minor and trace elements indicates that contamination by detrital materials is the principal source of REEs, whereas redox condition, marine and diagenetic processes have minimal impact on the relative distribution of REEs in the lithofacies. In a statistical model (factor analysis and logistic regression), REEs, major and trace elements cluster together and serve as markers to differentiate between peritidal and open marine facies and to differentiate between intertidal and subtidal lithofacies within the peritidal facies. The results indicate that statistical modelling of the elemental composition of carbonate strata can be used as a quantitative method to predict depositional environments and regional paleogeography. The significance of this study lies in offering new assessments of the relationships between lithofacies and geochemical elements by using advanced statistical analysis, a method that could be used elsewhere to interpret depositional environment and refine facies models.

Can emergency department triage nurses appropriately utilize the Ottawa Knee Rules to order radiographs?-An implementation trial.

PubMed

Kec, Robert M; Richman, Peter B; Szucs, Paul A; Mandell, Mark; Eskin, Barnet

2003-02-01

To determine whether triage nurses can successfully interpret the Ottawa Knee Rule (OKR) and order knee radiographs according to the OKR. This was a prospective implementation trial of a clinical decision rule, set in a suburban, community emergency department (ED), evaluating a convenience sample of ED patients aged > 17 years with acute knee injuries. Patients were excluded for altered mental status, distracting injuries, and knee lacerations. Triage nurses and attending emergency physicians (EPs) were trained in appropriate use of the OKR. The triage nurses evaluated eligible patients and radiographs were ordered according to their interpretation of the OKR. EPs who were initially blinded to the triage assessments also evaluated the patients. EPs could add an x-ray order if, according to their assessment of the OKR, one was indicated and a radiograph had not been ordered by the nurse. Nurses and EPs recorded their blinded assessments on standardized data collection instruments. Kappa values were calculated to assess interobserver agreement (IOA) between nurses and EPs; sensitivity, specificity, negative predictive value (NPV), and positive predictive value (PPV) were calculated as appropriate. One hundred three patients were enrolled; 53% were female; 10 fractures were identified (9.7%). The IOAs between the nurses and EPs for each of the criteria were moderate to almost perfect: age-0.94; fibular head tenderness-0.4; isolated patellar tenderness-0.68; inability to bend knee to 90 degrees-0.73; inability to bear weight-0.76. The IOA was moderate (0.52) for the overall interpretation of the OKR by nurses and EPs. Sensitivity of nurse interpretation of the OKR for fracture was 70%, specificity 33%, NPV 91%, PPV 10%. Sensitivity of EP interpretation of the OKR for fracture was 100%, specificity 25%, NPV 100%, PPV 13%. Triage nurses showed fair to good ability to appropriately apply the OKR to pre-order knee radiographs.

Questa baseline and pre-mining ground-water quality investigation. 14. Interpretation of ground-water geochemistry in catchments other than the Straight Creek catchment, Red River Valley, Taos County, New Mexico, 2002-2003

USGS Publications Warehouse

Nordstrom, D. Kirk; McCleskey, R. Blaine; Hunt, Andrew G.; Naus, Cheryl A.

2005-01-01

The U.S. Geological Survey, in cooperation with the New Mexico Environment Department, is investigating the pre-mining ground-water chemistry at the Molycorp molybdenum mine in the Red River Valley, New Mexico. The primary approach is to determine the processes controlling ground-water chemistry at an unmined, off-site but proximal analog. The Straight Creek catchment, chosen for this purpose, consists of the same Tertiary-age quartz-sericite-pyrite altered andesite and rhyolitic volcanics as the mine site. Straight Creek is about 5 kilometers east of the eastern boundary of the mine site. Both Straight Creek and the mine site are at approximately the same altitude, face south, and have the same climatic conditions. Thirteen wells in the proximal analog drainage catchment were sampled for ground-water chemistry. Eleven wells were installed for this study and two existing wells at the Advanced Waste-Water Treatment (AWWT) facility were included in this study. Eight wells were sampled outside the Straight Creek catchment: one each in the Hansen, Hottentot, and La Bobita debris fans, four in a well cluster in upper Capulin Canyon (three in alluvial deposits and one in bedrock), and an existing well at the U.S. Forest Service Questa Ranger Station in Red River alluvial deposits. Two surface waters from the Hansen Creek catchment and two from the Hottentot drainage catchment also were sampled for comparison to ground-water compositions. In this report, these samples are evaluated to determine if the geochemical interpretations from the Straight Creek ground-water geochemistry could be extended to other ground waters in the Red River Valley , including the mine site. Total-recoverable major cations and trace metals and dissolved major cations, selected trace metals, anions, alkalinity; and iron-redox species were determined for all surface- and ground-water samples. Rare-earth elements and low-level As, Bi, Mo, Rb, Re, Sb, Se, Te, Th, U, Tl, V, W, Y, and Zr were determined on selected samples. Dissolved organic carbon (DOC), mercury, sulfate stable isotope composition (d34S and d18O of sulfate), stable isotope composition of water (d2H and d18O of water) were measured for selected samples. Chlorofluorocarbons (CFC) and 3He and 3H were measured for age dating on selected samples. Linear regressions from the Straight Creek ground-water data were used to compare ground-water chemistry trends in non-Straight Creek ground waters with Straight Creek alluvial ground-water chemistry dilution trends. Most of the solute trends for the ground waters are similar to those for Straight Creek but there are some notable exceptions. In lithologies that contain substantial pyrite mineralization, acid waters form with similar chemistries to those in Straight Creek and all the waters tend to be calcium-sulfate type. Hottentot ground waters contain substantially lower calcium concentrations relative to those in Straight Creek. This anomaly results from the exposure of rhyolite porphyry in the Hottentot scar and weathering zone. The rhyolite contains less calcium than the altered andesites and tuffs in the Straight Creek catchment and probably does not have the abundant gypsum and calcite. The Hansen ground waters have reached gypsum saturation and have similar calcium, magnesium, and beryllium concentrations as Straight Creek ground waters but have lower concentrations of fluoride, manganese, zinc, cobalt, nickel, copper, and lithium. Lower concentrations of elements related to mineralization at Hansen likely reflect the more distal location of Hansen with respect to intrusive centers that provided the heat source for hydrothermal alteration. The other ground water with water chemistry trends that are outside the Straight Creek trends was from an alluvial well from Capulin Canyon (CC2A). Although it had pH values near 6.0 and most major ions similar to the other Capulin Canyon ground waters, it contained high concentrations

Pitfalls in the diagnosis and management of Cushing's syndrome.

PubMed

Bansal, Vivek; El Asmar, Nadine; Selman, Warren R; Arafah, Baha M

2015-02-01

Despite many recent advances, the management of patients with Cushing's disease continues to be challenging. Cushing's syndrome is a complex metabolic disorder that is a result of excess glucocorticoids. Excluding the exogenous causes, adrenocorticotropic hormone-secreting pituitary adenomas account for nearly 70% of all cases of Cushing's syndrome. The suspicion, diagnosis, and differential diagnosis require a logical systematic approach with attention paid to key details at each investigational step. A diagnosis of endogenous Cushing's syndrome is usually suspected in patients with clinical symptoms and confirmed by using multiple biochemical tests. Each of the biochemical tests used to establish the diagnosis has limitations that need to be considered for proper interpretation. Although some tests determine the total daily urinary excretion of cortisol, many others rely on measurements of serum cortisol at baseline and after stimulation (e.g., after corticotropin-releasing hormone) or suppression (e.g., dexamethasone) with agents that influence the hypothalamic-pituitary-adrenal axis. Other tests (e.g., measurements of late-night salivary cortisol concentration) rely on alterations in the diurnal rhythm of cortisol secretion. Because more than 90% of the cortisol in the circulation is protein bound, any alteration in the binding proteins (transcortin and albumin) will automatically influence the measured level and confound the interpretation of stimulation and suppression data, which are the basis for establishing the diagnosis of Cushing's syndrome. Although measuring late-night salivary cortisol seems to be an excellent initial test for hypercortisolism, it may be confounded by poor sampling methods and contamination. Measurements of 24-hour urinary free-cortisol excretion could be misleading in the presence of some pathological and physiological conditions. Dexamethasone suppression tests can be affected by illnesses that alter the absorption of the drug (e.g., malabsorption, celiac disease) and by the concurrent use of medications that interfere with its metabolism (e.g., inducers and inhibitors of the P450 enzyme system). In this review, the authors aim to review the pitfalls commonly encountered in the workup of patients suspected to have hypercortisolism. The optimal diagnosis and therapy for patients with Cushing's disease require the thorough and close coordination and involvement of all members of the management team.

40 CFR 761.316 - Interpreting PCB concentration measurements resulting from this sampling scheme.

Code of Federal Regulations, 2013 CFR

2013-07-01

... 40 Protection of Environment 32 2013-07-01 2013-07-01 false Interpreting PCB concentration measurements resulting from this sampling scheme. 761.316 Section 761.316 Protection of Environment... scheme. (a) For an individual sample taken from an approximately 1 meter square portion of the entire...

Effects of core retrieval, handling, and preservation on hydrate-bearing samples

NASA Astrophysics Data System (ADS)

Kneafsey, T. J.; Lu, H.; Winters, W. J.; Hunter, R. B.

2009-12-01

Recovery, preservation, storage, and transport of samples containing natural gas hydrate cause changes in the stress conditions, temperature, pressure, and hydrate saturation of samples. Sample handling at the ground surface and sample preservation, either by freezing in liquid nitrogen (LN) or repressurization using methane, provides additional time and driving forces for sample alteration. The extent to which these disturbances alter the properties of the hydrate bearing sediments (HBS) depend on specific sample handling techniques, as well as on the sample itself. HBS recovered during India’s National Gas Hydrate Program (NGHP) Expedition 01 and the 2007 BP Exploration Alaska - Department of Energy - U.S. Geological Survey (BP-DOE-USGS) Mount Elbert (ME) gas hydrate well on the Alaskan North Slope provide comparisons of sample alterations induced by multiple handling techniques. HBS samples from the NGHP and the ME projects were examined using x-ray computed tomography. Mount Elbert sand samples initially preserved in LN have non-uniform short “crack-like” low-density zones in the center that probably do not extend to the outside perimeter. Samples initially preserved by repressurization show fewer “crack-like” features and higher densities. Two samples were analyzed in detail by Lu and coworkers showing reduced hydrate saturations approaching the outer surface, while substantial hydrate remained in the central region. Non-pressure cored NGHP samples show relatively large altered regions approaching the core surface, while pressure-cored-liquid-nitrogen preserved samples have much less alteration.

Discrimination of Thermal versus Mechanical Effects of Shock on Rock Magnetic Properties of Spherically Shocked up to 10-160 GPa Basalt and Diabase

NASA Astrophysics Data System (ADS)

Bezaeva, N. S.; Swanson-Hysell, N.; Tikoo, S.; Badyukov, D. D.; Kars, M. A. C.; Egli, R.; Chareev, D. A.; Fairchild, L. M.

2016-12-01

Understanding how shock waves generated during hypervelocity impacts affect rock magnetic properties is key for interpreting the paleomagnetic records of lunar rocks, meteorites, and cratered planetary surfaces. Laboratory simulations of impacts show that ultra-high shocks may induce substantial post-shock heating of the target material. At high pressures (>10 GPa), shock heating occurs in tandem with mechanical effects, such as grain fracturing and creation of crystallographic defects and dislocations within magnetic grains. This makes it difficult to conclude whether shock-induced changes in the rock magnetic properties of target materials are primarily associated with mechanical or thermal effects. Here we present novel experimental methods to discriminate between mechanical and thermal effects of shock on magnetic properties and illustrate it with two examples of spherically shocked terrestrial basalt and diabase [1], which were shocked to pressures of 10 to >160 GPa, and investigate possible explanations for the observed shock-induced magnetic hardening (i.e., increase in remanent coercivity Bcr). The methods consist of i) conducting extra heating experiments at temperatures resembling those experienced during high-pressure shock events on untreated equivalents of shocked rocks (with further comparison of Bcr of shocked and heated samples) and ii) quantitative comparison of high-resolution first-order reversal curve (FORC) diagrams (field step: 0.5-0.7 mT) for shocked, heated and untreated specimens. Using this approach, we demonstrated that the shock-induced coercivity hardening in our samples is predominantly due to solid-state, mechanical effects of shock rather than alteration associated with shock heating. Indeed, heating-induced changes in Bcr in the post-shock temperature range were minor. Visual inspection of FORC contours (in addition to detailed analyses) reveals a stretching of the FORC distribution of shocked sample towards higher coercivities, consistent with shock-induced hardening. However, shock does not alter the intrinsic shape of coercivity and the shape of FORC contours (apart from field scaling) while heating does, which is seen as a significant alteration of FORC contours. Reference: [1] Swanson-Hysell N. L. et al. 2014. G3 15:2039-2047.

Evolution of organic matter in Orgueil, Murchison and Renazzo during parent body aqueous alteration: In situ investigations

NASA Astrophysics Data System (ADS)

Le Guillou, Corentin; Bernard, Sylvain; Brearley, Adrian J.; Remusat, Laurent

2014-04-01

Chondrites accreted the oldest solid materials in the solar system including dust processed in the protoplanetary disk and diverse organic compounds. After accretion, asteroidal alteration may have impacted organic particles in various ways. To constrain these processes, we conducted a comprehensive study of organics disseminated within the matrices of the three carbonaceous chondrite falls, Renazzo (CR2), Murchison (CM2) and Orgueil (CI). By combining synchrotron-based STXM and TEM analyses on FIB sections of samples previously characterized by NanoSIMS, we investigated the influence of aqueous alteration on the morphology, isotopic signature, molecular structure, spatial distribution, and mineralogical environment of the organic matter within the matrices. Two different populations of materials are distinguishable: sub-micrometric individual grains, likely dominated by insoluble compounds and diffuse organic matter, finely interspersed within phyllosilicates and/or (amorphous) nanocarbonates at the nanometer scale. We suggest that this latter component, which is depleted in aromatics and enriched in carboxylic functional groups, may be dominated by soluble compounds. Organic matter in Renazzo (CR) mainly consists of chemically-homogeneous individual grains surrounded by amorphous and nanocrystalline phyllosilicates. Evidence of connectivity between organic grains and fractures indicates that redistribution has occurred: some areas containing diffuse organic matter can be observed. This diffuse organic component is more abundant in Murchison (CM) and Orgueil (CI). This is interpreted as resulting from fluid transport at the micrometer scale and encapsulation within recrystallized alteration phases. In contrast to Renazzo, organic grains in Murchison and Orgueil display strong chemical heterogeneities, likely related to chemical evolution during aqueous alteration. The observations suggest that the altering fluid was a brine with elevated concentrations of both organic and inorganic soluble components. Ultimately, when water was consumed by aqueous alteration reactions or lost from the system, soluble organic compounds accumulated in the immediate vicinity of the precipitated carbonates and phosphates. Additionally, the nanometer scale organic/phyllosilicate relationships provide a petrological environment where some of the initially accreted organic matter could have been modified through clay-mediated reactions.

A different view on the Necker cube—Differences in multistable perception dynamics between Asperger and non-Asperger observers

PubMed Central

Wörner, Rike

2017-01-01

Background During observation of the Necker cube perception becomes unstable and alternates repeatedly between a from-above-perspective (“fap”) and a from-below-perspective (“fbp”) interpretation. Both interpretations are physically equally plausible, however, observers usually show an a priori top-down bias in favor of the fap interpretation. Patients with Autism spectrum disorder are known to show an altered pattern of perception with a focus on sensory details. In the present study we tested whether this altered perceptual processing affects their reversal dynamics and reduces the perceptual bias during Necker cube observation. Methods 19 participants with Asperger syndrome and 16 healthy controls observed a Necker cube stimulus continuously for 5 minutes and indicated perceptual reversals by key press. We compared reversal rates (number of reversals per minute) and the distributions of dwell times for the two interpretations between observer groups. Results Asperger participants showed less perceptual reversal than controls. Six Asperger participants did not perceive any reversal at all, whereas all observers from the control group perceived at least five reversals within the five minutes observation time. Further, control participants showed the typical perceptual bias with significant longer median dwell times for the fap compared to the fbp interpretation. No such perceptual bias was found in the Asperger group. Discussion The perceptual system weights the incomplete and ambiguous sensory input with memorized concepts in order to construct stable and reliable percepts. In the case of the Necker cube stimulus, two perceptual interpretations are equally compatible with the sensory information and internal fluctuations may cause perceptual alternations between them—with a slightly larger probability value for the fap interpretation (perceptual bias). Smaller reversal rates in Asperger observers may result from the dominance of bottom-up sensory input over endogenous top-down factors. The latter may also explain the absence of a fap bias. PMID:29244813

A different view on the Necker cube-Differences in multistable perception dynamics between Asperger and non-Asperger observers.

PubMed

Kornmeier, Jürgen; Wörner, Rike; Riedel, Andreas; Tebartz van Elst, Ludger

2017-01-01

During observation of the Necker cube perception becomes unstable and alternates repeatedly between a from-above-perspective ("fap") and a from-below-perspective ("fbp") interpretation. Both interpretations are physically equally plausible, however, observers usually show an a priori top-down bias in favor of the fap interpretation. Patients with Autism spectrum disorder are known to show an altered pattern of perception with a focus on sensory details. In the present study we tested whether this altered perceptual processing affects their reversal dynamics and reduces the perceptual bias during Necker cube observation. 19 participants with Asperger syndrome and 16 healthy controls observed a Necker cube stimulus continuously for 5 minutes and indicated perceptual reversals by key press. We compared reversal rates (number of reversals per minute) and the distributions of dwell times for the two interpretations between observer groups. Asperger participants showed less perceptual reversal than controls. Six Asperger participants did not perceive any reversal at all, whereas all observers from the control group perceived at least five reversals within the five minutes observation time. Further, control participants showed the typical perceptual bias with significant longer median dwell times for the fap compared to the fbp interpretation. No such perceptual bias was found in the Asperger group. The perceptual system weights the incomplete and ambiguous sensory input with memorized concepts in order to construct stable and reliable percepts. In the case of the Necker cube stimulus, two perceptual interpretations are equally compatible with the sensory information and internal fluctuations may cause perceptual alternations between them-with a slightly larger probability value for the fap interpretation (perceptual bias). Smaller reversal rates in Asperger observers may result from the dominance of bottom-up sensory input over endogenous top-down factors. The latter may also explain the absence of a fap bias.

Reference range of blood biomarkers for oxidative stress in Thoroughbred racehorses (2–5 years old)

PubMed Central

KUSANO, Kanichi; YAMAZAKI, Masahiko; KIUCHI, Masataka; KANEKO, Kouki; KOYAMA, Katsuhiro

2016-01-01

ABSTRACT The oxidant and antioxidant equilibrium is known to play an important role in equine medicine and equine exercise physiology. There are abundant findings in this field; however, not many studies have been conducted for reference ranges of oxidative stress biomarkers in horses. This study was conducted to determine the reference values of reactive oxygen metabolites (d-ROMs) and biological antioxidant potential (BAP) using blood samples from 372 (191 males, 181 females) Thoroughbred racehorse aged 2 to 5 (3.43 ± 1.10 (mean ± SD)) years old. There were obvious gender differences in oxidative biomarkers, and growth/age-related changes were observed especially in females. Gender and age must be considered when interpreting obtained oxidative stress biomarkers for diagnosis of disease or fitness alterations in Thoroughbred racehorses. PMID:27703408

Radar-Enabled Recovery of the Sutters Mill Meteorite, a Carbonaceous Chondrite Regolith Breccia

NASA Technical Reports Server (NTRS)

Jenniskens, Petrus M.; Fries, Marc D.; Yin, Qing-Zhu; Zolensky, Michael E.; Krot, Alexander N.; Sandford, Scott A.; Sears, Derek; Beauford, Robert; Ebel, Denton S.; Friedrich, Jon M.;

Hydrothermal Alteration of the Mt Unzen Conduit (Shimabara/Japan)

NASA Astrophysics Data System (ADS)

Yilmaz, T. I.; Mayer, K.; Hess, K. U.; Janots, E.; Gilg, H. A.; Dingwell, D. B.

2016-12-01

Investigations were carried out on hydrothermally altered coherent dacitic dykes samples from (USDP-4) drill core at Mt Unzen stratovolcano (Shimabara/Japan). XRF, XRD, EMPA, and C-O-isotope analysis led to insights concerning chemistry, mineralogy, and intensity of alteration as well as the origin of carbonate-precipitating fluids. Additionally a textural characterization of the occurring replacement features in the magma conduit zone was performed. The occurrence of the main secondary phases such as chlorite, pyrite, carbonates, and R1 (Reichweite parameter) illite-smectite indicate a weak to moderate propylitic to phyllic hydrothermal alteration. The dacitic samples of the dykes show different hydrothermal alteration features: (i) carbonate pseudomorphs after hornblende as well as core and zonal textures due to replacement of plagioclase by R1 illite-smectite, (ii) colloform banded fracture fillings and fillings in dissolution vugs, and (iii) chlorite and R1 illite-smectite in the groundmass. Carbonates in fractures comprise iron-rich dolomite solid solutions ("ankerite") and calcite. Isotopic values of d13Cvpdb = -4.59 ± 0.6‰ and d18Ovpdb = -21.73 ± 0.5‰ indicate a hydrothermal-magmatic origin for the carbonate formation. The chlorite-carbonate-pyrite index (CCPI) and the Ishikawa alteration index (AI), applied to the investigated samples show significant differences (CCPI=52.7-57.8; AI=36.1-40.6) indicating their different degree of alteration. According to Nakada et al., 2005, the C13 to C16 dykes represent the feeder dyke from the latest eruption (1991-1995) whereas C8 represents an earlier dyke feeder dyke from an older eruption. Weakest conduit alteration, which was obtained in samples C16-1-5 and C13-2-5, correlates with the alteration degree of the pristine dome rocks. Highest CCPI value was determined for sample C14-1-5 and the highest AI value was determined for sample C15-2-6. The degrees of alteration do not indicate highest alteration of the samples C8-1-2 and C8-2-1 from the older dykes.

Column Experiments to Interpret Weathering in Columbia Hills

NASA Technical Reports Server (NTRS)

Hausrath, E. M.; Morris, R.V.; Ming, D.W.; Golden, D.C.; Galindo, C.; Sutter, B.

2009-01-01

Phosphate mobility has been postulated as an indicator of early aqueous activity on Mars. In addition, rock surfaces analyzed by the Mars Exploration Rover Spirit are consistent with the loss of a phosphate- containing mineral To interpret phosphate alteration behavior on Mars, we performed column dissolution experiments leaching the primary phases Durango fluorapatite, San Carlos olivine, and basalt glass (Stapafjell Volcano, courtesy of S. Gislason, University of Iceland) [3,4]) with acidic solutions. These phases were chosen to represent quickly dissolving phases likely present in Columbia Hills. Column dissolution experiments are closer to natural dissolution conditions than batch experiments, although they can be difficult to interpret. Acidic solutions were used because the leached layers on the surfaces of these rocks have been interpreted as resulting from acid solutions [5].

Short- and long-term olivine weathering in Svalbard: implications for Mars.

PubMed

Hausrath, E M; Treiman, A H; Vicenzi, E; Bish, D L; Blake, D; Sarrazin, P; Hoehler, T; Midtkandal, I; Steele, A; Brantley, S L

2008-12-01

Liquid water is essential to life as we know it on Earth; therefore, the search for water on Mars is a critical component of the search for life. Olivine, a mineral identified as present on Mars, has been proposed as an indicator of the duration and characteristics of water because it dissolves quickly, particularly under low-pH conditions. The duration of olivine persistence relative to glass under conditions of aqueous alteration reflects the pH and temperature of the reacting fluids. In this paper, we investigate the utility of 3 methodologies to detect silicate weathering in a Mars analog environment (Sverrefjell volcano, Svalbard). CheMin, a miniature X-ray diffraction instrument developed for flight on NASA's upcoming Mars Science Laboratory, was deployed on Svalbard and was successful in detecting olivine and weathering products. The persistence of olivine and glass in Svalbard rocks was also investigated via laboratory observations of weathered hand samples as well as an in situ burial experiment. Observations of hand samples are consistent with the inference that olivine persists longer than glass at near-zero temperatures in the presence of solutions at pH approximately 7-9 on Svalbard, whereas in hydrothermally altered zones, glass has persisted longer than olivine in the presence of fluids at similar pH at approximately 50 degrees C. Analysis of the surfaces of olivine and glass samples, which were buried on Sverrefjell for 1 year and then retrieved, documented only minor incipient weathering, though these results suggest the importance of biological impacts. The 3 types of observations (CheMin, laboratory observations of hand samples, burial experiments) of weathering of olivine and glass at Svalbard show promise for interpretation of weathering on Mars. Furthermore, the weathering relationships observed on Svalbard are consistent with laboratory-measured dissolution rates, which suggests that relative mineral dissolution rates in the laboratory, in concert with field observations, can be used to yield valuable information regarding the pH and temperature of reacting martian fluids.

Nature of the Yucatan Block Basement as Derived From Study of Granitic Clasts in the Impact Breccias of Chicxulub Crater

NASA Astrophysics Data System (ADS)

Vera-Sanchez, P.; Rebolledo-Vieyra, M.; Perez-Cruz, L.; Urrutia-Fucugauchi, J.

2008-05-01

The tectonic and petrologic nature of the basement of the Yucatan Block is studied from analyses of basement clasts present in the impact suevitic breccias of Chicxulub crater. The impact breccias have been sampled as part of the drilling projects conducted in the Yucatan peninsula by Petroleos Mexicanos, the National University of Mexico and the Chicxulub Scientific Drilling Project. Samples analyzed come mainly from the Yaxcopoil-1, Tekax, and Santa Elena boreholes, and partly from Pemex boreholes. In this study we concentrate on clasts of the granites, granodiorites and quartzmonzonites in the impact breccias. We report major and trace element geochemical and petrological data, which are compared with data from the granitic and volcanic rocks from the Maya Mountains in Belize and from the Swannee terrane in Florida. Basement granitic clasts analyzed present intermediate to acidic sub-alkaline compositions. Plots of major oxides (e.g., Al2O3, Fe2O3, TiO2 and CaO) and trace elements (e.g., Th, Y, Hf, Nb and Zr) versus silica allow separation of samples into two major groups, which can be compared to units in the Maya Mountains and in Florida basement. The impact suevitic breccia samples have been affected by alteration likely related to the hydrothermal processes associated with the crater melt sheet. Cloritization, seritization and fenitization alterations are recognized, due to the long term hydrothermalism. Krogh et al. (1993) reported U-Pb dates on zircons from the suevitic breccias, which gave dates of 545 +/- 5 Ma and 418 +/- 6 Ma, which were interpreted in terms of the deep granitic metamorphic Yucatan basement. The younger date correlates with the age for the Osceola Granite and the St. Lucie metamorphic complex of the Swannee terrane in the Florida peninsula. The intrusive rocks in the Yucatan basement may be related to approx. 418 Ma ago collisional event in the Late Silurian.

Deformation associated with the denudation of mantle-derived rocks at the Mid-Atlantic Ridge 13°-15°N: The role of magmatic injections and hydrothermal alteration

NASA Astrophysics Data System (ADS)

Picazo, Suzanne; Cannat, Mathilde; Delacour, AdéLie; EscartíN, Javier; RouméJon, StéPhane; Silantyev, Sergei

2012-09-01

Outcrops of deeply derived ultramafic rocks and gabbros are widespread along slow spreading ridges where they are exposed in the footwall of detachment faults. We report on the microstructural and petrological characteristics of a large number of samples from ultramafic exposures in the walls of the Mid-Atlantic Ridge (MAR) axial valley at three distinct locations at lat. 13°N and 14°45'N. One of these locations corresponds to the footwall beneath a corrugated paleo-fault surface. Bearing in mind that dredging and ROV sampling may not preserve the most fragile lithologies (fault gouges), this study allows us to document a sequence of deformation, and the magmatic and hydrothermal history recorded in the footwall within a few hundred meters of the axial detachment fault. At the three sampled locations, we find that tremolitic amphiboles have localized deformation in the ultramafic rocks prior to the onset of serpentinization. We interpret these tremolites as hydrothermal alteration products after evolved gabbroic rocks intruded into the peridotites. We also document two types of brittle deformation in the ultramafic rocks, which we infer could produce the sustained low magnitude seismicity recorded at ridge axis detachment faults. The first type of brittle deformation affects fresh peridotite and is associated with the injection of the evolved gabbroic melts, and the second type affects serpentinized peridotites and is associated with the injection of Si-rich hydrothermal fluids that promote talc crystallization, leading to strain localization in thin talc shear zones. We also observed chlorite + serpentine shear zones but did not identify samples with serpentine-only shear zones. Although the proportion of magmatic injections in the ultramafic rocks is variable, these characteristics are found at each investigated location and are therefore proposed as fundamental components of the deformation in the footwall of the detachment faults associated with denudation of mantle-derived rocks at the MAR.

Effects of CO2-rich fluids on a redbed reservoir: outcrop analogue study from the Buntsandstein (Germany)

NASA Astrophysics Data System (ADS)

Kasch, N.; Kley, J.; Koester, J.; van Geldern, R.; Wehrer, M.; Wendler, J.

2010-12-01

Carbon capture and storage (CCS) in saline aquifers will induce fluid-rock interactions, with effects on the mineralogy and physical properties of the reservoir. These effects are difficult to study in real reservoirs. Outcrop analogues provide access to relatively large rock volumes, but it may be difficult to prove that CO2 was involved in the mineral reactions observed. We present circumstantial evidence for the presence of CO2-rich fluids during the alteration of Triassic Buntsandstein redbeds from Germany. Fluid-rock interaction there is evidenced by localized bleaching of the red sandstones in fringes of a few mm to a few cm width along joints and fine cracks. The fringes can be traced along individual joints for a few dm to m. 3D geometric analysis on a cm scale shows that the bleached cracks form a complex interconnected network. On the outcrop scale, bleaching is essentially restricted to one north-trending joint set which is parallel to Miocene basalt dikes in the area. In underground salt mines, the dikes have caused bleaching of potassium salt minerals along their contacts. In the same mines CO2 is found trapped within rock salt along north-trending fractures, sometimes causing violent gas eruptions during mining operations. Together, these observations suggest that bleaching along north-trending joints in the Buntsandstein is causally related to the migration of CO2-rich fluids associated with the basalt volcanism. Today, CO2 ascends in CO2-enriched waters. We analyzed 12 samples of such waters. Their δ18O values correspond to meteoric waters. The δ13C (DIC) values of four water samples show signatures typical of volcanogenic CO2. Five samples contain mixed signals of volcanogenic and carbonatic CO2 or biogenic CO2 from soil. Volcanogenic and carbonatic CO2 are restricted to waters interpreted to rise along NW-SE striking basement faults. The switch of preferential fluid channeling from N-trending fractures in Tertiary time to NW-trending fractures today is compatible with a coeval rotation of the largest horizontal stress from N to NW, corroborating the control of fluid pathways by the contemporary stress field. Geochemical analyses of the bleached fringes show that bleaching causes a decrease in Fe and Mn due to hematite dissolution. Using cathodoluminescence microscopy and -spectroscopy combined with electron microprobe analysis and stable carbon isotopes, we detected two major fluid-mineral interactions probably involving CO2: (1) precipitation of zoned, joint-filling calcites and pore-filling calcite cements, the latter replacing an earlier dolomite, and (2) alkali feldspar alteration. We interpret Fe-rich calcite crystal cores to reflect incorporation of iron released by coeval bleaching during the dolomite-calcite transformation. This recrystallisation was associated with a volume increase, possibly suggesting some degree of sealing and enhanced retention of CO2. On the other hand, feldspar alteration has a destructing effect on the feldspar grains, implying that bleaching creates pore space.

Neural responses to visual food stimuli after a normal vs. higher protein breakfast in breakfast-skipping teens: a pilot fMRI study.

PubMed

Leidy, Heather J; Lepping, Rebecca J; Savage, Cary R; Harris, Corey T

2011-10-01

This functional magnetic resonance imaging (fMRI) pilot study identified whether breakfast consumption would alter the neural activity in brain regions associated with food motivation and reward in overweight "breakfast skipping" (BS) adolescent girls and examined whether increased protein at breakfast would lead to additional alterations. Ten girls (Age: 15 ± 1 years; BMI percentile 93 ± 1%; BS 5 ± 1×/week) completed 3 testing days. Following the BS day, the participants were provided with, in randomized order, normal protein (NP; 18 ± 1 g protein) or higher protein (HP; 50 ± 1 g protein) breakfast meals to consume at home for 6 days. On day 7 of each pattern, the participants came to the laboratory to consume their respective breakfast followed by appetite questionnaires and an fMRI brain scan to identify brain activation responses to viewing food vs. nonfood images prior to lunch. Breakfast consumption led to enduring (i.e., 3-h post breakfast) reductions in neural activation in the hippocampus, amygdala, cingulate, and parahippocampus vs. BS. HP led to enduring reductions in insula and middle prefrontal cortex activation vs. NP. Hippocampal, amygdala, cingulate, and insular activations were correlated with appetite and inversely correlated with satiety. In summary, the addition of breakfast led to alterations in brain activation in regions previously associated with food motivation and reward with additional alterations following the higher-protein breakfast. These data suggest that increased dietary protein at breakfast might be a beneficial strategy to reduce reward-driven eating behavior in overweight teen girls. Due to the small sample size, caution is warranted when interpreting these preliminary findings.

Age-related changes in the gut microbiota influence systemic inflammation and stroke outcome.

PubMed

Spychala, Monica S; Venna, Venugopal Reddy; Jandzinski, Michal; Doran, Sarah J; Durgan, David J; Ganesh, Bhanu Priya; Ajami, Nadim J; Putluri, Nagireddy; Graf, Joerg; Bryan, Robert M; McCullough, Louise D

2018-05-07

Objective Chronic systemic inflammation contributes to the pathogenesis of many age-related diseases. Although not well understood, alterations in the gut microbiota, or dysbiosis, may be responsible for age-related inflammation. Methods Using stroke as a disease model, we tested the hypothesis that a youthful microbiota, when established in aged mice, produces positive outcomes following ischemic stroke. Conversely, an aged microbiota, when established in young mice, produces negative outcomes after stroke. Young and aged male mice had either a young or an aged microbiota established by fecal transplant gavage (FTG). Mice were subjected to ischemic stroke (MCAO) or sham surgery. During the subsequent weeks, mice underwent behavioral testing and fecal samples were collected for 16S rRNA analysis of bacterial content. Results We found that the microbiota is altered after experimental stroke in young mice, and resembles the biome of uninjured aged mice. In aged mice, the ratio of Firmicutes to Bacteroidetes (F:B), two main bacterial phyla in gut microbiota, increased ∼9-fold (P<0.001) compared to young. This increased F:B ratio in aged mice is indicative of dysbiosis. Altering the microbiota in young by fecal gavage to resemble that of aged mice (∼6-fold increase in F:B ratio, P<0.001) increased mortality following MCAO, decreased performance in behavioral testing, and increased cytokine levels. Conversely, altering the microbiota in aged to resemble that of young (∼9-fold decrease in F:B ratio, P<0.001) increased survival and improved recovery following MCAO. Interpretation Aged biome increased the levels of systemic pro-inflammatory cytokines. We conclude that the gut microbiota can be modified to positively impact outcomes from age-related diseases. This article is protected by copyright. All rights reserved. © 2018 American Neurological Association.

Alteration mineralogy, mineral chemistry and stable isotope geochemistry of the Eocene pillow lavas from the Trabzon area, NE Turkey

NASA Astrophysics Data System (ADS)

Abdioğlu Yazar, Emel

2018-02-01

The Eocene subaqueous volcanic units in NE Turkey developed as pillow, closely packed pillow, isolated pillow, pillow breccia, hyaloclastite breccia and rare peperitic facies with red micritic limestones. They are locally set on volcaniclastic sandstone and claystone alternations and gradually pass to tuffs and volcanic breccias. The pillow lava samples generally exhibit intersertal, intergranular, microlitic porphyritic, variolitic, vesicular and glomeroporphyritic and glassy textures with clinopyroxene (Wo47-52En40-45Fs6-8), plagioclase (An10 to An96), olivine (Fo79-87) and Fe-Ti oxides (Usp0-0.27). Saponite, interlayered chlorite/saponite, rare beidellite and calcite were determined after olivine, rarely after plagioclase as well as in the glassy groundmass. Illite was restricted to plagioclase and the glassy groundmass. Na-Ca zeolites, chlorites/saponites, beidellite, dolomite and calcite occur as void infillings and in the glassy groundmass. Mineralogical, lithochemical and isotopic interpretations as well as thermometric calculations reveal a low-temperature seawater alteration in a semi-closed environment for the alteration of primary minerals and volcanic glass in addition to sealed vesicles and open systems for crosscutting veins. Due to the short exposure time intervals of seawater to rocks, the total chemistry of the rocks is not fully changed and most of the elements seem to be immobile, remaining in the system as a result of precipitation in voids and cracks. Thermometric estimations indicate that, the temperature of heated seawater is approximately 160 °C at the highest point especially in the vesicles, and decreases to approximately 85 °C due to circulation, resulting in alterations of the primary phases and volcanic glass.

Nutrient Considerations for Plants Grown Under Space Flight Conditions

NASA Technical Reports Server (NTRS)

Levine, Howard G.; Krikorian, Abraham D.

2006-01-01

We present here results on the analysis of 100 mL medium samples extracted from sterilized foam (Smithers-Oasis, Kent OH) used to support the growth of both dicotyledonous (Haplopappus gracilis, n=75) and monocotyledonous (Hemerocallis cv Autumn Blaze, n=25) aseptic plants in NASA's Plant Growth Unit (PGU) during the 5-day CHROMEX-01 Space Shuttle flight (March 1989, STS-29). At recovery, the medium remaining within each of the five floral foam blocks (for both the space flight and ground control experiments) was extracted under vacuum, filtered and subjected to elemental analyses. Concentration levels of some elements remained the same, while some decreased and others increased. A unique aspect of this experiment was that all plants were either aseptic tissue culture generated plantlets or sterile seedling clones, and the design of the PGU facilitated the maintenance of asepsis throughout the mission (confirmed by postflight microbial sampling). This permitted the elimination of microbial considerations in the interpretation of the data. The significance of these findings for growing plants in altered gravity environments are discussed.

Chemistry, mineralogy and alteration intensity of hydrothermal altered Mt Unzen conduit rocks (Shimabara/Japan)

NASA Astrophysics Data System (ADS)

Hess, Kai-Uwe; Yilmaz, Tim; Gilg, H. Albert; Janots, Emilie; Mayer, Klaus; Nakada, Setsuya; Dingwell, Donald

2017-04-01

Investigations were carried out on hydrothermally altered coherent dacitic dykes samples from (USDP-4) drill core at Mt Unzen stratovolcano (Shimabara/Japan). XRF, XRD, EMPA, C-O-isotope, hot-cathode CL and SEM analysis led to insights concerning chemistry, mineralogy, and intensity and type of alteration as well as the origin of carbonate-precipitating fluids. Additionally a textural characterization of the occurring replacement features in the volcanic conduit rocks was performed. The occurrence of the main secondary phases such as chlorite, pyrite, carbonates, and R1 (Reichweite parameter) illite-smectite and kaolinite group minerals indicate a weak to moderate propylitic to phyllic hydrothermal alteration. The dacitic samples of the dykes show different hydrothermal alteration features: (i) carbonate and chlorite pseudomorphs after hornblende as well as core and zonal textures due to replacement of plagioclase by R1 illite-smectite as well as kaolinite group minerals, (ii) colloform banded fracture fillings and fillings in dissolution vugs, and (iii) chlorite, R1 illite-smectite as well as kaolinite group minerals in the groundmass. Late chlorite veins crosscut precipitates of R1 illite-smectite as well as kaolinite group minerals. Carbonates in fractures and in pseudomorphs after hornblende comprise iron-rich dolomite solid solutions ("ankerite") and calcite. Isotopic values indicate a hydrothermal-magmatic origin for the carbonate formation. The chlorite-carbonate-pyrite index (CCPI) and the Ishikawa alteration index (AI), applied to the investigated samples show significant differences (CCPI=52.7-57.8; AI=36.1-40.6) indicating their different degree of alteration. According to Nakada et al., 2005, the C13 to C16 dykes represent the feeder dyke from the latest eruption (1991-1995) whereas C8 represents an earlier dyke feeder dyke from an older eruption. Weakest alteration, which was obtained in samples C16-1-5 and C13-2-5, correlates with the alteration degree of the pristine dome rocks. The highest CCPI value was determined for sample C14-1-5 and the highest AI value was determined for sample C15-2-6. The degrees of alteration do not indicate highest alteration of the samples C8-1-2 and C8-2-1 from the older dykes.

40Ar/39Ar geochronology of hypabyssal igneous rocks in the Maranon Basin of Peru - A record of thermal history, structure, and alteration

USGS Publications Warehouse

Prueher, L.M.; Erlich, R.; Snee, L.W.

2005-01-01

Hypabyssal andesites and dacites from the Balsapuerto Dome in the Mara?on Basin of Peru record the thermal, tectonic, and alteration history of the area. The Mara?on Basin is one of 19 sub-Andean foreland basins. The hypabyssal rocks in the Balsapuerto Dome are one of four known occurrences of subvolcanic rocks along the deformation front in Peru. This dome is a potential petroleum structural trap. Petroleum seeps near the dome indicate that a source for the petroleum is present, but the extent and amount of petroleum development is unknown. The Balsapuerto hypabyssal rocks are plagioclase-, hornblende-, pyroxene-phyric andesites to dacites. Some parts of the dome are pervasively altered to a hydrothermal assemblage of quartz-sericite-pyrite. 40Ar/39Ar geochronology shows that thermal activity related to emplacement of these subvolcanic rocks took place between 12-10 Ma, subsequent to the major periods of Andean folding and faulting, previously assumed to have occurred about 9 Ma. Eleven argon mineral age-spectrum analyses were completed. Argon apparent ages on amphibole range from 12.7 to 11.6 Ma, and the age spectra are simple, which indicates that the ages are very close to emplacement ages. Potassium feldspar yields an argon age spectrum ranging in age from 12.5 to 11.4 Ma, reflecting the period during which the potassium feldspar closed to argon diffusion between the temperature range of 350?C to about 150?C; thus the potassium feldspar age spectrum reflects a cooling profile throughout this temperature range. This age range is consistent with ages of emplacement for the entire igneous complex indicating that an increased thermal state existed in the area for at least 1.0 m.y. Combined with the coexisting hornblende age, this rock cooled from ~580?C to ~150?C in ~1.2 m.y. resulting in an average cooling rate of 358?C /m.y. White mica, or sericite, formed as a later alteration phase associated with quartz- sericite- pyrite and propylitic alteration in some samples. Three age-spectrum analyses on white mica indicate that alteration occurred at 12.5 Ma and again at 11 Ma, and suggest that alteration fluids were present throughout the range of emplacement and as long as 0.5 m.y. afterward. Based on these data, emplacement of the intrusive body(ies) began at about 12.7 Ma. The hornblende age range can be interpreted to reflect multiple periods of intrusion from 12.7 to 11.6 Ma or a period of thermal activity and high-temperature cooling during this age range. The potassium feldspar cooling age range supports either interpretation. The white mica ages indicate that at least two periods of hydrothermal activity occurred at 12.5 and 11.0 Ma, throughout the period of emplacement and cooling of the intrusive body below about 150?C. The magmatic and hydrothermal systems were active after the intrusion, with temperatures not reaching 150?C until about 1 m.y. after emplacement. Therefore, the thermal effects associated with emplacement of the intrusion and the associated hydrothermal system were probably high enough to destroy petroleum in the host and source rocks. Thus, the Balsapuerto Dome is not a viable source of petroleum. There is no evidence in the rock samples or thin sections for brittle or ductile deformation suggesting that this body was emplaced in its present location after cessation of Andean thrusting. Andean thrusting had been assumed to end about 9 Ma. However, this new data suggested that the Andean thrusting had ceased by about 12-10 Ma.

TREHS: An open-access software tool for investigating and evaluating temporary river regimes as a first step for their ecological status assessment.

PubMed

Gallart, Francesc; Cid, Núria; Latron, Jérôme; Llorens, Pilar; Bonada, Núria; Jeuffroy, Justin; Jiménez-Argudo, Sara-María; Vega, Rosa-María; Solà, Carolina; Soria, Maria; Bardina, Mònica; Hernández-Casahuga, Antoni-Josep; Fidalgo, Aránzazu; Estrela, Teodoro; Munné, Antoni; Prat, Narcís

2017-12-31

When the regime of a river is not perennial, there are four main difficulties with the use of hydrographs for assessing hydrological alteration: i) the main hydrological features relevant for biological communities are not quantitative (discharges) but qualitative (phases such as flowing water, stagnant pools or lack of surface water), ii) stream flow records do not inform on the temporal occurrence of stagnant pools, iii) as most of the temporary streams are ungauged, their regime has to be evaluated by alternative methods such as remote sensing or citizen science, and iv) the biological quality assessment of the ecological status of a temporary stream must follow a sampling schedule and references adapted to the flow- pool-dry regime. To overcome these challenges within an operational approach, the freely available software tool TREHS has been developed within the EU LIFE TRIVERS project. This software permits the input of information from flow simulations obtained with any rainfall-runoff model (to set an unimpacted reference stream regime) and compares this with the information obtained from flow gauging records (if available) and interviews with local people, as well as instantaneous observations by individuals and interpretation of ground-level or aerial photographs. Up to six metrics defining the permanence of water flow, the presence of stagnant pools and their temporal patterns of occurrence are used to determine natural and observed river regimes and to assess the degree of hydrological alteration. A new regime classification specifically designed for temporary rivers was developed using the metrics that measure the relative permanence of the three main phases: flow, disconnected pools and dry stream bed. Finally, the software characterizes the differences between the natural and actual regimes, diagnoses the hydrological status (degree of hydrological alteration), assesses the significance and robustness of the diagnosis and recommends the best periods for biological quality samplings. Copyright © 2017 Elsevier B.V. All rights reserved.

Zircon ages in granulite facies rocks: decoupling from geochemistry above 850 °C?

NASA Astrophysics Data System (ADS)

Kunz, Barbara E.; Regis, Daniele; Engi, Martin

2018-03-01

Granulite facies rocks frequently show a large spread in their zircon ages, the interpretation of which raises questions: Has the isotopic system been disturbed? By what process(es) and conditions did the alteration occur? Can the dates be regarded as real ages, reflecting several growth episodes? Furthermore, under some circumstances of (ultra-)high-temperature metamorphism, decoupling of zircon U-Pb dates from their trace element geochemistry has been reported. Understanding these processes is crucial to help interpret such dates in the context of the P-T history. Our study presents evidence for decoupling in zircon from the highest grade metapelites (> 850 °C) taken along a continuous high-temperature metamorphic field gradient in the Ivrea Zone (NW Italy). These rocks represent a well-characterised segment of Permian lower continental crust with a protracted high-temperature history. Cathodoluminescence images reveal that zircons in the mid-amphibolite facies preserve mainly detrital cores with narrow overgrowths. In the upper amphibolite and granulite facies, preserved detrital cores decrease and metamorphic zircon increases in quantity. Across all samples we document a sequence of four rim generations based on textures. U-Pb dates, Th/U ratios and Ti-in-zircon concentrations show an essentially continuous evolution with increasing metamorphic grade, except in the samples from the granulite facies, which display significant scatter in age and chemistry. We associate the observed decoupling of zircon systematics in high-grade non-metamict zircon with disturbance processes related to differences in behaviour of non-formula elements (i.e. Pb, Th, U, Ti) at high-temperature conditions, notably differences in compatibility within the crystal structure.

Evoked Potential in Panic Disorder Patients: A Systematic Review.

PubMed

Di Giorgio, Luiza Medeiros Wanick; Velasques, Bruna Brandao; Ribeiro, Pedro; Nardi, Antonio Egidio; de Carvalho, Marcele Regine

2015-01-01

Researchers have been using the electroencephalogram to better understand the cognitive and neurobiological bases of panic disorder (PD) through the P300 component; this is an electric potential of the cerebral cortex that is generated in response to external sensorial stimuli and which involves more complex neurophysiological processes related to stimulus interpretation; it is then used to investigate possible alterations in the information processing and attention of patients suffering from this disorder. Aiming to verify the results found by experimental articles already published about P300 in PD patients and the information processing differences between PD patients and healthy controls, a systematic review of the PubMed and Institute for Scientific Information databases was conducted. The selection criterion involved those articles, written in English, which referred to an experimental research that focused on the P300 component, with a sample composed of PD (or panic attacks) patients. Seven articles were found that fit the selected criteria. Most of the articles show that these patients suffer from: impaired information processing and attention, an inability to automatically respond to new stimuli, and impaired interpretation of internal and external stimuli related to the disorder. Such impairment may be related to an unspecified dysfunction in the limbic-reticular structures, which would affect: active, focused and short-term attention, working and short-term memory, recognition and decision making. Some limitations were highlighted, such as the use of small samples and possible comorbidity with other disorders, which did not allow clearer results. This research can contribute to understand the neurobiological differences of PD patients and develop treatments based on such evidence.

[Occupational exposure limits for polycyclic aromatic hydrocarbons. Current legal status and proposed changes].

PubMed

Brzeźnicki, Sławomir; Bonczarowska, Marzena; Gromiec, Jan P

2009-01-01

The evaluation of occupational exposure to polycyclic aromatic hydrocarbons (PAHs) in Poland is based on the results of measurements of their concentrations in workplace air compared to appropriate occupational exposure limits. The inconsistence in current regulations is the source of many interpretation-related problems. The objective of this work was to determine PAH concentrations in different technological processes and to analyze statistically the obtained data to indicate the presence (or absence) of differences between exposure indices calculated for 9 PAHs listed in the decree of the Minister of Labor and those (8 compounds) set by the Minister of Health. Air samples were collected during graphite electrode production, coke production, aluminum smelting, tire production and road paving. PAH concentrations in collected air samples were analyzed by HPLC. The obtained data calculated for each technological process indicate that indices of exposure based on 8 or 9 PAHs, taking into account their relative carcinogenicity, did not differ considerably and are not statistically different from exposure indices calculated for 11 PAHs. In view that the indices of exposure calculated for 8 and 9 compounds are not statistically different and that of all the PAHs listed in the decree of the Minister of Labor, two compounds are not classified as carcinogenic, it seems justified to substitute the latter by the list of compounds issued by the Minister of Health. The proposed modification should result in a better consistency of legal regulations without altering the quality of the occupational exposure evaluation. Furthermore, removing benzo(a)pyrene and dibenzo(ah)anthracene from the OEL list should solve the existing interpretation-related problems.

Multifractal magnetic susceptibility distribution models of hydrothermally altered rocks in the Needle Creek Igneous Center of the Absaroka Mountains, Wyoming

USGS Publications Warehouse

Gettings, M.E.

2005-01-01

Magnetic susceptibility was measured for 700 samples of drill core from thirteen drill holes in the porphyry copper-molybdenum deposit of the Stinkingwater mining district in the Absaroka Mountains, Wyoming. The magnetic susceptibility measurements, chemical analyses, and alteration class provided a database for study of magnetic susceptibility in these altered rocks. The distribution of the magnetic susceptibilities for all samples is multi-modal, with overlapping peaked distributions for samples in the propylitic and phyllic alteration class, a tail of higher susceptibilities for potassic alteration, and an approximately uniform distribution over a narrow range at the highest susceptibilities for unaltered rocks. Samples from all alteration and mineralization classes show susceptibilities across a wide range of values. Samples with secondary (supergene) alteration due to oxidation or enrichment show lower susceptibilities than primary (hypogene) alteration rock. Observed magnetic susceptibility variations and the monolithological character of the host rock suggest that the variations are due to varying degrees of alteration of blocks of rock between fractures that conducted hydrothermal fluids. Alteration of rock from the fractures inward progressively reduces the bulk magnetic susceptibility of the rock. The model introduced in this paper consists of a simulation of the fracture pattern and a simulation of the alteration of the rock between fractures. A multifractal model generated from multiplicative cascades with unequal ratios produces distributions statistically similar to the observed distributions. The reduction in susceptibility in the altered rocks was modelled as a diffusion process operating on the fracture distribution support. The average magnetic susceptibility was then computed for each block. For the purpose of comparing the model results with observation, the simulated magnetic susceptibilities were then averaged over the same interval as the measured data. Comparisons of the model and data from drillholes show good but not perfect agreement. ?? 2005 Author(s). This work is licensed under a Creative Commons License.

The effects of acid leaching on 40Ar/39Ar age dating results using samples from the Walvis Ridge hotspot trail

NASA Astrophysics Data System (ADS)

Klath, J. F.; Koppers, A. A.; Heaton, D. E.; Schnur, S.

2013-12-01

In this study we systematically explore how acid leaching can be used to reduce the negative effects of seawater alteration on the 40Ar/39Ar age dating of submarine basalts. Koppers et al (2000) showed that acid leaching of groundmass samples generated more consistent ages as well as ages more concordant with phenocrystic mineral phases, compared to samples that were left untreated. By studying the effects of progressively increasing the strength and length of acid treatment, we will show how acid leaching of groundmass separates reduces alteration while leaving the initial eruption signature intact. Samples were chosen from the Walvis ridge hotspot trail in the southeast Atlantic. Three samples were selected based on degree and style of alteration. Two samples (basalt and basaltic andesite) appear highly altered in thin section. The basalt contains diffuse iddingsite alteration that is pervasive throughout the groundmass. The basaltic andesite displays focused secondary mineral phases within and around abundant vesicles. The third sample, a trachyte, shows relatively minor degrees of alteration in thin section. These groundmass separates were divided into four splits and treated with a progressively stronger acid and for longer duration. One split from each rock was left untreated to act as a baseline. Of the other three splits from each sample, one was treated with a mild leach (1N HCl and 1N HNO3), one a strong leach (1N HCl, 1N HNO3, 6N HCl, and 3N HNO3), and lastly the strong leach performed twice. The samples were then handpicked to remove any remaining visible alteration. The untreated samples were picked as well, removing the most distinctly altered grains. All splits were analyzed by electron microprobe, x-ray fluorescence (XRF) and the incremental heating 40Ar/39Ar dating method. We will report on the results of an image analysis of microprobe backscatter images and elemental maps taken of individual groundmass grains. This analysis will show the location of alteration within the groundmass and how it is changing as acid leaching strength and duration progresses. We will discuss bulk composition comparisons as well as how depletions and enrichments vary amongst major and trace elements. Lastly, we will report 40Ar/39Ar step heating results, in particular K/Ca ratios and age spectra, to better understand the effect of leaching strength on the effective removal of groundmass alteration during 40Ar/39Ar age dating.

A new framework to enhance the interpretation of external validation studies of clinical prediction models.

PubMed

Debray, Thomas P A; Vergouwe, Yvonne; Koffijberg, Hendrik; Nieboer, Daan; Steyerberg, Ewout W; Moons, Karel G M

2015-03-01

It is widely acknowledged that the performance of diagnostic and prognostic prediction models should be assessed in external validation studies with independent data from "different but related" samples as compared with that of the development sample. We developed a framework of methodological steps and statistical methods for analyzing and enhancing the interpretation of results from external validation studies of prediction models. We propose to quantify the degree of relatedness between development and validation samples on a scale ranging from reproducibility to transportability by evaluating their corresponding case-mix differences. We subsequently assess the models' performance in the validation sample and interpret the performance in view of the case-mix differences. Finally, we may adjust the model to the validation setting. We illustrate this three-step framework with a prediction model for diagnosing deep venous thrombosis using three validation samples with varying case mix. While one external validation sample merely assessed the model's reproducibility, two other samples rather assessed model transportability. The performance in all validation samples was adequate, and the model did not require extensive updating to correct for miscalibration or poor fit to the validation settings. The proposed framework enhances the interpretation of findings at external validation of prediction models. Copyright © 2015 The Authors. Published by Elsevier Inc. All rights reserved.

Origin and evolution of mineralizing fluids and exploration of the Cerro Quema Au-Cu deposit (Azuero Peninsula, Panama) from a fluid inclusion and stable isotope perspective

USGS Publications Warehouse

Corral, Isaac; Cardellach, Esteve; Corbella, Merce; Canals, Angels; Griera, Albert; Gomez-Gras, David; Johnson, Craig A.

2017-01-01

Cerro Quema is a high sulfidation epithermal Au-Cu deposit with a measured, indicated and inferred resource of 35.98 Mt. @ 0.77 g/t Au containing 893,600 oz. Au (including 183,930 oz. Au equiv. of Cu ore). It is characterized by a large hydrothermal alteration zone which is interpreted to represent the lithocap of a porphyry system. The innermost zone of the lithocap is constituted by vuggy quartz with advanced argillic alteration locally developed on its margin, enclosed by a well-developed zone of argillic alteration, grading to an external halo of propylitic alteration. The mineralization occurs in the form of disseminations and microveinlets of pyrite, chalcopyrite, enargite, tennantite, and trace sphalerite, crosscut by quartz, barite, pyrite, chalcopyrite, sphalerite and galena veins.Microthermometric analyses of two phase (L + V) secondary fluid inclusions in igneous quartz phenocrysts in vuggy quartz and advanced argillically altered samples indicate low temperature (140–216 °C) and low salinity (0.5–4.8 wt% NaCl eq.) fluids, with hotter and more saline fluids identified in the east half of the deposit (Cerro Quema area).Stable isotope analyses (S, O, H) were performed on mineralization and alteration minerals, including pyrite, chalcopyrite, enargite, alunite, barite, kaolinite, dickite and vuggy quartz. The range of δ34S of sulfides is from − 4.8 to − 12.7‰, whereas δ34S of sulfates range from 14.1 to 17.4‰. The estimated δ34SΣS of the hydrothermal fluid is − 0.5‰. Within the advanced argillic altered zone the δ34S values of sulfides and sulfates are interpreted to reflect isotopic equilibrium at temperatures of ~ 240 °C. The δ18O values of vuggy quartz range from 9.0 to 17.5‰, and the δ18O values estimated for the vuggy quartz-forming fluid range from − 2.3 to 3.0‰, indicating that it precipitated from mixing of magmatic fluids with surficial fluids. The δ18O of kaolinite ranges from 12.7 to 18.1‰ and δD from − 103.3 to − 35.2‰, whereas the δ18O of dickite varies between 12.7 and 16.3‰ and δD from − 44 to − 30. Based on δ18O and δD, two types of kaolinite/dickite can be distinguished, a supergene type and a hypogene type. Combined, the analytical data indicate that the Cerro Quema deposit formed from magmatic-hydrothermal fluids derived from a porphyry copper-like intrusion located at depth likely towards the east of the deposit. The combination of stable isotope geochemistry and fluid inclusion analysis may provide useful exploration vectors for porphyry copper targets in the high sulfidation/lithocap environment.

Optical-Fiber Leak Detector

NASA Technical Reports Server (NTRS)

Workman, Gary L.; Kosten, Susan E.

1994-01-01

Proposed optical-fiber sensor detects small changes in pressure in elastomeric O-ring or similar pressure seal, which may indicate deterioration of seal and interpreted as indications of incipient failure. According to concept, length of optical fiber embedded in seal. Light-emitting diode illuminates one end of fiber; photodetector measures intensity of light emerging from other end. Pressure-induced changes in seal bend fiber slightly, altering microbending-induced loss of light from fiber and alter intensity of light at photodetector. Change in intensity approximately proportional to change in pressure.

Influence de l'alteration physique sur les caracteristiques physico-chimiques de monolithes de sols contamines traites par stabilisation/solidification au ciment

NASA Astrophysics Data System (ADS)

Remillard, Jonathan

The concern of contaminated sites is affecting millions of property owner worldwide. As they pose a risk to the environment, human health or impair the value of buildings, remediation of contaminated sites has become an everyday issue. Stabilization/solidification (S/S) of contaminated soils with cement is a remediation technology that was developed to confine contaminants that cannot be degraded biologically, chemically or thermally by other technologies. Soils treated with S/S form a monolith that can be valorized on site. However, this practice is fairly uncommon in Quebec and this reluctance is partly due to the risks of degradation of the monoliths and the lack of knowledge relative to the long-term behavior of altered monoliths. The objective of this project was to simulate these degradations on cement-based monoliths of contaminated soils treated with S/S technology by causing physical alterations using different cycles of freeze/thawing and drying/wetting, and then to study the impact of these alterations on the mass losses, compressive strength, hydraulic conductivity, pH and leachability of five trace metals (Cd, Cr, Cu, Pb and Zn) used as contaminants. Various processes of S/S have been studied, either cement contents of 15 and 20%, then the presence of 5% by weight of calcium carbonate. For each S/S process formulated, the freeze/thaw cycles were much more effective in physically altering the monoliths. These alterations were mainly reflected by lower compressive strength, even more with lower cement contents. For their part, the drying/wetting cycles rather created a chemical change that lowered the pH of the monoliths. These chemical changes also affected the interpretation of leaching test results, especially for copper and zinc, since it was difficult to attribute effects to either physical or chemical alterations. The results showed that only chromium leached more clearly in response to physical alterations. All other elements studied were little affected, even though some samples were highly altered. This demonstrates that in some cases, damages may have little impact on long-term performance of the monoliths in terms of contaminant immobilization. However, integrating the study of long-term behaviors of monoliths in a process of formulation for contaminated soil treatment with S/S can become paramount, as seen for chromium in this present study. Keywords: stabilization / solidification, deterioration, alteration, leachability, contaminants.

Research on the adaptation of skeletal muscle to hypogravity: Past and future directions

NASA Astrophysics Data System (ADS)

Riley, D. A.; Ellis, S.

Our current understanding of hypogravity-induced atrophy of skeletal muscles is based primarily on studies comparing pre- and post-flight properties of muscles. Interpretations are necessarily qualified by the assumption that the stress of reentry and readjustment to terrestrial gravity do not alter the parameters being analyzed. The neuromuscular system is highly responsive to changes in functional demands and capable of rapid adaptation, making this assumption questionable. A reexamination of the changes in the connective tissue and synaptic terminals of soleus muscles from rats orbited in biosatellites and sampled postflight indicates that these structural alterations represent adaptative responses of the atrophic muscles to the increased workload of returning to 1 G, rather than hypogravity per se. The atrophy of weightlessness is postulated to result because muscles are both underloaded and used less often. Proper testing of this hypothesis requires quantitation of muscle function by monitoring electromyography, force output and length changes during the flight. Experiments conducted in space laboratories, like those being developed for the Space Shuttle, will avoid the complications of reentry before tissue sampling and allow time course studies of the rate of development of adaptive changes to zero gravity. Another area of great importance for future studies of muscle atrophy is inflight measurement of plasma levels of hormones and tissue receptor levels. Glucocorticoids, thyroid hormone and insulin exert dramatic regulatory influences on muscle structure. Prevention of neuromuscular atrophy becomes increasingly more important as spaceflights increase in duration. Definition of the atrophic mechanism is essential to developing means of preventing neuromuscular atrophy.

Semantic segmentation of mFISH images using convolutional networks.

PubMed

Pardo, Esteban; Morgado, José Mário T; Malpica, Norberto

2018-04-30

Multicolor in situ hybridization (mFISH) is a karyotyping technique used to detect major chromosomal alterations using fluorescent probes and imaging techniques. Manual interpretation of mFISH images is a time consuming step that can be automated using machine learning; in previous works, pixel or patch wise classification was employed, overlooking spatial information which can help identify chromosomes. In this work, we propose a fully convolutional semantic segmentation network for the interpretation of mFISH images, which uses both spatial and spectral information to classify each pixel in an end-to-end fashion. The semantic segmentation network developed was tested on samples extracted from a public dataset using cross validation. Despite having no labeling information of the image it was tested on, our algorithm yielded an average correct classification ratio (CCR) of 87.41%. Previously, this level of accuracy was only achieved with state of the art algorithms when classifying pixels from the same image in which the classifier has been trained. These results provide evidence that fully convolutional semantic segmentation networks may be employed in the computer aided diagnosis of genetic diseases with improved performance over the current image analysis methods. © 2018 International Society for Advancement of Cytometry. © 2018 International Society for Advancement of Cytometry.

Neoproterozoic cap-dolostone deposition in stratified glacial meltwater plume

NASA Astrophysics Data System (ADS)

Liu, Chao; Wang, Zhengrong; Raub, Timothy D.; Macdonald, Francis A.; Evans, David A. D.

2014-10-01

Neoproterozoic cap carbonates host distinctive geochemical and sedimentological features that reflect prevailing conditions in the aftermath of Snowball Earth. Interpretation of these features has remained contentious, with hypotheses hinging upon timescale and synchronicity of deposition, and whether or not geochemical signatures of cap carbonates represent those of a well-mixed ocean. Here we present new high-resolution Sr and Mg isotope results from basal Ediacaran cap dolostones in South Australia and Mongolia. Least-altered Sr and Mg isotope compositions of carbonates are identified through a novel incremental leaching technique that monitors the purity of a carbonate sample and the effects of diagenesis. These data can be explained by the formation of these cap dolostones involving two chemically distinct solutions, a glacial meltwater plume enriched in radiogenic Sr, and a saline ocean residue with relatively lower 87Sr/86Sr ratios. Model simulations suggest that these water bodies remained dynamically stratified during part of cap-dolostone deposition, most likely lasting for ∼8 thousand years. Our results can potentially reconcile previous conflicts between timescales estimated from physical mixing models and paleomagnetic constraints. Geochemical data from cap carbonates used to interpret the nature of Snowball Earth and its aftermath should be recast in terms of a chemically distinct meltwater plume.

Development of gypsum alteration on marble and limestone

USGS Publications Warehouse

McGee, E.S.

1996-01-01

Blackened alteration crusts of gypsum plus particulates that form on sheltered areas on marble and limestone buildings pose a challenge for rehabilitation and cleaning. Fresh marble and limestone samples exposed at monitored exposure sites present conditions of simple geometry and well-documented exposures but have short exposure histories (one to five years). The gypsum alteration crusts that develop on these samples provide insight into the early stages and rate of alteration crust formation. Alteration crusts from buildings give a longer, but less well known exposure history and present much more complex surfaces for gypsum accumulation. Integrated observations and measurements of alteration crusts from exposure samples and from buildings identify four factors that are important in the formation and development of alteration crusts on marble and limestone: (1) pollution levels, (2) exposure to rain or washing, (3) geometry of exposure of the stone surface, and (4) permeability of the stone. The combination of these factors contributes to both the distribution and the physical characteristics of the gypsum crusts which may affect cleaning decisions.

The age and thermal history of Cerro Rico de Potosi, Bolivia

USGS Publications Warehouse

Cunningham, C.G.; Zartman, R.E.; McKee, E.H.; Rye, R.O.; Naeser, C.W.; Sanjines, V.O.; Ericksen, G.E.; Tavera, V.F.

1996-01-01

Cerro Rico de Potosi, Bolivia, is the world's largest silver deposit and has been mined since the sixteenth century for silver, and for tin and zinc during the twentieth century, together with by-product copper and lead. The deposit consists primarily of veins that cut an altered igneous body that we interpret to be a dacitic volcanic dome and its underlying tuff ring and explosion breccia. The deposit is compositionally and thermally zoned, having a core of cassiterite, wolframite, bismuthinite, and arsenopyrite surrounded by a peripheral, lower-temperature mineral assemblage consisting principally of sphalerite, galena, lead sulfosalt, and silver minerals. The low-temperature assemblage also was superim-posed on the high-temperature assemblage in response to cooling of the main hydrothermal system. Both the dacite dome and the ore fluids were derived from a larger magmatic hydrothermal source at depth. The dome was repeatedly fractured by recurrent movement on the fault system that guided its initial emplacement. The dome was extruded at 13.8 ?? 0.2 Ma (2??), based on U-Th-Pb dating of zircon. Mineralization and alteration occurred within about 0.3 my of dome emplacement, as indicated by a 40Ar/39Ar date of 13.76 ?? 0.10 Ma (1??) for sericite from the pervasive quartz-sericite-pyrite alteration associated with the main-stage, high-temperature, mineralization. The last thermal event able to reset zircon fission tracks occurred no later than 12.5 ?? 1.1 Ma (1??). as indicated by fission-tract dating. Minor sericite. and magmatic-steam alunite veins, were episodically formed around 11 Ma and between 8.3 and 5.7 Ma; the younger episodes occurring at the time of extensional fracturing at Cerro Rico and widespread volcanism in the adjacent Los Frailes volcanic field. None of these younger events appear to be signific-ant thermal/mineralizing events: the exceptionally flat thermal release pattern of 39Ar from sericite and the results of the fission-tract dating of zircon show that none of the younger events was hot enough, and lasted long enough, to cause significant loss of Ar or annealing of zircon fission tracks. U-Th-Pb dating of zircon cores dicates a Precambrian progenitor for some zircons, and REE analyses of dated samples of hydrothermally altered dacite show the presence of a prominent positive Eu anomaly, which constrains interpretations of the origin and evolution of the magmatic/hydrothermal system.

Strontium Isotopes of Gaskiers Cap Carbonate, Avalon, Newfoundland: Sequential Digestion Aids Interpretation of Petrologic Complexity

NASA Astrophysics Data System (ADS)

Tang, T.; Raub, T. D.; Wang, Z.

2013-12-01

Strontium isotope chemostratigraphy in limestones appear to track a near monotonic rising trend from the tail of the breakup of the supercontinent Rodinia at ~750 Ma into the latest Ediacaran Period at ~ 550 Ma (Halverson et al., 2007). This offers a potentially powerful tool to date carbonates occurring within this time period of stepwise environmental oxidation. Furthermore, aspects of the Snowball Earth hypothesis predict that some magnitude of 87Sr/86Sr excursions of seawater is expected at multiple intervals during this time, because balancing influences from prolonged synglacial hydrothermal input in entombed oceans, deglacial freshwater plumes of varying temperature and salinity, and enhanced postglacial silicate weathering from the continents can leave multiple isotopic trends plausible during these critical intervals. The positions of these deglaciations appear to correlate specifically to marine oxidation events, with cause/effect relations still under investigation. To capitalize on all of these interpretive possibilities, it is crucial to establish a high-precision and high-resolution strontium chemostratigraphic record over both short and long timescales. However, difficulties in establishing such a record based on carbonates are associated with 1) diagenetic influence over extensive geological time; and 2) petrologic complexities of the studied samples. Using a sequential digestion technique, Liu et al. (2013) demonstrated that these hurdles can be overcome, and that primary 87Sr/86Sr ratios of contemporaneous seawater can be obtained from Marinoan cap dolostones (~635 Ma), which have considerably less Sr than limestones, and whose Sr isotope compositions are commonly ignored in the strontium chemostratigraphic record. This leads to several viable, specific interpretations about the origin of Marinoan cap carbonate: either 1) very fast deposition; 2) slow deposition in a long-Sr-residence-time ocean; 3) mid-cap deposition in a freshwater "Glacial Lake Harland" of high-Ca, Sr composition; or 4) brine-influenced diagenesis exploiting specific horizons in the cap. As a broader implication, many extant Sr-isotope chemostratigraphies of Marinoan cap carbonate may be inaccurate, and in general, recrystallized impure (and low-Sr) carbonates, and dolomites in particular, are probably best studied with the serial digestion technique. We apply this sequential digestion technique to another Ediacaran cap carbonate with significant siliciclastic content, the anomalous cap limestone synchronous with deglaciation of ~581 Ma Gaskiers ice age in Newfoundland's Avalon zone. Although some textural and compositional differences exist between ~635 Ma Nuccaleena and ~581 Ma Gaskiers cap, the sequential digestion technique again appears to provide clarity by suggesting less-altered and more-altered fractions from various sample levels. We will discuss implications for the nature of Gaskiers glaciation and accompanying environmental oxidation, its global correlations, and the utility of the existing Ediacaran Sr-chemostratigraphic reference curve.

Geochemical Comparison of Four Cores from the Manson Impact Structure

NASA Technical Reports Server (NTRS)

Korotev, Randy L.; Rockow, Kaylynn M.; Jolliff, Bradley L.; Haskin, Larry A.; McCarville, Peter; Crossey, Laura J.

1996-01-01

Concentrations of 33 elements were determined in relatively unaltered, matrix-rich samples of impact breccia at approximately 3-m-depth intervals in the M-1 core from the Manson impact structure, Iowa. In addition, 46 matrix-rich samples from visibly altered regions of the M-7, M-8, and M-10 cores were studied, along with 42 small clasts from all four cores. Major element compositions were determined for a subset of impact breccias from the M-1 core, including matrix-rich impact-melt breccia. Major- and trace-element compositions were also determined for a suite of likely target rocks. In the M-1 core, different breccia units identified from lithologic examination of cores are compositionally distinct. There is a sharp compositional discontinuity at the boundary between the Keweenawan-shale-clast breccia and the underlying unit of impact-melt breccia (IMB) for most elements, suggesting minimal physical mixing between the two units during emplacement. Samples from the 40-m-thick IMB (M-1) are all similar to each other in composition, although there are slight increases in concentration with depth for those elements that have high concentrations in the underlying fragmental-matrix suevite breccia (SB) (e.g., Na, Ca, Fe, Sc), presumably as a result of greater clast proportions at the bottom margin of the unit of impact-melt breccia. The high degree of compositional similarity we observe in the impact-melt breccias supports the interpretation that the matrix of this unit represents impact melt. That our analyses show such compositional similarity results in part from our technique for sampling these breccias: for each sample we analyzed a few small fragments (total mass: approximately 200 mg) selected to be relatively free of large clasts and visible signs of alteration instead of subsamples of powders prepared from a large mass of breccia. The mean composition of the matrix-rich part of impact-melt breccia from the M-1 core can be modeled as a mixture of approximately 35% shale and siltstone (Proterozoic "Red Clastics"), 23% granite, 40% hornblende-biotite gneiss, and a small component (less than 2%) of mafic-dike rocks.

Investigation to develop a multistage forest sampling inventory system using ERTS-1 imagery

NASA Technical Reports Server (NTRS)

Langley, P. G.; Vanroessel, J. W. (Principal Investigator); Wert, S. L.

1975-01-01

The author has identified the following significant results. The annotation system produced a RMSE of about 200 m ground distance in the MSS data system with the control data used. All the analytical MSS interpretation models tried were highly significant. However, the gains in forest sampling efficiency that can be achieved by using the models vary from zero to over 50 percent depending on the area to which they are applied and the sampling method used. Among the sampling methods tried, regression sampling yielded substantial and the most consistent gains. The single most significant variable in the interpretation model was the difference between bands 5 and 7. The contrast variable, computed by the Hadamard transform was significant but did not contribute much to the interpretation model. Forest areas containing very large timber volumes because of large tree sizes were not separable from areas of similar crown cover but containing smaller trees using ERTS image interpretation only. All correlations between space derived timber volume predictions and estimates obtained from aerial and ground sampling were relatively low but significant and stable. There was a much stronger relationship between variables derived from MSS and U2 data than between U2 and ground data.

Geographic and stratigraphic distribution of coastal Quaternary aminozones across the Cape Fear Arch, U. S. Atlantic Geology Coastal Plain

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

Wehmiller, J.F.; York, L.L.; Krantz, D.E.

1992-01-01

The interpretation of the regional aminostratigraphy of Coastal Plain Quaternary units from North and South Carolina is potentially affected by sampling biases, variable preservation of coastal records, reoccupation of coastal environments by multiple transgressions, geochemical alteration of samples, variable thermal histories of specific samples, and intergeneric and interlaboratory differences in analytical results.Two primary models for the correlation of emergent Coastal Plain units diverge significantly in southeastern North Carolina. New data from fresh exposure (1990--1991) at emergent sites between Wilmington, NC and Charleston, SC, from previous onshore collections in this region, and from submergent samples between Cape Lookout, NC and Capemore » Romain, SC provide insight into the nature of these correlation issues. Although sampling of the area is not uniform, these results fill a major gap between regions of previous aminostratigraphy study. Inferred early-to-middle Pleistocene aminozones dominate the emergent coastal region between Cape Lookout and Romain, and late Pleistocene aminozones in this area are represented by subsurface samples beneath barrier islands or in shallow inner shelf cores, but have not been found onshore. A map view of the distribution of aminozones along the coast between northeastern NC and central SC mimics that of pre-Quaternary units that thin or disappear over the axis of the Cape Fear Arch, suggesting that the sampled Quaternary record reflects the combination of processes responsible for the preservation of the pre-Quaternary record. This perspective should provide a model for resolution of various geochronological controversies that have arisen because of limited stratigraphic or geochemical data.« less

Dependence of B1+ and B1- Field Patterns of Surface Coils on the Electrical Properties of the Sample and the MR Operating Frequency.

PubMed

Vaidya, Manushka V; Collins, Christopher M; Sodickson, Daniel K; Brown, Ryan; Wiggins, Graham C; Lattanzi, Riccardo

2016-02-01

In high field MRI, the spatial distribution of the radiofrequency magnetic ( B 1 ) field is usually affected by the presence of the sample. For hardware design and to aid interpretation of experimental results, it is important both to anticipate and to accurately simulate the behavior of these fields. Fields generated by a radiofrequency surface coil were simulated using dyadic Green's functions, or experimentally measured over a range of frequencies inside an object whose electrical properties were varied to illustrate a variety of transmit [Formula: see text] and receive [Formula: see text] field patterns. In this work, we examine how changes in polarization of the field and interference of propagating waves in an object can affect the B 1 spatial distribution. Results are explained conceptually using Maxwell's equations and intuitive illustrations. We demonstrate that the electrical conductivity alters the spatial distribution of distinct polarized components of the field, causing "twisted" transmit and receive field patterns, and asymmetries between [Formula: see text] and [Formula: see text]. Additionally, interference patterns due to wavelength effects are observed at high field in samples with high relative permittivity and near-zero conductivity, but are not present in lossy samples due to the attenuation of propagating EM fields. This work provides a conceptual framework for understanding B 1 spatial distributions for surface coils and can provide guidance for RF engineers.

Assessing contamination in Great Lakes sediments using benthic invertebrate communities and the sediment quality triad approach

USGS Publications Warehouse

Canfield, Timothy J.; Dwyer, F. James; Fairchild, James F.; Haverland, Pamela S.; Ingersoll, Christopher G.; Kemble, Nile E.; Mount, David R.; La Point, Thomas W.; Burton, G. Allen; Swift, M. C.

1996-01-01

Sediments in many Great Lakes harbors and tributary rivers are contaminated. As part of the USEPA's Assessment and Remediation of Contaminated Sediment (ARCS) program, a number of studies were conducted to determine the nature and extent of sediment contamination in Great Lakes Areas of Concern (AOC). This paper describes the composition of benthic invertebrate communities in contaminated sediments and is one in a series of papers describing studies conducted to evaluate sediment toxicity from three AOC's (Buffalo River, NY; Indiana Harbor, IN; Saginaw River, MI), as part of the ARCS Program. Oligochaeta (worms) and Chironomidae (midge) comprised over 90% of the benthic invertebrate numbers in samples collected from depositional areas. Worms and midge consisted of taxa identified as primarily contaminant tolerant organisms. Structural deformities of mouthparts in midge larvae were pronounced in many of the samples. Good concurrence was evident between measures of laboratory toxicity, sediment contaminant concentration, and benthic invertebrate community composition in extremely contaminated samples. However, in moderately contaminated samples, less concordance was observed between the benthos community composition and either laboratory toxicity test results or sediment contaminant concentration. Laboratory sediment toxicity tests may better identify chemical contamination in sediments than many commonly used measures of benthic invertebrate community composition. Benthic measures may also reflect other factors such as habitat alteration. Evaluation of non-contaminant factors are needed to better interpret the response of benthic invertebrates to sediment contamination.

Preservation of REE and Fe isotopes in altered stromatolites and the paleo-environmental record

NASA Astrophysics Data System (ADS)

Nies, S. M.; Shapiro, R. S.; Lalonde, S.

2015-12-01

Geochemical proxies are increasingly being used to unravel ancient ecosystems and environmental perturbations back to the earliest rock record on Earth. Along with more traditional fossils (stromatolites) and other biosignatures (e.g., lipids), the geochemical record is used specifically to evaluate biogenecity and to understand oxygenation of the atmosphere and ocean in the Archean and Paleoproterozoic. However, the effects of diagenesis, metamorphism, and other modes of secondary alteration are still poorly constrained, particularly as technological advances allow us to expand farther across the periodic table. Our study focused on the robustness and preservation of rare earth element (REE) and Fe isotope compositions of two stromatolitic units that have undergone contact and regional metamorphism. 18 samples were collected from cores, open pit mines, and field locations in Minnesota and Ontario from silicified iron formation (Biwabik-Gunflint formations). The samples were carefully constrained to one of two meter-scale stromatolitic units. Metamorphic grade ranged from essentially unmetamorphosed through prehnite-pumpellyite up to amphibolite (fayalite+hypersthene). Samples were also collected that represented deep secondary weathering, likely related to Cretaceous climatic extremes. Polished samples were first analyzed by electron microprobe and selected samples were further analyzed via laser ablation HR-ICP-MS to constrain trace element (n=13) and Fe isotopic variations (n=8). Preliminary results indicate that transition metal concentrations are surprisingly resilient to high-temperature metamorphic recrystallization. REE concentrations were analyzed in individual iron oxide grains, with full resolution (La to Lu) achieved for some samples and partial resolution (La to Nd) achieved for all samples. Core samples exhibited a relatively stable positive Ce anomaly occurring from low to extremely high alteration. Outcrop and mine samples indicate a shift from a negative Ce anomaly in less altered samples, to a positive Ce anomaly in highly altered samples. Collectively, our results imply that caution is warranted when making paleo-environmental inferences from samples with significantly different alteration histories.

Radar-Enabled Recovery of the Sutter’s Mill Meteorite, a Carbonaceous Chondrite Regolith Breccia

NASA Astrophysics Data System (ADS)

Jenniskens, Peter; Fries, Marc D.; Yin, Qing-Zhu; Zolensky, Michael; Krot, Alexander N.; Sandford, Scott A.; Sears, Derek; Beauford, Robert; Ebel, Denton S.; Friedrich, Jon M.; Nagashima, Kazuhide; Wimpenny, Josh; Yamakawa, Akane; Nishiizumi, Kunihiko; Hamajima, Yasunori; Caffee, Marc W.; Welten, Kees C.; Laubenstein, Matthias; Davis, Andrew M.; Simon, Steven B.; Heck, Philipp R.; Young, Edward D.; Kohl, Issaku E.; Thiemens, Mark H.; Nunn, Morgan H.; Mikouchi, Takashi; Hagiya, Kenji; Ohsumi, Kazumasa; Cahill, Thomas A.; Lawton, Jonathan A.; Barnes, David; Steele, Andrew; Rochette, Pierre; Verosub, Kenneth L.; Gattacceca, Jérôme; Cooper, George; Glavin, Daniel P.; Burton, Aaron S.; Dworkin, Jason P.; Elsila, Jamie E.; Pizzarello, Sandra; Ogliore, Ryan; Schmitt-Kopplin, Phillipe; Harir, Mourad; Hertkorn, Norbert; Verchovsky, Alexander; Grady, Monica; Nagao, Keisuke; Okazaki, Ryuji; Takechi, Hiroyuki; Hiroi, Takahiro; Smith, Ken; Silber, Elizabeth A.; Brown, Peter G.; Albers, Jim; Klotz, Doug; Hankey, Mike; Matson, Robert; Fries, Jeffrey A.; Walker, Richard J.; Puchtel, Igor; Lee, Cin-Ty A.; Erdman, Monica E.; Eppich, Gary R.; Roeske, Sarah; Gabelica, Zelimir; Lerche, Michael; Nuevo, Michel; Girten, Beverly; Worden, Simon P.

2012-12-01

Doppler weather radar imaging enabled the rapid recovery of the Sutter’s Mill meteorite after a rare 4-kiloton of TNT-equivalent asteroid impact over the foothills of the Sierra Nevada in northern California. The recovered meteorites survived a record high-speed entry of 28.6 kilometers per second from an orbit close to that of Jupiter-family comets (Tisserand’s parameter = 2.8 ± 0.3). Sutter’s Mill is a regolith breccia composed of CM (Mighei)-type carbonaceous chondrite and highly reduced xenolithic materials. It exhibits considerable diversity of mineralogy, petrography, and isotope and organic chemistry, resulting from a complex formation history of the parent body surface. That diversity is quickly masked by alteration once in the terrestrial environment but will need to be considered when samples returned by missions to C-class asteroids are interpreted.

Reactive solute transport in acidic streams

USGS Publications Warehouse

Broshears, R.E.

1996-01-01

Spatial and temporal profiles of Ph and concentrations of toxic metals in streams affected by acid mine drainage are the result of the interplay of physical and biogeochemical processes. This paper describes a reactive solute transport model that provides a physically and thermodynamically quantitative interpretation of these profiles. The model combines a transport module that includes advection-dispersion and transient storage with a geochemical speciation module based on MINTEQA2. Input to the model includes stream hydrologic properties derived from tracer-dilution experiments, headwater and lateral inflow concentrations analyzed in field samples, and a thermodynamic database. Simulations reproduced the general features of steady-state patterns of observed pH and concentrations of aluminum and sulfate in St. Kevin Gulch, an acid mine drainage stream near Leadville, Colorado. These patterns were altered temporarily by injection of sodium carbonate into the stream. A transient simulation reproduced the observed effects of the base injection.

Reliability reporting across studies using the Buss Durkee Hostility Inventory.

PubMed

Vassar, Matt; Hale, William

2009-01-01

Empirical research on anger and hostility has pervaded the academic literature for more than 50 years. Accurate measurement of anger/hostility and subsequent interpretation of results requires that the instruments yield strong psychometric properties. For consistent measurement, reliability estimates must be calculated with each administration, because changes in sample characteristics may alter the scale's ability to generate reliable scores. Therefore, the present study was designed to address reliability reporting practices for a widely used anger assessment, the Buss Durkee Hostility Inventory (BDHI). Of the 250 published articles reviewed, 11.2% calculated and presented reliability estimates for the data at hand, 6.8% cited estimates from a previous study, and 77.1% made no mention of score reliability. Mean alpha estimates of scores for BDHI subscales generally fell below acceptable standards. Additionally, no detectable pattern was found between reporting practices and publication year or journal prestige. Areas for future research are also discussed.

Ostwald ripening and interparticle-diffraction effects for illite crystals

USGS Publications Warehouse

Eberl, D.D.; Srodon, J.

1988-01-01

The Warren-Averbach method, an X-ray diffraction (XRD) method used to measure mean particle thickness and particle-thickness distribution, is used to restudy sericite from the Silverton caldera. Apparent particle-thickness distributions indicate that the clays may have undergone Ostwald ripening and that this process has modified the K-Ar ages of the samples. The mechanism of Ostwald ripening can account for many of the features found for the hydrothermal alteration of illite. Expandabilities measured by the XRD peak-position method for illite/smectites (I/S) from various locations are smaller than expandabilities measured by transmission electron microscopy (TEM) and by the Warren-Averbach (W-A) method. This disparity is interpreted as being related to the presence of nonswelling basal surfaces that form the ends of stacks of illite particles (short-stack effect), stacks that, according to the theory of interparticle diffraction, diffract as coherent X-ray scattering domains. -from Authors

Biological substrates of schizophrenia.

PubMed

Kovelman, J A; Scheibel, A B

1986-01-01

Schizophrenia is increasingly believed to represent a group of organic disorders which primarily, although not exclusively, affect the central nervous system. Our purpose is to review a representative sample of twentieth-century literature which speaks to the biological substrates of the syndrome. Subjects reviewed include genetic and environmental contributions to the onset of illness, early and recent findings of gross structural anomalies, and apparent histopathological alterations in cerebral cortex, cerebellar vermis, limbic system, and brain stem, as well as problems of cerebral asymmetry. Data from a diverse group of electrophysiological studies reveal several promising correlates of these areas of investigation. Despite the inconsistent nature of the findings to date, several themes have begun to emerge, including patterns of hypofrontal/hyperparietal regional cerebral flow and glucose utilization, left hemispheric dysfunction, and deficits of interhemispheric information processing. The interpretation and significance of these emerging patterns remains unclear and must await more profound insights into the nature of normal and abnormal cerebral function.

Tailoring the photoluminescence polarization anisotropy of a single InAs quantum dash by a post-growth modification of its dielectric environment

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

Mrowiński, P.; Misiewicz, J.; Sęk, G.

Excitonic emission from single InAs/InGaAlAs/InP quantum dashes has been investigated in terms of controlling the polarization anisotropy by altering the shape of the processed sub-micrometer mesa structures. Photoluminescence has been measured from exemplary single quantum dashes emitting around 1.3 and 1.55 μm and placed inside rectangular mesas of various orientation, asymmetry, and sizes. The detected degree of linear polarization of bright exciton emission ranges from −0.1 to ca. 0.55, compared to 0.25 for dashes in unaltered or isotropic in-plane dielectric surrounding. These results are interpreted by numerical simulations using an emitter coupled with a single optical mode in such a mesamore » and outgoing in the direction normal to the sample surface.« less

Effects of hydrothermal alteration on the magnetic mineralogy of mid-ocean ridge basalts, IODP Site 1301B, Juan de Fuca Ridge

NASA Astrophysics Data System (ADS)

Linville, L. M.; Housen, B.; Sager, W.

2005-12-01

Pairs of young (3.5 Ma) altered and unaltered MORB from the Juan de Fuca Ridge collected from IODP Expedition 301, Hole 1301B were studied to better understand how hydrothermal alteration affects the magnetization of oceanic crust. Thermomagnetic analysis (performed with both a VSM and Kappabridge) revealed characteristically different Curie temperatures and degree of non-reversibility between altered and unaltered samples. Magnetic contributions outlined by these methods, in addition to IRM and hysteresis parameters, indicate that samples are dominated by single domain titanomagnetite and titanomaghemite, with a titanium content of approximately TM45. Petrological analysis with a SEM confirmed the presence of abundant Fe-Ti oxides. Despite the preponderance of titanomagnetite in unaltered samples, shrinkage cracks, which offer direct evidence of maghemitization, were seen in both altered and unaltered samples, indicating (as do irreversible cooling curves for all samples) that even supposedly unaltered samples have undergone some degree of low temperature oxidation. Preliminary paleomagnetic data in related samples indicates normal polarity and inclinations that are approximately what is expected for this site. The samples also exhibit both streaked and well defined, non-streaked magnetizations. This study intends to utilize the information obtained by procedures described above to test for correlations between characteristic magnetization directions and degree of oxidation, in order to further our understanding of the effect maghemitization has on the paleomagnetism of oceanic rocks.

Interpretation of the FGF8 morphogen gradient is regulated by endocytic trafficking.

PubMed

Nowak, Matthias; Machate, Anja; Yu, Shuizi Rachel; Gupta, Mansi; Brand, Michael

2011-02-01

Forty years ago, it was proposed that during embryonic development and organogenesis, morphogen gradients provide positional information to the individual cells within a tissue leading to specific fate decisions. Recently, much insight has been gained into how such morphogen gradients are formed and maintained; however, which cellular mechanisms govern their interpretation within target tissues remains debated. Here we used in vivo fluorescence correlation spectroscopy and automated image analysis to assess the role of endocytic sorting dynamics on fibroblast growth factor 8 (Fgf8) morphogen gradient interpretation. By interfering with the function of the ubiquitin ligase Cbl, we found an expanded range of Fgf target gene expression and a delay of Fgf8 lysosomal transport. However, the extracellular Fgf8 morphogen gradient remained unchanged, indicating that the observed signalling changes are due to altered gradient interpretation. We propose that regulation of morphogen signalling activity through endocytic sorting allows fast feedback-induced changes in gradient interpretation during the establishment of complex patterns.

Medico-economic evaluation of healthcare products. Methodology for defining a significant impact on French health insurance costs and selection of benchmarks for interpreting results.

PubMed

Dervaux, Benoît; Baseilhac, Eric; Fagon, Jean-Yves; Biot, Claire; Blachier, Corinne; Braun, Eric; Debroucker, Frédérique; Detournay, Bruno; Ferretti, Carine; Granger, Muriel; Jouan-Flahault, Chrystel; Lussier, Marie-Dominique; Meyer, Arlette; Muller, Sophie; Pigeon, Martine; De Sahb, Rima; Sannié, Thomas; Sapède, Claudine; Vray, Muriel

2014-01-01

Decree No. 2012-1116 of 2 October 2012 on medico-economic assignments of the French National Authority for Health (Haute autorité de santé, HAS) significantly alters the conditions for accessing the health products market in France. This paper presents a theoretical framework for interpreting the results of the economic evaluation of health technologies and summarises the facts available in France for developing benchmarks that will be used to interpret incremental cost-effectiveness ratios. This literature review shows that it is difficult to determine a threshold value but it is also difficult to interpret then incremental cost effectiveness ratio (ICER) results without a threshold value. In this context, round table participants favour a pragmatic approach based on "benchmarks" as opposed to a threshold value, based on an interpretative and normative perspective, i.e. benchmarks that can change over time based on feedback. © 2014 Société Française de Pharmacologie et de Thérapeutique.

Fracturing, fluid-rock interaction and mineralisation during the seismic cycle along the Alpine Fault

NASA Astrophysics Data System (ADS)

Williams, Jack N.; Toy, Virginia G.; Smith, Steven A. F.; Boulton, Carolyn

2017-10-01

The Alpine Fault has a <50 m wide geochemically distinct hanging-wall alteration zone. Using a combination of petrological and cathodoluminescence (CL) microscopy, Energy Dispersive Spectroscopy and X-ray diffraction, we document the habitat and mineralising phases of macro- and micro-fractures within the alteration zone using samples derived from outcrop and the Deep Fault Drilling Project. Veins predominantly contain calcite, chlorite, K-feldspar or muscovite. Gouge-filled fractures are also observed and reflect filling from mechanical wear and chlorite mineralisation. CL imaging suggests that each calcite vein was opened and sealed in one episode, possibly corresponding to a single seismic cycle. The thermal stability of mineralising phases and their mutually cross-cutting relationships indicates a cyclic history of fracture opening and mineralisation that extends throughout the seismogenic zone. Cataclasites contain intragranular veins that are hosted within quartzofeldspathic clasts, as well as veins that cross-cut clasts and the surrounding matrix. Intragranular calcite veins formed prior to or during cataclasis. Cross-cutting veins are interpreted to have formed by fracturing of relatively indurated cataclasites after near-surface slip localisation within the Alpine Fault's principal slip zone gouges (PSZs). These observations clearly demonstrate that shear strain is most localised in the shallowest part of the seismogenic zone.

Comparison of Carbon XANES Spectra from an Iron Sulfide from Comet Wild 2 with an Iron Sulfide Interplanetary Dust Particle

NASA Technical Reports Server (NTRS)

Wirick, S.; Flynn, G. J.; Keller, L. P.; Sanford, S. A.; Zolensky, M. E.; Messenger, Nakamura K.; Jacobsen, C.

2008-01-01

Among one of the first particles removed from the aerogel collector from the Stardust sample return mission was an approx. 5 micron sized iron sulfide. The majority of the spectra from 5 different sections of this particle suggests the presence of aliphatic compounds. Due to the heat of capture in the aerogel we initially assumed these aliphatic compounds were not cometary but after comparing these results to a heated iron sulfide interplanetary dust particle (IDP) we believe our initial interpretation of these spectra was not correct. It has been suggested that ice coating on iron sulfides leads to aqueous alteration in IDP clusters which can then lead to the formation of complex organic compounds from unprocessed organics in the IDPs similar to unprocessed organics found in comets [1]. Iron sulfides have been demonstrated to not only transform halogenated aliphatic hydrocarbons but also enhance the bonding of rubber to steel [2,3]. Bromfield and Coville (1997) demonstrated using Xray photoelectron spectroscopy that "the surface enhancement of segregated sulfur to the surface of sulfided precipitated iron catalysts facilitates the formation of a low-dimensional structure of extraordinary properties" [4]. It may be that the iron sulfide acts in some way to protect aliphatic compounds from alteration due to heat.

Proceedings of the 40th Lunar and Planetary Science Conference

NASA Technical Reports Server (NTRS)

2009-01-01

The 40th Lunar and Planetary Science Conference included sessions on: Phoenix: Exploration of the Martian Arctic; Origin and Early Evolution of the Moon; Comet Wild 2: Mineralogy and More; Astrobiology: Meteorites, Microbes, Hydrous Habitats, and Irradiated Ices; Phoenix: Soil, Chemistry, and Habitability; Planetary Differentiation; Presolar Grains: Structures and Origins; SPECIAL SESSION: Venus Atmosphere: Venus Express and Future Missions; Mars Polar Caps: Past and Present; SPECIAL SESSION: Lunar Missions: Results from Kaguya, Chang'e-1, and Chandrayaan-1, Part I; 5 Early Nebula Processes and Models; SPECIAL SESSION: Icy Satellites of Jupiter and Saturn: Cosmic Gymnasts; Mars: Ground Ice and Climate Change; SPECIAL SESSION: Lunar Missions: Results from Kaguya, Chang'e-1, and Chandrayaan-1, Part II; Chondrite Parent-Body Processes; SPECIAL SESSION: Icy Satellites of Jupiter and Saturn: Salubrious Surfaces; SNC Meteorites; Ancient Martian Crust: Primary Mineralogy and Aqueous Alteration; SPECIAL SESSION: Messenger at Mercury: A Global Perspective on the Innermost Planet; CAIs and Chondrules: Records of Early Solar System Processes; Small Bodies: Shapes of Things to Come; Sulfur on Mars: Rocks, Soils, and Cycling Processes; Mercury: Evolution and Tectonics; Venus Geology, Volcanism, Tectonics, and Resurfacing; Asteroid-Meteorite Connections; Impacts I: Models and Experiments; Solar Wind and Genesis: Measurements and Interpretation; Mars: Aqueous Processes; Magmatic Volatiles and Eruptive Conditions of Lunar Basalts; Comparative Planetology; Interstellar Matter: Origins and Relationships; Impacts II: Craters and Ejecta Mars: Tectonics and Dynamics; Mars Analogs I: Geological; Exploring the Diversity of Lunar Lithologies with Sample Analyses and Remote Sensing; Chondrite Accretion and Early History; Science Instruments for the Mars Science Lander; . Martian Gullies: Morphology and Origins; Mars: Dunes, Dust, and Wind; Mars: Volcanism; Early Solar System Chronology; Seek Out and Explore: Upcoming and Future Missions; Mars: Early History and Impact Processes; Mars Analogs II: Chemical and Spectral; Achondrites and their Parent Bodies; and Planning for Future Exploration of the Moon The poster sessions were: Lunar Missions: Results from Kaguya, Chang'e-1, and Chandrayaan-1; LRO and LCROSS; Geophysical Analysis of the Lunar Surface and Interior; Remote Observation and Geologic Mapping of the Lunar Surface; Lunar Spectroscopy; Venus Geology, Geophysics, Mapping, and Sampling; Planetary Differentiation; Bunburra and Buzzard Coulee: Recent Meteorite Falls; Meteorites: Terrestrial History; CAIs and Chondrules: Records of Early Solar System Processes; Volatile and Organic Compounds in Chondrites; Crashing Chondrites: Impact, Shock, and Melting; Ureilite Studies; Petrology and Mineralogy of the SNC Meteorites; Martian Meteorites; Phoenix Landing Site: Perchlorate and Other Tasty Treats; Mars Polar Atmospheres and Climate Modeling; Mars Polar Investigations; Mars Near-Surface Ice; Mars: A Volatile-Rich Planet; Mars: Geochemistry and Alteration Processes; Martian Phyllosilicates: Identification, Formation, and Alteration; Astrobiology; Instrument Concepts, Systems, and Probes for Investigating Rocks and Regolith; Seeing is Believing: UV, VIS, IR, X- and Gamma-Ray Camera and Spectrometer Instruments; Up Close and Personal: In Situ Analysis with Laser-Induced Breakdown Spectroscopy and Mass Spectrometry; Jupiter and Inscrutable Io; Tantalizing Titan; Enigmatic Enceladus and Intriguing Iapetus; Icy Satellites: Cryptic Craters; Icy Satellites: Gelid Geology/Geophysics; Icy Satellites: Cool Chemistry and Spectacular Spectroscopy; Asteroids and Comets; Comet Wild 2: Mineralogy and More; Hypervelocity Impacts: Stardust Models, LDEF, and ISPE; Presolar Grains; Early Nebular Processes: Models and Isotopes; Solar Wind and Genesis: Measurements and Interpretation; Education and Public Outreach; Mercury; Pursuing Lunar Exploration; Sources and Eruptionf Lunar Basalts; Chemical and Physical Properties of the Lunar Regolith; Lunar Dust and Transient Surface Phenomena; Lunar Databases and Data Restoration; Meteoritic Samples of the Moon; Chondrites, Their Clasts, and Alteration; Achondrites: Primitive and Not So Primitive; Iron Meteorites; Meteorite Methodology; Antarctic Micrometeorites; HEDs and Vesta; Dust Formation and Transformation; Interstellar Organic Matter; Early Solar System Chronology; Comparative Planetology; Impacts I: Models and Experiments; Impacts II: Craters and Ejecta; Mars: Volcanism; Mars: Tectonics and Dynamics; Martian Stratigraphy: Understanding the Geologic History of Mars Through the Sedimentary Rock Record; Mars: Valleys and Valley Networks; Mars: Aqueous Processes in Valles Marineris and the Southern Highlands; Mars: Aqueous Geomorphology; Martian Gullies: Morphology and Origins; Mars: Dunes, Dust, and Wind; Mars: Remote Sensing; Mars: Geologic Mapping, Photogrammetry, and Cratering; Martian Mineralogy: Constraints from Missions and Laboratory Investigations; Mars Analogs: Chemical and Physical; Mars Analogs: Sulfates and Sulfides; Missions: Approaches, Architectures, Analogs, and Actualities; Not Just Skin Deep: Electron Microscopy, Heat Flow, Radar, and Seismology Instruments and Planetary Data Systems, Techniques, and Interpretation.

Complex conductivity of volcanic rocks and the geophysical mapping of alteration in volcanoes

NASA Astrophysics Data System (ADS)

Ghorbani, A.; Revil, A.; Coperey, A.; Soueid Ahmed, A.; Roque, S.; Heap, M. J.; Grandis, H.; Viveiros, F.

2018-05-01

Induced polarization measurements can be used to image alteration at the scale of volcanic edifices to a depth of few kilometers. Such a goal cannot be achieved with electrical conductivity alone, because too many textural and environmental parameters influence the electrical conductivity of volcanic rocks. We investigate the spectral induced polarization measurements (complex conductivity) in the frequency band 10 mHz-45 kHz of 85 core samples from five volcanoes: Merapi and Papandayan in Indonesia (32 samples), Furnas in Portugal (5 samples), Yellowstone in the USA (26 samples), and Whakaari (White Island) in New Zealand (22 samples). This collection of samples covers not only different rock compositions (basaltic andesite, andesite, trachyte and rhyolite), but also various degrees of alteration. The specific surface area is found to be correlated to the cation exchange capacity (CEC) of the samples measured by the cobalthexamine method, both serving as rough proxies of the hydrothermal alteration experienced by these materials. The in-phase (real) conductivity of the samples is the sum of a bulk contribution associated with conduction in the pore network and a surface conductivity that increases with alteration. The quadrature conductivity and the normalized chargeability are two parameters related to the polarization of the electrical double layer coating the minerals of the volcanic rocks. Both parameters increase with the degree of alteration. The surface conductivity, the quadrature conductivity, and the normalized chargeability (defined as the difference between the in-phase conductivity at high and low frequencies) are linearly correlated to the CEC normalized by the bulk tortuosity of the pore space. The effects of temperature and pyrite-content are also investigated and can be understood in terms of a physics-based model. Finally, we performed a numerical study of the use of induced polarization to image the normalized chargeability of a volcanic edifice. Induced polarization tomography can be used to map alteration of volcanic edifices with applications to geohazard mapping.

"Traveling Theory" and the Defining of New Rhetorics.

ERIC Educational Resources Information Center

Schilb, John

1992-01-01

Demonstrates how theory can alter as it "travels" from another region of inquiry into composition by examining Elaine Maimon's essay "Knowledge, Acknowledgment, and Writing across the Curriculum: Toward an Educated Community." Discusses how Maimon changes Stanley Fish's theory of "interpretive communities." (PRA)

Identification of Crystalline Minerals in Volcanic Alteration Products and Applications to the Surface of Mars

NASA Technical Reports Server (NTRS)

Bishop, J. L.; Madsen, M. B.; Murad, E.; Wagner, P. A.

2000-01-01

Visible, infrared and Mossbauer spectra have been measured for fine-grained alteration products of volcanic tephra and ash. Comparison of the spectral and chemical properties for different size separates and related samples provides information about the crystalline materials in these samples and how they may have formed. Hydrothermal processes can increase the alteration rates of the primary minerals and glass and provide S, Fe and/or water for formation of sulfates and hydrated minerals. Identification of crystalline alteration minerals on Mars may indicate hydrothermal alteration and sites of interesting geologic processes.

Paleoarchean trace fossils in altered volcanic glass.

PubMed

Staudigel, Hubert; Furnes, Harald; DeWit, Maarten

2015-06-02

Microbial corrosion textures in volcanic glass from Cenozoic seafloor basalts and the corresponding titanite replacement microtextures in metamorphosed Paleoarchean pillow lavas have been interpreted as evidence for a deep biosphere dating back in time through the earliest periods of preserved life on earth. This interpretation has been recently challenged for Paleoarchean titanite replacement textures based on textural and geochronological data from pillow lavas in the Hooggenoeg Complex of the Barberton Greenstone Belt in South Africa. We use this controversy to explore the strengths and weaknesses of arguments made in support or rejection of the biogenicity interpretation of bioalteration trace fossils in Cenozoic basalt glasses and their putative equivalents in Paleoarchean greenstones. Our analysis suggests that biogenicity cannot be taken for granted for all titanite-based textures in metamorphosed basalt glass, but a cautious and critical evaluation of evidence suggests that biogenicity remains the most likely interpretation for previously described titanite microtextures in Paleoarchean pillow lavas.

Paleoarchean trace fossils in altered volcanic glass

PubMed Central

Staudigel, Hubert; Furnes, Harald; DeWit, Maarten

2015-01-01

Microbial corrosion textures in volcanic glass from Cenozoic seafloor basalts and the corresponding titanite replacement microtextures in metamorphosed Paleoarchean pillow lavas have been interpreted as evidence for a deep biosphere dating back in time through the earliest periods of preserved life on earth. This interpretation has been recently challenged for Paleoarchean titanite replacement textures based on textural and geochronological data from pillow lavas in the Hooggenoeg Complex of the Barberton Greenstone Belt in South Africa. We use this controversy to explore the strengths and weaknesses of arguments made in support or rejection of the biogenicity interpretation of bioalteration trace fossils in Cenozoic basalt glasses and their putative equivalents in Paleoarchean greenstones. Our analysis suggests that biogenicity cannot be taken for granted for all titanite-based textures in metamorphosed basalt glass, but a cautious and critical evaluation of evidence suggests that biogenicity remains the most likely interpretation for previously described titanite microtextures in Paleoarchean pillow lavas. PMID:26038543

Temporal patterns in the transcriptomic response of rainbow trout, Oncorhynchus mykiss, to crude oil.

PubMed

Hook, Sharon E; Lampi, Mark A; Febbo, Eric J; Ward, Jeff A; Parkerton, Thomas F

2010-09-01

Time is often not characterized as a variable in ecotoxicogenomic studies. In this study, temporal changes in gene expression were determined during exposure to crude oil and a subsequent recovery period. Juvenile rainbow trout, Oncorhynchus mykiss, were exposed for 96 h to the water accommodated fractions of 0.4, 2 or 10 mgl(-1) crude oil loadings. Following 96 h of exposure, fish were transferred to recovery tanks. Gill and liver samples were collected after 24 and 96 h of exposure, and after 96 h of recovery for RNA extraction and microarray analysis. Fluorescently labeled cDNA was hybridized against matched controls, using salmonid cDNA arrays. Each exposure scenario generated unique patterns of altered gene expression. More genes responded to crude oil in the gill than in the liver. In the gill, 1137 genes had altered expression at 24 h, 2003 genes had altered expression levels at 96 h of exposure, yet by 96 h of recovery, no genes were significantly altered in expression. In the liver at 10 mgl(-1), only five genes were changed at 24 h, yet 192 genes had altered expression after 96 h recovery. At 2 mgl(-1) in the liver, many genes had altered regulation at all three time points. The 0.4 mgl(-1) loading also showed 289 genes upregulated at 24 h after exposure. The Gene Ontology terms associated with altered expression in the liver suggested that the processes of protein synthesis, xenobiotic metabolism, and oxidoreductase activity were altered. The concentration-responsive expression profile of cytochrome P450 1A, a biomarker for oil exposure, did not predict the majority of gene expression profiles in any tissue or dose, since direct relationships with dose were not observed for most genes. While the genes and their associated functions agree with known modes of toxic action for crude oil, the gene lists obtained do not match our previously published work, presumably due to array analysis procedures. These results demonstrate that changes in gene expression with time and dose may be complicated, and should be characterized in controlled laboratory settings before attempts are made to interpret responses in field-collected organisms. Further, processes for analyzing microarray data need to be developed such that standardized gene lists are developed, or that analysis does not rely on lists of significantly altered genes before arrays can be further evaluated as a monitoring tool. Crown Copyright 2010. Published by Elsevier B.V. All rights reserved.

Pain Experience in Hemophilia Patients: A Hermeneutic Phenomenological Study

PubMed Central

Rambod, Masoume; Sharif, Farkhondeh; Molazem, Zahra; Khair, Kate

2016-01-01

ABSTRACT Background: Pain, as a crucial subsequence of joint hemorrhages in hemophilia patients, is chronic, debilitating, and distracting. This study aimed to describe and interpret pain experiences of hemophilia patients in their lives. Methods: This qualitative study with hermeneutic phenomenological approach was conducted on fourteen hemophilia patients who had been referred to a hemophilia center affiliated to Shiraz University of Medical Sciences, Shiraz, Iran. The study question was “what is the meaning of pain in hemophilia patients’ lives? The data were collected through semi-structured interviews and field notes through purposeful sampling. Then, thematic analysis with van Manen’s six-step methodological framework was used. MAX.QDA qualitative software package, 2010, was used to analyze the data. Results: The three main themes that emerged in this study were “alteration in physical health”, “engagement in psychological problems”, and “impairment in social relationships”. Alteration in physical health consisted of three subthemes, namely “impairment of physical function”, “change in body physics”, and “disturbance in sleep quality”. In addition, two subthemes including “nostalgia of pain in adults with hemophilia” and “psychological distress” emerged from engagement in psychological problems. Finally, “loss of social activity” and “change in relationships” were related to impairment in social relationships. Conclusion: The present study highlighted alteration in physical health, engagement in psychological problems, and impairment in social relationship as a result of pain in hemophilia patients. Thus, healthcare providers and family members have to pay special attention to these problems. Besides, providing complementary therapy interventions is suggested for reducing these issues. PMID:27713894

Preliminary testing of flow-ecology hypotheses developed for the GCP LCC region

USGS Publications Warehouse

Brewer, Shannon K.; Davis, Mary

2014-01-01

The Ecological Limits of Hydrological Alteration (ELOHA) framework calls for the development of flow-ecology hypotheses to support protection of the flow regime from ecologically harmful alteration due to human activities. As part of a larger instream flow project for the Gulf Coast Prairie Landscape Conservation Cooperative (GCP LCC), regional flow-ecology hypotheses were developed for fish, mussels, birds, and riparian vegetation (Davis and Brewer 20141). The objective of this study was to assess the usefulness of existing ecological and hydrological data to test these hypotheses or others that may be developed in the future. Several databases related to biological collections and hydrologic data from Oklahoma, Texas, and Louisiana were compiled. State fish-community data from Oklahoma and Louisiana were summarized and paired with existing USGS gage data having at least a 40-year period of record that could be separated into reference and current conditions for comparison. The objective of this study was not to conduct exhaustive analyses of these data, the hypotheses, or analyses interpretation, but rather to use these data to determine if existing data were adequate to statistically test the regional flow-ecology hypotheses. The regional flow-ecology hypotheses were developed for the GCP LCC by a committee chaired by Shannon Brewer and Mary Davis (Davis and Brewer 2014). Existing data were useful for informing the hypotheses and suggest support for some hypotheses, but also highlight the need for additional testing and development as some results contradicted hypotheses. Results presented here suggest existing data are adequate to support some flow-ecology hypotheses; however, lack of sampling effort reported with the fish collections and the need for ecoregion-specific analyses suggest more data would be beneficial to analyses in some ecoregions. Additional fish sampling data from Texas and Louisiana will be available for future analyses and may ameliorate some of the data concerns and improve hypothesis interpretation. If the regional hydrologic model currently under development by the U.S. Geological Survey for the South-Central Climate Science Center is improved to produce daily hydrographs, it will enable use of fish data at ungaged locations. In future efforts, exhaustive analyses using these data, in addition to the development of more complex multivariate hypotheses, would be beneficial to understanding data gaps, particularly as relevant to species of conservation concern.

Chemical characterization of the acid alteration of diesel fuel: Non-targeted analysis by two-dimensional gas chromatography coupled with time-of-flight mass spectrometry with tile-based Fisher ratio and combinatorial threshold determination

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

Parsons, Brendon A.; Pinkerton, David K.; Wright, Bob W.

The illicit chemical alteration of petroleum fuels is of scientific interest, particularly to regulatory agencies which set fuel specifications, or excises based on those specifications. One type of alteration is the reaction of diesel fuel with concentrated sulfuric acid. Such reactions are known to subtly alter the chemical composition of the fuel, particularly the aromatic species native to the fuel. Comprehensive two-dimensional gas chromatography coupled with time-of-flight mass spectrometry (GC × GC–TOFMS) is ideally suited for the analysis of diesel fuel, but may provide the analyst with an overwhelming amount of data, particularly in sample-class comparison experiments comprised of manymore » samples. The tile-based Fisher-ratio (F-ratio) method reduces the abundance of data in a GC × GC–TOFMS experiment to only the peaks which significantly distinguish the unaltered and acid altered sample classes. Three samples of diesel fuel from different filling stations were each altered to discover chemical features, i.e., analyte peaks, which were consistently changed by the acid reaction. Using different fuels prioritizes the discovery of features which are likely to be robust to the variation present between fuel samples and which will consequently be useful in determining whether an unknown sample has been acid altered. The subsequent analysis confirmed that aromatic species are removed by the acid alteration, with the degree of removal consistent with predicted reactivity toward electrophilic aromatic sulfonation. Additionally, we observed that alkenes and alkynes were also removed from the fuel, and that sulfur dioxide or compounds that degrade to sulfur dioxide are generated by the acid alteration. In addition to applying the previously reported tile-based F-ratio method, this report also expands null distribution analysis to algorithmically determine an F-ratio threshold to confidently select only the features which are sufficiently class-distinguishing. When applied to the acid alteration of diesel fuel, the suggested per-hit F-ratio threshold was 12.4, which is predicted to maintain the false discovery rate (FDR) below 0.1%. Using this F-ratio threshold, 107 of the 3362 preliminary hits were deemed significantly changing due to the acid alteration, with the number of false positives estimated to be about 3.« less

Mechanical and physical properties of hydrothermally altered rocks, Taupo Volcanic Zone, New Zealand

NASA Astrophysics Data System (ADS)

Wyering, L. D.; Villeneuve, M. C.; Wallis, I. C.; Siratovich, P. A.; Kennedy, B. M.; Gravley, D. M.; Cant, J. L.

2014-11-01

Mechanical characterization of hydrothermally altered rocks from geothermal reservoirs will lead to an improved understanding of rock mechanics in a geothermal environment. To characterize rock properties of the selected formations, we prepared samples from intact core for non-destructive (porosity, density and ultrasonic wave velocities) and destructive laboratory testing (uniaxial compressive strength). We characterised the hydrothermal alteration assemblage using optical mineralogy and existing petrography reports and showed that lithologies had a spread of secondary mineralisation that occurred across the smectite, argillic and propylitic alteration zones. The results from the three geothermal fields show a wide variety of physical rock properties. The testing results for the non-destructive testing shows that samples that originated from the shallow and low temperature section of the geothermal field had higher porosity (15 - 56%), lower density (1222 - 2114 kg/m3) and slower ultrasonic waves (1925 - 3512 m/s (vp) and 818 - 1980 m/s (vs)), than the samples from a deeper and higher temperature section of the field (1.5 - 20%, 2072 - 2837 kg/m3, 2639 - 4593 m/s (vp) and 1476 - 2752 m/s (vs), respectively). The shallow lithologies had uniaxial compressive strengths of 2 - 75 MPa, and the deep lithologies had strengths of 16 - 211 MPa. Typically samples of the same lithologies that originate from multiple wells across a field have variable rock properties because of the different alteration zones from which each sample originates. However, in addition to the alteration zones, the primary rock properties and burial depth of the samples also have an impact on the physical and mechanical properties of the rock. Where this data spread exists, we have been able to derive trends for this specific dataset and subsequently have gained an improved understanding of how hydrothermal alteration affects physical and mechanical properties.

In silico prediction of splice-altering single nucleotide variants in the human genome.

PubMed

Jian, Xueqiu; Boerwinkle, Eric; Liu, Xiaoming

2014-12-16

In silico tools have been developed to predict variants that may have an impact on pre-mRNA splicing. The major limitation of the application of these tools to basic research and clinical practice is the difficulty in interpreting the output. Most tools only predict potential splice sites given a DNA sequence without measuring splicing signal changes caused by a variant. Another limitation is the lack of large-scale evaluation studies of these tools. We compared eight in silico tools on 2959 single nucleotide variants within splicing consensus regions (scSNVs) using receiver operating characteristic analysis. The Position Weight Matrix model and MaxEntScan outperformed other methods. Two ensemble learning methods, adaptive boosting and random forests, were used to construct models that take advantage of individual methods. Both models further improved prediction, with outputs of directly interpretable prediction scores. We applied our ensemble scores to scSNVs from the Catalogue of Somatic Mutations in Cancer database. Analysis showed that predicted splice-altering scSNVs are enriched in recurrent scSNVs and known cancer genes. We pre-computed our ensemble scores for all potential scSNVs across the human genome, providing a whole genome level resource for identifying splice-altering scSNVs discovered from large-scale sequencing studies.

Electrical structure of Newberry Volcano, Oregon

USGS Publications Warehouse

Fitterman, D.V.; Stanley, W.D.; Bisdorf, R.J.

1988-01-01

From the interpretation of magnetotelluric, transient electromagnetic, and Schlumberger resistivity soundings, the electrical structure of Newberry Volcano in central Oregon is found to consist of four units. From the surface downward, the geoelectrical units are 1) very resistive, young, unaltered volcanic rock, (2) a conductive layer of older volcanic material composed of altered tuffs, 3) a thick resistive layer thought to be in part intrusive rocks, and 4) a lower-crustal conductor. This model is similar to the regional geoelectrical structure found throughout the Cascade Range. Inside the caldera, the conductive second layer corresponds to the steep temperature gradient and alteration minerals observed in the USGS Newberry 2 test-hole. Drill hole information on the south and north flanks of the volcano (test holes GEO N-1 and GEO N-3, respectively) indicates that outside the caldera the conductor is due to alteration minerals (primarily smectite) and not high-temperature pore fluids. On the flanks of Newberry the conductor is generally deeper than inside the caldera, and it deepens with distance from the summit. A notable exception to this pattern is seen just west of the caldera rim, where the conductive zone is shallower than at other flank locations. The volcano sits atop a rise in the resistive layer, interpreted to be due to intrusive rocks. -from Authors

Transformative Learning, Enactivism, and Affectivity

ERIC Educational Resources Information Center

Maiese, Michelle

2017-01-01

Education theorists have emphasized that transformative learning is not simply a matter of students gaining access to new knowledge and information, but instead centers upon personal transformation: it alters students' perspectives, interpretations, and responses. How should learning that brings about this sort of self-transformation be understood…

Deciphering the language of nature: cryptography, secrecy, and alterity in Francis Bacon.

PubMed

Clody, Michael C

2011-01-01

The essay argues that Francis Bacon's considerations of parables and cryptography reflect larger interpretative concerns of his natural philosophic project. Bacon describes nature as having a language distinct from those of God and man, and, in so doing, establishes a central problem of his natural philosophy—namely, how can the language of nature be accessed through scientific representation? Ultimately, Bacon's solution relies on a theory of differential and duplicitous signs that conceal within them the hidden voice of nature, which is best recognized in the natural forms of efficient causality. The "alphabet of nature"—those tables of natural occurrences—consequently plays a central role in his program, as it renders nature's language susceptible to a process and decryption that mirrors the model of the bilateral cipher. It is argued that while the writing of Bacon's natural philosophy strives for literality, its investigative process preserves a space for alterity within scientific representation, that is made accessible to those with the interpretative key.

Back from the future: Volitional postdiction of perceived apparent motion direction.

PubMed

Sun, Liwei; Frank, Sebastian M; Hartstein, Kevin C; Hassan, Wassim; Tse, Peter U

2017-11-01

Among physical events, it is impossible that an event could alter its own past for the simple reason that past events precede future events, and not vice versa. Moreover, to do so would invoke impossible self-causation. However, mental events are constructed by physical neuronal processes that take a finite duration to execute. Given this fact, it is conceivable that later brain events could alter the ongoing interpretation of previous brain events if they arrive within this finite duration of interpretive processing, before a commitment is made to what happened. In the current study, we show that humans can volitionally influence how they perceive an ambiguous apparent motion sequence, as long as the top-down command occurs up to 300ms after the occurrence of the actual motion event in the world. This finding supports the view that there is a temporal integration period over which perception is constructed on the basis of both bottom-up and top-down inputs. Copyright © 2017 Elsevier Ltd. All rights reserved.

Putative Indigenous Carbon-Bearing Alteration Features in Martian Meteorite Yamato 000593

PubMed Central

Gibson, Everett K.; Thomas-Keprta, Kathie L.; Clemett, Simon J.; McKay, David S.

2014-01-01

Abstract We report the first observation of indigenous carbonaceous matter in the martian meteorite Yamato 000593. The carbonaceous phases are heterogeneously distributed within secondary iddingsite alteration veins and present in a range of morphologies including areas composed of carbon-rich spheroidal assemblages encased in multiple layers of iddingsite. We also observed microtubular features emanating from iddingsite veins penetrating into the host olivine comparable in shape to those interpreted to have formed by bioerosion in terrestrial basalts. Key Words: Meteorite—Yamato 000593—Mars—Carbon. Astrobiology 14, 170–181. PMID:24552234

Fenbendazole treatment may influence lipopolysaccharide effects in rat brain.

PubMed

Hunter, Randy L; Choi, Dong-Young; Kincer, Jeanie F; Cass, Wayne A; Bing, Guoying; Gash, Don M

2007-10-01

In evaluating discrepant results between experiments in our laboratory, we collected data that challenge the notion that anthelminthic drugs like FBZ do not alter inflammatory responses. We found that FBZ significantly modulates inflammation in F344 rats intrastriatally injected with LPS. FBZ treatment of LPS-injected rats significantly increased weight loss, microglial activation, and dopamine loss; in addition, FBZ attenuated the LPS-induced loss of astrocytes. Therefore, FBZ treatment altered the effects of LPS injection. Caution should be used in interpreting data collected from rats treated with LPS and FBZ.

A new website to aid the interpretation of antemortem dental records:www.internationaldentalcharts.org.

PubMed

Manica, Scheila

2014-12-01

The INTERPOL (International Police Organization) Disaster Victim Identification forms represent a global standard for mass disasters and the collection of international ante-mortem dental records. These records can now be interpreted more easily with the help of a new online dictionary of dental terminology for translating dental charts from several languages into English. The free website launched in 2013 (www.internationaldentalcharts.org) is the result of a M.Sc project on international dental charts: Guide of International Dental Charts translated into English decoding international ante-mortem dental charts for INTERPOL's Ante-mortem (AM) Disaster Victim Identification (DVI) forms (Section F2), completed in 2011. The aim of this study was to analyze the tooth numbering system, symbols and abbreviations used on dental charting worldwide. A letter was sent to the national dental associations of the 188 INTERPOL member countries, addressing the goals of the project and asking for samples of dental charts. A total of 45 countries replied and 32 common dental alterations were selected for translation, such as: decay, filling and extraction. Their symbols and/or abbreviations used were summarized in various languages. More than one system of dental notations was used in the same country whereas there was an absence of standard systems in other countries. Some of the samples of charts received were of little value. However, a fair amount of useful information and detail was found in most of them. This free consultation website could be useful when the handwriting, symbols, and abbreviations on the ante-mortem dental charts are not clear. It will be particularly applicable when ante-mortem xrays and casts are not available.

Laboratory Simulations and Spectral Analyses of Space Weathering of Non-Ice Materials on Ocean Worlds

NASA Astrophysics Data System (ADS)

Wing, B. R.; Shusterman, M. L.; Irvin, B. L.; Hibbitts, C.

2016-12-01

Airless solar system bodies are subjected to bombardment by high-energy particles from the solar wind and for Galilean satellites, from the Jovian magnetosphere. These keV-MeV electrons and ions damage the upper microns of the exposed surface, resulting in physical, chemical, and spectral alterations that may confound interpretations of mineralogical properties. We conducted experiments simulating space weathering by energetic electrons for characterizing the spectral effects from the UV through the mid-IR; wavelengths commonly used to determine compositions of airless bodies. We bombarded analog non-ice materials with 40 keV electrons under high vacuum conditions for a period of 48-96 hours at a fluence of 80 μA. Spectral measurements were obtained at UV, VIS-SWIR, and NIR-MIR ranges from 0.14-5.0 μm using a McPherson 302 monochrometer, an SVC fiber-fed point spectrometer, and a Bruker Vertex 70 FTIR, respectively. The monochrometer and FTIR measurements were obtained before, during, and after irradiation, while the sample was under vacuum at 1e-7 torr. SVC measurements were obtained in a separate apparatus under an N2-purged environment before and after irradiation. The experiments were conducted to develop a better understanding of how exposure to particulate bombardment may affect the spectral features of airless bodies and subsequent interpretation of composition. Our results characterize the spectral nature of radiation-induced color centers, or Farbe-centers, that are active in the NUV-VIS-NIR wavelength range and inactive in the SWIR-MIR wavelength range. We confirmed the discoloration is due to the formation of F-centers rather than trace contamination such as iron, by analyzing samples under scanning electron microscope and X-ray spectrometer.

Validation of a Novel Technique and Evaluation of the Surface Free Energy of Food

PubMed Central

Senturk Parreidt, Tugce; Schmid, Markus; Hauser, Carolin

2017-01-01

Characterizing the physical properties of a surface is largely dependent on determining the contact angle exhibited by a liquid. Contact angles on the surfaces of rough and irregularly-shaped food samples are difficult to measure using a contact angle meter (goniometer). As a consequence, values for the surface energy and its components can be mismeasured. The aim of this work was to use a novel contact angle measurement method, namely the snake-based ImageJ program, to accurately measure the contact angles of rough and irregular shapes, such as food samples, and so enable more accurate calculation of the surface energy of food materials. In order to validate the novel technique, the contact angles of three different test liquids on four different smooth polymer films were measured using both the ImageJ software with the DropSnake plugin and the widely used contact angle meter. The distributions of the values obtained by the two methods were different. Therefore, the contact angles, surface energies, and polar and dispersive components of plastic films obtained using the ImageJ program and the Drop Shape Analyzer (DSA) were interpreted with the help of simple linear regression analysis. As case studies, the superficial characteristics of strawberry and endive salad epicarp were measured with the ImageJ program and the results were interpreted with the Drop Shape Analyzer equivalent according to our regression models. The data indicated that the ImageJ program can be successfully used for contact angle determination of rough and strongly hydrophobic surfaces, such as strawberry epicarp. However, for the special geometry of droplets on slightly hydrophobic surfaces, such as salad leaves, the program code interpolation part can be altered. PMID:28425932

Interpretable functional principal component analysis.

PubMed

Lin, Zhenhua; Wang, Liangliang; Cao, Jiguo

2016-09-01

Functional principal component analysis (FPCA) is a popular approach to explore major sources of variation in a sample of random curves. These major sources of variation are represented by functional principal components (FPCs). The intervals where the values of FPCs are significant are interpreted as where sample curves have major variations. However, these intervals are often hard for naïve users to identify, because of the vague definition of "significant values". In this article, we develop a novel penalty-based method to derive FPCs that are only nonzero precisely in the intervals where the values of FPCs are significant, whence the derived FPCs possess better interpretability than the FPCs derived from existing methods. To compute the proposed FPCs, we devise an efficient algorithm based on projection deflation techniques. We show that the proposed interpretable FPCs are strongly consistent and asymptotically normal under mild conditions. Simulation studies confirm that with a competitive performance in explaining variations of sample curves, the proposed FPCs are more interpretable than the traditional counterparts. This advantage is demonstrated by analyzing two real datasets, namely, electroencephalography data and Canadian weather data. © 2015, The International Biometric Society.

Constraining the Protolith of Large, Macroscopically Layered Kyanite-bearing Eclogite Xenoliths from the Kaapvaal Craton, South Africa

NASA Astrophysics Data System (ADS)

Rebelo, C. C.; Gurney, J. J.; Richardson, S. H.; Shaw-Kahle, B.

2015-12-01

We describe the geochemistry of a suite of ten layered, kyanite-bearing eclogites from the Roberts Victor kimberlite, Kaapvaal Craton, South Africa. All samples are characterized by clear zonation corresponding to the presence or absence of kyanite and the state of preservation of clinopyroxene. The sampled zones are defined as KF (free of kyanite, with well-preserved garnet and clinopyroxene), KZ (preserved clinopyroxene is absent; garnet occurs with kyanite); and TZ (partially preserved clinopyroxene and more altered garnet; kyanite may or may not be present). We report on results of petrographic observations, mineral chemistry, and trace element and oxygen isotope analyses for the different zones. Results from adjacent zones are presented as geochemical transects perpendicular to the layering for each xenolith. We use the results to infer the geochemical evolution of likely protoliths for the various samples. Mineral chemistry of garnets across the different zones shows decreasing FeO*, Cr2O3, MgO and MnO and increasing in CaO from KF into KZ. Clinopyroxene shows increasing in Al2O3 and Na2O from KF into KZ. Clinopyroxenes approach a more jadeitic composition towards the KZ and are more diopsidic in KF. Trace element analyses were conducted with laser ablation ICP-MS on hand-picked mineral separates. Garnets show subchondritic LREE depletion and superchondritic HREE enrichment in both KF and KZ. Positive europium anomalies in garnet are present in all zones, with relatively larger anomalies in garnet grains from KZ. Preserved clinopyroxenes show complementary REE patterns to garnet grains, with superchondritic LREEs and subchondritic HREEs. For the suite of xenoliths, results from mass spectrometry on oxygen extracted by laser fluorination on mineral separates show that δ18O values are above the accepted mantle value and fall within the range of hydrothermally altered oceanic crustal material. At this stage of the research, the bulk protolith is interpreted to be of crustal origin.

Comparison of hydrothermal activity between the Adriatic and the Red Sea rift margins

NASA Astrophysics Data System (ADS)

Ball, Philip; Incerpi, Nicolò; Birkle, Peter; Lacsamana, Elizabeth; Manatschal, Gianreto; Agar, Susan; Zhang, Shuo; Borsato, Ron

2017-04-01

Detailed field studies, and access to high-quality seismic reflection and refraction data have led to an improved understanding of the architecture and evolution of magma poor and magma rich margins. Associated with the spatial-temporal evolution of the rift, it is evident that there are evolving, extensive, fluid-rock interactions due to the infiltration of fluids within the sediment, basement and lithospheric mantle. Key questions therefore arise: What are the different fluid-rock reactions that can be typed to different geodynamic stages of the rift evolution? What are their compositions and how do they interact with their environment (basement, sediments, evaporites, hydrosphere, and magmatism)? What are the implications for the evolution of the margin rheology, thermal structure, depositional environments/organic matter maturity, and reservoir quality? The Adriatic paleo-rifted margin is preserved in both SE Switzerland and northern Italy. The field exposures provide a unique opportunity to study the fluid flow history of a hyperextended magma poor extensional margin. Analysis of breccias, cement veins and replacement minerals reveal that the margin records a complex, long-lasting history of dolomitization, calcification and silicification during the Jurassic rifting. The Red Sea by contrast is a young rifted margin. It differs from the paleo-Adriatic margin by several characteristics: volcanism is more evident, and syn-tectonic sediments, including evaporites (halite and anhydrite) are thicker. Several core and fluid samples are available from both onshore and offshore wells, which reveal rift-related hydrothermal alteration. In addition, we find evidence for the presence of an extreme dynamic hydraulic system with infiltration of surface water into sub-salt units during Late Pleistocene. In this study we present results from petrographic and geochemical analysis of basement and sedimentary rocks from Adriatic field-derived samples and core/subsurface fluid samples for the Eastern Red Sea margin. The results are presented using rift domain interpretations, thereby enabling the simple comparison of the observed hydrothermal alteration within a first-order (spatial temporal) rift geodynamic framework.

Paleomagnetism and alteration of lower Paleozoic rocks and Precambrian basement in the SHADS No. 4 drill core, Oklahoma

NASA Astrophysics Data System (ADS)

Evans, S. C.; Hamilton, M.; Hardwick, J.; Terrell, C.; Elmore, R. D.

2017-12-01

The chacterization of the lower Paleozoic sedimentary rock and the underlying Precambrian basement in northern Oklahoma is currently the subject of research to better understand induced seismicity in Oklahoma. We are investigating approximately 140 meters of igneous basement and over 300 meters of Ordovician Arbuckle Group carbonates and underlying sandstone in the Amoco SHADS No. 4 drill core from Rogers Co., Oklahoma, to better understand the nature, origin, and timing of fluid alteration and the relationship between fluid flow in the Arbuckle Group and the basement. Preliminary attempts to orient the core using the viscous remanent magnetization (VRM) method were unsuccessful, probably due to a steep drilling-induced component. The dolomitized Arbuckle Group contains a characteristic remanent magnetization (ChRM) with shallow inclinations (-5°) and variable declinations that, based on unblocking temperatures, is interpreted to reside in magnetite. This ChRM is interpreted as a chemical remanent magnetization (CRM) acquired in the Permian based on the shallow inclinations. The CRM could be related to hydrothermal fluids which migrated into the rocks in the late Paleozoic, as other studies in northern Oklahoma have reported. The Arbuckle Group dolomites are porous and extensively altered and consist of several generations of dolomite, including baroque dolomite. The basement rock is andesitic to trachytic ignimbrite that exhibits extensive alteration. There are many near-vertical fractures mineralized with epidote that are cross cut by calcite-filled fractures. Anisotropy of magnetic susceptibility (AMS) measurements indicate an oblate fabric in the top of the basement and the overlying sandstones. At greater depths, the AMS is variable and may include both alteration and primary fabrics. Demagnetization of the basement rocks is in the initial stages. We are currently investigating if and how far the alteration in the Arbuckle Group extended into the basement. The results suggest basement and sedimentary rock in the core were altered by multiple fluids, and the pervasive fracturing in the igneous section could provide conduits for fluids to get from the porous Arbuckle Group into the basement.

Alteration of Al-rich inclusions inside amoeboid olivine aggregates in the Allende meteorite

NASA Technical Reports Server (NTRS)

Hashimoto, Akihiko; Grossman, Lawrence

1987-01-01

The primary phases of Al-rich inclusions in amoeboid olivine aggregates have undergone alteration reactions with the solar nebular gas. The simplest interpretation of the present observations is that melilite was the first primary phase to disappear with falling temperature, and was replaced by grossular + anorthite + feldspathoids, followed by fassaite; spinel was the last phase to be altered. Thermodynamic calculations suggest that Na-rich phlogopite could have formed at about 470 K and chlorite at about 328 K at a water fugacity of 0.000001, which is that of a gas of solar composition in this temperature range. The olivine around Al-rich inclusions is not serpentized, indicating the cessation of gas-solid equilibrium above 274 K.

Proposed alteration of images of molecular orbitals obtained using a scanning tunneling microscope as a probe of electron correlation.

PubMed

Toroz, Dimitrios; Rontani, Massimo; Corni, Stefano

2013-01-04

Scanning tunneling spectroscopy (STS) allows us to image single molecules decoupled from the supporting substrate. The obtained images are routinely interpreted as the square moduli of molecular orbitals, dressed by the mean-field electron-electron interaction. Here we demonstrate that the effect of electron correlation beyond the mean field qualitatively alters the uncorrelated STS images. Our evidence is based on the ab initio many-body calculation of STS images of planar molecules with metal centers. We find that many-body correlations alter significantly the image spectral weight close to the metal center of the molecules. This change is large enough to be accessed experimentally, surviving to molecule-substrate interactions.

Differences in lupus anticoagulant final conclusion through clotting time or Rosner index for mixing test interpretation.

PubMed

Depreter, Barbara; Devreese, Katrien M J

2016-09-01

Lupus anticoagulant (LAC) testing includes a screening, mixing and confirmation step. Although recently published guidelines on LAC testing are a useful step towards standardization, a lack of consensus remains whether to express mixing tests in clotting time (CT) or index of circulating anticoagulant (ICA). The influence of anticoagulant therapy, e.g. vitamin K antagonists (VKA) or direct oral anticoagulants (DOAC) on both methods of interpretation remains to be investigated. The objective of this study was to contribute to a simplification and standardization of the LAC three-step interpretation on the level of the mixing test. Samples from 148 consecutive patients with LAC request and prolonged screening step, and 77 samples from patients non-suspicious for LAC treated with VKA (n=37) or DOAC (n=30) were retrospectively evaluated. An activated partial thromboplastin time (aPTT) and dilute Russell's viper venom time (dRVVT) were used for routine LAC testing. The supplemental anticoagulant samples were tested with dRVVT only. We focused on the interpretation differences for mixing tests expressed as CT or ICA and compared the final LAC conclusion within each distinct group of concordant and discordant mixing test results. Mixing test interpretation by CT resulted in 10 (dRVVT) and 16 (aPTT) more LAC positive patients compared to interpretation with ICA. Isolated prolonged dRVVT screen mix ICA results were exclusively observed in samples from VKA-treated patients without suspicion for LAC. We recommend using CT in respect to the 99th percentile cut-off for interpretation of mixing steps in order to reach the highest sensitivity and specificity in LAC detection.

A Tool for Determining the Number of Contributors: Interpreting Complex, Compromised Low-Template Dna Samples

DTIC Science & Technology

2017-09-28

SECURITY CLASSIFICATION OF: In forensic DNA analysis, the interpretation of a sample acquired from the environment may be dependent upon the...sample acquired from the environment may be dependent upon the assumption on the number of individuals from which the evidence arose. Degraded and...NOCIt results to those obtained when allele counting or maxiumum likelihood estimator (MLE) methods are employed. NOCIt does not depend upon an AT and

The extent of aqueous alteration in C-class asteroids, and the survival of presolar isotopic signatures in chondrites

NASA Astrophysics Data System (ADS)

Trigo-Rodriguez, J. M.

2011-05-01

Several sample return missions are being planned by different space agencies for in situ sampling of undifferentiated bodies. Such missions wish to bring back to Earth pristine samples from C-class asteroids and comets to obtain clues on solar system formation conditions. A careful selection of targeted areas is required as many C-class asteroids and periodic comets have been subjected to collisional and space weathering processing since their formation. Their surfaces have been reworked by impacts as pointed out by the brecciated nature of many chondrites arrived to Earth, exhibiting different levels of thermal and aqueous alteration. It is not surprising that pristine chondrites can be considered quite rare in meteorite collections because they were naturally sampled in collisions, but several groups of carbonaceous chondrites contain a few members with promising unaltered properties. The CI and CM groups suffered extensive aqueous alteration [1], but for the most part escaped thermal metamorphism (only a few CMs evidence heating temperature over several hundred K). Both chondrite groups are water-rich, containing secondary minerals as consequence of the pervasive alteration of their primary mineral phases [2]. CO, CV, and CR chondrite groups suffered much less severe aqueous alteration, but some CRs are moderately aqueously altered. All five groups are good candidates to find unequilibrated materials between samples unaffected by aqueous alteration or metamorphism. The water was incorporated during accretion, and was released as consequence of shock after impact compaction, and/or by mild radiogenic heating. Primary minerals were transformed by water into secondary ones. Water soaking the bodies participated in chemical homogenization of the different components [1]. Hydrothermal alteration and collisional metamorphism changed the abundances of isotopically distinguishable presolar silicates [3]. Additional instruments in the landers to identify aqueous alteration signatures could help to get samples unbiased by parent body processes. Future work in this regard could be essential to successfully getting back to Earth samples to unveil the conditions in which the solar system formed. REF: [1] Trigo-Rodriguez J.M. & Blum J. 2009. Plan. Space Sci.57,243; [2] Rubin et al. (2007) GCA 71,2361; [3] Trigo-Rodriguez J.M. & Blum J. (2009). Pub.Ast.Soc.Aust.26,289

16 CFR 260.4 - Review procedure.

Code of Federal Regulations, 2010 CFR

2010-01-01

... Commercial Practices FEDERAL TRADE COMMISSION GUIDES AND TRADE PRACTICE RULES GUIDES FOR THE USE OF ENVIRONMENTAL MARKETING CLAIMS § 260.4 Review procedure. The Commission will review the guides as part of its... to alter or amend these guides in light of substantial new evidence regarding consumer interpretation...

The Impact of Video Review on Supervisory Conferencing

ERIC Educational Resources Information Center

Baecher, Laura; McCormack, Bede

2015-01-01

This study investigated how video-based observation may alter the nature of post-observation talk between supervisors and teacher candidates. Audio-recorded post-observation conversations were coded using a conversation analysis framework and interpreted through the lens of interactional sociology. Findings suggest that video-based observations…

Alterations in physiology and anatomy during pregnancy.

PubMed

Tan, Eng Kien; Tan, Eng Loy

2013-12-01

Pregnant women undergo profound anatomical and physiological changes so that they can cope with the increased physical and metabolic demands of their pregnancies. The cardiovascular, respiratory, haematological, renal, gastrointestinal and endocrine systems all undergo important physiological alterations and adaptations needed to allow development of the fetus and to allow the mother and fetus to survive the demands of childbirth. Such alterations in anatomy and physiology may cause difficulties in interpreting signs, symptoms, and biochemical investigations, making the clinical assessment of a pregnant woman inevitably confusing but challenging. Understanding these changes is important for every practicing obstetrician, as the pathological deviations from the normal physiological alterations may not be clear-cut until an adverse outcome has resulted. Only with a sound knowledge of the physiology and anatomy changes can the care of an obstetric parturient be safely optimized for a better maternal and fetal outcome. Copyright © 2013 Elsevier Ltd. All rights reserved.

Application of plurigaussian simulation to delineate the layout of alteration domains in Sungun copper deposit

NASA Astrophysics Data System (ADS)

Talebi, Hassan; Asghari, Omid; Emery, Xavier

2013-12-01

An accurate estimation of mineral grades in ore deposits with heterogeneous spatial variations requires defining geological domains that differentiate the types of mineralogy, alteration and lithology. Deterministic models define the layout of the domains based on the interpretation of the drill holes and do not take into account the uncertainty in areas with fewer data. Plurigaussian simulation (PGS) can be an alternative to generate multiple numerical models of the ore body, with the aim of assessing the uncertainty in the domain boundaries and improving the geological controls in the characterization of quantitative attributes. This study addresses the application of PGS to Sungun porphyry copper deposit (Iran), in order to simulate the layout of four hypogene alteration zones: potassic, phyllic, propylitic and argillic. The aim of this study is to construct numerical models in which the alteration structures reflect the evolution observed in the geology.

Tradeoff between picture element dimensions and noncoherent averaging in side-looking airborne radar

NASA Technical Reports Server (NTRS)

Moore, R. K.

1979-01-01

An experiment was performed in which three synthetic-aperture images and one real-aperture image were successively degraded in spatial resolution, both retaining the same number of independent samples per pixel and using the spatial degradation to allow averaging of different numbers of independent samples within each pixel. The original and degraded images were provided to three interpreters familiar with both aerial photographs and radar images. The interpreters were asked to grade each image in terms of their ability to interpret various specified features on the image. The numerical interpretability grades were then used as a quantitative measure of the utility of the different kinds of image processing and different resolutions. The experiment demonstrated empirically that the interpretability is related exponentially to the SGL volume which is the product of azimuth, range, and gray-level resolution.

Teachers' Interpretations of Student Statements about Slope

ERIC Educational Resources Information Center

Nagle, Courtney; Moore-Russo, Deborah; Styers, Jodie L.

2017-01-01

This paper describes seven in-service teachers' interpretations of student statements about slope. The teachers interpreted sample student work, conjectured about student contributions, assessed the students' understanding, and positioned the students' statements in the mathematics curriculum. The teachers' responses provide insight into their…

MSL/Mastcam Multispectral Observations of Lower Mt. Sharp Units: Spectral Evidence of Distinct Alteration Environments

NASA Astrophysics Data System (ADS)

Wellington, D. F.; Bell, J. F., III; Johnson, J. R.; Fraeman, A. A.; Kinch, K. M.; Godber, A.; Rice, M. S.

2016-12-01

The Mars Science Laboratory Curiosity rover reached the lower units of Mt. Sharp in Gale Crater approximately two years ago. Along the traverse, Mastcam multispectral observations have documented the visible/near-IR spectral variability of drill tailings, bedrock, float rocks, fines, and other materials, recording a set of diverse reflectance properties in twelve unique filters over wavelengths 400-1100 nm. The most recent multi-filter images include new spectral diversity not encountered in near-field imaging acquired earlier in the mission. Since departing Marias Pass ( sol 1072), the rover has sampled material from the Stimson sandstone unit four times at two widely separated locations. These drill pairs were designed to investigate alteration regions visible as bright haloes bordering fractures in the bedrock. Drill fines and piles of dumped sample material from these sites (at Bridger Basin and on the Naukluft Plateau) were targeted for multispectral observations, which quantify the differences in overall reflectance and spectral shape between the unaltered Stimson material and the light-toned haloes. In the latter, high reflectances and relatively flat spectral shapes are consistent with interpretations of silica enrichment from other instruments. Mastcam spectra of the portions of the underlying Murray Formation (mudstone) that were encountered on first approach to the Bagnold dunes, and again upon exiting the Naukluft Plateau, are consistent with the presence of crystalline hematite. Variations in the relative strength of hematite absorption features in different locations may suggest possible differences in relative and/or absolute abundances of hematite of varying degrees of crystallinity. Dune materials have low reflectances with a broad, shallow absorption near 1-µm consistent with an olivine-bearing basaltic composition. We present these and other examples of spectral variability encountered by the rover during its ascent up the lower slopes of Mt. Sharp.

A Study of Olivine Alteration to Iddingsite Using Raman Spectroscopy

NASA Technical Reports Server (NTRS)

Kuebler, K. E.; Wang, Alian; Haskin, L. A.; Jolliff, B. L.

2003-01-01

A crucial task of Mars surface science is to determine past environmental conditions, especially aqueous environments and their nature. Identification of mineral alteration by water is one way to do this. Recent work interprets TES spectra as indicating altered basalt on Mars. Olivine, a primary basaltic mineral, is easily altered by aqueous solutions. Alteration assemblages of olivine may be specific to deuteric, hydrothermal, surface water, or metamorphic environments. Raman spectra are produced by molecular vibrations and provide direct means for studying and identifying alteration products. Here, we present a combined study of changes in the chemical composition and Raman spectra of an olivine as it alters to iddingsite. Iddingsite is found in some SNC meteorites and is presumably present on Mars. The term 'iddingsite' has been used as a catch-all term to describe reddish alteration products of olivine, although some authors ascribe a narrower definition: an angstrom-scale intergrowth of goethite and smectite (presumably saponite) formed in an oxidizing and fluid-rich environment. Alteration conserves Fe (albeit oxidized) but requires addition of Al and H2O and removal of Mg and Si. The smectite that forms may be removed by continued alteration. Dehydration of the goethite forms hematite. Our purpose is to study the mineral assemblage, determine the structural and chemical variability of the components with respect to the degree of alteration, and to find spectral indicators of alteration that will be useful during in-situ analyses on Mars.

Statistical classification techniques for engineering and climatic data samples

NASA Technical Reports Server (NTRS)

Temple, E. C.; Shipman, J. R.

1981-01-01

Fisher's sample linear discriminant function is modified through an appropriate alteration of the common sample variance-covariance matrix. The alteration consists of adding nonnegative values to the eigenvalues of the sample variance covariance matrix. The desired results of this modification is to increase the number of correct classifications by the new linear discriminant function over Fisher's function. This study is limited to the two-group discriminant problem.

Interpreting the g loadings of intelligence test composite scores in light of Spearman's law of diminishing returns.

PubMed

Reynolds, Matthew R

2013-03-01

The linear loadings of intelligence test composite scores on a general factor (g) have been investigated recently in factor analytic studies. Spearman's law of diminishing returns (SLODR), however, implies that the g loadings of test scores likely decrease in magnitude as g increases, or they are nonlinear. The purpose of this study was to (a) investigate whether the g loadings of composite scores from the Differential Ability Scales (2nd ed.) (DAS-II, C. D. Elliott, 2007a, Differential Ability Scales (2nd ed.). San Antonio, TX: Pearson) were nonlinear and (b) if they were nonlinear, to compare them with linear g loadings to demonstrate how SLODR alters the interpretation of these loadings. Linear and nonlinear confirmatory factor analysis (CFA) models were used to model Nonverbal Reasoning, Verbal Ability, Visual Spatial Ability, Working Memory, and Processing Speed composite scores in four age groups (5-6, 7-8, 9-13, and 14-17) from the DAS-II norming sample. The nonlinear CFA models provided better fit to the data than did the linear models. In support of SLODR, estimates obtained from the nonlinear CFAs indicated that g loadings decreased as g level increased. The nonlinear portion for the nonverbal reasoning loading, however, was not statistically significant across the age groups. Knowledge of general ability level informs composite score interpretation because g is less likely to produce differences, or is measured less, in those scores at higher g levels. One implication is that it may be more important to examine the pattern of specific abilities at higher general ability levels. PsycINFO Database Record (c) 2013 APA, all rights reserved.

Oxygen, Magnesium, and Aluminum Isotopes in the Ivuna CAI: Re-Examining High-Temperature Fractionations in CI Chondrites

NASA Technical Reports Server (NTRS)

Frank, D. R.; Huss, G. R.; Nagashima, K.; Zolensky, M. E.; Le, L.

2017-01-01

CI chondrites are thought to approximate the bulk solar system composition since they closely match the composition of the solar photosphere. Thus, chemical differences between a planetary object and the CI composition are interpreted to result from fractionations of a CI starting composition. This interpretation is often made despite the secondary mineralogy of CI chondrites, which resulted from low-T aqueous alteration on the parent asteroid(s). Prevalent alteration and the relatively large uncertainties in the photospheric abundances (approx. +/-5-10%) permit chemical fractionation of CI chondrites from the bulk solar system, if primary chondrules and/or CAIs have been altered beyond recognition. Isolated olivine and pyroxene grains that range from approx. 5 microns to several hundred microns have been reported in CI chondrites, and acid residues of Orgueil were found to contain refractory oxides with oxygen isotopic compositions matching CAIs. However, the only CAI found to be unambiguously preserved in a CI chondrite was identified in Ivuna. The Ivuna CAI's primary mineralogy, small size (approx.170 microns), and fine-grained igneous texture classify it as a compact type A. Aqueous alteration infiltrated large portions of the CAI, but other regions remain pristine. The major primary phases are melilite (Ak 14-36 ), grossmanite (up to 20.8 wt.% TiO 2 ), and spinel. Both melilite and grossmanite have igneous textures and zoning patterns. An accretionary rim consists primarily of olivine (Fa 2-17 ) and low-Ca pyroxene (Fs 2-10 ), which could be either surviving CI2 material or a third lithology.

Patterns of Communication through Interpreters: A Detailed Sociolinguistic Analysis

PubMed Central

Aranguri, Cesar; Davidson, Brad; Ramirez, Robert

2006-01-01

BACKGROUND Numerous articles have detailed how the presence of an interpreter leads to less satisfactory communication with physicians; few have studied how actual communication takes place through an interpreter in a clinical setting. OBJECTIVE Record and analyze physician-interpreter-patient interactions. DESIGN Primary care physicians with high-volume Hispanic practices were recruited for a communication study. Dyslipidemic Hispanic patients, either monolingual Spanish or bilingual Spanish-English, were recruited on the day of a normally scheduled appointment and, once consented, recorded without a researcher present in the room. Separate postvisit interviews were conducted with the patient and the physician. All interactions were fully transcribed and analyzed. PARTICIPANTS Sixteen patients were recorded interacting with 9 physicians. Thirteen patients used an interpreter with 8 physicians, and 3 patients spoke Spanish with the 1 bilingual physician. APPROACH Transcript analysis based on sociolinguistic and discourse analytic techniques, including but not limited to time speaking, analysis of questions asked and answered, and the loss of semantic information. RESULTS Speech was significantly reduced and revised by the interpreter, resulting in an alteration of linguistic features such as content, meaning, reinforcement/validation, repetition, and affect. In addition, visits that included an interpreter had virtually no rapport-building “small talk,” which typically enables the physician to gain comprehensive patient history, learn clinically relevant information, and increase emotional engagement in treatment. CONCLUSIONS The presence of an interpreter increases the difficulty of achieving good physician-patient communication. Physicians and interpreters should be trained in the process of communication and interpretation, to minimize conversational loss and maximize the information and relational exchange with interpreted patients. PMID:16808747

Can Concentration - Discharge Relationships Diagnose Material Source During Extreme Events?

NASA Astrophysics Data System (ADS)

Karwan, D. L.; Godsey, S.; Rose, L.

2017-12-01

Floods can carry >90% of the basin material exported in a given year as well as alter flow pathways and material sources. In turn, sediment and solute fluxes can increase flood damages and negatively impact water quality and integrate physical and chemical weathering of landscapes and channels. Concentration-discharge (C-Q) relationships are used to both describe export patterns as well as compute them. Metrics for describing C-Q patterns and inferring their controls are vulnerable to infrequent sampling that affects how C-Q relationships are interpolated and interpreted. C-Q relationships are typically evaluated from multiple samples, but because hydrological extremes are rare, data are often unavailable for extreme events. Because solute and sediment C-Q relationships likely respond to changes in hydrologic extremes in different ways, there is a pressing need to define their behavior under extreme conditions, including how to properly sample to capture these patterns. In the absence of such knowledge, improving load estimates in extreme floods will likely remain difficult. Here we explore the use of C-Q relationships to determine when an event alters a watershed system such that it enters a new material source/transport regime. We focus on watersheds with sediment and discharge time series include low-frequency and/or extreme events. For example, we compare solute and sediment patterns in White Clay Creek in southeastern Pennsylvania across a range of flows inclusive of multiple hurricanes for which we have ample ancillary hydrochemical data. TSS is consistently mobilized during high flow events, even during extreme floods associated with hurricanes, and sediment fingerprinting indicates different sediment sources, including in-channel remobilization and landscape erosion, are active at different times. In other words, TSS mobilization in C-Q space is not sensitive to the source of material being mobilized. Unlike sediments, weathering solutes in this watershed tend to exhibit a relatively chemostatic C-Q pattern, except during the runoff-dominated Hurricane Irene, when they exhibit a diluting C-Q pattern. Finally, we summarize the vulnerability of these observations to shifts in sampling effort to highlight the utility and limitations of C-Q-derived export patterns.

Mineralogy, alteration patterns, geochemistry, and fluid properties of the Ag-Au epithermal deposit Nová Baňa, Slovakia

NASA Astrophysics Data System (ADS)

Majzlan, Juraj; Berkh, Khulan; Kiefer, Stefan; Koděra, Peter; Fallick, Anthony E.; Chovan, Martin; Bakos, František; Biroň, Adrián; Ferenc, Štefan; Lexa, Jaroslav

2018-02-01

In this contribution, we report new data on mineralogy, alteration patterns, geochemistry, fluid properties and source of fluids for the deposit Nová Baňa, one of the smaller epithermal deposits in the Middle Miocene Štiavnica andesite stratovolcano (Western Carpathians, Slovakia). Ore veins and the associated rocks were studied in samples from outcrops and old mines, grab samples, and bore holes from the central part of the deposit (ore structures Althandel, Jozef, Jakub, Vavrinec), northern part (Freischurf), SE part (Gupňa) and SW part (Šibeničný vrch). Pervasive hydrothermal alteration transformed the rock-forming minerals into a mixture of adularia and fine-grained quartz, with lesser amount of pyrite, Ti oxides and Fe oxides. This assemblage was further altered to omnipresent interstratified illite/smectite that was used in this study as a geothermometer, corroborating the results from the fluid inclusion work. Ore minerals comprise predominantly pyrite, sphalerite, galena but all sulfides are relatively sparse in the samples studied. Minerals of precious metals are electrum, Ag-tetrahedrite, acanthite, members of the polybasite-pearceite and pyrargyrite-proustite solid solution, and rare miargyrite, Hg-Ag tetrahedrite, and diaphorite. In the central part, we have found also some stibnite. In the SE part of the deposit, acanthite, uytenbogaardtite, and petrovskaite occur and seem to be related to supergene enrichment of the ores. In bulk ore samples, Zn usually dominates over Pb and Cu. The average Ag:Au ratio for the entire deposit is 64:1. The concentrations of precious metals in the grab samples reach maxima of 50 ppm Au and 570 ppm Ag in the SE part and 116 ppm Au and 1110 ppm Ag in the central part of the deposit. Fluid inclusions show signs of trapping of a heterogeneous fluid. In the central, northern and SE parts of the deposit, homogenization temperatures of 190-260 °C and consistently low salinities of <5 wt% NaCl eq were recorded. In the SW part, primary fluid inclusions gave homogenization temperatures of 160-180 °C and similar low salinities. The secondary inclusions, however, show salinities up to 24 wt% NaCl eq., interpreted as fluid boiling almost to dryness. Isotopic composition of quartz and clay minerals is recalculated to fluid composition of -5.6 to -0.6 ‰ δ18Ofluid and -80 to -36 ‰ δDfluid, indicating mixed character of hydrothermal fluids falling between the compositions of magmatic and meteoric waters, with predominance of meteoric waters. Assuming hydrostatic pressure in the fluids, the measured data suggest paleodepths of ore formation of 50-170 m in the SW part of the ore deposit, 130-420 m in the SE and N parts, and a range of 120-470 m for the central part. These observations, comparison with other epithermal deposits in the Central Slovak volcanic field, and additional data from published literature show that Nová Baňa is a low- to intermediate sulfidation epithermal deposit, genetically associated to late rhyolitic volcanic activity in this area.

On the impact of examiners on latencies and amplitudes in cervical and ocular vestibular-evoked myogenic potentials evaluated over a large sample (N = 1,038).

PubMed

Ertl, Matthias; Boegle, R; Kirsch, V; Dieterich, M

2016-02-01

Vestibular-evoked myogenic potentials (VEMPs) are frequently used in the clinical diagnosis and research of vertigo syndromes. Altered latencies or amplitudes are typically interpreted as an indication of disturbance in the processing of vestibular stimuli along the otolithic pathways. Correct interpretation, however, can be difficult as VEMP amplitudes can vary greatly across subjects and across laboratories, likely because they are very sensitive to measurement conditions. Here, we attempted to quantify the impact of examiner differences on VEMP data. We collected data from 1,038 people using eight different experimental examiners, and investigated the effect of examiner on VEMP latencies and amplitudes. We found that the examiner collecting the data had a strong effect on outcome measures with significant differences (p < 0.001) in cVEMP and oVEMP latencies and in oVEMP amplitudes. No significant differences between examiners were found for the cVEMP amplitudes. When we compared the healthy and pathological sides of patients with a clinically diagnosed unilateral disease, no significant differences between sides were found. Given our results and the results reported in the literature, we conclude that the signal features of VEMPs are very sensitive to variables that may be influenced by the examiner. The field should therefore work on a better standard for VEMP recordings.

Accounting for body size deviations when reporting bone mineral density variables in children.

PubMed

Webber, C E; Sala, A; Barr, R D

2009-01-01

In a child, bone mineral density (BMD) may differ from an age-expected normal value, not only because of the presence of disease, but also because of deviations of height or weight from population averages. Appropriate adjustment for body size deviations simplifies interpretation of BMD measurements. For children, a bone mineral density (BMD) measurement is normally expressed as a Z score. Interpretation is complicated when weight or height distinctly differ from age-matched children. We develop a procedure to allow for the influence of body size deviations upon measured BMD. We examined the relation between body size deviation and spine, hip and whole body BMD deviation in 179 normal children (91 girls). Expressions were developed that allowed derivation of an expected BMD based on age, gender and body size deviation. The difference between measured and expected BMD was expressed as a HAW score (Height-, Age-, Weight-adjusted score). In a second independent sample of 26 normal children (14 girls), measured spine, total femur and whole body BMD all fell within the same single normal range after accounting for age, gender and body size deviations. When traditional Z scores and HAW scores were compared in 154 children, 17.5% showed differences of more than 1 unit and such differences were associated with height and weight deviations. For almost 1 in 5 children, body size deviations influence BMD to an extent that could alter clinical management.

On the neutralization of acid rock drainage by carbonate and silicate minerals

NASA Astrophysics Data System (ADS)

Sherlock, E. J.; Lawrence, R. W.; Poulin, R.

1995-02-01

The net result of acid-generating and-neutralizing reactions within mining wastes is termed acid rock drainage (ARD). The oxidation of sulfide minerals is the major contributor to acid generation. Dissolution and alteration of various minerals can contribute to the neutralization of acid. Definitions of alkalinity, acidity, and buffer capacity are reviewed, and a detailed discussion of the dissolution and neutralizing capacity of carbonate and silicate minerals related to equilibium conditions, dissolution mechanism, and kinetics is provided. Factors that determine neutralization rate by carbonate and silicate minerals include: pH, PCO 2, equilibrium conditions, temperature, mineral composition and structure, redox conditions, and the presence of “foreign” ions. Similar factors affect sulfide oxidation. Comparison of rates shows sulfides react fastest, followed by carbonates and silicates. The differences in the reaction mechanisms and kinetics of neutralization have important implications in the prediction, control, and regulation of ARD. Current static and kinetic prediction methods upon which mine permitting, ARD control, and mine closure plans are based do not consider sample mineralogy or the kinetics of the acid-generating and-neutralizing reactions. Erroneous test interpretations and predictions can result. The importance of considering mineralogy for site-specific interpretation is highlighted. Uncertainty in prediction leads to difficulties for the mine operator in developing satisfactory and cost-effective control and remediation measures. Thus, the application of regulations and guidelines for waste management planning need to beflexible.

Diamond brecciation and annealing accompanying major metasomatism in eclogite xenoliths from the Sask Craton, Canada

NASA Astrophysics Data System (ADS)

Czas, Janina; Stachel, Thomas; Pearson, D. Graham; Stern, Richard A.; Read, George H.

2018-05-01

We studied eclogite xenoliths (diamond-free n = 28; diamondiferous n = 22) from the Cretaceous Fort à la Corne Kimberlite Field in Western Canada for their major element, trace element and oxygen isotope compositions to assess their origin and metasomatic history, and possible relationships between metasomatism and diamond formation. All eclogites have major element and oxygen isotope compositions consistent with a derivation from different levels of subducted, seawater altered oceanic crust. While barren xenoliths are more likely to be of gabbroic origin, diamond-bearing samples commonly have signatures consistent with shallow basaltic protoliths. The mineral chemistry in bimineralic diamond-free eclogites spans a wide compositional range, yet it is typically homogenous within individual xenoliths. Temperatures calculated from Mg-Fe exchange between garnet and clinopyroxene range widely for these eclogites, from 740 to 1300 °C, indicating the presence of eclogite through most of the lithospheric mantle. Diamondiferous samples are restricted to high temperatures (1180-1390 °C), consistent with derivation from the zone of diamond stability. Compositionally, diamond-bearing eclogites span a broad range similar to their barren counterparts, but there is also heterogeneity in mineral chemistry on the intra-sample level and in particular garnets are characterised by strong internal chemical gradients. This intra-sample heterogeneity is interpreted as the result of intense melt metasomatism, which occurred in temporal proximity to host kimberlite magmatism, strongly affected major, trace and even oxygen isotope values and resulted in diamond brecciation and annealing.

Groundwater quality assessment using geoelectrical and geochemical approaches: case study of Abi area, southeastern Nigeria

NASA Astrophysics Data System (ADS)

Ebong, Ebong D.; Akpan, Anthony E.; Emeka, Chimezie N.; Urang, Job G.

2017-09-01

The electrical resistivity technique which involved the Schlumberger depth sounding method and geochemical analyses of water samples collected from boreholes was used to investigate the suitability of groundwater aquifers in Abi for drinking and irrigation purposes. Fifty randomly located electrical resistivity data were collected, modeled, and interpreted after calibration with lithologic logs. Ten borehole water samples were collected and analysed to determine anion, cation concentrations and some physical and chemical parameters, such as water colour, temperature, total dissolved solids, and electrical conductivity. The results show that the lithostratigraphy of the study area is composed of sands, sandstones (fractured, consolidated and loosed), siltstones, shales (compacted and fractured) of the Asu River Group, Eze-Aku Formation which comprises the aquifer units, and the Nkporo Shale Formation. The aquifer conduits are known to be rich in silicate minerals, and the groundwater samples in some locations show a significant amount of Ca2+, Mg2+, and Na+. These cations balanced the consumption of H+ during the hydrolytic alteration of silicate minerals. The geochemical analysis of groundwater samples revealed dominant calcium-magnesium-carbonate-bicarbonate water facies. Irrigation water quality parameters, such as sodium absorption ratio, percentage of sodium, and permeability index, were calculated based on the physico-chemical analyses. The groundwater quality was observed to be influenced by the interaction of some geologic processes but was classified to be good to excellent, indicating its suitability for domestic and irrigation purposes.

Examining Interpretations of Graphic Cigarette Warning Labels Among U.S. Youth and Adults.

PubMed

McQueen, Amy; Waters, Erika A; Kaphingst, Kimberly A; Caburnay, Charlene A; Sanders Thompson, Vetta L; Boyum, Sonia; Kreuter, Matthew W

2016-08-01

Few studies have examined how diverse populations interpret warning labels. This study examined interpretations of 9 graphic cigarette warning labels (image plus text) proposed by the U.S. Food and Drug Administration among a convenience sample of youth (ages 13-17) and adults (18+) across the United States. Participants (N = 1,571) completed a cross-sectional survey. Participants were asked to select 1 of 3 plausible interpretations (1 preferred vs. 2 alternative) created by the research team about the particular consequence of smoking addressed in each warning label. Participants also rated each label for novelty, counterarguing, perceived effectiveness, and harm. Smokers reported their thoughts of quitting, self-efficacy, and motivation to quit. Although at least 70% of the sample chose the preferred interpretation for 7 of 9 labels, only 13% of participants chose all 9 preferred interpretations. The odds of selecting the preferred interpretation were lower among African Americans, among those with less education, and for labels perceived as being more novel. Smokers reported greater counterarguing and less perceived effectiveness and harms than nonsmokers, but results were not consistent across all labels and interpretations. The alternative interpretations of cigarette warning labels were associated with lower perceived effectiveness and lower perceived harms of smoking, both of which are important for motivating quit attempts.

45 CFR 605.54 - Education of institutionalized persons.

Code of Federal Regulations, 2011 CFR

2011-10-01

... 45 Public Welfare 3 2011-10-01 2011-10-01 false Education of institutionalized persons. 605.54... ASSISTANCE Health, Welfare, and Social Services § 605.54 Education of institutionalized persons. A recipient... appropriate education, as defined in § 605.33(b). Nothing in this section shall be interpreted as altering in...

Helping Students Interpret Large-Scale Data Tables

ERIC Educational Resources Information Center

Prodromou, Theodosia

2016-01-01

New technologies have completely altered the ways that citizens can access data. Indeed, emerging online data sources give citizens access to an enormous amount of numerical information that provides new sorts of evidence used to influence public opinion. In this new environment, two trends have had a significant impact on our increasingly…

Interpreting the Value of Ecosystem Services in a Great Lakes Estuary from the Behavior of Individuals and Communities

EPA Science Inventory

Fundamentally, economists study human behavior. Financial and political investments are justified in terms of the real, perceived, or potential value of benefits. Unlike economic systems, investments in and benefits from ecosystems are difficult to monetize. We are applying alter...

Homotopy Types and Social Theory: Theoretical Foundations of Strategic Dynamics

DTIC Science & Technology

2016-06-15

actor assesses whether to remain in the current relational pattern or to change a relation type. Further, each contemplated alteration will usually...1a is punitive, seeking advantage from the actions that aroused the negative affect. Axiom 1b is self-aggrandizing, by interpreting (excessively or

45 CFR 605.54 - Education of institutionalized persons.

Code of Federal Regulations, 2010 CFR

2010-10-01

... 45 Public Welfare 3 2010-10-01 2010-10-01 false Education of institutionalized persons. 605.54... ASSISTANCE Health, Welfare, and Social Services § 605.54 Education of institutionalized persons. A recipient... appropriate education, as defined in § 605.33(b). Nothing in this section shall be interpreted as altering in...

15 CFR Supplement No. 13 to Part 760 - Interpretation

Code of Federal Regulations, 2010 CFR

2010-01-01

... alters the effect of this clause. The effect is to draw the contractor into the decision-making process... service because of the presumed intrusion of boycott-based criteria into the selection process. Thus... selecting a single supplier or subcontractor for each element of the contract. The boycotting country buyer...

Mediation Analysis of Mode Deactivation Therapy (Reanalysis and Interpretation)

ERIC Educational Resources Information Center

Bass, Christopher K.; Apsche, Jack A.

2013-01-01

A key component of Mode Deactivation Therapy (MDT) is the development of self-awareness and regulatory skills by the client with the aim of helping adolescent males with conduct disordered behaviors, including sexually inappropriate behaviors and emotional dysregulation. The goal includes altering specific behaviors to fall within socially…

Chemical characterization of the acid alteration of diesel fuel: Non-targeted analysis by two-dimensional gas chromatography coupled with time-of-flight mass spectrometry with tile-based Fisher ratio and combinatorial threshold determination.

PubMed

Parsons, Brendon A; Pinkerton, David K; Wright, Bob W; Synovec, Robert E

2016-04-01

The illicit chemical alteration of petroleum fuels is of keen interest, particularly to regulatory agencies that set fuel specifications, or taxes/credits based on those specifications. One type of alteration is the reaction of diesel fuel with concentrated sulfuric acid. Such reactions are known to subtly alter the chemical composition of the fuel, particularly the aromatic species native to the fuel. Comprehensive two-dimensional gas chromatography coupled with time-of-flight mass spectrometry (GC×GC-TOFMS) is well suited for the analysis of diesel fuel, but may provide the analyst with an overwhelming amount of data, particularly in sample-class comparison experiments comprised of many samples. Tile-based Fisher-ratio (F-ratio) analysis reduces the abundance of data in a GC×GC-TOFMS experiment to only the peaks which significantly distinguish the unaltered and acid altered sample classes. Three samples of diesel fuel from differently branded filling stations were each altered to discover chemical features, i.e., analyte peaks, which were consistently changed by the acid reaction. Using different fuels prioritizes the discovery of features likely to be robust to the variation present between fuel samples and may consequently be useful in determining whether an unknown sample has been acid altered. The subsequent analysis confirmed that aromatic species are removed by the acid alteration, with the degree of removal consistent with predicted reactivity toward electrophilic aromatic sulfonation. Additionally, we observed that alkenes and alkynes were also removed from the fuel, and that sulfur dioxide or compounds that degrade to sulfur dioxide are generated by the acid alteration. In addition to applying the previously reported tile-based F-ratio method, this report also expands null distribution analysis to algorithmically determine an F-ratio threshold to confidently select only the features which are sufficiently class-distinguishing. When applied to the acid alteration of diesel fuel, the suggested per-hit F-ratio threshold was 12.4, which is predicted to maintain the false discovery rate (FDR) below 0.1%. Using this F-ratio threshold, 107 of the 3362 preliminary hits were deemed significantly changing due to the acid alteration, with the number of false positives estimated to be about 3. Validation of the F-ratio analysis was performed using an additional three fuels. Copyright © 2016 Elsevier B.V. All rights reserved.

The role of hydrothermal processes in concentrating high-field strength elements in the Strange Lake peralkaline complex, northeastern Canada

NASA Astrophysics Data System (ADS)

Salvi, Stefano; Williams-Jones, Anthony E.

1996-06-01

The middle-Proterozoic peralkaline pluton at Strange Lake, Quebec/Labrador, comprises hypersolvus to subsolvus phases which are unusually enriched in Zr, Y, REEs, Nb, Be, and F, as exotic alkali and alkaline-earth silicate minerals. The highest concentrations of these elements are in subsolvus granite, which underwent intense low temperature (≤200°C) hydrothermal alteration involving hematization and the replacement of alkali high-field strength element (HFSE) minerals by calcic equivalents. This alteration is interpreted to have been caused by meteoric or formational waters. High temperature (≥ 350°C) alteration, attributed to orthomagmatic fluids, is evident in other parts of the subsolvus granite by the replacement of arfvedsonite by aegirine. Comparisons of the chemical compositions of fresh and altered rocks indicate that rocks subjected to high temperature alteration were chemically unaffected, except for depletion in Zr, Y, and HREEs. These elements were appreciably enriched in rocks that underwent low temperature alteration. Other elements affected by low temperature alteration include Ca and Mg, which were added and Na, which was removed. Available data on HFSE speciation in aqueous fluids and the chemistry of the pluton, suggest that the HFSEs were transported as fluoride complexes. If this was the case, the low temperature fluid could not have been responsible for HFSE transport, because the high concentration of Ca and low solubility of fluorite would have buffered F - activity to levels too low to permit significant complexation. We propose that HFSE mineralization and accompanying alteration were the result of mixing, in the apical parts of the pluton, of a F-rich, essentially Ca-free orthomagmatic fluid containing significant concentrations of HFSEs, with an externally derived meteoric-dominated fluid, enriched in Ca as a result of interaction with calc-silicate gneisses and gabbros. According to this interpretation, the latter fluid was responsible for the exchange of Ca for alkalis, mainly Na, in HFSE-rich minerals and, by sharply reducing F - activity in the mixed fluid through fluorite precipitation and/or increasing pH, destabilised the HFSE-fluoride complexes, causing deposition of HFSE-bearing minerals. An important implication of this study is that major HFSE enrichment may be restricted to those rare cases where F-rich, Ca-free, metal leaching environments and Ca-rich depositional environments are juxtaposed.

Multi-stage mixing in subduction zone: Application to Merapi volcano, Indonesia

NASA Astrophysics Data System (ADS)

Debaille, V.; Doucelance, R.; Weis, D.; Schiano, P.

2003-04-01

Basalts sampling subduction zone volcanism (IAB) often show binary mixing relationship in classical Sr-Nd, Pb-Pb, Sr-Pb isotopic diagrams, generally interpreted as reflecting the involvement of two components in their source. However, several authors have highlighted the presence of minimum three components in such a geodynamical context: mantle wedge, subducted and altered oceanic crust and subducted sediments. The overlying continental crust can also contribute by contamination and assimilation in magma chambers and/or during magma ascent. Here we present a multi-stage model to obtain a two end-member mixing from three components (mantle wedge, altered oceanic crust and sediments). The first stage of the model considers the metasomatism of the mantle wedge by fluids and/or melts released by subducted materials (altered oceanic crust and associated sediments), considering mobility and partition coefficient of trace elements in hydrated fluids and silicate melts. This results in the generation of two distinct end-members, reducing the number of components (mantle wedge, oceanic crust, sediments) from three to two. The second stage of the model concerns the binary mixing of the two end-members thus defined: mantle wedge metasomatized by slab-derived fluids and mantle wedge metasomatized by sediment-derived fluids. This model has been applied on a new isotopic data set (Sr, Nd and Pb, analyzed by TIMS and MC-ICP-MS) of Merapi volcano (Java island, Indonesia). Previous studies have suggested three distinct components in the source of indonesian lavas: mantle wedge, subducted sediments and altered oceanic crust. Moreover, it has been shown that crustal contamination does not significantly affect isotopic ratios of lavas. The multi-stage model proposed here is able to reproduce the binary mixing observed in lavas of Merapi, and a set of numerical values of bulk partition coefficient is given that accounts for the genesis of lavas.

Petrography and geochemistry of granitoids from the Samphire Pluton, South Australia: Implications for uranium mineralisation in overlying sediments

NASA Astrophysics Data System (ADS)

Domnick, Urs; Cook, Nigel J.; Bluck, Russel; Brown, Callan; Ciobanu, Cristiana L.

2018-02-01

The Blackbush uranium deposit (JORC Inferred Resource: 12,580 tonnes U), located on the north-eastern Eyre Peninsula, is currently the only sediment-hosted U deposit investigated in detail in the Gawler Craton. Uranium is hosted within Eocene sandstone of the Kanaka Beds, overlying Mesoproterozoic granites of the Samphire pluton, affiliated with the Hiltaba Intrusive Suite ( 1.6 Ga). These are considered the most probable source rocks for uranium mineralisation. By constraining the petrography and mineralogy of the granites, insights into the post-emplacement evolution can be gained, which may provide an exploration indicator for other sediment-hosted uranium systems. Three geochemically distinct granite types were identified in the Samphire Pluton and correspond to domains interpreted from geophysical data. All granites show complex alteration overprints and textures with increasing intensity closer to the deposit, as well as crosscutting veining. Alkali feldspar has been replaced by porous K-feldspar and albite, and plagioclase is overprinted by an assemblage of porous albite + sericite ± calc-silicates (prehnite, pumpellyite and epidote). This style of feldspar alteration is regionally widespread and known from Hiltaba-aged granites associated with iron-oxide copper-gold mineralisation at Olympic Dam and in the Moonta-Wallaroo region. In two granite types biotite is replaced by calcic garnet. Calc-silicates are indicative of Ca-metasomatism, sourced from the anorthite component of altered plagioclase. Minor clay alteration of feldspars is present in all samples. Mineral assemblages in veins include quartz + hematite, hematite + coffinite, fluorite + quartz, and clay minerals. Minor chlorite and sericite are found in all vein types. All granite types are anomalously rich in U (concentrations between 10 and 81 ppm). Highly variable Th/U ratios, as well as hydrothermal U minerals (mostly coffinite) in granites and veins, are clear evidence for U mobility. Uranium may have been preconcentrated in veins in the upper parts of the pluton, and was subsequently leached after deposition of the sediment.

Segmental hair analysis for differentiation of tilidine intake from external contamination using LC-ESI-MS/MS and MALDI-MS/MS imaging.

PubMed

Poetzsch, Michael; Baumgartner, Markus R; Steuer, Andrea E; Kraemer, Thomas

2015-02-01

Segmental hair analysis has been used for monitoring changes of consumption habit of drugs. Contamination from the environment or sweat might cause interpretative problems. For this reason, hair analysis results were compared in hair samples taken 24 h and 30 days after a single tilidine dose. The 24-h hair samples already showed high concentrations of tilidine and nortilidine. Analysis of wash water from sample preparation confirmed external contamination by sweat as reason. The 30-day hair samples were still positive for tilidine in all segments. Negative wash-water analysis proved incorporation from sweat into the hair matrix. Interpretation of a forensic case was requested where two children had been administered tilidine by their nanny and tilidine/nortilidine had been detected in all hair segments, possibly indicating multiple applications. Taking into consideration the results of the present study and of MALDI-MS imaging, a single application as cause for analytical results could no longer be excluded. Interpretation of consumption behaviour of tilidine based on segmental hair analysis has to be done with caution, even after typical wash procedures during sample preparation. External sweat contamination followed by incorporation into the hair matrix can mimic chronic intake. For assessment of external contamination, hair samples should not only be collected several weeks but also one to a few days after intake. MALDI-MS imaging of single hair can be a complementary tool for interpretation. Limitations for interpretation of segmental hair analysis shown here might also be applicable to drugs with comparable physicochemical and pharmacokinetic properties. Copyright © 2014 John Wiley & Sons, Ltd.

Sidescan-sonar imagery, multibeam bathymetry, and surficial geologic interpretations of the sea floor in Rhode Island Sound, off Sakonnet Point, Rhode Island

USGS Publications Warehouse

McMullen, Katherine Y.; Poppe, Lawrence J.; Twomey, Erin R.; Danforth, William W.; Haupt, Todd A.; Crocker, James M.

2007-01-01

The U.S. Geological Survey (USGS) is working with the National Oceanic and Atmospheric Administration (NOAA) to interpret the surficial geology in estuaries and sounds along the northeastern coast of the United States. This report interprets the area covered by NOAA Survey H11320, about 72 km² of sea floor in eastern Rhode Island Sound (RIS), located about 8 km south of Sakonnet Point, Rhode Island (fig. 1). Previous work in RIS includes studies of both sea-floor processes and subsurface geologic framework. McMaster (1960) mapped surficial sediment samples in Narragansett Bay and RIS and McMaster and others (1968) conducted a seismic-reflection survey in Block Island Sound and RIS. O'Hara and Oldale (1980) collected seismic-reflection profiles, sidescan-sonar data, and vibracores in eastern RIS (fig. 2). They interpreted the geologic history, assessed sand and gravel resources, and evaluated the mining impact of these resources. McMaster's (1960) interpretation of the surficial sediment within this study area consisted of sand with several isolated areas of gravel. Several other sediment samples were previously obtained within the study area: three National Oceanographic Data Center (NODC) dredge samples from 1942 consisted of sand and one National Ocean Service (NOS) sample from 1939 was rocky (fig. 2; Poppe and others, 2003). The purpose of this report is to define the sea-floor morphology and sedimentary environments and interpret processes occurring on the sea floor using sidescan-sonar imagery, multibeam bathymetry, and historic seismic-reflection profiles.

State of the art in bile analysis in forensic toxicology.

PubMed

Bévalot, F; Cartiser, N; Bottinelli, C; Guitton, J; Fanton, L

2016-02-01

In forensic toxicology, alternative matrices to blood are useful in case of limited, unavailable or unusable blood sample, suspected postmortem redistribution or long drug intake-to-sampling interval. The present article provides an update on the state of knowledge for the use of bile in forensic toxicology, through a review of the Medline literature from 1970 to May 2015. Bile physiology and technical aspects of analysis (sampling, storage, sample preparation and analytical methods) are reported, to highlight specificities and consequences from an analytical and interpretative point of view. A table summarizes cause of death and quantification in bile and blood of 133 compounds from more than 200 case reports, providing a useful tool for forensic physicians and toxicologists involved in interpreting bile analysis. Qualitative and quantitative interpretation is discussed. As bile/blood concentration ratios are high for numerous molecules or metabolites, bile is a matrix of choice for screening when blood concentrations are low or non-detectable: e.g., cases of weak exposure or long intake-to-death interval. Quantitative applications have been little investigated, but small molecules with low bile/blood concentration ratios seem to be good candidates for quantitative bile-based interpretation. Further experimental data on the mechanism and properties of biliary extraction of xenobiotics of forensic interest are required to improve quantitative interpretation. Copyright © 2015 The Authors. Published by Elsevier Ireland Ltd.. All rights reserved.

Thermal effects on rare earth element and strontium isotope chemistry in single conodont elements

NASA Astrophysics Data System (ADS)

Armstrong, H. A.; Pearson, D. G.; Griselin, M.

2001-02-01

A low-blank, high sensitivity isotope dilution, ICP-MS analytical technique has been used to obtain REE abundance data from single conodont elements weighing as little as 5 μg. Sr isotopes can also be measured from the column eluants enabling Sr isotope ratios and REE abundance to be determined from the same dissolution. Results are comparable to published analyses comprising tens to hundreds of elements. To study the effects of thermal metamorphism on REE and strontium mobility in conodonts, samples were selected from a single bed adjacent to a basaltic dyke and from the internationally used colour alteration index (CAI) "standard set." Our analyses span the range of CAI 1 to 8. Homogeneous REE patterns, "bell-shaped" shale-normalised REE patterns are observed across the range of CAI 1 to 6 in both sample sets. This pattern is interpreted as the result of adsorption during early diagenesis and could reflect original seawater chemistry. Above CAI 6 REE patterns become less predictable and perturbations from the typical REE pattern are likely to be due to the onset of apatite recrystallisation. Samples outside the contact aureole of the dyke have a mean 87Sr/ 86Sr ratio of 0.708165, within the broad range of published mid-Carboniferous seawater values. Our analysis indicates conodonts up to CAI 6 record primary geochemical signals that may be a proxy for ancient seawater.

Sampling frequency for water quality variables in streams: Systems analysis to quantify minimum monitoring rates.

PubMed

Chappell, Nick A; Jones, Timothy D; Tych, Wlodek

2017-10-15

Insufficient temporal monitoring of water quality in streams or engineered drains alters the apparent shape of storm chemographs, resulting in shifted model parameterisations and changed interpretations of solute sources that have produced episodes of poor water quality. This so-called 'aliasing' phenomenon is poorly recognised in water research. Using advances in in-situ sensor technology it is now possible to monitor sufficiently frequently to avoid the onset of aliasing. A systems modelling procedure is presented allowing objective identification of sampling rates needed to avoid aliasing within strongly rainfall-driven chemical dynamics. In this study aliasing of storm chemograph shapes was quantified by changes in the time constant parameter (TC) of transfer functions. As a proportion of the original TC, the onset of aliasing varied between watersheds, ranging from 3.9-7.7 to 54-79 %TC (or 110-160 to 300-600 min). However, a minimum monitoring rate could be identified for all datasets if the modelling results were presented in the form of a new statistic, ΔTC. For the eight H + , DOC and NO 3 -N datasets examined from a range of watershed settings, an empirically-derived threshold of 1.3(ΔTC) could be used to quantify minimum monitoring rates within sampling protocols to avoid artefacts in subsequent data analysis. Copyright © 2017 The Authors. Published by Elsevier Ltd.. All rights reserved.

Detection of intestinal protozoa in paediatric patients with gastrointestinal symptoms by multiplex real-time PCR.

PubMed

Maas, L; Dorigo-Zetsma, J W; de Groot, C J; Bouter, S; Plötz, F B; van Ewijk, B E

2014-06-01

The performance of a multiplex real-time PCR for the detection of Blastocystis, Dientamoeba fragilis, Giardia lamblia, Cryptosporidium species and Entamoeba species in faecal samples was evaluated in an observational prospective study. Paediatric patients (0-18 years) presenting with gastrointestinal symptoms and suspected of having enteroparasitic disease were included. A questionnaire on gastrointestinal symptoms and the chosen treatment was completed at the start of the study and after 6 weeks. Of 163 paediatric patients (mean age, 7.8 years), 114 (70%) had a PCR-positive faecal sample. D. fragilis was detected most frequently, in 101 patients, followed by Blastocystis in 49. In faecal samples of 47 patients, more than one protozoan was detected, mainly the combination of D. fragilis and Blastocystis. Reported gastrointestinal symptoms were abdominal pain (78%), nausea (30%), and altered bowel habits (28%). Eighty-nine of the PCR-positive patients were treated with antibiotics. A significant reduction in abdominal pain was observed both in treated and in untreated patients. This study demonstrated that multiplex real-time PCR detects a high percentage of intestinal protozoa in paediatric patients with gastrointestinal symptoms. However, interpretation and determination of the clinical relevance of a positive PCR result in this population are still difficult. © 2013 The Authors Clinical Microbiology and Infection © 2013 European Society of Clinical Microbiology and Infectious Diseases.

Hydrothermal alteration and diagenesis of terrestrial lacustrine pillow basalts: Coordination of hyperspectral imaging with laboratory measurements

USGS Publications Warehouse

Greenberger, Rebecca N; Mustard, John F; Cloutis, Edward A; Mann, Paul; Wilson, Janette H.; Flemming, Roberta L; Robertson, Kevin; Salvatore, Mark R; Edwards, Christopher

2015-01-01

The phases identified in the sample are albite, large iron oxides, and titanite throughout; calcite in vesicles; calcic clinopyroxene, aegirine, and Fe/Mg-bearing clay in the rind; and fine-grained hematite and pyroxenes in the interior. Using imaging spectroscopy, the chemistry and mineralogy results extend to the hand sample and larger outcrop. From all of the analyses, we suggest that the pillow basalts were altered initially after emplacement, either by heated lake water or magmatic fluids, at temperatures of at least 400-600°C, and the calcic clinopyroxenes and aegirine identified in the rind are a preserved record of that alteration. As the hydrothermal system cooled to slightly lower temperatures, clays formed in the rind, and, during this alteration, the sample oxidized to form hematite in the matrix of the interior and Fe3+ in the pyroxenes in the rind. During the waning stages of the hydrothermal system, calcite precipitated in vesicles within the rind. Later, diagenetic processes albitized the sample, with albite replacing plagioclase, lining vesicles, and accreting onto the exterior of the sample. This albitization or Na-metasomatism occurred when the lake within the Hartford Basin evaporated during a drier past climatic era, resulting in Na-rich brines. As Ca-rich plagioclase altered to albite, Ca was released into solution, eventually precipitating as calcite in previously-unfilled vesicles, dominantly in the interior of the pillow. Coordinated analyses of this sample permit identification of the alteration phases and help synthesize the aqueous history of pillow lavas of the Talcott formation. These results are also relevant to Mars, where volcanically-resurfaced open basin lakes have been found, and this Hartford Basin outcrop may be a valuable analog for any potential volcano-lacustrine interactions. The results can also help to inform the utility and optimization of potentially complementary, synergistic, and uniquely-suited techniques for characterization of hydrothermally-altered terrains.

Micropaleontology of selected wells and seismic shot holes, northern Alaska

USGS Publications Warehouse

Mickey, Michael B.; Haga, Hideyo; Bird, Kenneth J.

2006-01-01

This report provides micropaleontologic data (foraminifera, pollen, spores, and microplankton) and interpretations of the rocks penetrated by 49 wells and 3,134 seismic shot holes distributed among 73 seismic lines (figs. 1, 2; table 1). All shot holes and 30 wells are located within the National Petroleum Reserve in Alaska (NPRA); the remaining 19 wells are located adjacent to the NPRA. The biostratigraphic zonation scheme, stratigraphy, and geologic ages followed in this study are summarized in figure 3. This update brings paleontologic analyses performed at various times over several decades to a current, unified set of interpretations that benefit from the evolution of northern Alaska biostratigraphic understanding developed during the past 33-years by Mickey and Haga. For each well, paleontologic information includes microfossil distribution charts, data spreadsheets, diversity graphs, and interpretive reports describing age and environments of deposition. Three biostratigraphic well-correlation sections that relate Chukchi Sea wells to onshore northwestern NPRA wells are also included. For all analyzed seismic shot hole samples, foraminiferal age and environmental interpretations are provided; palynological interpretations are provided only for those shot hole samples collected and analyzed after 1976, a little less than half of the total number of samples.

Alteration of Basalt and Hyaloclastite in the Project Hotspot MHC-2 Core with Some Comparison to Hyaloclastites of the Hawaii Scientific Drilling Program #2 (HSDP) Core

NASA Astrophysics Data System (ADS)

Walton, A. W.; Walker, J. R.

2015-12-01

Project Hotspot's 1821m coring operation at Mountain Home Air Force Base, Idaho (MHC), sought to examine interaction of hotspot magmas with continental crust and evaluate geothermal resources. Subsurface temperature increased at a gradient of 76˚/km. Alteration was uniform and not intense over the upper part of the core and at the bottom, but differed markedly in an anomalous zone (AZ) from 1700 to 1800m. The MHC core contains diatomite, basalt lava and minor hyaloclastite. Olivine (Ol) in lavas is more-or-less altered to iddingsite. Plagioclase (Plag) has altered to smectite along cleavage planes and fractures except in the AZ, where it is intensely altered to corrensite. Clinopyroxene (CPX, pinkish in thin section) is little altered, as are apatite and opaque minerals (probably ilmenite with magnetite or pyrite in different samples). Interstitial material is converted to smectite or, in the AZ, to corrensite. Phyllosilicate lines vesicles, and calcite, zeolite and phyllosilicate fill them. Pore-lining phillipsite is common shallow in the core, with vesicle-filling analcime and heulandite at greater depth. A fibrous zeolite, probably stilbite, is also present. Hyaloclasts are altered to concentrically layered masses of smectite. MHC hyaloclastites do not display the microbial traces and palagonite ("gel-palagonite") alteration common in Hawaii Scientific Drilling Project #2 (HSDP) samples. HSDP samples do contain pore-lining phillipsite, but pore fillings are chabazite. Calcite is absent in HSDP hyaloclastites. Neither Ol nor Plag were altered in HSDP hyaloclastites. HSPD glasses are less silicic and Ti-rich than MHC lavas, containing Ol rather than CPX as a dominant mafic. However the differences in alteration of hyaloclastites probably reflect either the fact that the HSDP core was collected at temperatures equivalent to those at the top of the MHC-2 core or HSDP samples were from beds that were in modified marine pore water, rather than continental waters.

The effects of alteration and porosity on seismic velocities in oceanic basalts and diabases

NASA Astrophysics Data System (ADS)

Carlson, R. L.

2014-12-01

velocities in the lavas that cap normal oceanic crust are affected by both crack porosity and alteration of the primary mineral phases, chiefly to clays. Porosity accounts for 75-80% of the velocity variation in sonic log velocities in the lava sections of Holes 504B and 1256D, but the effect of alteration on the properties of the basalts has not been assessed. In this analysis, the grain velocities in basalt and diabase samples are estimated from an empirical linear relationship between grain density and the P wave modulus. The theoretical velocity in fresh, zero-porosity basalt, or diabase is 6.96 ± 0.07 km/s. Grain velocities in the diabase samples are statistically indistinguishable from the theoretical velocity, and show no variation with depth; alteration does not significantly affect the velocities in the diabase samples from Hole 504B. This result is consistent with previous analyses, which demonstrated that velocities in the dikes are controlled by crack porosity. In basalt lab samples, alteration reduces the average sample grain velocity to 6.74 ± 0.02 km/s; cracks at the sample scale further reduce the velocity to 5.86 ± 0.03 km/s, and large-scale cracks in the lavas reduce the average in situ velocity to 5.2 ± 0.3 km/s. Cracks account for nearly 90% of the difference between seismic (in situ) velocities and the theoretical velocity in the unaltered solid material. Basalt grain velocities show a small, but significant systematic increase with depth; the influence of alteration decreases with depth in the lavas, reaching near zero at the base of the lavas in Holes 504B and 1256D. This article was corrected on 16 JAN 2015. See the end of the full text for details.

Thermal emission measurements (5-25 microns) of Hawaiian palagonitic soils with implications for Mars

NASA Technical Reports Server (NTRS)

Roush, Ted L.; Bell, James F., III

1994-01-01

Careful laboratory studies have shown that the coloring agent in Mars analog Hawaiian palagonitic soils is nanophase iron oxide. We have measured the emissivity of two Mauna Kea palagonitic soils whose transmission spectra exhibit different spectral features and of a thermally-altered volcanic tephra sample that exhibits a wide range of crystallinity and degree of alteration (from black cinders to fully hematitic). Both of these samples may represent analogs for formation mechanisms involving the production of highly-altered secondary weathering products on Mars. The emission spectra of all samples were measured at the TES spectroscopy laboratory at Arizona State University. The data were converted to emissivity using blackbody measurements combined with measurements of each sample at different temperatures.

Measuring coverage in MNCH: total survey error and the interpretation of intervention coverage estimates from household surveys.

PubMed

Eisele, Thomas P; Rhoda, Dale A; Cutts, Felicity T; Keating, Joseph; Ren, Ruilin; Barros, Aluisio J D; Arnold, Fred

2013-01-01

Nationally representative household surveys are increasingly relied upon to measure maternal, newborn, and child health (MNCH) intervention coverage at the population level in low- and middle-income countries. Surveys are the best tool we have for this purpose and are central to national and global decision making. However, all survey point estimates have a certain level of error (total survey error) comprising sampling and non-sampling error, both of which must be considered when interpreting survey results for decision making. In this review, we discuss the importance of considering these errors when interpreting MNCH intervention coverage estimates derived from household surveys, using relevant examples from national surveys to provide context. Sampling error is usually thought of as the precision of a point estimate and is represented by 95% confidence intervals, which are measurable. Confidence intervals can inform judgments about whether estimated parameters are likely to be different from the real value of a parameter. We recommend, therefore, that confidence intervals for key coverage indicators should always be provided in survey reports. By contrast, the direction and magnitude of non-sampling error is almost always unmeasurable, and therefore unknown. Information error and bias are the most common sources of non-sampling error in household survey estimates and we recommend that they should always be carefully considered when interpreting MNCH intervention coverage based on survey data. Overall, we recommend that future research on measuring MNCH intervention coverage should focus on refining and improving survey-based coverage estimates to develop a better understanding of how results should be interpreted and used.

Measuring Coverage in MNCH: Total Survey Error and the Interpretation of Intervention Coverage Estimates from Household Surveys

PubMed Central

Eisele, Thomas P.; Rhoda, Dale A.; Cutts, Felicity T.; Keating, Joseph; Ren, Ruilin; Barros, Aluisio J. D.; Arnold, Fred

2013-01-01

Nationally representative household surveys are increasingly relied upon to measure maternal, newborn, and child health (MNCH) intervention coverage at the population level in low- and middle-income countries. Surveys are the best tool we have for this purpose and are central to national and global decision making. However, all survey point estimates have a certain level of error (total survey error) comprising sampling and non-sampling error, both of which must be considered when interpreting survey results for decision making. In this review, we discuss the importance of considering these errors when interpreting MNCH intervention coverage estimates derived from household surveys, using relevant examples from national surveys to provide context. Sampling error is usually thought of as the precision of a point estimate and is represented by 95% confidence intervals, which are measurable. Confidence intervals can inform judgments about whether estimated parameters are likely to be different from the real value of a parameter. We recommend, therefore, that confidence intervals for key coverage indicators should always be provided in survey reports. By contrast, the direction and magnitude of non-sampling error is almost always unmeasurable, and therefore unknown. Information error and bias are the most common sources of non-sampling error in household survey estimates and we recommend that they should always be carefully considered when interpreting MNCH intervention coverage based on survey data. Overall, we recommend that future research on measuring MNCH intervention coverage should focus on refining and improving survey-based coverage estimates to develop a better understanding of how results should be interpreted and used. PMID:23667331

Dietary supplemental Kluyveromyces marxianus alters the serum metabolite profile in broiler chickens.

PubMed

Wang, Weiwei; Li, Zhui; Gan, Liping; Fan, Hao; Guo, Yuming

2018-06-18

Metabolomics is used to evaluate the bioavailability of food components, as well as to validate the metabolic changes associated with food consumption. This study was conducted to investigate the effects of the dietary supplement Kluyveromyces marxianus on the serum metabolite profile in broiler chickens. A total of 240 1-d-old broilers were divided into 2 groups with 8 replicates. Birds were fed basal diets without or with K. marxianus supplementation (5 × 1010 CFU kg-1 of diet). Serum samples were collected on d 21 and were analyzed by high-performance liquid chromatography with quadrupole time-of flight/mass spectrometry. The results showed that supplemental K. marxianus altered the concentrations of a variety of metabolites in the serum. Thereinto, a total of 39 metabolites were identified at higher (P < 0.05) concentrations while 21 metabolites were identified at lower (P < 0.05) concentrations in the treatment group as compared with the control. These metabolites were primarily involved with the regulation of amino acids and carbohydrate metabolism. Further metabolic pathway analysis revealed that glutamine and glutamate metabolism was the most relevant and critical pathway identified from these two groups. The activated pathway may partially interpret the beneficial effects of K. marxianus. Overall, the present research could promote our understanding of the probiotic action of K. marxianus and provide new insight into the design and application of K. marxianus-containing functional foods.

Occipital cortical proton MRS at 4 Tesla in human moderate MDMA polydrug users

PubMed Central

Cowan, Ronald L.; Bolo, Nicolas R.; Dietrich, Mary; Haga, Erica; Lukas, Scott E.; Renshaw, Perry F.

2007-01-01

The recreational drug MDMA (3,4, methylenedioxymethamphetamine; sold under the street name of Ecstasy) is toxic to serotonergic axons in some animal models of MDMA administration. In humans, MDMA use is associated with alterations in markers of brain function that are pronounced in occipital cortex. Among neuroimaging methods, magnetic resonance spectroscopy (MRS) studies of brain metabolites N-acetylaspartate (NAA) and myoinositol (MI) at a field strength of 1.5 Tesla (T) reveal inconsistent results in MDMA users. Because higher field strength proton MRS has theoretical advantages over lower field strengths, we used proton MRS at 4.0 T to study absolute concentrations of occipital cortical NAA and MI in a cohort of moderate MDMA users (n = 9) versus non-MDMA using (n = 7) controls. Mean NAA in non-MDMA users was 10.47 mM (± 2.51), versus 9.83 mM (± 1.94) in MDMA users. Mean MI in non-MDMA users was 7.43 mM (± 1.68), versus 6.57 mM (± 1.59) in MDMA users. There were no statistical differences in absolute metabolite levels for NAA and MI in occipital cortex of MDMA users and controls. These findings are not supportive of MDMA-induced alterations in NAA or MI levels in this small sample of moderate MDMA users. Limitations to this study suggest caution in the interpretation of these results. PMID:17574394

Occipital cortical proton MRS at 4 Tesla in human moderate MDMA polydrug users.

PubMed

Cowan, Ronald L; Bolo, Nicolas R; Dietrich, Mary; Haga, Erica; Lukas, Scott E; Renshaw, Perry F

2007-08-15

The recreational drug MDMA (3,4, methylenedioxymethamphetamine; sold under the street name of Ecstasy) is toxic to serotonergic axons in some animal models of MDMA administration. In humans, MDMA use is associated with alterations in markers of brain function that are pronounced in occipital cortex. Among neuroimaging methods, magnetic resonance spectroscopy (MRS) studies of brain metabolites N-acetylaspartate (NAA) and myoinositol (MI) at a field strength of 1.5 Tesla (T) reveal inconsistent results in MDMA users. Because higher field strength proton MRS has theoretical advantages over lower field strengths, we used proton MRS at 4.0 T to study absolute concentrations of occipital cortical NAA and MI in a cohort of moderate MDMA users (n=9) versus non-MDMA using (n=7) controls. Mean NAA in non-MDMA users was 10.47 mM (+/-2.51), versus 9.83 mM (+/-1.94) in MDMA users. Mean MI in non-MDMA users was 7.43 mM (+/-.68), versus 6.57 mM (+/-1.59) in MDMA users. There were no statistical differences in absolute metabolite levels for NAA and MI in occipital cortex of MDMA users and controls. These findings are not supportive of MDMA-induced alterations in NAA or MI levels in this small sample of moderate MDMA users. Limitations to this study suggest caution in the interpretation of these results.

Threat processing in generalized social phobia: an investigation of interpretation biases in ambiguous facial affect.

PubMed

Jusyte, Aiste; Schönenberg, Michael

2014-06-30

Facial affect is one of the most important information sources during the course of social interactions, but it is susceptible to distortion due to the complex and dynamic nature. Socially anxious individuals have been shown to exhibit alterations in the processing of social information, such as an attentional and interpretative bias toward threatening information. This may be one of the key factors contributing to the development and maintenance of anxious psychopathology. The aim of the current study was to investigate whether a threat-related interpretation bias is evident for ambiguous facial stimuli in a population of individuals with a generalized Social Anxiety Disorder (gSAD) as compared to healthy controls. Participants judged ambiguous happy/fearful, angry/fearful and angry/happy blends varying in intensity and rated the predominant affective expression. The results obtained in this study do not indicate that gSAD is associated with a biased interpretation of ambiguous facial affect. Copyright © 2013 Elsevier Ireland Ltd. All rights reserved.

The therapeutic action of psychoanalysis: abstinence and informative experiences.

PubMed

Chused, J F

1996-01-01

In recent years a number of analytic concepts have been subject to scrutiny, with the value of interpretations, the usefulness of abstinence, the possibility of neutrality, all questioned. One reason for the skepticism about interpretations, in particular, is that before a patient can use an interpretation for psychic change, his perceptual frame must change, a process that is rarely initiated by the verbal content of an interpretation alone. Instead, alterations in perception usually require experiences which are discordant with expectations. In this paper the author demonstrates how the nonverbal elements of an intervention, the action communications, provide informative experiences, creating the dissonance between expectation and eventuality which makes psychic change possible. Case vignettes are presented to illustrate this point as well as to support the idea that when nonverbal experiences contribute to lasting change within a patient, the therapeutic benefit does not accrue primarily from the gratification provided by the experience, but from how the experience informs the patient about his mode of thinking, perceiving, and reacting.

Evidence of Pragmatic Impairments in Speech and Proverb Interpretation in Schizophrenia

ERIC Educational Resources Information Center

Haas, Marc H.; Chance, Steven A.; Cram, David F.; Crow, Tim J.; Luc, Aslan; Hage, Sarah

2015-01-01

Schizophrenia has been suggested to involve linguistic pragmatic deficits. In this study, two aspects of pragmatic ability were assessed; comprehension and production. Drawing on relevance theory and Gricean implicatures to assess shared attention and interpretation in a linguistic context, discourse samples and proverb interpretation were…

Reduced functional connectivity to the frontal cortex during processing of social cues in autism spectrum disorder.

PubMed

Hoffmann, Elgin; Brück, Carolin; Kreifelts, Benjamin; Ethofer, Thomas; Wildgruber, Dirk

2016-08-01

People diagnosed with autism spectrum disorder (ASD) characteristically present with severe difficulties in interpreting every-day social signals. Currently it is assumed that these difficulties might have neurobiological correlates in alterations in activation as well as in connectivity in and between regions of the social perception network suggested to govern the processing of social cues. In this study, we conducted functional magnetic resonance imaging (fMRI)-based activation and connectivity analyses focusing on face-, voice-, and audiovisual-processing brain regions as the most important subareas of the social perception network. Results revealed alterations in connectivity among regions involved in the processing of social stimuli in ASD subjects compared to typically developed (TD) controls-specifically, a reduced connectivity between the left temporal voice area (TVA) and the superior and medial frontal gyrus. Alterations in connectivity, moreover, were correlated with the severity of autistic traits: correlation analysis indicated that the connectivity between the left TVA and the limbic lobe, anterior cingulate and the medial frontal gyrus as well as between the right TVA and the frontal lobe, anterior cingulate, limbic lobe and the caudate decreased with increasing symptom severity. As these frontal regions are understood to play an important role in interpreting and mentalizing social signals, the observed underconnectivity might be construed as playing a role in social impairments in ASD.

Study of iron deposit using seismic refraction and resistivity in Carajás Mineral Province, Brazil

NASA Astrophysics Data System (ADS)

Nogueira, Pedro Vencovsky; Rocha, Marcelo Peres; Borges, Welitom Rodrigues; Silva, Adalene Moreira; Assis, Luciano Mozer de

2016-10-01

This work comprises the acquisition, processing and interpretation of 2D seismic shallow refraction (P-wave) and resistivity profiles located in the iron ore deposit of N4WS, Carajás Mineral Province (CMP), northern Brazil. The geophysical methods were used to identify the boundaries of the iron ore deposit. Another objective was to evaluate the potentiality of these geophysical methods in that geological context. In order to validate the results, the geophysical lines were located to match a geological borehole line. For the seismic refraction, we used 120 channels, spaced by 10 m, in a line of 1190 m, with seven shot points. The resistivity method used in the acquisition was the electrical resistivity imaging, with pole-pole array, in order to reach greater depths. The resistivity line had a length of 1430 m, with 10 m spacing between electrodes. The seismic results produced a model with two distinct layers. Based on the velocities values, the first layer was interpreted as altered rocks, and the second layer as more preserved rocks. It was not possible to discriminate different lithologies with the seismic method inside each layer. From the resistivity results, a zone of higher resistivity (> 3937 Ω·m) was interpreted as iron ore, and a region of intermediate resistivity (from 816 to 2330 Ω·m) as altered rocks. These two regions represent the first seismic layer. On the second seismic layer, an area with intermediated resistivity values (from 483 to 2330 Ω·m) was interpreted as mafic rocks, and the area with lower resistivity (< 483 Ω·m) as jaspilite. Our results were compared with geological boreholes and show reasonable correlation, suggesting that the geophysical anomalies correspond to the main variations in composition and physical properties of rocks.

Effects of language concordance and interpreter use on therapeutic alliance in Spanish-speaking integrated behavioral health care patients.

PubMed

Villalobos, Bianca T; Bridges, Ana J; Anastasia, Elizabeth A; Ojeda, Carlos A; Rodriguez, Juventino Hernandez; Gomez, Debbie

2016-02-01

The discrepancy between the growing number of Spanish speakers in the U.S. and the availability of bilingual providers creates a barrier to accessing quality mental health care. Use of interpreters provides one strategy for overcoming this linguistic barrier; however, concerns about whether sessions with interpreters, versus bilingual providers, impede therapeutic alliance remain. The current study explored associations between the use of interpreters and therapeutic alliance in a sample of 458 Spanish-speaking patients seen for integrated behavioral health visits at primary care clinics. Patients completed a brief (4 item) therapeutic alliance scale at their behavioral health appointment. In addition, to supplement the quantitative study data, a pilot study of 30 qualitative interviews was conducted with a new sample of 10 Spanish-speaking patients, 10 behavioral health consultants (BHCs), and 10 trained interpreters. Quantitative results showed that interpreter use did not relate to therapeutic alliance, even when controlling for relevant demographic variables. However, qualitative interviews suggested major themes regarding the relative benefits and challenges of using interpreters for patients, interpreters, and BHCs. In interviews, patients expressed a strong preference for bilingual providers. Benefits included greater privacy, sense of trust, and accuracy of communication. However, in their absence, interpreters were seen as increasing access to services and facilitating communication with providers, thereby addressing the behavioral health needs of patients with limited English proficiency. BHCs and interpreters emphasized the importance of interpreter training and a good collaborative relationship with interpreters to minimize negative effects on the quality of care. (c) 2016 APA, all rights reserved).

Integrating Near and Mid-Infrared Microspectroscopy with Experimental Petrology

NASA Astrophysics Data System (ADS)

Klima, R. L.; Shank, E.; Chabot, N. L.; Minitti, M. E.

2012-12-01

One of the challenges of interpreting data gathered by remote sensing of planetary surfaces is that many of the samples in our spectral libraries that we use for comparison are necessarily terrestrial. Some contamination is easily recognized, such as alteration to hydrated minerals or contamination by organic material. In some cases the contamination is more subtle, such as when small amounts of ferric iron are present, altering the visible wavelength continuum of nominally ferrous silicates. Measurement of meteorite samples (e.g., 1, 2-5) and lunar samples (e.g. 6, 7) provides critical ground-truth data, but often the amount of samples allocated for study are smaller than can be measured in many labs. Experimentally created samples, as well, often produce only small amounts of powder that are difficult to measure without specially designed spectrometers such as the RELAB. FTIR Microspectroscopy has been investigated as an option for studying very small samples in reflectance, but scattering properties of the sample and the intensity of the illumination can result in extremely low signal spectra (8). Fortunately, a more intense source and modified optics allow significantly more signal in the near-infrared, enabling spectral characterization of diagnostic features even in reflectance. Spot sizes on the order of 50-100um allow individual grains or mounted sample charges to be targeted and measured, as long as the sample is slightly roughened to minimize specular reflectance off of the target. This new capability affords us the opportunity to collect spectra for experimental materials created for understanding igneous and metamorphic processes on other planets. Currently, we are incorporating these techniques with two studies aimed at understanding volcanism and mantle processes on Mercury. In the first study, we are conducting a series of melting experiments to explore the mineral composition of the Northern Volcanic Plains of Mercury. In the second, we are investigating reactions between solid Fe-free silicates and iron sulfide at very low oxygen fugacities. We will present experimental results paired with spectral measurements of the samples for each of the experimental runs and evaluate them in the context of data acquired by the MESSENGER spacecraft's Mercury Atmospheric and Surface Composition Spectrometer Visible and Infrared Spectrograph. References: 1. T. Hiroi et al., EPS 53, 1071 (2001). 2. T. Hiroi et al., Science 293, 2234 (2001). 3. R. G. Mayne et al., MAPS 40, 5174 (2005). 4. T. J. McCoy et al., MAPS 34, 735 (1999). 5. J. M. Sunshine et al., Science 320, 514 (2008). 6. Pieters, et al., Icarus 184, 83 (2006). 7. Isaacson et al., MAPS 46, 228 (2011). 8. Klima and Pieters, JGR 111, 01005 (2006).

Architectural design of an Algol interpreter

NASA Technical Reports Server (NTRS)

Jackson, C. K.

1971-01-01

The design of a syntax-directed interpreter for a subset of Algol is described. It is a conceptual design with sufficient details and completeness but as much independence of implementation as possible. The design includes a detailed description of a scanner, an analyzer described in the Floyd-Evans productions, a hash-coded symbol table, and an executor. Interpretation of sample programs is also provided to show how the interpreter functions.

The use of positrons to survey alteration layers on synthetic nuclear waste glasses

NASA Astrophysics Data System (ADS)

Reiser, Joelle T.; Parruzot, Benjamin; Weber, Marc H.; Ryan, Joseph V.; McCloy, John S.; Wall, Nathalie A.

2017-07-01

In order to safeguard society and the environment, understanding radioactive waste glass alteration mechanisms in interactions with solutions and near-field materials, such as Fe, is essential to nuclear waste repository performance assessments. Alteration products are formed at the surface of glasses after reaction with solution. In this study, glass altered in the presence of Fe0 in aqueous solution formed two alteration layers: one embedded with Fe closer to the surface and one without Fe found deeper in the sample. Both layers were found to be thinner than the alteration layer found in glass altered in aqueous solution only. For the first time, Doppler Broadening Positron Annihilation Spectroscopy (DB-PAS) is used to non-destructively characterize the pore structures of glass altered in the presence of Fe0. Advantages and disadvantages of DB-PAS compared to other techniques used to analyze pore structures for altered glass samples are discussed. Ultimately, DB-PAS has shown to be an excellent choice for pore structure characterization for glasses with multiple alteration layers. Monte Carlo modeling predicted positron trajectories through the layers, and helped explain DB-PAS data, which showed that the deeper alteration layer without Fe had a similar composition and pore structure to layers on glass altered in water only.

The use of positrons to survey alteration layers on synthetic nuclear waste glasses

DOE PAGES

Reiser, Joelle T.; Parruzot, Benjamin; Weber, Marc H.; ...

2017-07-01

Here, in order to safeguard society and the environment, understanding radioactive waste glass alteration mechanisms in interactions with solutions and near-field materials, such as Fe, is essential to nuclear waste repository performance assessments. Alteration products are formed at the surface of glasses after reaction with solution. In this study, glass altered in the presence of Fe 0 in aqueous solution formed two alteration layers: one embedded with Fe closer to the surface and one without Fe found deeper in the sample. Both layers were found to be thinner than the alteration layer found in glass altered in aqueous solution only.more » For the first time, Doppler Broadening Positron Annihilation Spectroscopy (DB-PAS) is used to non-destructively characterize the pore structures of glass altered in the presence of Fe 0. Advantages and disadvantages of DB-PAS compared to other techniques used to analyze pore structures for altered glass samples are discussed. Ultimately, DB-PAS has shown to be an excellent choice for pore structure characterization for glasses with multiple alteration layers. Monte Carlo modeling predicted positron trajectories through the layers, and helped explain DB-PAS data, which showed that the deeper alteration layer without Fe had a similar composition and pore structure to layers on glass altered in water only.« less

The use of positrons to survey alteration layers on synthetic nuclear waste glasses

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

Reiser, Joelle T.; Parruzot, Benjamin; Weber, Marc H.

Here, in order to safeguard society and the environment, understanding radioactive waste glass alteration mechanisms in interactions with solutions and near-field materials, such as Fe, is essential to nuclear waste repository performance assessments. Alteration products are formed at the surface of glasses after reaction with solution. In this study, glass altered in the presence of Fe 0 in aqueous solution formed two alteration layers: one embedded with Fe closer to the surface and one without Fe found deeper in the sample. Both layers were found to be thinner than the alteration layer found in glass altered in aqueous solution only.more » For the first time, Doppler Broadening Positron Annihilation Spectroscopy (DB-PAS) is used to non-destructively characterize the pore structures of glass altered in the presence of Fe 0. Advantages and disadvantages of DB-PAS compared to other techniques used to analyze pore structures for altered glass samples are discussed. Ultimately, DB-PAS has shown to be an excellent choice for pore structure characterization for glasses with multiple alteration layers. Monte Carlo modeling predicted positron trajectories through the layers, and helped explain DB-PAS data, which showed that the deeper alteration layer without Fe had a similar composition and pore structure to layers on glass altered in water only.« less

Kinetically Controlled Alteration of the Chemical Record During Diagenesis: An Experimental Study on Hydrothermal Carbonate Replacement

NASA Astrophysics Data System (ADS)

Mueller, T.; Dohmen, R.; Jonas, L.; Immenhauser, A.

2016-12-01

The geological record stored in the geochemical composition of carbonates provides a direct source of information on the Earth systems. However, the robustness and accuracy of these key records can be compromised by post-depositional alteration of sediments, such as dolomitization during diagenesis or low temperature metamorphism. Hence, knowledge on the mechanisms and rates of these processes hold the key to evaluate the robustness of proxies or to evaluate the extent of geochemical alteration. Previously, we presented experimental results of hydrothermal alteration of single calcite crystals and aragonitic coral fragments leading to replacement of the original carbonate by a Ca-Mg carbonate phase of variable composition. The experiments revealed the formation of a multiphase reaction rim with multiple replacement fronts [1]. Here, the reaction rate as well as composition of the reaction products is controlled by element transport in the pore fluid. In this study we focus on the reaction path of the replacement reaction and its effect on the recorded Mg-isotope composition. XRD diffraction patterns suggest the initial precipitation of non-ordered protodolomite that is subsequently continuously recrystallizing over the duration of the experiments to form an ordered, albeit non-stoichiometric dolomite. These observations are in agreement with Mg-isotope composition measured of the bulk reaction rim showing a systematic evolution over time that cannot be explained by simple Rayleigh or equilibrium fractionation. We interpret these findings as additional, but delayed reaction fronts affecting the microstructure and chemical composition of the newly formed carbonate rim that are essentially decoupled from the initial replacement front. Our results highlight the need to quantitatively understand alteration processes during diagenesis in order to accurately interpret the preserved geochemical record stored in element and isotope ratios of carbonates. [1] Jonas L., Mueller T., Dohmen R., Baumgartner L., and Putlitz B. (2015): Transport-controlled hydrothermal replacement of calcite by Mg-carbonates, Geology, 43, 779-782.

Fire Effects on Soil and Dissolved Organic Matter in a Southern Appalachian Hardwood Forest: Movement of Fire-Altered Organic Matter Across the Terrestrial-Aquatic Interface Following the Great Smoky Mountains National Park Fire of 2016

NASA Astrophysics Data System (ADS)

Matosziuk, L.; Gallo, A.; Hatten, J. A.; Heckman, K. A.; Nave, L. E.; Sanclements, M.; Strahm, B. D.; Weiglein, T.

2017-12-01

Wildfire can dramatically affect the quantity and quality of soil organic matter (SOM), producing thermally altered organic material such as pyrogenic carbon (PyC) and polyaromatic hydrocarbons (PAHs). The movement of this thermally altered material through terrestrial and aquatic ecosystems can differ from that of unburned SOM, with far-reaching consequences for soil carbon cycling and water quality. Unfortunately, due to the rapid ecological changes following fire and the lack of robust pre-fire controls, the cycling of fire-altered carbon is still poorly understood. In December 2016, the Chimney Tops 2 fire in Great Smoky Mountains National Park burned over co-located terrestrial and aquatic NEON sites. We have leveraged the wealth of pre-fire data at these sites (chemical, physical, and microbial characterization of soils, continuous measurements of both soil and stream samples, and five soil cores up to 110 cm in depth) to conduct a thorough study of the movement of fire-altered organic matter through terrestrial and aquatic ecosystems. Stream samples have been collected weekly beginning 5 weeks post-fire. Grab samples of soil were taken at discrete time points in the first two months after the fire. Eight weeks post-fire, a second set of cores was taken and resin lysimeters installed at three different depths. A third set of cores and grab samples will be taken 8-12 months after the fire. In addition to routine soil characterization techniques, solid samples from cores and grab samples at all time points will be analyzed for PyC and PAHs. To determine the effect of fire on dissolved organic matter (DOM), hot water extracts of these soil samples, as well as the stream samples and lysimeter samples, will also be analyzed for PyC and PAHs. Selected samples will be analyzed by 1D- and 2D-NMR to further characterize the chemical composition of DOM. This extensive investigation of the quantity and quality of fire-altered organic material at discrete time points will provide insight into the production and cycling of thermally-altered SOM and DOM. We hypothesize that PyC will be an important source of SOM to surface mineral soil horizons, and that the quantity of DOM will increase after fire, providing a rapid pulse of C to deep soils and aquatic systems.

Distribution of garnet grain sizes and morphologies across the Moine Supergroup, northern Scottish Caledonides

NASA Astrophysics Data System (ADS)

Ashley, Kyle T.; Thigpen, J. Ryan; Law, Richard D.

2016-04-01

Garnet is used in a wide range of geologic studies due to its important physical and chemical characteristics. While the mineral is useful for thermobarometry and geochronology constraints and can often be correlated to deformation and fabric development, difficulties remain in making meaningful interpretations of such data. In this study, we characterize garnet grain sizes and crystal morphologies from 141 garnet-bearing metasedimentary rock samples collected from the northern part of the Moine Supergroup in the Scottish Caledonides. Larger, euhedral crystals are indicative of prograde metamorphic growth and are typically associated with the most recent phase of orogenesis (Scandian, ˜430 Ma). Small, rounded ("pin-head") garnets are interpreted as detrital in origin. A subhedral classification is more subjective and is used when garnets contains portions of straight boundaries but have rounded edges or rims that have been altered through retrograde metamorphic reactions. From our collection, 88 samples contain anhedral garnets (maximum measured grain size d = 0.46 ± 0.21 mm), 34 bear subhedral garnets (d = 2.0 ± 1.0 mm), and the remaining 19 samples contain garnets with euhedral grains (d = 4.4 ± 2.6 mm). Plotting the distribution of garnets relative to the mapped thrust contacts reveals an abrupt change in morphology and grain size when traced from the Moine thrust sheet across the Ben Hope and Sgurr Beag thrusts into the higher-grade, more hinterland-positioned thrust sheets. The dominance of anhedral garnets in the Moine thrust sheet suggests that these grains should not be used for peak P - T estimation associated with relatively low temperature (<500 ° C) Scandian metamorphism, as they are likely detrital in origin and contain protolith chemical signatures that would not have been reset due to sluggish diffusivities at greenschist facies temperatures. However, chemical and isotopic data from these grains may provide information into the provenance of these metasediments. A thermal/chemical break must occur at the Ben Hope thrust, because hanging wall garnets contain euhedral (Scandian?) rims that are distinct from the garnet grains observed in the underlying Moine thrust sheet. In addition to morphology, the propensity of garnet to include minerals during growth makes it a useful phase for obtaining a historical perspective on growth conditions. The distribution and chemistries of minerals included/encapsulated by garnet was studied for various samples to gain insight into metamorphic evolution and to distinguish garnets that likely contain multiple generations of growth. Although our results are specific to the Caledonides of northern Scotland, this work highlights the general necessity of a comprehensive petrographic assessment of garnet grains in advance of interpreting large suits of garnet-derived thermodynamic and geochronologic data.

Emotion Regulation in Adolescence: A Prospective Study of Expressive Suppression and Depressive Symptoms

ERIC Educational Resources Information Center

Larsen, Junilla K.; Vermulst, Ad A.; Geenen, Rinie; van Middendorp, Henriet; English, Tammy; Gross, James J.; Ha, Thao; Evers, Catharine; Engels, Rutger C. M. E.

2013-01-01

Cross-sectional studies have shown a positive association between expressive suppression and depressive symptoms. These results have been interpreted as reflecting the impact of emotion regulation efforts on depression. However, it is also possible that depression may alter emotion regulation tendencies. The goal of the present study was to…

Power in the Classroom VI: Verbal Control Strategies, Nonverbal Immediacy and Affective Learning.

ERIC Educational Resources Information Center

Plax, Timothy G.; And Others

Recognizing that nonverbal behaviors typically provide the framework for interpreting verbal messages, this project (the sixth in a series of projects designed to examine teacher power in the classroom) proposed and sequentially tested a heuristic model of student affective learning as a function of behavior alteration techniques and teacher…

Methodological guidelines to investigate altered states of consciousness and anomalous experiences.

PubMed

Moreira-Almeida, Alexander; Lotufo-Neto, Francisco

2017-06-01

Anomalous experiences (AE) (uncommon experiences or one that is believed to deviate from the usually accepted explanations of reality: hallucinations, synesthesia, experiences interpreted as telepathic…) and altered states of consciousness (ASC) have been described in all societies of all ages. Even so, scientists have long neglected the studies on this theme. To study AE and ASC is not necessary to share the beliefs we explore, they can be investigated as subjective experiences and correlated with other data, like any other human experience. This article presents some methodological guidelines to investigate these experiences, among them: to avoid dogmatic prejudice and to 'pathologize' the unusual; the value of a theory and a comprehensive literature review; to utilize a variety of criteria for pathology and normality; the investigation of clinical and non-clinical populations; development of new appropriate research instruments; to be careful to choose the wording to describe the AE; to distinguished the lived experience from its interpretations; to take into account the role of culture; to evaluate the validity and reliability of reports and, last but not least, creativity and diversity in choosing methods.

Smart medical systems with application to nutrition and fitness in space

NASA Technical Reports Server (NTRS)

Soller, Babs R.; Cabrera, Marco; Smith, Scott M.; Sutton, Jeffrey P.

2002-01-01

Smart medical systems are being developed to allow medical treatments to address alterations in chemical and physiologic status in real time. In a smart medical system, sensor arrays assess subject status, which is interpreted by computer processors that analyze multiple inputs and recommend treatment interventions. The response of the subject to the treatment is again assessed by the sensor arrays, thus closing the loop. An early form of "smart medicine" has been practiced in space to assess nutrition. Nutrient levels are assessed with food frequency questionnaires, which are interpreted by flight surgeons to recommend inflight alterations in diet. In the future, sensor arrays will directly probe body chemistry. Near-infrared spectroscopy can be used to non-invasively measure several blood and tissue parameters that are important in the assessment of nutrition and fitness. In particular, this technology can be used to measure blood hematocrit and interstitial fluid pH. The non-invasive measurement of interstitial pH is discussed as a surrogate for blood lactate measurement for the development and real-time assessment of exercise protocols in space. Earth-based application of these sensors is also described.

Smart Medical Systems with Application to Nutrition and Fitness in Space

NASA Technical Reports Server (NTRS)

Soller, Babs R.; Cabrera, Marco; Smith, Scott M.; Sutton, Jeffrey P.

2002-01-01

Smart medical systems are being developed to allow medical treatments to address alterations in chemical and physiological status in real time. In a smart medical system sensor arrays assess subject status, which are interpreted by computer processors which analyze multiple inputs and recommend treatment interventions. The response of the subject to the treatment is again assessed by the sensor arrays, closing the loop. An early form of "smart medicine" has been practiced in space to assess nutrition. Nutrient levels are assessed with food frequency questionnaires, which are interpreted by flight surgeons to recommend in-flight alterations in diet. In the future, sensor arrays will directly probe body chemistry. Near infrared spectroscopy can be used to noninvasively measure several blood and tissue parameters which are important in the assessment of nutrition and fitness. In particular, this technology can be used to measure blood hematocrit and interstitial fluid pH. The noninvasive measurement of interstitial pH is discussed as a surrogate for blood lactate measurement for the development and real-time assessment of exercise protocols in space. Earth-based application of these sensors are also described.

Bone development in laboratory mammals used in developmental toxicity studies.

PubMed

DeSesso, John M; Scialli, Anthony R

2018-06-19

Evaluation of the skeleton in laboratory animals is a standard component of developmental toxicology testing. Standard methods of performing the evaluation have been established, and modification of the evaluation using imaging technologies is under development. The embryology of the rodent, rabbit, and primate skeleton has been characterized in detail and summarized herein. The rich literature on variations and malformations in skeletal development that can occur in the offspring of normal animals and animals exposed to test articles in toxicology studies is reviewed. These perturbations of skeletal development include ossification delays, alterations in number, shape, and size of ossification centers, and alterations in numbers of ribs and vertebrae. Because the skeleton is undergoing developmental changes at the time fetuses are evaluated in most study designs, transient delays in development can produce apparent findings of abnormal skeletal structure. The determination of whether a finding represents a permanent change in embryo development with adverse consequences for the organism is important in study interpretation. Knowledge of embryological processes and schedules can assist in interpretation of skeletal findings. © 2018 The Authors. Birth Defects Research Published by Wiley Periodicals, Inc.

Autonomy and Adolescent Social Functioning: The Moderating Effect of Risk

PubMed Central

McElhaney, Kathleen Boykin; Allen, Joseph P.

2006-01-01

This study examined the moderating effect of risk on the relation between autonomy processes and family and adolescent functioning. The present sample comprised 131 adolescents from either a low-risk or high-risk social context, their mothers, and their peers. Observational ratings of autonomy processes within the mother-adolescent dyad were obtained, along with adolescent reports of the quality of the mother-adolescent relationship, and both adolescent and peer reports of the adolescent’s functioning. Consistent with past research, in low-risk families, behavior undermining autonomy was negatively related to relationship quality, and adolescents’ expressions of autonomy were linked with positive indices of social functioning. In high-risk families, however, undermining of autonomy was positively linked with mother-adolescent relationship quality, and adolescents’ expressions of autonomy were linked with negative indices of social functioning. Results are interpreted as demonstrating the ways in which the developmental task of attaining autonomy in adolescence is systematically altered depending on the level of risk and challenge in the adolescent’s social context. PMID:11280481

The measurement of sperm motility by the fibre optic Doppler anemometer as a prediction of bovine fertility

NASA Astrophysics Data System (ADS)

Bullock, J. G.; Ross, D. A.

The fibre optic Doppler anemometer (FODA) has been used to develop an accurate quantitative method of routinely assessing bull fertility. This method is of importance to the artificial insemination industry because the present qualitative estimation, performed by viewing semen using a microscope, can only set broad limits of quality. Laser light from the FODA was directed into diluted semen samples and the back scattered light was measured. A digital correlator was used to calculate the signal correlation of the back scattered light. The resultant data curves were interpreted in terms of the collective motility and swimming speed of the spermatozoa using a microcomputer. These two parameters are accepted as being indicative of fertility. The accuracy of this method is demonstrated by examination of results obtained in an experiment where enzymes, thought to alter fertility, were added to semen. The effect of the enzymes on the swimming speed and motility was clearly demonstrated.

A Multi-Session Attribution Modification Program for Children with Aggressive Behaviour: Changes in Attributions, Emotional Reaction Estimates, and Self-Reported Aggression.

PubMed

Vassilopoulos, Stephanos P; Brouzos, Andreas; Andreou, Eleni

2015-09-01

Research suggests that aggressive children are prone to over-attribute hostile intentions to peers. The current study investigated whether this attributional style can be altered using a Cognitive Bias Modification of Interpretations (CBM-I) procedure. A sample of 10-12-year-olds selected for displaying aggressive behaviours was trained over three sessions to endorse benign rather than hostile attributions in response to ambiguous social scenarios. Compared to a test-retest control group (n = 18), children receiving CBM-I (n = 16) were less likely to endorse hostile attributions and more likely to endorse benign attributions in response to a new set of ambiguous social situations. Furthermore, aggressive behaviour scores reduced more in the trained group than in the untrained controls. Children who received attribution training also reported less perceived anger and showed a trend to report more self-control than those in the control group. Implications of these findings are discussed.

Reading and language in 9- to 12-year olds prenatally exposed to cigarettes and marijuana.

PubMed

Fried, P A; Watkinson, B; Siegel, L S

1997-01-01

Facets of reading and language were examined in 131 9- to 12-year-old children for whom prenatal exposure to marijuana and cigarettes had been ascertained. The subjects were from a low-risk, predominantly middle class sample who are participants in an ongoing longitudinal study. Discriminant Function Analysis revealed a dose-dependent association that remained after controlling for potential confounds, between prenatal cigarette exposure and lower language and lower reading scores, particularly on auditory-related aspects of this latter measure. The findings are interpreted as consistent with earlier observations of an association between cigarette smoking during pregnancy and altered auditory functioning in the offspring. Similarities and differences between the reading observations and dyslexia are discussed. Maternal prenatal passive smoke exposure did not appear to contribute to either the language or reading outcomes at this age but postnatal secondhand smoke exposure by the child was associated with poorer language scores. Prenatal marijuana exposure was not significantly related to either the reading or language outcomes.

Provenance of aeolian sands in the Hetao Plain, northwestern China

NASA Astrophysics Data System (ADS)

Yang, Xingchen; Cai, Maotang; Ye, Peisheng; Ye, Mengni; Li, Chenglu; Wu, Hang; Lu, Jing; Wang, Tao; Zhao, Zhirong; Luzhou, Yangfan; Liu, Chao

2018-06-01

Patches of aeolian sand are distributed throughout the Hetao Plain, which pose threats to farming and agriculture. Identification of the provenance of the aeolian sands may help with efforts to alleviate ecological stress in Inner Mongolia and in the paleoenvironmental interpretation of sandy sequences. This study uses geochemical data to determine the provenance of aeolian sands from the Hetao Plain. Provenance discrimination diagrams revealed that the aeolian sands were mainly derived from mixed source felsic granites and granodiorites, which have undergone weak sedimentary recycling. The chemical index of alteration and A-CN-K data indicated that the aeolian sediments were transported over a short distance. Comparison of trace element and rare earth element (REE) ratios of the aeolian sands with rock samples from potential source areas has revealed that aeolian sand deposits in the Hetao Plain were mainly derived from Sertengshan and Yellow River sediments. The Langshan and Ordos Plateau may represent additional sand sources for the Hetao Plain.

Children's Interpretive Understanding, Moral Judgments, and Emotion Attributions: Relations to Social Behaviour

ERIC Educational Resources Information Center

Malti, Tina; Gasser, Luciano; Gutzwiller-Helfenfinger, Eveline

2010-01-01

The study investigated interpretive understanding, moral judgments, and emotion attributions in relation to social behaviour in a sample of 59 5-year-old, 123 7-year-old, and 130 9-year-old children. Interpretive understanding was assessed by two tasks measuring children's understanding of ambiguous situations. Moral judgments and emotion…

Quality of nutrient data from streams and ground water sampled during water years 1992-2001

USGS Publications Warehouse

Mueller, David K.; Titus, Cindy J.

2005-01-01

Proper interpretation of water-quality data requires consideration of the effects that bias and variability might have on measured constituent concentrations. In this report, methods are described to estimate the bias due to contamination of samples in the field or laboratory and the variability due to sample collection, processing, shipment, and analysis. Contamination can adversely affect interpretation of measured concentrations in comparison to standards or criteria. Variability can affect interpretation of small differences between individual measurements or mean concentrations. Contamination and variability are determined for nutrient data from quality-control samples (field blanks and replicates) collected as part of the National Water-Quality Assessment (NAWQA) Program during water years 1992-2001. Statistical methods are used to estimate the likelihood of contamination and variability in all samples. Results are presented for five nutrient analytes from stream samples and four nutrient analytes from ground-water samples. Ammonia contamination can add at least 0.04 milligram per liter in up to 5 percent of all samples. This could account for more than 22 percent of measured concentrations at the low range of aquatic-life criteria (0.18 milligram per liter). Orthophosphate contamination, at least 0.019 milligram per liter in up to 5 percent of all samples, could account for more than 38 percent of measured concentrations at the limit to avoid eutrophication (0.05 milligram per liter). Nitrite-plus-nitrate and Kjeldahl nitrogen contamination is less than 0.4 milligram per liter in 99 percent of all samples; thus there is no significant effect on measured concentrations of environmental significance. Sampling variability has little or no effect on reported concentrations of ammonia, nitrite-plus-nitrate, orthophosphate, or total phosphorus sampled after 1998. The potential errors due to sampling variability are greater for the Kjeldahl nitrogen analytes and for total phosphorus sampled before 1999. The uncertainty in a mean of 10 concentrations caused by sampling variability is within a small range (1 to 7 percent) for all nutrients. These results can be applied to interpretation of environmental data collected during water years 1992-2001 in 52 NAWQA study units.

Developments in Sampling and Analysis Instrumentation for Stationary Sources

ERIC Educational Resources Information Center

Nader, John S.

1973-01-01

Instrumentation for the measurement of pollutant emissions is considered including sample-site selection, sample transport, sample treatment, sample analysis, and data reduction, display, and interpretation. Measurement approaches discussed involve sample extraction from within the stack and electro-optical methods. (BL)

Mindfulness-Based Interventions for Hematology and Oncology Patients with Pain.

PubMed

Hess, Denise

2018-06-01

Pain is a reality for approximately half of all of patients with cancer and can negatively affect patient cognitive and emotional states, resulting in "total pain." Total pain may not respond to pharmacologic interventions and may pave the way for the onset of suffering, where suffering is defined as physical pain accompanied by negative cognitive interpretations. Mindfulness-based interventions provide an alternate interpretive framework for both pain and suffering and may lessen a patient's experience of pain. Mindfulness-based interventions have the potential to alter a patient's relationship to pain, reducing pain catastrophizing, and enhancing patient reported overall well-being. Copyright © 2018 Elsevier Inc. All rights reserved.

Untangling Autophagy Measurements: All Fluxed Up

PubMed Central

Gottlieb, Roberta A.; Andres, Allen M.; Sin, Jon; Taylor, David

2015-01-01

Autophagy is an important physiological process in the heart, and alterations in autophagic activity can exacerbate or mitigate injury during various pathological processes. Methods to assess autophagy have changed rapidly as the field of research has expanded. As with any new field, methods and standards for data analysis and interpretation evolve as investigators acquire experience and insight. The purpose of this review is to summarize current methods to measure autophagy, selective mitochondrial autophagy (mitophagy), and autophagic flux. We will examine several published studies where confusion arose in in data interpretation, in order to illustrate the challenges. Finally we will discuss methods to assess autophagy in vivo and in patients. PMID:25634973

Hydrated mineral stratigraphy of Ius Chasma, Valles Marineris

USGS Publications Warehouse

Roach, L.H.; Mustard, J.F.; Swayze, G.; Milliken, R.E.; Bishop, J.L.; Murchie, S.L.; Lichtenberg, K.

2010-01-01

New high-resolution spectral and morphologic imaging of deposits on walls and floor of Ius Chasma extend previous geomorphic mapping, and permit a new interpretation of aqueous processes that occurred during the development of Valles Marineris. We identify hydrated mineralogy based on visible-near infrared (VNIR) absorptions. We map the extents of these units with CRISM spectral data as well as morphologies in CTX and HiRISE imagery. Three cross-sections across Ius Chasma illustrate the interpreted mineral stratigraphy. Multiple episodes formed and transported hydrated minerals within Ius Chasma. Polyhydrated sulfate and kieserite are found within a closed basin at the lowest elevations in the chasma. They may have been precipitates in a closed basin or diagenetically altered after deposition. Fluvial or aeolian processes then deposited layered Fe/Mg smectite and hydrated silicate on the chasma floor, postdating the sulfates. The smectite apparently was weathered out of Noachian-age wallrock and transported to the depositional sites. The overlying hydrated silicate is interpreted to be an acid-leached phyllosilicate transformed from the underlying smectite unit, or a smectite/jarosite mixture. The finely layered smectite and massive hydrated silicate units have an erosional unconformity between them, that marks a change in surface water chemistry. Landslides transported large blocks of wallrock, some altered to contain Fe/Mg smectite, to the chasma floor. After the last episode of normal faulting and subsequent landslides, opal was transported short distances into the chasma from a few m-thick light-toned layer near the top of the wallrock, by sapping channels in Louros Valles. Alternatively, the material was transported into the chasma and then altered to opal. The superposition of different types of hydrated minerals and the different fluvial morphologies of the units containing them indicate sequential, distinct aqueous environments, characterized by alkaline, then circum-neutral, and finally very acidic surface or groundwater chemistry. ?? 2009 Elsevier Inc. All rights reserved.

Early Archean spherule beds of possible impact origin from Barberton, South Africa: A detailed mineralogical and geochemical study

NASA Technical Reports Server (NTRS)

Koeberl, Christian; Reimold, Wolf Uwe; Boer, Rudolf H.

1992-01-01

The Barberton Greenstone belt is a 3.5- to 3.2-Ga-old formation situated in the Swaziland Supergroup near Barberton, northeast Transvaal, South Africa. The belt includes a lower, predominantly volcanic sequence, and an upper sedimentary sequence (e.g., the Fig Tree Group). Within this upper sedimentary sequence, Lowe and Byerly identified a series of different beds of spherules with diameters of around 0.5-2 mm. Lowe and Byerly and Lowe et al. have interpreted these spherules to be condensates of rock vapor produced by large meteorite impacts in the early Archean. We have collected a series of samples from drill cores from the Mt. Morgan and Princeton sections near Barberton, as well as samples taken from underground exposures in the Sheba and Agnes mines. These samples seem much better preserved than the surface samples described by Lowe and Byerly and Lowe et al. Over a scale of just under 30 cm, several well-defined spherule beds are visible, interspaced with shales and/or layers of banded iron formation. Some spherules have clearly been deposited on top of a sedimentary unit because the shale layer shows indentions from the overlying spherules. Although fresher than the surface samples (e.g., spherule bed S-2), there is abundant evidence for extensive alteration, presumably by hydrothermal processes. In some sections of the cores sulfide mineralization is common. For our mineralogical and petrographical studies we have prepared detailed thin sections of all core and underground samples (as well as some surface samples from the S-2 layer for comparison). For geochemical work, layers with thicknesses in the order of 1-5 mm were separated from selected core and underground samples. The chemical analyses are being performed using neutron activation analysis in order to obtain data for about 35 trace elements in each sample. Major elements are being determined by XRF and plasma spectrometry. To clarify the history of the sulfide mineralization, sulfur isotopic compositions are being determined.

Clinicians' interpretations of point of care urine culture versus laboratory culture results: analysis from the four-country POETIC trial of diagnosis of uncomplicated urinary tract infection in primary care.

PubMed

Hullegie, Saskia; Wootton, Mandy; Verheij, Theo J M; Thomas-Jones, Emma; Bates, Janine; Hood, Kerenza; Gal, Micaela; Francis, Nick A; Little, Paul; Moore, Michael; Llor, Carl; Pickles, Timothy; Gillespie, David; Kirby, Nigel; Brugman, Curt; Butler, Christopher C

2017-08-01

Urine culture at the point of care minimises delay between obtaining the sample and agar inoculation in a microbiology laboratory, and quantification and sensitivity results can be available more rapidly in primary care. To identify the degree to which clinicians' interpretations of a point-of-care-test (POCT) urine culture (Flexicult™ SSI-Urinary Kit) agrees with laboratory culture in women presenting to primary care with symptoms of uncomplicated urinary tract infections (UTI). Primary care clinicians used the Flexicult™-POCT, recorded their findings and took a photograph of the result, which was interpreted by microbiology laboratory technicians. Urine samples were additionally processed in routine care laboratories. Cross tabulations were used to identify important differences in organism identification, quantification and antibiotic susceptibility between these three sources of data. The influence of various laboratory definitions for UTI on culture were assessed. Primary care clinicians identified 202/289 urine samples (69.9%) as positive for UTI using the Flexicult™-POCT, whereas laboratory culture identified 94-190 (32.5-65.7%) as positive, depending on definition thresholds. 82.9% of samples identified positive for E. coli on laboratory culture were also considered positive for E. coli using the Flexicult™ -POCT, and susceptibilities were reasonably concordant. There were major discrepancies between laboratory staff interpretation of Flexicult™ photographs, clinicians' interpretation of the Flexicult™ test, and laboratory culture results. Flexicult™-POCT overestimated the positivity rate of urine samples for UTI when laboratory culture was used as the reference standard. However, it is unclear whether point-of-care or laboratory based urine culture provides the most valid diagnostic information. © The Author 2017. Published by Oxford University Press. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

Thermal history of type-3 chondrites in the NASA antarctic collection

NASA Astrophysics Data System (ADS)

Bonal, L.; Quirico, E.; Montagnac, G.

2014-07-01

Chondrites are the most primitive meteorites. However, they were all modified in some ways by post-accretion geological processes operating on their asteroidal parent bodies. Hence, to decipher the formation(s) and origin(s) of their components, we must first understand how chondritic materials were modified in their asteroidal parent bodies. The modifications induced by secondary processes should not be underestimated and have to be precisely estimated before any interpretation of chondrite properties in terms of cosmochemistry. In particular, all chondrites contain some organic components that were potentially chemically and physically modified through post-accretion processes. A thin understanding of the induced evolution is required to allow for pertinent comparisons with other primitive extraterrestrial materials, such as cometary grains, to finally address questions such as the origin of organics in the Solar System. Type 3 chondrites experienced thermal metamorphism on their asteroidal parent body due to the radioactive decay of elements such as ^{26}Al. Temperatures higher than 300 °C were experienced on timescales of several thousands of years. Still, type 3 chondrites remain as unequilibrated rocks and common mineralogical thermometers cannot be applied. The polyaromatic carbonaceous matter is sensitive to thermal episodes (of long and short duration) experienced by the host meteorite. In particular, its structural order directly reflects the thermal history experienced on their parent bodies. The structural modification of the aromatic carbonaceous matter towards a higher order is irreversible, and independent of the mineralogy and degree of aqueous alteration. It is mainly controlled by the peak metamorphic temperature. Moreover, under the assumption of fairly similar organic precursors among chondrites of distinct groups, the structural order of polyaromatic organic matter allows for a direct comparison of their metamorphic grades. It is then possible to evaluate the metamorphic grade of the objects and to assign a petrologic type along a unique petrologic scale [1-4]. This technique has been successfully applied to type 3 Unequilibrated Ordinary Chondrites [1], carbonaceous CV chondrites [2], and CO chondrites [3]. The interpretation of the structural order of the polyaromatic carbonaceous matter in terms of thermal history is thus reliable. Raman spectroscopy enables the determination of the degree of structural order of the polyaromatic organic matter present in the matrix of chondrites. Both falls and finds, from Antarctica [4] and elsewhere, have been analyzed. It does not require a large amount of samples and is relatively easy to implement. Raman spectroscopy is particularly sensitive to the lowest petrologic types (3.0-3.2). The present NASA collection of Antarctic meteorites represents an incredible source of precious samples for our community. The present work finely characterizes the thermal history of most of the type 3 chondrites (UOCs, CVs, and COs) from that collection. At the present time, the objectives are threefold: (i) determination of reliable petrologic types indispensable for our community; (ii) identification of the most primitive type 3 chondrites (petrologic type ≤ 3.1); and (iii) identification of potential ''anomalous'' samples having experienced a slightly different thermal history. The JSC Meteorite Working Group generously allocated us with more than 150 chondrites (UOCs, CVs, and COs). The following points summarize the main results. (i) At the present time, the thermal histories of more than 100 samples have been characterized. (ii) The terrestrial weathering experienced by several chondrites (˜25 chondrites) has been too pervasive for the method to be applied. For these meteorites, as signatures of oxide minerals dominate Raman spectra of the matrix, the organic matter might have been significantly altered through oxidation. (iii) Real discrepancies with the preliminary JSC petrologic type attributions were found for several chondrites with mostly underestimations of the metamorphic grades. (iv) The structural grade of the polyaromatic carbonaceous matter is fairly homogeneous in most of the considered chondrites with a few exceptions, interpreted in terms of shock events. (v) Recently, there were some promising advances (e.g. [5,6]) in terms of interpretation of the structural order of the polyaromatic carbonaceous matter as a geothermometer for terrestrial rocks of low maturity grades. The used spectral tracers will be considered and the thermometry potentially applied to infer new constraints on the metamorphic temperature experienced by these type 3 chondrites.

Calibration method helps in seismic velocity interpretation

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

Guzman, C.E.; Davenport, H.A.; Wilhelm, R.

1997-11-03

Acoustic velocities derived from seismic reflection data, when properly calibrated to subsurface measurements, help interpreters make pure velocity predictions. A method of calibrating seismic to measured velocities has improved interpretation of subsurface features in the Gulf of Mexico. In this method, the interpreter in essence creates a kind of gauge. Properly calibrated, the gauge enables the interpreter to match predicted velocities to velocities measured at wells. Slow-velocity zones are of special interest because they sometimes appear near hydrocarbon accumulations. Changes in velocity vary in strength with location; the structural picture is hidden unless the variations are accounted for by mappingmore » in depth instead of time. Preliminary observations suggest that the presence of hydrocarbons alters the lithology in the neighborhood of the trap; this hydrocarbon effect may be reflected in the rock velocity. The effect indicates a direct use of seismic velocity in exploration. This article uses the terms seismic velocity and seismic stacking velocity interchangeably. It uses ground velocity, checkshot average velocity, and well velocity interchangeably. Interval velocities are derived from seismic stacking velocities or well average velocities; they refer to velocities of subsurface intervals or zones. Interval travel time (ITT) is the reciprocal of interval velocity in microseconds per foot.« less

The association between ruminative thinking and negative interpretation bias in social anxiety.

PubMed

Badra, Marcel; Schulze, Lars; Becker, Eni S; Vrijsen, Janna Nonja; Renneberg, Babette; Zetsche, Ulrike

2017-09-01

Cognitive models propose that both, negative interpretations of ambiguous social situations and ruminative thoughts about social events contribute to the maintenance of social anxiety disorder. It has further been postulated that ruminative thoughts fuel biased negative interpretations, however, evidence is rare. The present study used a multi-method approach to assess ruminative processing following a social interaction (post-event processing by self-report questionnaire and social rumination by experience sampling method) and negative interpretation bias (via two separate tasks) in a student sample (n = 51) screened for high (HSA) and low social anxiety (LSA). Results support the hypothesis that group differences in negative interpretations of ambiguous social situations in HSAs vs. LSAs are mediated by higher levels of post-event processing assessed in the questionnaire. Exploratory analyses highlight the potential role of comorbid depressive symptoms. The current findings help to advance the understanding of the association between two cognitive processes involved in social anxiety and stress the importance of ruminative post-event processing.

Codetype-based interpretation of the MMPI-2 in an outpatient psychotherapy sample.

PubMed

Koffmann, Andrew

2015-01-01

In an evaluation of the codetype-based interpretation of the MMPI-2, 48 doctoral student psychotherapists rated their clients' (N = 120) standardized interpretations as more accurate when based on the profile's codetype, in comparison with ratings for interpretations based on alternate codetypes. Effect sizes ranged from nonsignificant to large, depending on the degree of proximity between the profile's codetype and the alternate codetype. There was weak evidence to suggest that well-defined profiles yielded more accurate interpretations than undefined profiles. It appears that codetype-based interpretation of the MMPI-2 is generally valid, but there might be little difference in the accuracy of interpretations based on nearby codetypes.

Understanding the behavior of Giardia and Cryptosporidium in an urban watershed: Explanation and application of techniques to collect and evaluate monitoring data

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

Crockett, C.S.; Haas, C.N.

1996-11-01

Due to current proposed regulations requiring monitoring for protozoans and demonstration of adequate protozoan removal depending on source water concentrations detected, many utilities are considering or are engaged in protozoan monitoring activities within their watershed so that proper watershed management and treatment modifications can reduce their impact on drinking water safety and quality. However, due to the difficulties associated with the current analytical methods and sample collection many sampling efforts collect data that cannot be interpreted or lack the tools to interpret the information obtained. Therefore, it is necessary to determine how to develop an effective sampling program tailored tomore » a utility`s specific needs to provide interpretable data and develop tools for evaluating such data. The following case study describes the process in which a utility learned how to collect and interpret monitoring data for their specific needs and provides concepts and tools which other utilities can use to aid in their own macro and microwatershed management efforts.« less

Petrology of Amoeboid Olivine Aggregates in Antarctic CR Chondrites: Comparison With Other Carbonaceous Chondrites

NASA Technical Reports Server (NTRS)

Komatsu, M.; Fagan, T. J.; Yamaguchi, A.; Mikouchi, T.; Zolensky, M. E.; Yasutake, M.

2016-01-01

Amoeboid olivine aggregates (AOAs) are important refractory components of carbonaceous chondrites and have been interpreted to represent solar nebular condensates that experienced high-temperature annealing, but largely escaped melting. In addition, because AOAs in primitive chondrites are composed of fine-grained minerals (forsterite, anorthite, spinel) that are easily modified during post crystallization alteration, the mineralogy of AOAs can be used as a sensitive indicator of metamorphic or alteration processes. AOAs in CR chondrites are particularly important because they show little evidence for secondary alteration. In addition, some CR AOAs contain Mn-enriched forsterite (aka low-iron, Mn-enriched or LIME olivine), which is an indicator of nebular formation conditions. Here we report preliminary results of the mineralogy and petrology of AOAs in Antarctic CR chondrites, and compare them to those in other carbonaceous chondrites.

Experimental aqueous alteration of the Allende meteorite under oxidizing conditions: Constraints on asteroidal alteration

NASA Astrophysics Data System (ADS)

Jones, Catherine L.; Brearley, Adrian J.

2006-02-01

We have performed an experimental study of the aqueous alteration of the Allende CV3 carbonaceous chondrite under highly oxidizing conditions, in order to examine the alteration behavior of Allende's anhydrous mineralogy. The experiments were carried out at temperatures of 100, 150, and 200 °C, for time periods between 7 and 180 days, with water/rock ratios ranging from 1:1 to 9:1. Uncrushed cubes of Allende were used so that the spatial relationships between reactant and product phases could be examined in detail. Scanning electron microscope studies show that in all the experiments, even those of short duration (7 days), soluble salts of Ca and Mg (CaSO 4, CaCO 3, and MgSO 4) precipitated on the sample surface, indicating that these elements are rapidly mobilized during alteration. In addition, iron oxides and hydroxides formed on the sample surfaces. The sulfates, carbonates, and the majority of the iron-bearing secondary minerals are randomly distributed over the surface of samples. In some instances the iron oxides and hydroxides are constrained to the boundaries of altering mineral grains. Transmission electron microscope studies show that the FeO-rich olivine in the interior of the samples has altered to form interlayered serpentine/saponite and Fe-oxyhydroxides. The degree of alteration increases significantly with increasing water/rock ratio, and to a lesser extent with increasing duration of heating. The serpentine/saponite forms both by direct replacement of the olivine in crystallographically oriented intergrowths, and by recrystallization of an amorphous Si-rich phase that precipitates in pore space between the olivine grains. The alteration assemblage bears many similarities to those found in altered carbonaceous chondrites, although in detail there are important differences, which we attribute to (a) the relatively high temperatures of our experiments and (b) comparatively short reaction times compared with the natural examples. In terms of mineral assemblage, our experiments most closely resemble alteration in the CI chondrites, although the degree of alteration of our experiments is much lower. CI chondrites contain serpentine/saponite intergrowths and veins of Ca-sulfate and Ca-carbonate as well as the Fe-oxyhydroxide, ferrihydrite. However, the phyllosilicate phases formed in our experiments are somewhat coarser-grained than the finest phyllosilicate fraction present in CI chondrites, suggesting that alteration of the CI chondrites occurred at lower temperatures. In terms of mineral assemblage, our experiments also appear to come close to matching CR chondrites, although we infer that CR alteration probably occurred at temperatures <100 °C, based on the very fine-grained size of phyllosilicates in CR matrices.

Everybody Is…Drinking! Interpretation Bias in Problematic Drinkers with and without Mild to Borderline Intellectual Disability

ERIC Educational Resources Information Center

van Duijvenbode, Neomi; Didden, Robert; Korzilius, Hubert P. L. M.; Engels, Rutger C. M. E.

2016-01-01

Background: Problematic alcohol use is characterized by disrupted associative processing of environmental clues, where problematic drinkers interpret ambiguous, alcohol-relevant clues in an alcohol-related way. The present study examined the strength of this interpretation bias in a large sample (N = 230) of light and problematic drinkers with and…

Assessing and Understanding Line Graph Interpretations Using a Scoring Rubric of Organized Cited Factors

ERIC Educational Resources Information Center

Boote, Stacy K.

2014-01-01

This study examined how 12- and 13-year-old students' mathematics and science background knowledge affected line graph interpretations and how interpretations were affected by graph question levels. A purposive sample of 14 students engaged in think aloud interviews while completing an excerpted Test of Graphing in Science. Data were…

Characterizing the Phyllosilicates and Amorphous Phases Found by MSL Using Laboratory XRD and EGA Measurements of Natural and Synthetic Materials

NASA Technical Reports Server (NTRS)

Rampe, Elizabeth B.; Morris, Richard V.; Chipera, Steve; Bish, David L.; Bristow, Thomas; Archer, Paul Douglas; Blake, David; Achilles, Cherie; Ming, Douglas W.; Vaniman, David;

A Study of the Effects of an Altered Workweek.

ERIC Educational Resources Information Center

Wood Educational Consultants, Edmonton (Alberta).

The purpose of this study was to examine the effects of organizational change arising from alterations in the structuring of the workweek. Data were collected from a stratified random sample of management and nonmanagement personnel employed within the various branches of the Alberta Department of Education. The sample consisted of 132 standard…

1H and 31P spectroscopy and bioenergetics in the lateralization of seizures in temporal lobe epilepsy.

PubMed

Hetherington, Hoby P; Pan, Jullie W; Spencer, Dennis D

2002-10-01

Over the past decade, (1)H and (31)P spectroscopy measurements have demonstrated that significant metabolic alterations occur in temporal lobe epilepsy. However, to most accurately interpret these changes, metabolic heterogeneity and differences between gray and white matter must be accounted for. These alterations, decreased NAA and the ratio of phosphocreatine/inorganic phosphate, can be reversed with successful treatment of seizures. The reversibility of these two measures is consistent with the localization of NAA synthesis to neuronal mitochondria and the important role for bioenergetics in the pathophysiology of temporal lobe epilepsy. Copyright 2002 Wiley-Liss, Inc.

Coronal and Intraradicular Appearances Affect Radiographic Perception of the Periapical Region.

PubMed

Strong, Julie W; Woodmansey, Karl F; Khademi, John A; Hatton, John F

2017-05-01

The influence of the radiographic appearances of the coronal and intraradicular areas on periapical radiographic interpretation has been minimally evaluated in dentistry and endodontics. The purpose of this study was to evaluate the effects that the coronal and intraradicular radiographic appearance has on endodontists' radiographic interpretations of periapical areas. In a split-group study design using an online survey format, 2 pairs of digital periapical radiographic images were evaluated by 2 groups (A and B) of endodontist readers for the presence of a periapical finding. The images in each pair were identical except that 1 image of each image pairs had coronal restorations and/or root canal fillings altered using Adobe Photoshop software (Adobe Systems, San Jose, CA). The periapical areas were not altered. Using a 5-point Likert scale, the endodontist readers were asked to "Please evaluate the periapical area(s)." A Mann-Whitney U test was used to statistically evaluate the difference between the groups. Significance was set at P < .01. There were 417 readers in group A and 442 readers in group B. The Mann-Whitney U test showed a significant difference in the responses between the groups for both image pairs (P < .01). Because the periapical areas of the image pairs were unaltered, the differing coronal and intraradicular areas of the radiographs appear to have influenced endodontists' interpretations of the periapical areas. This finding has implications for all radiographic outcome assessments. Copyright © 2017 American Association of Endodontists. Published by Elsevier Inc. All rights reserved.

Hydrothermal deformation of granular quartz sand

NASA Astrophysics Data System (ADS)

Karner, Stephen L.; Kronenberg, Andreas K.; Chester, Frederick M.; Chester, Judith S.; Hajash, Andrew

2008-05-01

Isotropic and triaxial compression experiments were performed on porous aggregates of St Peter quartz sand to explore the influence of temperature (to 225°C). During isotropic stressing, samples loaded at elevated temperature exhibit the same sigmoidal stress-strain curves and non-linear acoustic emission rates as have previously been observed from room temperature studies on sands, sandstones, and soils. However, results from our hydrothermal experiments show that the critical effective pressure (P*) associated with the onset of significant pore collapse and pervasive cataclastic flow is lower at increased temperature. Samples subjected to triaxial loading at elevated temperature show yield behavior resembling that observed from room temperature studies on granular rocks and soils. When considered in terms of distortional and mean stresses, the yield strength data for a given temperature define an elliptical envelope consistent with critical state and CAP models from soil mechanics. For the conditions we tested, triaxial yield data at low effective pressure are essentially temperature-insensitive whereas yield levels at high effective pressure are lowered as a function of elevated temperature. We interpret our yield data in a manner consistent with Arrhenius behavior expected for thermally assisted subcritical crack growth. Taken together, our results indicate that increased stresses and temperatures associated with subsurface burial will significantly alter the yield strength of deforming granular media in systematic and predictable ways.

Authigenesis/Diagenesis of the Murray Formation Mudstone in Gale Crater, Mars

NASA Technical Reports Server (NTRS)

Ming, D. W.; Rampe, E. B.; Grotzinger, J. P.; Hurowitz, J. A.; Morris, R. V.; Yen, A. S.; Blake, D. B.; Geller, R.; Sutter, B.

2016-01-01

The Mars Science Laboratory rover Curiosity has been exploring sedimentary deposits in Gale crater since August, 2012. The rover has traversed up section through approximately 150 m of sedimentary rocks deposited in fluvial, deltaic, and lacustrine environments (Bradbury group and overlying Mount Sharp group). The Murray formation lies at the base of the Mt. Sharp group and has been interpreted to be a finely laminated mudstone likely deposited in a subaqueous lacustrine environment. Four drill samples from several elevations in the Murray fm have been acquired by the rover's sampling system and delivered to the CheMin XRD instrument. The lower section of the Murray fm contains 2:1 phyllosilicate(s), hematite, jarosite, XRD amorphous materials, and primary basaltic minerals. Further up section, the Murray fm contains magnetite, cristobalite, tridymite, abundant Si-rich XRD amorphous materials along with plagioclase and K-feldspars. Murray formation materials appear to have been altered under an open hydrologic system based on the bulk chemistry of these materials measured by the Alpha Particle X-ray Spectrometer (APXS). The 2:1 phyllosilicate only occurs in the lowermost section of the Murray fm and may be detrital or formed during authigenesis of Murray fm materials, similar to the Fe-saponite and magnetite detected in a mudstone in the Yellowknife Bay fm near Curiosity's landing site (stratigraphically at the base of the Bradbury group). The occurrence of jarosite and hematite in the lower section indicates an acidic diagenetic event. These phases may have formed via several acidic alteration mechanisms, including (1) oxidative weathering of mafic igneous rocks containing sulfides; (2) sulfuric acid weathering of Fe-bearing phases; and (3) near-neutral pH subsurface solutions rich in Fe2(+) that were rapidly oxidized to Fe3(+), which produced excess acidity. The transition from abundant hematite in the lowermost Murray fm to magnetite moving up section may indicate changes in lake chemistry, i.e., variable redox conditions, possibly during authigenesis or subsequent diagenetic events. Tridymite, a high temperature mineral, (and possibly cristobalite) is detrital, potentially deposited in a lake from a distal silicic volcanic rock source or from crustal materials present prior to the Gale Crater impact event. Abundant Si-rich XRD amorphous materials in the upper sections of the Murray fm may be detrital or an aqueous alteration product of primary igneous phases and phyllosilicates. Curiosity's science team is still deciphering the authigenesis and diagenetic events that formed the Murray fm. The mineralogy and geochemistry of the formation suggest a complicated history with several (many?) episodes of aqueous alteration under a variety of environmental conditions.

Assessing Environmental Exposure to β-N-Methylamino-L-Alanine (BMAA) in Complex Sample Matrices: a Comparison of the Three Most Popular LC-MS/MS Methods.

PubMed

Baker, Teesha C; Tymm, Fiona J M; Murch, Susan J

2018-01-01

β-N-Methylamino-L-alanine (BMAA) is a naturally occurring non-protein amino acid produced by cyanobacteria, accumulated through natural food webs, found in mammalian brain tissues. Recent evidence indicates an association between BMAA and neurological disease. The accurate detection and quantification of BMAA in food and environmental samples are critical to understanding BMAA metabolism and limiting human exposure. To date, there have been more than 78 reports on BMAA in cyanobacteria and human samples, but different methods give conflicting data and divergent interpretations in the literature. The current work was designed to determine whether orthogonal chromatography and mass spectrometry methods give consistent data interpretation from a single sample matrix using the three most common analytical methods. The methods were recreated as precisely as possible from the literature with optimization of the mass spectrometry parameters specific to the instrument. Four sample matrices, cyanobacteria, human brain, blue crab, and Spirulina, were analyzed as 6-aminoquinolyl-N-hydroxysuccinimidyl carbamate (AQC) derivatives, propyl chloroformate (PCF) derivatives separated by reverse phase chromatography, or underivatized extracts separated by HILIC chromatography. The three methods agreed on positive detection of BMAA in cyanobacteria and no detected BMAA in the sample of human brain matrix. Interpretation was less clear for a sample of blue crab which was strongly positive for BMAA by AQC and PCF but negative by HILIC and for four spirulina raw materials that were negative by PCF but positive by AQC and HILIC. Together, these data demonstrate that the methods gave different results and that the choices in interpretation of the methods determined whether BMAA was detected. Failure to detect BMAA cannot be considered proof of absence.

Characterization of reactive flow-induced evolution of carbonate rocks using digital core analysis- part 1: Assessment of pore-scale mineral dissolution and deposition.

PubMed

Qajar, Jafar; Arns, Christoph H

2016-09-01

The application of X-ray micro-computed tomography (μ-CT) for quantitatively characterizing reactive-flow induced pore structure evolution including local particle detachment, displacement and deposition in carbonate rocks is investigated. In the studies conducted in this field of research, the experimental procedure has involved alternating steps of imaging and ex-situ core sample alteration. Practically, it is impossible to return the sample, with micron precision, to the same position and orientation. Furthermore, successive images of a sample in pre- and post-alteration states are usually taken at different conditions such as different scales, resolutions and signal-to-noise ratios. These conditions accompanying with subresolution features in the images make voxel-by-voxel comparisons of successive images problematic. In this paper, we first address the respective challenges in voxel-wise interpretation of successive images of carbonate rocks subject to reactive flow. Reactive coreflood in two carbonate cores with different rock types are considered. For the first rock, we used the experimental and imaging results published by Qajar et al. (2013) which showed a quasi-uniform dissolution regime. A similar reactive core flood was conducted in the second rock which resulted in wormhole-like dissolution regime. We particularly examine the major image processing operations such as transformation of images to the same grey-scale, noise filtering and segmentation thresholding and propose quantitative methods to evaluate the effectiveness of these operations in voxel-wise analysis of successive images of a sample. In the second part, we generalize the methodology based on the three-phase segmentation of normalized images, microporosity assignment and 2D histogram of image intensities to estimate grey-scale changes of individual image voxels for a general case where the greyscale images are segmented into arbitrary number of phases. The results show that local (voxel-based) porosity changes can be decomposed into local mineral dissolution and deposition. Moreover, it is found that the microporosity evolutions are differently distributed in the samples after the reactive coreflood experiments. In the last part of the paper, for the case of quasi-uniform dissolution, we combine the tomographic images with numerical calculations of permeability along the core to characterize the relationship between changes in permeability and the fractions of the mineral dissolved and deposited. A consistency is found between the calculated longitudinal permeability changes and the quantified distribution of mineral dissolved and deposited along the sample. Copyright © 2016 Elsevier B.V. All rights reserved.

Characterization of reactive flow-induced evolution of carbonate rocks using digital core analysis- part 1: Assessment of pore-scale mineral dissolution and deposition

NASA Astrophysics Data System (ADS)

Qajar, Jafar; Arns, Christoph H.

2016-09-01

The application of X-ray micro-computed tomography (μ-CT) for quantitatively characterizing reactive-flow induced pore structure evolution including local particle detachment, displacement and deposition in carbonate rocks is investigated. In the studies conducted in this field of research, the experimental procedure has involved alternating steps of imaging and ex-situ core sample alteration. Practically, it is impossible to return the sample, with micron precision, to the same position and orientation. Furthermore, successive images of a sample in pre- and post-alteration states are usually taken at different conditions such as different scales, resolutions and signal-to-noise ratios. These conditions accompanying with subresolution features in the images make voxel-by-voxel comparisons of successive images problematic. In this paper, we first address the respective challenges in voxel-wise interpretation of successive images of carbonate rocks subject to reactive flow. Reactive coreflood in two carbonate cores with different rock types are considered. For the first rock, we used the experimental and imaging results published by Qajar et al. (2013) which showed a quasi-uniform dissolution regime. A similar reactive core flood was conducted in the second rock which resulted in wormhole-like dissolution regime. We particularly examine the major image processing operations such as transformation of images to the same grey-scale, noise filtering and segmentation thresholding and propose quantitative methods to evaluate the effectiveness of these operations in voxel-wise analysis of successive images of a sample. In the second part, we generalize the methodology based on the three-phase segmentation of normalized images, microporosity assignment and 2D histogram of image intensities to estimate grey-scale changes of individual image voxels for a general case where the greyscale images are segmented into arbitrary number of phases. The results show that local (voxel-based) porosity changes can be decomposed into local mineral dissolution and deposition. Moreover, it is found that the microporosity evolutions are differently distributed in the samples after the reactive coreflood experiments. In the last part of the paper, for the case of quasi-uniform dissolution, we combine the tomographic images with numerical calculations of permeability along the core to characterize the relationship between changes in permeability and the fractions of the mineral dissolved and deposited. A consistency is found between the calculated longitudinal permeability changes and the quantified distribution of mineral dissolved and deposited along the sample.

Microarray-based comparative genomic hybridization analysis in neonates with congenital anomalies: detection of chromosomal imbalances.

PubMed

Emy Dorfman, Luiza; Leite, Júlio César L; Giugliani, Roberto; Riegel, Mariluce

2015-01-01

To identify chromosomal imbalances by whole-genome microarray-based comparative genomic hybridization (array-CGH) in DNA samples of neonates with congenital anomalies of unknown cause from a birth defects monitoring program at a public maternity hospital. A blind genomic analysis was performed retrospectively in 35 stored DNA samples of neonates born between July of 2011 and December of 2012. All potential DNA copy number variations detected (CNVs) were matched with those reported in public genomic databases, and their clinical significance was evaluated. Out of a total of 35 samples tested, 13 genomic imbalances were detected in 12/35 cases (34.3%). In 4/35 cases (11.4%), chromosomal imbalances could be defined as pathogenic; in 5/35 (14.3%) cases, DNA CNVs of uncertain clinical significance were identified; and in 4/35 cases (11.4%), normal variants were detected. Among the four cases with results considered causally related to the clinical findings, two of the four (50%) showed causative alterations already associated with well-defined microdeletion syndromes. In two of the four samples (50%), the chromosomal imbalances found, although predicted as pathogenic, had not been previously associated with recognized clinical entities. Array-CGH analysis allowed for a higher rate of detection of chromosomal anomalies, and this determination is especially valuable in neonates with congenital anomalies of unknown etiology, or in cases in which karyotype results cannot be obtained. Moreover, although the interpretation of the results must be refined, this method is a robust and precise tool that can be used in the first-line investigation of congenital anomalies, and should be considered for prospective/retrospective analyses of DNA samples by birth defect monitoring programs. Copyright © 2014 Sociedade Brasileira de Pediatria. Published by Elsevier Editora Ltda. All rights reserved.

Cutting Corners: Provider Perceptions of Interpretation Services and Factors Related to Use of an Ad Hoc Interpreter.

PubMed

Mayo, Rachel; Parker, Veronica G; Sherrill, Windsor W; Coltman, Kinneil; Hudson, Matthew F; Nichols, Christina M; Yates, Adam M; Pribonic, Anne Paige

2016-06-01

This study assessed health providers' perceptions of factors related to professional interpretation services and the association between these factors and the potential use of ad hoc interpreters. Data were collected from a convenience sample of 150 health services providers at a large, regional health system in South Carolina. Providers rated "ability to communicate effectively during a clinical encounter" as paramount regarding the use of interpretation services. The most important factors related to the likely use of ad hoc interpreters (cutting corners) included locating a qualified interpreter, having to wait for a qualified interpreter, and technical difficulties regarding phone and video technology. Health care organizations may benefit from increasing staff awareness about patient safety and legal and regulatory risks involved with the use of ad hoc interpreters. © The Author(s) 2016.

40Ar/39Ar dating and zircon chronochemistry for the Izu-Bonin rear arc, IODP site U1437

NASA Astrophysics Data System (ADS)

Schmitt, A. K.; Konrad, K.; Andrews, G. D.; Horie, K.; Brown, S. R.; Koppers, A. A. P.; Busby, C.; Tamura, Y.

2016-12-01

The scientific objective of IODP Expedition 350 drilling at Site U1437 (31°47.390'N, 139°01.580'E) was to reveal the "missing half of the subduction factory": the rear arc of a long-lived intraoceanic subduction zone. Site U1437 lies in a 50 km long and 20 km wide volcano-bounded basin, 90 km west of the Izu arc front, and is the only IODP site drilled in the rear arc. The Izu rear arc is dominated by Miocene basaltic to dacitic seamount chains, which strike at a high angle to the arc front. Radiometric dating targeted a single igneous unit (1390 mbsf), and fine to coarse volcaniclastic units for which we present zircon and 40Ar/39Ar (hornblende, plagioclase, and groundmass) age determinations. All zircons analyzed as grain separates were screened for contamination from drill-mud (Andrews et al., 2016) by analyzing trace elements and, where material was available, O and Hf isotope compositions. Igneous Unit 1 is a rhyolite sheet and yielded concordant in-situ and crystal separate U-Pb zircon ages (13.7±0.3 Ma; MSWD = 1.3; n = 40 spots), whereas the 40Ar/39Ar hornblende plateau age (12.9±0.3; MSWD = 1.1; n = 9 steps) is slightly younger, possibly reflecting pre-eruptive zircon crystallization, or alteration of hornblende. U-Pb zircon and 40Ar/39Ar plateau ages from samples above igneous Unit 1 are concordant with biostratigraphic and paleomagnetic ages (available to 1300 mbsf), but plagioclase and groundmass samples below 1300 m become younger with depth, hinting at post-depositional alteration. A single zircon from 1600 mbsf yielded a U-Pb age of 15.4±1.8 Ma; its trace element composition resembles other igneous zircons from U1437, and is tentatively interpreted as a Middle Miocene age for the lowermost lithostratigraphic unit VII. Oxygen and Hf isotopic values of igneous zircon indicate mantle origins, with some influence of assimilation of hydrothermally altered oceanic crust evident in sub-mantle oxygen isotopic compositions. Lessons from site U1437 are that integrated chronochemistry is essential for achieving accurate age models in oceanic drilling. Reference: Andrews, G. D., Schmitt, A. K., Busby, C. J., Brown, S. R., Blum, P., & Harvey, J. (2016). Age and compositional data of zircon from sepiolite drilling mud to identify contamination of ocean drilling samples. G3. doi: 10.1002/2016GC006397.

The effect of biodegradation on gammacerane in crude oils.

PubMed

Huang, Haiping

2017-08-01

Gammacerane is one of the major biomarkers widely used in depositional environment diagnosis, oil family classification, and oil-source correlation. It is generally accepted that gammacerane is more resistant to biodegradation than regular hopanes. However, whether it is biodegradable as well has not been reported in literatures. In order to investigate the effect of biodegradation on gammacerane in crude oils, 69 core samples from two biodegraded petroleum accumulations were geochemically characterized by quantitative GC-MS analysis. All samples are originated from lacustrine source rocks in China and have experienced at least level 8 degree of biodegradation on the scale of Peters and Moldowan (The biomarker guide: interpreting molecular fossils in petroleum and ancient sediments, Prentice Hall, Englewood Cliffs, 1993). Both case histories showed the concentration of gammacerane decrease with increasing severity of biodegradation, indicating the destruction of gammacerane by biodegradation. A whole series of 25-norhopanes paralleling the 17α,21β-hopanes (up to C 34 ), together with C 28 18-α-25,30-bisnorneohopane, C 29 25-nordiahopane and C 29 25-norgammacerane, is found in the Liaohe sample suite but C 33 , C 34 25-norhopane and 25-norgammacerane are almost undetectable in the Junggar case. The gammacerane in the Liaohe case study appear to be altered simultaneously with hopanes, although the rate of gammacerane alteration is slower. Its susceptibility to biodegradation is similar to 18α(H)-22,29,30-trisnorneohopane (Ts) and 17α(H)-22,29,30-trisnorhopane (Tm) but more vulnerable than 18α-30-norneohopane (C 29 Ts), 15α-methyl-17α(H)-27-norhopane (C 30 diahopane) and pregnanes. The gammacerane in the Junggar oils appear to be less biodegradable than the Liaohe case history. It was altered simultaneously with pregnanes and C 29 Ts but faster than C 30 diahopane. The present data suggest that biodegradation sequence is not universal since the relative rates of biodegradation of different compound classes depend upon specific environmental conditions. Like the case of hopane demethylation, the mechanism of gammacerane biodegradation is not straightforward. While the conversion of gammacerane to 25-norgammacerane is not quantitatively balanced in the Liaohe case history, no 25-norgammacerane has been formed from the degradation of gammacerane in the Junggar case history. The ratio of gammacerane to regular hopanes increases with biodegradation degree especially at extreme levels of degradation, gammacerane index is no longer valid for depositional environment assessment or oil-source correlation.

On sample size and different interpretations of snow stability datasets

NASA Astrophysics Data System (ADS)

Schirmer, M.; Mitterer, C.; Schweizer, J.

2009-04-01

Interpretations of snow stability variations need an assessment of the stability itself, independent of the scale investigated in the study. Studies on stability variations at a regional scale have often chosen stability tests such as the Rutschblock test or combinations of various tests in order to detect differences in aspect and elevation. The question arose: ‘how capable are such stability interpretations in drawing conclusions'. There are at least three possible errors sources: (i) the variance of the stability test itself; (ii) the stability variance at an underlying slope scale, and (iii) that the stability interpretation might not be directly related to the probability of skier triggering. Various stability interpretations have been proposed in the past that provide partly different results. We compared a subjective one based on expert knowledge with a more objective one based on a measure derived from comparing skier-triggered slopes vs. slopes that have been skied but not triggered. In this study, the uncertainties are discussed and their effects on regional scale stability variations will be quantified in a pragmatic way. An existing dataset with very large sample sizes was revisited. This dataset contained the variance of stability at a regional scale for several situations. The stability in this dataset was determined using the subjective interpretation scheme based on expert knowledge. The question to be answered was how many measurements were needed to obtain similar results (mainly stability differences in aspect or elevation) as with the complete dataset. The optimal sample size was obtained in several ways: (i) assuming a nominal data scale the sample size was determined with a given test, significance level and power, and by calculating the mean and standard deviation of the complete dataset. With this method it can also be determined if the complete dataset consists of an appropriate sample size. (ii) Smaller subsets were created with similar aspect distributions to the large dataset. We used 100 different subsets for each sample size. Statistical variations obtained in the complete dataset were also tested on the smaller subsets using the Mann-Whitney or the Kruskal-Wallis test. For each subset size, the number of subsets were counted in which the significance level was reached. For these tests no nominal data scale was assumed. (iii) For the same subsets described above, the distribution of the aspect median was determined. A count of how often this distribution was substantially different from the distribution obtained with the complete dataset was made. Since two valid stability interpretations were available (an objective and a subjective interpretation as described above), the effect of the arbitrary choice of the interpretation on spatial variability results was tested. In over one third of the cases the two interpretations came to different results. The effect of these differences were studied in a similar method as described in (iii): the distribution of the aspect median was determined for subsets of the complete dataset using both interpretations, compared against each other as well as to the results of the complete dataset. For the complete dataset the two interpretations showed mainly identical results. Therefore the subset size was determined from the point at which the results of the two interpretations converged. A universal result for the optimal subset size cannot be presented since results differed between different situations contained in the dataset. The optimal subset size is thus dependent on stability variation in a given situation, which is unknown initially. There are indications that for some situations even the complete dataset might be not large enough. At a subset size of approximately 25, the significant differences between aspect groups (as determined using the whole dataset) were only obtained in one out of five situations. In some situations, up to 20% of the subsets showed a substantially different distribution of the aspect median. Thus, in most cases, 25 measurements (which can be achieved by six two-person teams in one day) did not allow to draw reliable conclusions.

Thellier GUI: An integrated tool for analyzing paleointensity data from Thellier-type experiments

NASA Astrophysics Data System (ADS)

Shaar, Ron; Tauxe, Lisa

2013-03-01

Thellier-type experiments are a method used to estimate the intensity of the ancient geomagnetic field from samples carrying thermoremanent magnetization. The analysis of Thellier-type experimental data is conventionally done by manually interpreting data from each specimen individually. The main limitations of this approach are: (1) manual interpretation is highly subjective and can be biased by misleading concepts, (2) the procedure is time consuming, and (3) unless the measurement data are published, the final results cannot be reproduced by readers. These issues compound when trying to combine together paleointensity data from a collection of studies. Here, we address these problems by introducing the Thellier GUI: a comprehensive tool for interpreting Thellier-type experimental data. The tool presents a graphical user interface, which allows manual interpretation of the data, but also includes two new interpretation tools: (1) Thellier Auto Interpreter: an automatic interpretation procedure based on a given set of experimental requirements, and 2) Consistency Test: a self-test for the consistency of the results assuming groups of samples that should have the same paleointensity values. We apply the new tools to data from two case studies. These demonstrate that interpretation of non-ideal Arai plots is nonunique and different selection criteria can lead to significantly different conclusions. Hence, we recommend adopting the automatic interpretation approach, as it allows a more objective interpretation, which can be easily repeated or revised by others. When the analysis is combined with a Consistency Test, the credibility of the interpretations is enhanced. We also make the case that published paleointensity studies should include the measurement data (as supplementary files or as a contributions to the MagIC database) so that results based on a particular data set can be reproduced and assessed by others.

Smaller but denser: postmortem changes alter the CT characteristics of subdural hematomas.

PubMed

Berger, Nicole; Ebert, Lars C; Ampanozi, Garyfalia; Flach, Patricia M; Gascho, Dominic; Thali, Michael J; Ruder, Thomas D

2015-03-01

The aim of this study was to investigate if (1) the volume of subdural hematomas (SDH), midline shift, and CT density of subdural hematomas are altered by postmortem changes and (2) if these changes are dependent on the postmortem interval (PMI). Ante mortem computed tomography (AMCT) of the head was compared to corresponding postmortem CT (PMCT) in 19 adults with SDH. SDH volume, midline shift, and hematoma density were measured on both AMCT and PMCT and their differences assessed using Wilcoxon-Signed Rank Test. Spearman's Rho Test was used to assess significant correlations between the PMI and the alterations of SDH volume, midline shift, and hematoma density. Mean time between last AMCT and PMCT was 109 h, mean PMI was 35 h. On PMCT mean midline displacement was decreased by 57% (p < 0.001); mean SDH volume was decreased by 38% (p < 0.001); and mean hematoma density was increased by 18% (p < 0.001) in comparison to AMCT. There was no correlation between the PMI and the normalization of the midline shift (p = 0.706), the reduction of SDH volume (p = 0.366), or the increase of hematoma density (p = 0.140). This study reveals that normal postmortem changes significantly affect the extent and imaging characteristics of subdural hematoma and may therefore affect the interpretation of these findings on PMCT. Radiologists and forensic pathologists who use PMCT must be aware of these phenomena in order to correctly interpret PMCT findings in cases of subdural hemorrhages.

Visualizing the 3D Architecture of Multiple Erythrocytes Infected with Plasmodium at Nanoscale by Focused Ion Beam-Scanning Electron Microscopy

PubMed Central

Soares Medeiros, Lia Carolina; De Souza, Wanderley; Jiao, Chengge; Barrabin, Hector; Miranda, Kildare

2012-01-01

Different methods for three-dimensional visualization of biological structures have been developed and extensively applied by different research groups. In the field of electron microscopy, a new technique that has emerged is the use of a focused ion beam and scanning electron microscopy for 3D reconstruction at nanoscale resolution. The higher extent of volume that can be reconstructed with this instrument represent one of the main benefits of this technique, which can provide statistically relevant 3D morphometrical data. As the life cycle of Plasmodium species is a process that involves several structurally complex developmental stages that are responsible for a series of modifications in the erythrocyte surface and cytoplasm, a high number of features within the parasites and the host cells has to be sampled for the correct interpretation of their 3D organization. Here, we used FIB-SEM to visualize the 3D architecture of multiple erythrocytes infected with Plasmodium chabaudi and analyzed their morphometrical parameters in a 3D space. We analyzed and quantified alterations on the host cells, such as the variety of shapes and sizes of their membrane profiles and parasite internal structures such as a polymorphic organization of hemoglobin-filled tubules. The results show the complex 3D organization of Plasmodium and infected erythrocyte, and demonstrate the contribution of FIB-SEM for the obtainment of statistical data for an accurate interpretation of complex biological structures. PMID:22432024

Volcanogenic Pseudo-Fossils from the ∼3.48 Ga Dresser Formation, Pilbara, Western Australia

PubMed Central

Noffke, Nora; Saunders, Martin; Guagliardo, Paul; Pyle, David M.

2018-01-01

Abstract The ∼3.48 billion-year-old Dresser Formation, Pilbara Craton, Western Australia, is a key geological unit for the study of Earth's earliest life and the habitats it occupied. Here, we describe a new suite of spheroidal to lenticular microstructures that morphologically resemble some previously reported Archean microfossils. Correlative microscopy shows that these objects have a size distribution, wall ultrastructure, and chemistry that are incompatible with a microfossil origin and instead are interpreted as pyritized and silicified fragments of vesicular volcanic glass. Organic kerogenous material is associated with much of the altered volcanic glass; variable quantities of organic carbon line or fill the insides of some individual vesicles, while relatively large, tufted organic-rich laminae envelop multiple vesicles. The microstructures reported herein constitute a new type of abiogenic artifact (pseudo-fossil) that must be considered when evaluating potential signs of early life on Earth or elsewhere. In the sample studied here, where hundreds of these microstructures are present, the combined evidence permits a relatively straightforward interpretation as vesicular volcanic glass. However, reworked, isolated, and silicified microstructures of this type may prove particularly problematic in early or extraterrestrial life studies since they adsorb carbon onto their surfaces and are readily pyritized, mimicking a common preservation mechanism for bona fide microfossils. In those cases, nanoscale analysis of wall ultrastructure would be required to firmly exclude a biological origin. Key Words: Microfossils—Pseudo-fossils—Volcanic vesicles—Archean life—Pilbara Craton—Dresser Formation. Astrobiology 18, 539–555. PMID:29461869

Evaluation of the testicular toxicity of prenatal exposure to bisphenol A based on microarray analysis combined with MeSH annotation.

PubMed

Tainaka, Hitoshi; Takahashi, Hikari; Umezawa, Masakazu; Tanaka, Hiromitsu; Nishimune, Yoshitake; Oshio, Shigeru; Takeda, Ken

2012-01-01

Bisphenol A (BPA) is known to be an endocrine disruptor that affects the development of reproductive system. The aim of the present study was to investigate a group of testicular genes dysregulated by prenatal exposure to BPA. Pregnant ICR mice were treated with BPA by subcutaneous administration on days 7 and 14 of pregnancy. Tissue and blood samples were collected from 6-week-old male offspring. Testes were subjected to gene expression analysis using a testis-specific microarray (Testis2), consisting of 2,482 mouse cDNA clones annotated with Medical Subject Headings (MeSH) terms indicative of testicular components and functions. To interpret the microarray data, we used the MeSH terms significantly associated with the altered genes. As a result, MeSH terms related to androgens and Sertoli cells were extracted in BPA-treated groups. Among the genes related to Sertoli cells, downregulation of Msi1h, Ncoa1, Nid1, Hspb2, and Gata6 were detected in the testis of mice treated with BPA (twice administered 50 mg/kg). The MeSH terms associated with this group of genes may provide useful means to interpret the testicular toxicity of BPA. This article concludes that prenatal BPA exposure downregulates expression of genes associated with Sertoli cell function and affects the reproductive function of male offspring. Additionally, a method using MeSH to extract a group of genes was useful for predicting the testicular and reproductive toxicity of prenatal BPA exposure.

Effects of overnight refrigeration on the microscopic evaluation of sputum.

PubMed Central

Penn, R L; Silberman, R

1984-01-01

Microscopic evaluation of sputum permits selection of specimens suitable for culture, assessment of likely pathogens, and the best interpretation of culture results. We prospectively evaluated 50 sputum specimens which were promptly submitted to our clinical laboratory; smears and cultures were performed both immediately and after 20 h of refrigeration. Specimens were grouped according to the numbers of squamous epithelial cells and neutrophils per low-power field present on coded Gram-stained smears. The numbers of bacteria in five oil immersion fields were used to characterize smears for predominant, mixed, or scanty forms. After refrigeration, only three specimens changed group from a definite loss of squamous epithelial cells, and only two changed group from a definite loss of neutrophils. Based on cellular composition, the majority of samples would have been processed identically both before and after refrigeration. In contrast, organism forms detected on smears and their relative quantities were dramatically altered after refrigeration. A predominant smear form was gained in 11 and lost in 8 refrigerated specimens. The frequent changes on smears observed overall resulted from both increases and decreases in numbers of bacteria and yeasts. The majority of sputum culture results were insignificantly affected by the refrigeration of specimens. We conclude that 20 h of refrigeration renders sputum useless for the microscopic evaluation of potential pathogens and the subsequent interpretation of culture results. However, overnight refrigeration does not affect the determination from smears of sputum suitability for culture based on cellular composition. PMID:6699145

Multi-Reader ROC studies with Split-Plot Designs: A Comparison of Statistical Methods

PubMed Central

Obuchowski, Nancy A.; Gallas, Brandon D.; Hillis, Stephen L.

2012-01-01

Rationale and Objectives Multi-reader imaging trials often use a factorial design, where study patients undergo testing with all imaging modalities and readers interpret the results of all tests for all patients. A drawback of the design is the large number of interpretations required of each reader. Split-plot designs have been proposed as an alternative, in which one or a subset of readers interprets all images of a sample of patients, while other readers interpret the images of other samples of patients. In this paper we compare three methods of analysis for the split-plot design. Materials and Methods Three statistical methods are presented: Obuchowski-Rockette method modified for the split-plot design, a newly proposed marginal-mean ANOVA approach, and an extension of the three-sample U-statistic method. A simulation study using the Roe-Metz model was performed to compare the type I error rate, power and confidence interval coverage of the three test statistics. Results The type I error rates for all three methods are close to the nominal level but tend to be slightly conservative. The statistical power is nearly identical for the three methods. The coverage of 95% CIs fall close to the nominal coverage for small and large sample sizes. Conclusions The split-plot MRMC study design can be statistically efficient compared with the factorial design, reducing the number of interpretations required per reader. Three methods of analysis, shown to have nominal type I error rate, similar power, and nominal CI coverage, are available for this study design. PMID:23122570

Multi-reader ROC studies with split-plot designs: a comparison of statistical methods.

PubMed

Obuchowski, Nancy A; Gallas, Brandon D; Hillis, Stephen L

2012-12-01

Multireader imaging trials often use a factorial design, in which study patients undergo testing with all imaging modalities and readers interpret the results of all tests for all patients. A drawback of this design is the large number of interpretations required of each reader. Split-plot designs have been proposed as an alternative, in which one or a subset of readers interprets all images of a sample of patients, while other readers interpret the images of other samples of patients. In this paper, the authors compare three methods of analysis for the split-plot design. Three statistical methods are presented: the Obuchowski-Rockette method modified for the split-plot design, a newly proposed marginal-mean analysis-of-variance approach, and an extension of the three-sample U-statistic method. A simulation study using the Roe-Metz model was performed to compare the type I error rate, power, and confidence interval coverage of the three test statistics. The type I error rates for all three methods are close to the nominal level but tend to be slightly conservative. The statistical power is nearly identical for the three methods. The coverage of 95% confidence intervals falls close to the nominal coverage for small and large sample sizes. The split-plot multireader, multicase study design can be statistically efficient compared to the factorial design, reducing the number of interpretations required per reader. Three methods of analysis, shown to have nominal type I error rates, similar power, and nominal confidence interval coverage, are available for this study design. Copyright © 2012 AUR. All rights reserved.

Space weathering of silicate regoliths with various FeO contents: New insights from laser irradiation experiments and theoretical spectral simulations

NASA Astrophysics Data System (ADS)

Moroz, Lyuba V.; Starukhina, Larissa V.; Rout, Surya Snata; Sasaki, Sho; Helbert, Jörn; Baither, Dietmar; Bischoff, Addi; Hiesinger, Harald

2014-06-01

To investigate effects of micrometeorite bombardment on optical spectra and composition of planetary and asteroid regoliths with low Fe contents, we irradiated samples of a Fe-poor plagioclase feldspar (andesine-labradorite) using a nanosecond pulsed laser. We measured reflectance spectra of irradiated and non-irradiated areas of the samples (pressed pellets) between 0.5 and 18 μm and performed SEM/EDS and TEM studies of the samples. Bulk FeO content of 0.72 wt.% in the samples is comparable, for example, to FeO content in silicates on the surface of Mercury, that was recently mapped by NASA's MESSENGER mission and will be spectrally mapped by remote sensing instruments MERTIS and SYMBIO-SYS on board the ESA BepiColombo spacecraft. We also employed theoretical spectral modeling to characterize optical alteration caused by formation of nano- and submicrometer Fe0 inclusions within space-weathered surface layers and grain rims of a Fe-poor regolith. The laser-irradiated surface layer of plagioclase reveals significant melting, while reflectance spectra show mild darkening and reddening in the visible and near-infrared (VNIR). Our spectral modeling indicates that the optical changes observed in the visible require reduction of bulk FeO (including Fe from mineral impurities found in the sample) and formation of nanophase (np) Fe0 within the glassy surface layer. A vapor deposit, if present, is optically too thin to contribute to optical modification of the investigated samples or to cause space weathering-induced optical alteration of Fe-poor regoliths in general. Due to low thickness of vapor deposits, npFe0 formation in the latter can cause darkening and reddening only for a regolith with rather high bulk Fe content. Our calculations show that only a fraction of bulk Fe is likely to be converted to npFe0 in nanosecond laser irradiation experiments and probably in natural regolith layers modified by space weathering. The previously reported differences in response of different minerals to laser irradiation, and probably to space weathering-induced heating are likely controlled by their differences in electrical conductivities and melting points. For a given mineral grain, its susceptibility to melting/vaporization is also affected by electric conductivities of adjacent grains of other minerals in the regolith. Published nanosecond laser irradiation experiments simulate optical alteration of immature regoliths, since only the uppermost surface layer of an irradiated pellet is subject to heating. According to our calculations, if regolith particles due to impact-induced turnover are mantled with npFe0-bearing rims of the same thickness, then even low contents of Fe similar to our sample or Mercury' surface can cause significant darkening and reddening, provided a melt layer, rather than a thin vapor deposit is involved into npFe0 formation. All spectral effects observed in the thermal infrared (TIR) after irradiation of our feldspar sample are likely to be associated with textural changes. We expect that mineralogical interpretation of the BepiColombo MERTIS infrared spectra of Mercury between 7 and 17 μm will be influenced mostly by textural effects (porosity, comminution) and impact glass formation rather than formation of npFe0 inclusions.

Assessing change in large-scale forest area by visually interpreting Landsat images

Treesearch

Jerry D. Greer; Frederick P. Weber; Raymond L. Czaplewski

2000-01-01

As part of the Forest Resources Assessment 1990, the Food and Agriculture Organization of the United Nations visually interpreted a stratified random sample of 117 Landsat scenes to estimate global status and change in tropical forest area. Images from 1980 and 1990 were interpreted by a group of widely experienced technical people in many different tropical countries...

Access to New Zealand Sign Language interpreters and quality of life for the deaf: a pilot study.

PubMed

Henning, Marcus A; Krägeloh, Christian U; Sameshima, Shizue; Shepherd, Daniel; Shepherd, Gregory; Billington, Rex

2011-01-01

This paper aims to: (1) explore usage and accessibility of sign language interpreters, (2) appraise the levels of quality of life (QOL) of deaf adults residing in New Zealand, and (3) consider the impact of access to and usage of sign language interpreters on QOL. Sixty-eight deaf adults living in New Zealand participated in this study. Two questionnaires were employed: a 12-item instrument about access and use of New Zealand sign language interpreters and the abbreviated version of the World Health Organization Quality of Life questionnaire (WHOQOL-BREF). The results showed that 39% of this sample felt that they were unable to adequately access interpreting services. Moreover, this group scored significantly lower than a comparable hearing sample on all four WHOQOL-BREF domains. Finally, the findings revealed that access to good quality interpreters were associated with access to health services, transport issues, engagement in leisure activities, gaining more information, mobility and living in a healthy environment. These findings have consequences for policy makers and agencies interested in ensuring that there is an equitable distribution of essential services for all groups within New Zealand which inevitably has an impact on the health of the individual.

Maps and interpretation of geochemical anomalies, Chuckwalla Mountains Wilderness Study Area, Riverside County, California

USGS Publications Warehouse

Watts, K.C.

1986-01-01

This report discusses and interprets geochemical results as they are seen at the reconnaissance stage. Analytical results for all samples collected are released in a U.S. Geological Survey Open-File Report (Adrian and others, 1985). A statistical summary of the data from heavy-mineral concentrates and sieved stream sediments is shown in table 1. The analytical results for selected elements in rock samples are shown in table 2.

CO 2-induced chemo-mechanical alteration in reservoir rocks assessed via batch reaction experiments and scratch testing

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

Aman, Michael; Espinoza, D. Nicolas; Ilgen, Anastasia G.

Here, the injection of carbon dioxide (CO 2) into geological formations results in a chemical re-equilibration between the mineral assemblage and the pore fluid, with ensuing mineral dissolution and re-precipitation. Hence, target rock formations may exhibit changes of mechanical and petrophysical properties due to CO 2 exposure. We conducted batch reaction experiments with Entrada Sandstone and Summerville Siltstone exposed to de-ionized water and synthetic brine under reservoir pressure (9–10 MPa) and temperature (80°C) for up to four weeks. Samples originate from the Crystal Geyser field site, where a naturally occurring CO 2 seepage alters portions of these geologic formations. Wemore » conducted micro-scratch tests on rock samples without alteration, altered under laboratory conditions, and naturally altered over geologic time. Scratch toughness and hardness decrease as a function of exposure time and water salinity up to 52% in the case of Entrada and 87% in the case of Summerville after CO 2-induced alteration in the laboratory. Imaging of altered cores with SEM-EDS and X-ray microCT methods show dissolution of carbonate and silica cements and matrix accompanied by minor dissolution of Fe-oxides, clays, and other silicates. Parallel experiments using powdered samples confirm that dissolution of carbonate and silica are the primary reactions. The batch reaction experiments in the autoclave utilize a high fluid to rock volume ratio and represent an end member of possible alteration associated with CO 2 storage systems. These types of tests serve as a pre-screening tool to identify the susceptibility of rock facies to CO 2-related chemical-mechanical alteration during long-term CO 2 storage.« less

CO 2-induced chemo-mechanical alteration in reservoir rocks assessed via batch reaction experiments and scratch testing

DOE PAGES

Aman, Michael; Espinoza, D. Nicolas; Ilgen, Anastasia G.; ...

2017-09-22

Here, the injection of carbon dioxide (CO 2) into geological formations results in a chemical re-equilibration between the mineral assemblage and the pore fluid, with ensuing mineral dissolution and re-precipitation. Hence, target rock formations may exhibit changes of mechanical and petrophysical properties due to CO 2 exposure. We conducted batch reaction experiments with Entrada Sandstone and Summerville Siltstone exposed to de-ionized water and synthetic brine under reservoir pressure (9–10 MPa) and temperature (80°C) for up to four weeks. Samples originate from the Crystal Geyser field site, where a naturally occurring CO 2 seepage alters portions of these geologic formations. Wemore » conducted micro-scratch tests on rock samples without alteration, altered under laboratory conditions, and naturally altered over geologic time. Scratch toughness and hardness decrease as a function of exposure time and water salinity up to 52% in the case of Entrada and 87% in the case of Summerville after CO 2-induced alteration in the laboratory. Imaging of altered cores with SEM-EDS and X-ray microCT methods show dissolution of carbonate and silica cements and matrix accompanied by minor dissolution of Fe-oxides, clays, and other silicates. Parallel experiments using powdered samples confirm that dissolution of carbonate and silica are the primary reactions. The batch reaction experiments in the autoclave utilize a high fluid to rock volume ratio and represent an end member of possible alteration associated with CO 2 storage systems. These types of tests serve as a pre-screening tool to identify the susceptibility of rock facies to CO 2-related chemical-mechanical alteration during long-term CO 2 storage.« less

Mapping hydrothermal alteration using aircraft VNIR scanners at the Rosemont porphyry copper deposit. [Visible-Near Infrared

NASA Technical Reports Server (NTRS)

Sadowski, R. M.; Abrams, M. J.

1983-01-01

Two Visible-Near Infrared (VNIR) scanners, the NS-001 and the M2S, were flown over the Rosemont porphyry copper deposit as part of the NASA/JPL/GEOSAT test site program. This program was established to determine the feasibility and limitations of mapping hydrothermal alteration with multispectral scanners. Data from the NS-001 at 0.83 and 2.2 microns were used to identify Fe(3+) and OH enriched outcrops. These areas were then correlated with three alteration assemblages. The first correlation, hematite-epidote, was the most obvious and appeared as a strong ferric iron signature associated with hematite stained Cretaceous arkoses and andesites. The second correlation, qtz-sericite, showed a combined ferric-hydroxyl signature for a phyllicly altered quartz monzonite. The third correlation, skarn, was identified only after a review of calc-silicate mineral VNIR spectra. Altered limestones that outcrop west of the deposit have a similar ferric iron-hydroxyl signature as the quartz-sericite altered quartz monzonite. This skarn signature has been interpreted to indicate the presence of andradite, hydro-grossularite and idocrase. Data from the second scanner, M2S, was used to search for variation in ferric iron mineral type. Resulting imagery data indicated that hematite was the dominant ferric iron mineral present in the Rosemont area.

Diagenesis Along Fractures in an Eolian Sandstone, Gale Crater, Mars

NASA Technical Reports Server (NTRS)

Ming, D. W.; Yen, A. S.; Rampe, E. B.; Grotzinger, J. P.; Blake, D. F.; Bristow, T. F.; Chipera, S. J.; Downs, R.; Morris, R. V.; Morrison, S. M.;

Quasar evolution - Not a deficit at 'low' redshifts

NASA Technical Reports Server (NTRS)

Avni, Y.; Schiller, N.

1983-01-01

Hawkins and Stewart (1981) have argued that the conventional interpretation of complete quasar samples in terms of a cosmological evolution of quasars is not unique. It has been suggested that these data can also be interpreted as due to a deficit in the density of quasars. Hawkins and Stewart have argued that such a deficit could be either apparent, due to an observational selection which biases against the inclusion of low-z quasars, or real, due to a lower density of quasars at low redshifts. The present investigation is concerned with this new interpretation. In order to test the interpretation of Hawkins and Stewart (1981) as directly as possible, the investigation is restricted to the same type of quasar samples considered by Hawkins and Stewart. It is found that the obtained results contradict clearly Hawkins and Stewart's assertion. Quasar evolution is not just a deficit of quasars at low redshifts, neither apparent nor real.

Effects Of Hydrothermal Alteration On Magnetic Properties And Magnetic Signatures - Implications For Predictive Magnetic Exploration Models

NASA Astrophysics Data System (ADS)

Clark, D.

2012-12-01

Magnetics is the most widely used geophysical method in hard rock exploration and magnetic surveys are an integral part of exploration programs for many types of mineral deposit, including porphyry Cu, intrusive-related gold, volcanic-hosted epithermal Au, IOCG, VMS, and Ni sulfide deposits. However, the magnetic signatures of ore deposits and their associated mineralized systems are extremely variable and exploration that is based simply on searching for signatures that resemble those of known deposits and systems is rarely successful. Predictive magnetic exploration models are based upon well-established geological models, combined with magnetic property measurements and geological information from well-studied deposits, and guided by magnetic petrological understanding of the processes that create, destroy and modify magnetic minerals in rocks. These models are designed to guide exploration by predicting magnetic signatures that are appropriate to specific geological settings, taking into account factors such as tectonic province; protolith composition; post-formation tilting/faulting/ burial/ exhumation and partial erosion; and metamorphism. Patterns of zoned hydrothermal alteration are important indicators of potentially mineralized systems and, if properly interpreted, can provided vectors to ore. Magnetic signatures associated with these patterns at a range of scales can provide valuable information on prospectivity and can guide drilling, provided they are correctly interpreted in geological terms. This presentation reviews effects of the important types of hydrothermal alteration on magnetic properties within mineralized systems, with particular reference to porphyry copper and IOCG deposits. For example, an unmodified gold-rich porphyry copper system, emplaced into mafic-intermediate volcanic host rocks (such as Bajo de la Alumbrera, Argentina) exhibits an inner potassic zone that is strongly mineralized and magnetite-rich, which is surrounded by an outer potassic zone that contains less abundant, but still significant, magnetite. The inner potassic zone represents relatively intense development of qtz-mt-Kfsp veins, whereas the outer potassic zone corresponds to bio-Kfsp-qtz-mt alteration. A shell of magnetite-destructive phyllic alteration with very low susceptibility envelops the potassic zones. The phyllic zone is surrounded by a zone of intense propylitic alteration, which is partially magnetite-destructive, which passes out into weak propylitic alteration and then into unaltered, moderately magnetic volcanics. For such a system, emplaced into magnetic intermediate-mafic igneous host rocks and exposed after removal by erosion of ~ 1 km of overburden, a strong central RTP high is surrounded by a relatively weak annular low over the phyllic zone, gradually returning to background levels over the propylitic zone (an "archery target" signature). For a completely buried system, however, the signature is basically an alteration low due to the large volume of magnetite-destructive alteration surrounding the deeply buried magnetic core.

Characterization of Free Phenytoin Concentrations in End-Stage Renal Disease Using the Winter-Tozer Equation.

PubMed

Soriano, Vincent V; Tesoro, Eljim P; Kane, Sean P

2017-08-01

The Winter-Tozer (WT) equation has been shown to reliably predict free phenytoin levels in healthy patients. In patients with end-stage renal disease (ESRD), phenytoin-albumin binding is altered and, thus, affects interpretation of total serum levels. Although an ESRD WT equation was historically proposed for this population, there is a lack of data evaluating its accuracy. The objective of this study was to determine the accuracy of the ESRD WT equation in predicting free serum phenytoin concentration in patients with ESRD on hemodialysis (HD). A retrospective analysis of adult patients with ESRD on HD and concurrent free and total phenytoin concentrations was conducted. Each patient's true free phenytoin concentration was compared with a calculated value using the ESRD WT equation and a revised version of the ESRD WT equation. A total of 21 patients were included for analysis. The ESRD WT equation produced a percentage error of 75% and a root mean square error of 1.76 µg/mL. Additionally, 67% of the samples had an error >50% when using the ESRD WT equation. A revised equation was found to have high predictive accuracy, with only 5% of the samples demonstrating >50% error. The ESRD WT equation was not accurate in predicting free phenytoin concentration in patients with ESRD on HD. A revised ESRD WT equation was found to be significantly more accurate. Given the small study sample, further studies are required to fully evaluate the clinical utility of the revised ESRD WT equation.

Assessment of Rapid-Blood-Culture-Identification Result Interpretation and Antibiotic Prescribing Practices

PubMed Central

Campbell, W. Scott; Lyden, Elizabeth; Van Schooneveld, Trevor C.

2017-01-01

ABSTRACT Rapid pathogen identification can alter antibiotic prescribing practices if interpreted correctly. Microbiology reporting can be difficult to understand, and new technology has made it more challenging. Nebraska Medicine recently implemented the BioFire FilmArray blood culture identification panel (BCID) coupled with stewardship-based education on interpretation. Physician BCID result interpretation and prescribing were assessed via an electronic survey, with a response rate of 40.8% (156/382 surveys). Seven questions required respondents to interpret BCID results, identify the most likely pathogen, and then choose therapy based on the results. The tallied correct responses resulted in a knowledge score. General linear models evaluated the effect of role, specialty, and utilization of the BCID interpretation guide on the mean knowledge score. The specialties of the respondents included 55.7% internal medicine, 19.7% family medicine, and 24.6% other. Roles included 41.1% residents, 5.0% fellows, and 53.9% faculty. Most reported that they reviewed antimicrobial susceptibility results (89.4%) and adjusted therapy accordingly (81.6%), while only 60% stated that they adjusted therapy based on BCID results. The correct response rates ranged from 52 to 86% for the interpretation questions. The most common errors included misinterpretation of Enterobacteriaceae and Staphylococcus genus results. Neither role nor specialty was associated with total knowledge score in multivariate analysis (P = 0.13 and 0.47, respectively). In conclusion, physician interpretation of BCID results is suboptimal and can result in ineffective treatment or missed opportunity to narrow therapy. With the implementation of new technology, improved reporting practices of BCID results with clinical decision support tools providing interpretation guidance available at the point of care is recommended. PMID:28250000

Assessment of diagenetic alteration of dinosaur eggshells through petrography and geochemical analysis

NASA Astrophysics Data System (ADS)

Enriquez, M. V.; Eagle, R.; Eiler, J. M.; Tripati, A. K.; Ramirez, P. C.; Loyd, S. J.; Chiappe, L.; Montanari, S.; Norell, M.; Tuetken, T.

2012-12-01

Carbonate clumped isotope analysis of fossil eggshells has the potential to constrain both the physiology of extinct animals and, potentially, paleoenvironmental conditions, especially when coupled with isotopic measurements of co-occurring soil carbonates. Eggshell samples from both modern vertebrates and Cretaceous Hadrosaurid, Oviraptorid, Titanosaur, Hypselosaurus, Faveoolithus, dinosaur fossils have been collected from Auca Mahuevo, Argentina and Rousett, France, amongst other locations, for geochemical analysis to determine if isotopic signatures could be used to indicate warm- or cold-bloodedness. In some locations soil carbonates were also analyzed to constrain environmental temperatures. In order to test the validity of the geochemical results, an extensive study was undertaken to establish degree of diagenetic alteration. Petrographic and cathodoluminescence characterization of the eggshells were used to assess diagenetic alteration. An empirical 1-5 point scale was used to assign each sample an alteration level, and the observations were then compared with the geochemical results. Specimens displayed a wide range of alteration states. Some of which were well preserved and others highly altered. Another group seemed to be structural intact and only under cathodoluminescence was alteration clearly observed. In the majority of samples, alteration level was found to be predictably related to geochemical results. From specimens with little evidence for diagenesis, carbonate clumped isotope signatures support high (37-40°C) body temperature for Titanosaurid dinosaurs, but potentially lower body temperatures for other taxa. If these data do, in fact, represent original eggshell growth temperatures, these results support variability in body temperature amongst Cretaceous dinosaurs and potentially are consistent with variations between adult body temperature and size — a characteristic of 'gigantothermy'.

Non-invasive analysis of root-soil interaction using three complementary imaging approaches

NASA Astrophysics Data System (ADS)

Haber-Pohlmeier, Sabina; Tötzke, Christian; Pohlmeier, Andreas; Rudolph-Mohr, Nicole; Kardjilov, Nikolay; Lehmann, Eberhard; Oswald, Sascha E.

2016-04-01

Plant roots are known to modify physical, chemical and biological properties of the rhizosphere, thereby, altering conditions for water and nutrient uptake. We aim for capturing the dynamic processes occurring at the soil-root interface in situ. A combination of neutron (NI), magnetic resonance (MRI) and micro-focus X-ray tomography (CT) is applied to monitor the rhizosphere of young plants grown in sandy soil in cylindrical containers (diameter 3 cm). A novel transportable low field MRI system is operated directly at the neutron facility allowing for combined measurements of the very same sample capturing the same hydro-physiological state. The combination of NI, MRI and CT provides three-dimensional access to the root system in respect to structure and hydraulics of the rhizosphere and the transport of dissolved marker substances. The high spatial resolution of neutron imaging and its sensitivity for water can be exploited for the 3D analysis of the root morphology and detailed mapping of three-dimensional water content at the root soil interface and the surrounding soil. MRI has the potential to yield complementary information about the mobility of water, which can be bound in small pores or in the polymeric network of root exudates (mucilage layer). We inject combined tracers (GdDPTA or D2O) to study water fluxes through soil, rhizosphere and roots. Additional CT measurements reveal mechanical impacts of roots on the local microstructure of soil, e.g. showing soil compaction or the formation of cracks. We co-register the NT, MRI and CT data to integrate the complementary information into an aligned 3D data set. This allows, e.g., for co-localization of compacted soil regions or cracks with the specific local soil hydraulics, which is needed to distinguish the contribution of root exudation from mechanical impacts when interpreting altered hydraulic properties of the rhizosphere. Differences between rhizosphere and bulk soil can be detected and interpreted in terms of root growth, root exudation, and root water uptake. Thus, we demonstrate that such a multi-imaging approach can be used as powerful tool contributing to a more comprehensive picture of the rhizosphere.

Mineralogical Control of Organic Matter Thermal Alteration: Implications for Biosignature Preservation in Returned Martian Samples

NASA Astrophysics Data System (ADS)

Czaja, A. D.; Osterhout, J. T.; Gangidine, A. J.

2018-04-01

Raman spectroscopy, which will be used by Mars 2020, can identify organic carbon and can assess the level of thermal alteration experienced by organic fossils. This study provides evidence that lithology can also influence apparent thermal alteration.

Geochemistry and petrogenesis of serpentinite from the Ingalls ophiolite complex, central Cascades, Washington

NASA Astrophysics Data System (ADS)

MacDonald, J. H., Jr.; Milliken, S. H.; Zalud, K. M.

2017-12-01

The Jurassic Ingalls ophiolite complex is located in the central Cascades, Washington State. This ophiolite predominantly consists of three variably serpentinized mantle units. Serpentinite occurs as massive replacing peridotite, or as highly sheared fault zones cutting other rocks. Mylonitic serpentinite forms a large-scale mélange in the middle of the ophiolite, and is interpreted as a fracture zone. Whole-rock and mineral geochemistry of the massive serpentinite was done to understand the metasomatic process and identify the possible protoliths of these rocks. Whole-rock major and trace elements of the massive serpentinite are similar to modern peridotites. The majority of samples analyzed are strongly serpentinized, while a few were moderately to weakly altered. Ca, Mg, and Al suggest these rocks formed from serpentinized harzburgite and dunite with minor lherzolite. All samples have positive Eu/Eu*. Serpentinites plot in fields defined by modern abyssal and forearc peridotites. Trace elements suggests the protoliths underwent variable amounts of mantel depletion (5-20%). Serpentine and relic igneous minerals were analyzed by EPMA at the Florida Center for Analytical Electron Microscopy. The serpentine dose not chemically display brucite mixing, has minor substitution of Fe, Ni, and Cr for Mg, and minor Al substitution for Si. Bastites have higher Ni than replaced olivine. Mineral chemistry, high LOI, and X-ray diffraction suggest lizardite is the primary serpentine polymorph, with minor chrysotile also occurring. Relic Al-chromite and Cr-spinel commonly have Cr-magnetite rims. These relic cores have little SiO2 and Fe3+, suggesting the spinels are well preserved. Most spinels plot in overlap fields defined by abyssal and arc peridotite, while two samples plot entirely in arc fields. Relic olivine have Fo90 to Fo92 and plot along the mantle array. Relic pyroxene are primarily enstatite, with lesser high-Ca varieties. Relic minerals plot near fields defined by harzburgite, dunite, and lherzolite from unaltered Ingalls peridotite. The massive serpentinite likely formed by low T (< 300°C), and possibly low pressure, hydrothermal alteration of harzburgite, dunite and lherzolite. The protoliths were variably depleted mantle residues from a possible supra-subduction zone setting.

Zircon Hf-O isotopic constraints on the origin of Late Mesozoic felsic volcanic rocks from the Great Xing'an Range, NE China

NASA Astrophysics Data System (ADS)

Gong, Mingyue; Tian, Wei; Fu, Bin; Wang, Shuangyue; Dong, Jinlong

2018-05-01

The voluminous Late Mesozoic magmatism was related to extensive re-melting of juvenile materials that were added to the Central East Asia continent in Phanerozoic time. The most favoured magma generation mechanism of Late Mesozoic magmas is partial melting of underplated lower crust that had radiogenic Hf-Nd isotopic characteristics, but this mechanism faces difficulties when interpreting other isotopic data. The tectonic environment controlling the generation of the Late Mesozoic felsic magmas is also in dispute. In this study, we obtained new U-Pb ages, and geochemical and isotopic data of representative Jurassic (154.4 ± 1.5 Ma) and Cretaceous (140.2 ± 1.5 Ma) felsic volcanic samples. The Jurassic sample has inherited zircon cores of Permian age, with depleted mantle-like εHf(t) of +7.4 - +8.5, which is in contrast with those of the magmatic zircons (εHf(t) = +2.4 ± 0.7). Whereas the inherited cores and the magmatic zircons have identical mantle-like δ18O composition ranges (4.25-5.29‰ and 4.69-5.54‰, respectively). These Hf-O isotopic characteristics suggest a mixed source of enriched mantle materials rather than ancient crustal components and a depleted mantle source represented by the inherited Permian zircon core. This mechanism is manifested by the eruption of Jurassic alkaline basalts originated from an enriched mantle source. The Cretaceous sample has high εHf(t) of +7.0 - +10.5, suggesting re-melting of a mafic magma derived from a depleted mantle-source. However, the sub-mantle zircon δ18O values (3.70-4.58‰) suggest the depleted mantle-derived mafic source rocks had experienced high temperature hydrothermal alteration at upper crustal level. Therefore, the Cretaceous felsic magma, if not all, could be generated by re-melting of down-dropped supracrustal volcanic rocks that experienced high temperature oxygen isotope alteration. The two processes, enriched mantle-contribution and supracrustal juvenile material re-melting, are new generation mechanisms of the Late Mesozoic magmas from Central East Asia. Rift settings may have controlled these processes throughout crustal and mantle levels.

19 CFR 181.64 - Goods re-entered after repair or alteration in Canada or Mexico.

Code of Federal Regulations, 2013 CFR

2013-04-01

... 19 Customs Duties 2 2013-04-01 2013-04-01 false Goods re-entered after repair or alteration in... Samples and Goods Returned After Repair or Alteration § 181.64 Goods re-entered after repair or alteration... otherwise provided in this section, the following declarations shall be filed in connection with the entry...

19 CFR 181.64 - Goods re-entered after repair or alteration in Canada or Mexico.

Code of Federal Regulations, 2014 CFR

2014-04-01

... 19 Customs Duties 2 2014-04-01 2014-04-01 false Goods re-entered after repair or alteration in... Samples and Goods Returned After Repair or Alteration § 181.64 Goods re-entered after repair or alteration... otherwise provided in this section, the following declarations shall be filed in connection with the entry...

19 CFR 181.64 - Goods re-entered after repair or alteration in Canada or Mexico.

Code of Federal Regulations, 2012 CFR

2012-04-01

... 19 Customs Duties 2 2012-04-01 2012-04-01 false Goods re-entered after repair or alteration in... Samples and Goods Returned After Repair or Alteration § 181.64 Goods re-entered after repair or alteration... otherwise provided in this section, the following declarations shall be filed in connection with the entry...

19 CFR 181.64 - Goods re-entered after repair or alteration in Canada or Mexico.

Code of Federal Regulations, 2011 CFR

2011-04-01

... 19 Customs Duties 2 2011-04-01 2011-04-01 false Goods re-entered after repair or alteration in... Samples and Goods Returned After Repair or Alteration § 181.64 Goods re-entered after repair or alteration... otherwise provided in this section, the following declarations shall be filed in connection with the entry...

Distribution of elements in individual blood cells in metabolic disorders at the cellular level

NASA Astrophysics Data System (ADS)

Johansson, Erland; Lindh, Ulf

1985-08-01

In comparison with controls neutrophil granulocytes from Rheumatoid arthritis (RA), Infantile Neuronal Ceroid Lipofuscinosis (INCL), Chronic Lymphatic Leukemia (L) and Aplastic Anemia (AA) displayed significant alterations in essential and non-essential elements which might be interpreted as fingerprints of these deseases. The neutrophils from RA patients displayed alterations in the concentrations of iron, calcium, strontium, manganese, zinc and copper. INCL displayed alterations in the concentrations of iron and copper but in the INCL disease the iron concentration was about 2 times higher than in RA. In leukemia, aluminium was observed but not in the controls (< 0.5 μg/ g). The zinc concentration was lowered in leukemia. Aplastic anemia displayed alterations in zirconium, arsenic, molybdenum, iron and zinc. The platelets from RA, INCL, L and AA patients also displayed alterations in the elemental profiles. The platelets from AA patients displayed a unique elemental distribution of arsenic, zirconium and molybdenum. The elemental profiles of the thrombocytes and neutrophils might be used as a complement in the diagnosis of the examined diseases and in therapy the elemental profile might be used to monitor drugs at the cellular level.

Data flow language and interpreter for a reconfigurable distributed data processor

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

Hurt, A.D.; Heath, J.R.

1982-01-01

An analytic language and an interpreter whereby an applications data flow graph may serve as an input to a reconfigurable distributed data processor is proposed. The architecture considered consists of a number of loosely coupled computing elements (CES) which may be linked to data and file memories through fully nonblocking interconnect networks. The real-time performance of such an architecture depends upon its ability to alter its topology in response to changes in application, asynchronous data rates and faults. Such a data flow language enhances the versatility of a reconfigurable architecture by allowing the user to specify the machine's topology atmore » a very high level. 11 references.« less

Metallic-mineral assessment of the Aban Al Ahmar quadrangle, sheet 25F, Kingdom of Saudi Arabia

USGS Publications Warehouse

Kamilli, Robert J.; Arnold, Mark A.; Cole, James C.; Kleinkopf, M. Dean; Lee, Keenan; Miller, William R.; Raines, Gary L.; ,; ,

1990-01-01

Comprehensive detailed interdisciplinary study assesses the metallic-mineral-resource potential in the Aban Al Ahmar Quadrangle of the Kingdom of Saudi Arabia, located in the eastern margin of the northeastern Arabian Shield, utilizing techniques of geophysics, geologic mapping, remote sensing and geochemistry. The landscape of the study area is characterized by isolated mountain groups, inselbergs, and local tracts of dissected hills separated by broad, low-relief peneplain. Topics covered include mining and exploration history; geological setting; interpretation of geophysical anomalies; limonitic hydrothermally altered and mineralized rocks; geochemical interpretation; mineral resource potential; skarn deposiits associated with intermediate igneous rocks; gold deposits; tin/tungsten skarn deposits; etc. 

EFFECTS OF AGE AND ACUTE MUSCLE FATIGUE ON REACTIVE POSTURAL CONTROL IN HEALTHY ADULTS

PubMed Central

Papa, Evan V.; Foreman, K. Bo; Dibble, Lee E.

2015-01-01

BACKGROUND Falls can cause moderate to severe injuries such as hip fractures and head trauma in older adults. While declines in muscle strength and sensory function contribute to increased falls in older adults, skeletal muscle fatigue is often overlooked as an additional contributor to fall risk. The purpose of this investigation was to examine the effects of acute lower extremity muscle fatigue and age on reactive postural control in healthy adults. METHODS A sample of 16 individuals participated in this study (8 healthy older adults and 8 healthy young persons). Whole body kinematic and kinetic data were collected during anterior and posterior reproducible fall tests before (T0) and immediately after (T1) eccentric muscle fatiguing exercise, as well as after 15-minutes (T15) and 30-minutes (T30) of rest. FINDINGS Lower extremity joint kinematics of the stepping limb during the support (landing) phase of the anterior fall were significantly altered by the presence of acute muscle fatigue. Step velocity was significantly decreased during the anterior falls. Statistically significant main effects of age were found for step length in both fall directions. Effect sizes for all outcomes were small. No statistically significant interaction effects were found. INTERPRETATION Muscle fatigue has a measurable effect on lower extremity joint kinematics during simulated falls. These alterations appear to resolve within 15 minutes of recovery. The above deficits, coupled with a reduced step length, may help explain the increased fall risk in older adults. PMID:26351001

Basis for paleoenvironmental interpretation of magnetic properties of sediment from Upper Klamath Lake (Oregon): Effects of weathering and mineralogical sorting

USGS Publications Warehouse

Rosenbaum, J.G.; Reynolds, R.L.

2004-01-01

Studies of magnetic properties enable reconstruction of environmental conditions that affected magnetic minerals incorporated in sediments from Upper Klamath Lake. Analyses of stream sediment samples from throughout the catchment of Upper Klamath Lake show that alteration of Fe-oxide minerals during subaerial chemical weathering of basic volcanic rocks has significantly changed magnetic properties of surficial deposits. Titanomagnetite, which is abundant both as phenocrysts and as microcrystals in fresh volcanic rocks, is progressively destroyed during weathering. Because fine-grained magnetite is readily altered due to large surface-to-volume ratios, weathering causes an increase in average magnetic grain size as well as reduction in the quantity of titanomagnetite both absolutely and relative to hematite. Hydrodynamic mineralogical sorting also produces differences in magnetic properties among rock and mineral grains of differing sizes. Importantly, removal of coarse silicate and Fe-oxide grains by sorting concentrated extremely fine-grained magnetite in the resulting sediment. The effects of weathering and sorting of minerals cannot be completely separated. These processes combine to produce the magnetic properties of a non-glacial lithic component of Upper Klamath Lake sediments, which is characterized by relatively low magnetite content and coarse magnetic grain size. Hydrodynamic sorting alone causes significant differences between the magnetic properties of glacial flour in lake sediments and of fresh volcanic rocks in the catchment. In comparison to source volcanic rocks, glacial flour in the lake sediment is highly enriched in extremely fine-grained magnetite.

Liquid Based Preparation (LBP) cytology versus Conventional Cytology (CS) in FNA samples from breast, thyroid, salivary glands and soft tissues. Our experience in Crete (Greece).

PubMed

Mygdakos, N; Nikolaidou, Sylvia; Tzilivaki, Anna; Tamiolakis, D

2009-01-01

The improvement in quality of cytological preparations with the use of LBP methodology has been well-documented, but the cytological artifacts resulting from this technique have not been adequately described. This study describes and illustrates the cytological artifacts introduced by LBP technique when used on fine-needle aspirates (FNAs), and evaluates these artifacts as potential diagnostic pitfalls. We reviewed a total of 96 FNAs simultaneously processed by both conventional smears and LBP. FNAs were obtained from the following sites: lymph node (38), breast (28), soft-tissue sites (nine), salivary glands (six), and thyroid gland (15). The LBP smears were consistently devoid of obscuring elements, and the cells were adequately preserved and evenly dispersed. However, we noted some cytomorphological alterations that should be recognized to avoid erroneous diagnoses. The size of cell clusters was decreased, large branching sheets were fragmented, and there were more single cells, resulting in apparent discohesion. Small cells such as lymphocytes tended to aggregate. All cells were generally smaller and occasionally spindled, the chromatin detail was attenuated, and nucleoli were more prominent. Intranuclear inclusions were difficult to visualize. Background matrix was often altered in both quantity and quality. Extracellular particles, small mononuclear cells, red blood cells, and myoepithelial cells were markedly decreased in number. Cytopathologists should be careful in interpreting FNAs prepared using LBP technique if that is the only methodology employed. Familiarity with artifacts is essential to avoid misdiagnoses.

Ethical sensitivity in obsessive-compulsive disorder and generalized anxiety disorder: the role of reversal learning.

PubMed

Szabó, Csilla; Németh, Attila; Kéri, Szabolcs

2013-12-01

In obsessive-compulsive disorder (OCD), amplified moral sensitivity may be related to the orbitofrontal-striatal circuit, which is also critical in reversal learning. This study examined three questions: (1) What aspects of ethical sensitivity is altered in OCD?; (2) What is the relationship between ethical sensitivity and reversal learning?; (3) Are potential alterations in ethical sensitivity and reversal learning present in generalized anxiety disorder (GAD)? Participants were 28 outpatients with OCD, 21 individuals with GAD, and 30 matched healthy controls. Participants received the ethical sensitivity scale questionnaire (ESSQ), rating scales for clinical symptoms, a reversal learning task, and the Wisconsin Card Sorting Test (WCST). We found higher ethical sensitivity scores in OCD compared with healthy controls in the case of generating interpretations and options and identifying the consequences of actions. Individuals with OCD displayed prolonged reaction times on probabilistic errors without shift and final reversal errors. Participants with GAD did not differ from healthy controls on the ESSQ, but they were slower on reversal learning relative to nonpatients. In OCD, reaction time on final reversal errors mediated the relationship between ethical sensitivity and compulsions. WCST performance was intact in OCD and GAD. Small sample size, limited neuropsychological assessment, self-rating scale for ethical sensitivity. Prolonged reaction time at switching reinforcement contingencies is related to increased ethical sensitivity in OCD. Slow affective switching may link ethical sensitivity and compulsions. Copyright © 2013 Elsevier Ltd. All rights reserved.

Visualizing the Sample Standard Deviation

ERIC Educational Resources Information Center

Sarkar, Jyotirmoy; Rashid, Mamunur

2017-01-01

The standard deviation (SD) of a random sample is defined as the square-root of the sample variance, which is the "mean" squared deviation of the sample observations from the sample mean. Here, we interpret the sample SD as the square-root of twice the mean square of all pairwise half deviations between any two sample observations. This…

Alteration Map Showing Major Faults and Veins and Associated Water-Quality Signatures of the Animas River Watershed Headwaters Near Silverton, Southwest Colorado

USGS Publications Warehouse

Bove, Dana J.; Yager, Douglas B.; Mast, M. Alisa; Dalton, J. Brad

2007-01-01

This map was produced to provide hard-copy and digital data for alteration assemblages in the historical mining area centered on the Tertiary San Juan and Silverton calderas. The data have direct application to geoenvironmental and mineral exploration objectives. This dataset represents alteration mapping for the upper Animas River watershed near Silverton, Colorado. The map is based on detailed 1:12,000-scale field mapping, X-ray diffraction (XRD) analysis, mineral mapping by remote sensing (AVIRIS) data, and 1:24,000-scale aerial photographic interpretation. Geologic structures were compiled and generalized from multiple published and unpublished sources (Burbank and Luedke, 1964; Steven and others, 1974; Luedke and Burbank 1975a, b; Lipman, 1976; Luedke and Burbank, 1987; Luedke, 1996) (see Index Map). Unpublished mapping of the Ironton quadrangle by D.J. Bove and J.P. Kurtz in 1997-1999 was included.

Effect of Altered Gravity on the Neurobiology of Fish

NASA Astrophysics Data System (ADS)

Anken, R. H.; Rahmann, H.

In vertebrates (including humans) altered gravitational environments such as weightlessness can induce malfunction of the inner ears due to a mismatch between canal and statolith afferents. This leads to an illusionary tilt because the inputs from the inner ear are not confirmed by the other sensory organs, which then results in intersensory conflict. Vertebrates in orbit therefore face severe orientation problems. In humans the intersensory conflict may additionally lead to a malaise commonly referred to as space motion sickness (SMS). After the initial days of weightlessness the orientation problems (and SMS) disappear as the brain develops a new interpretation of the available sensory data. The present contribution reviews the neurobiological responses, particularly those of fish, observed under altered gravitational states concerning behavior and neuroplastic reactivities. Investigations employing microgravity (spaceflight, parabolic aircraft flights, clinostat) and hypergravity (laboratory centrifuges as ground-based research tools) provide insights for understanding the basic phenomena, many of which remain only incompletely explained

Altered [99mTc]Tc-MDP biodistribution from neutron activation sourced 99Mo.

PubMed

Demeter, Sandor; Szweda, Roman; Patterson, Judy; Grigoryan, Marine

2018-01-01

Given potential worldwide shortages of fission sourced 99 Mo/ 99m Tc medical isotopes there is increasing interest in alternate production strategies. A neutron activated 99 Mo source was utilized in a single center phase III open label study comparing 99m Tc, as 99m Tc Methylene Diphosphonate ([ 99m Tc]Tc-MDP), obtained from solvent generator separation of neutron activation produced 99 Mo, versus nuclear reactor produced 99 Mo (e.g., fission sourced) in oncology patients for which an [ 99m Tc]Tc-MDP bone scan would normally have been indicated. Despite the investigational [ 99m Tc]Tc-MDP passing all standard, and above standard of care, quality assurance tests, which would normally be sufficient to allow human administration, there was altered biodistribution which could lead to erroneous clinical interpretation. The cause of the altered biodistribution remains unknown and requires further research.

Geochemistry and mineralogy of Early Archean spherule beds, Baberton Mountain Land, South Africa: Evidence for origin by impact doubtful

NASA Astrophysics Data System (ADS)

Koeberl, Christian; Reimold, Wolf Uwe; Boer, Rudolf H.

1993-09-01

Spherule layers in the approximately 3.4 Ga Barberton Greenstone Belt, South Africa, have been interpreted as being the result of large asteroid or comet impacts on the early earth. This interpretation was based, among other arguments, on the enrichment of siderophile elements, especially the platinum group elements. We made a detailed mineralogical, petrological and geochemical study of spherule bed samples taken from drill cores and underground esposures at the Princeton, Mt. Morgan and Sheba gold mines, as well as surface localities. The macrostructure of each sample (from within different spherule layer units) shows evidence for multiple (more than five) events over about 30 cm. The mineralogy provides evidence for extensive hydrothermal and metasomatic alterations of the spherule beds. Geochemical analyses of alternating spherule, shale and chert layers show no correlation between the siderophile elements (e.g., Ir, Co, Ni and Au), contrary to that which would be expected if the siderophile elements had an extraterrestrial source. Furthermore, no significant variation in the content of the siderophile elements was detected between spherule layers and shale layers; however, siderophile element contents are high only in layers containing abundant sulphide minerals and having high As, Sb, Se and Cr contents. We suggest that complex mineralizations, similar to those that have formed the Barberton Archean gold deposits or the Bon Accord deposit, were responsible for the siderophile element enrichments in the spherule beds. Nowhere else in the world have such multiple (or even single) spherule beds been observed, and none of the numerous known impact craters (or the Cretaceous-Tertiary boundary) is associated with comparable spherule beds. Known impact debris usually contains less than 1% meteoritic component, if any at all, while Barberton spherules are anomalous in being extremely enriched compared to any known impact deposits.

Genomic characterization of brain metastases reveals branched evolution and potential therapeutic targets

PubMed Central

Santagata, Sandro; Cahill, Daniel P.; Taylor-Weiner, Amaro; Jones, Robert T.; Van Allen, Eliezer M.; Lawrence, Michael S.; Horowitz, Peleg M.; Cibulskis, Kristian; Ligon, Keith L.; Tabernero, Josep; Seoane, Joan; Martinez-Saez, Elena; Curry, William T.; Dunn, Ian F.; Paek, Sun Ha; Park, Sung-Hye; McKenna, Aaron; Chevalier, Aaron; Rosenberg, Mara; Barker, Frederick G.; Gill, Corey M.; Van Hummelen, Paul; Thorner, Aaron R.; Johnson, Bruce E.; Hoang, Mai P.; Choueiri, Toni K.; Signoretti, Sabina; Sougnez, Carrie; Rabin, Michael S.; Lin, Nancy U.; Winer, Eric P.; Stemmer-Rachamimov, Anat; Meyerson, Matthew; Garraway, Levi; Gabriel, Stacey; Lander, Eric S.; Beroukhim, Rameen; Batchelor, Tracy T.; Baselga, Jose; Louis, David N.

2016-01-01

Brain metastases are associated with a dismal prognosis. Whether brain metastases harbor distinct genetic alterations beyond those observed in primary tumors is unknown. We performed whole-exome sequencing of 86 matched brain metastases, primary tumors and normal tissue. In all clonally related cancer samples, we observed branched evolution, where all metastatic and primary sites shared a common ancestor yet continued to evolve independently. In 53% of cases, we found potentially clinically informative alterations in the brain metastases not detected in the matched primary-tumor sample. In contrast, spatially and temporally separated brain metastasis sites were genetically homogenous. Distal extracranial and regional lymph node metastases were highly divergent from brain metastases. We detected alterations associated with sensitivity to PI3K/AKT/mTOR, CDK, and HER2/EGFR inhibitors in the brain metastases. Genomic analysis of brain metastases provides an opportunity to identify potentially clinically informative alterations not detected in clinically sampled primary tumors, regional lymph nodes, or extracranial metastases. PMID:26410082

The operating regime in mechanical pulps--the significance of fiber failure

Treesearch

Lauri K. Lehtonen; Alan W. Rudie; Douglas W. Coffin; Derek H. Page

2004-01-01

In order to circumvent the problem of altering the sheet composition to increase bonding, in this study the bonding was increased by wet pressing and press drying sheets to various levels of RBA. The operating regime problem was then studied by interpreting the tear relative to bonding (where bonding is measured as T/Z, Tensile index/Zero span tensile index)...

The Influence of Radiation in Altering the Incidence of Mutations in Drosophila. Progress Report on the Past Twelve Months and Renewal Proposal for the Period September 15, 1960 to September 14, 1961

DOE R&D Accomplishments Database

Muller, H. J.

1960-05-31

Progress is reported in studies on the effects of radiation on the incidence of mutations in Drosophila. Results are summarized and the findings are interpreted. A list is included of papers published during the period. (C.H.)

Mechanistic Computational Model of Steroidgenesis in H295R Cells: Role of (Oxysterols and Cell Proliferation to Improve Predictability of Biochemical Response to Endocrine Active Chemical-Metyrapone

EPA Science Inventory

The human adrenocortical carcinoma cell line H295R is being used as an in vitro steroidogenesis screening assay to assess the impact of endocrine active chemicals (EACs) capable of altering steroid biosynthesis. To enhance the interpretation and quantitative application of measur...

Prenatal stress and development: beyond the single cause and effect paradigm.

PubMed

Hamlin, Heather J

2012-12-01

Our awareness of the causes of stress-induced developmental dysfunction has increased dramatically over the past decade, and it is becoming increasingly clear that a number of factors can have considerable impacts on the developing fetus. Although there is a tendency in investigations of developmental teratogens to attribute specific causes to adverse fetal outcomes, it is important we recognize that for most developmental dysfunctions it is unlikely a single cause, but yet a series of environmental insults combined with genetic predisposition that ultimately leads to a disease state. Nonetheless, a number of developmental teratogens, such as maternal psychological stress and chemical exposures, have been shown to increase the likelihood of developmental defects. These defects can manifest during development, leading to observable birth defects, or could become evident long after birth, even into adulthood. In addition, epigenetic mutations in the germline can alter the phenotype of successive generations through transgenerational inheritance, and in this way environmental factors can alter the developmental outcomes and disease predispositions of future generations. Understanding this complexity is essential to interpretations of causality in the studies of stress-induced developmental dysfunction and needs to be fully considered to more effectively interpret potential outcomes. Copyright © 2013 Wiley Periodicals, Inc.

New bulk and in situ isotopic and elemental geochemistry of shallow drill core from Atlantis Massif: insights into the sources and paths of fluids and clasts

NASA Astrophysics Data System (ADS)

Bilenker, L.; Weis, D.; Scoates, J. S.

2017-12-01

We present stable Fe and radiogenic isotope and complementary trace element data for samples from Atlantis Massif. This oceanic core complex is located at 30°N where the Atlantis Transform Fault intersects the Mid-Atlantic Ridge (MAR) and is associated with the Lost City Hydrothermal Field (LCHF). It is a unique place to investigate the abiotic and biotic geochemical processes that play a role in the alteration of both crustal and mantle seafloor rocks. The samples analyzed represent a shallow (<15 m) survey of five drill sites (IODP Expedition 357) within Atlantis Massif, varying in distance from the LCHF and MAR. Analyses were performed on a sample set spanning a wide range in degree of alteration and lithology. Bulk measurements involved dissolving whole rock powders, whereas in situ analyses were performed on digested microdrilled samples or by laser ablation. Bulk rock Fe isotope values (n = 34) are correlated with loss-on-ignition (LOI) by sample lithology and location relative to LCHF. Using LOI as a proxy for degree of alteration, this observation indicates that the Fe isotope systematics of seafloor crustal and mantle rocks preserve indicators of fluid flow and source. The Hf and Nd isotope compositions for various lithologies form all analyzed sites are homogeneous, indicating minimal alteration of these isotopic systems. Bulk Sr values provide insight into elemental exchange between seawater and the surface of Atlantis Massif and bulk Pb isotopes allow for fingerprinting of the source of basalt breccias through comparison with published Pb isotope values of MAR basalts. The new results cluster around the Pb, Hf, Nd isotopic composition of mid-ocean ridge basalt from 30.68°N and do not match samples north or south of that location. In situ Fe isotope data within three altered samples reflect varying degrees of hydrothermal and seawater interaction, where the Fe isotope ratios within each sample are likely correlated with extent of exchange or redox. Laser trace element and Pb isotope data in progress will allow us to investigate this further. This study contributes to our understanding of element mobility and mass transfer during chemical reactions within the seafloor, provides insight into the source of the lithological units and fluid flow, and allows for quantification of alteration processes.

Biological effect of low-head sea lamprey barriers: Designs for extensive surveys and the value of incorporating intensive process-oriented research

USGS Publications Warehouse

Hayes, D.B.; Baylis, J.R.; Carl, L.M.; Dodd, H.R.; Goldstein, J.D.; McLaughlin, R.L.; Noakes, D.L.G.; Porto, L.M.

2003-01-01

Four sampling designs for quantifying the effect of low-head sea lamprey (Petromyzon marinus) barriers on fish communities were evaluated, and the contribution of process-oriented research to the overall confidence of results obtained was discussed. The designs include: (1) sample barrier streams post-construction; (2) sample barrier and reference streams post-construction; (3) sample barrier streams pre- and post-construction; and (4) sample barrier and reference streams pre- and post-construction. In the statistical literature, the principal basis for comparison of sampling designs is generally the precision achieved by each design. In addition to precision, designs should be compared based on the interpretability of results and on the scale to which the results apply. Using data collected in a broad survey of streams with and without sea lamprey barriers, some of the tradeoffs that occur among precision, scale, and interpretability are illustrated. Although circumstances such as funding and availability of pre-construction data may limit which design can be implemented, a pre/post-construction design including barrier and reference streams provides the most meaningful information for use in barrier management decisions. Where it is not feasible to obtain pre-construction data, a design including reference streams is important to maintain the interpretability of results. Regardless of the design used, process-oriented research provides a framework for interpreting results obtained in broad surveys. As such, information from both extensive surveys and intensive process-oriented research provides the best basis for fishery management actions, and gives researchers and managers the most confidence in the conclusions reached regarding the effects of sea lamprey barriers.

Isotopic fractionation of nitrogen and carbon in Paleoarchean cherts from Pilbara craton, Western Australia: Origin of 15N-depleted nitrogen

NASA Astrophysics Data System (ADS)

Pinti, Daniele L.; Hashizume, Ko; Sugihara, Akiyo; Massault, Marc; Philippot, Pascal

2009-07-01

Nitrogen and carbon isotopic compositions, together with mineralogy and trace element geochemistry, were studied in a few kerogen-rich Paleoarchean cherts, a barite and a dolomitic stromatolite belonging to the eastern (Dixon Island Formation) and western (Dresser and Strelley Pool Chert Formations; North Pole Dome and Marble Bar) terranes of Pilbara Craton, Western Australia. The aim of the study was to search for 15N-depleted isotopic signatures, often found in kerogens of this period, and explain the origin of these anomalies. Trace elements suggest silica precipitation by hydrothermal fluids as the main process of chert formation with a contamination from volcanoclastic detritus. This is supported by the occurrence of hydrothermal-derived minerals in the studied samples indicating precipitation temperatures up to 350 °C. Only a dolomitic stromatolite from Strelley Pool shows a superchondritic Y/Ho ratio of 72 and a positive Eu/Eu * anomaly of 1.8, characteristic of chemical precipitates from the Archean seawater. The bulk δ 13C vs. δ 15N values measured in the cherts show a roughly positive co-variation, except for one sample from the North Pole (PI-85-00). The progressive enrichment in 15N and 13C from a pristine source having δ 13C ⩽ -36‰ and δ 15N ⩽ -4‰ is correlated with a progressive depletion in N content and to variations in Ba/La and Co/As ratios. These trends have been interpreted as a progressive hydrothermal alteration of the cherts by metamorphic fluids. Isotopic exchange at 350 °C between NH 4+(rock) and N 2(fluid) may explain the isotopic and elemental composition of N in the studied cherts. However, we need to assume isotopic exchange at 350 °C between carbonate C and graphite to explain the large 13C enrichment recorded. Only sample PI-85-00 shows a large N loss (90%) with a positive δ 15N value (+11‰), while C (up to 120 ppm and δ 13C -38‰) seems to be unaffected. This pattern has been interpreted as the result of devolatilization and alteration (oxidation) of graphite by low-temperature fluids. The 15N- 13C-depleted pristine source has δ 15N values from -7‰ to -4‰ and 40Ar/ 36Ar ratios from 30,000 to 60,000, compatible with an inorganic mantle N source, although the elemental abundance ratios N/C and 40Ar/C are not exactly the same with the mantle source. The component alternatively could be explained by elemental fractionation from metabolic activity of chemolithoautotrophs and methanogens at the proximity to the hydrothermal vents. However, ambiguities between mantle vs organic sources of N subsist and need further experimental work to be fully elucidated.

Detection and mapping of hydrothermally altered rocks in the vicinity of the comstock lode, Virginia Range, Nevada, using enhanced LANDSAT images

NASA Technical Reports Server (NTRS)

Ashley, R. P. (Principal Investigator); Goetz, A. F. H.; Rowan, L. C.; Abrams, M. J.

1979-01-01

The author has identified the following significant results. LANDSAT images enhanced by the band-ratioing method can be used for reconnaissance alteration mapping in moderately heavily vegetated semiarid terrain as well as in sparsely vegetated to semiarid terrain where the technique was originally developed. Significant vegetation cover in a scene, however, requires the use of MSS ratios 4/5, 4/6, and 6/7 rather than 4/5, 5/6, and 6/7, and requires careful interpretation of the results. Supplemental information suitable to vegetation identification and cover estimates, such as standard LANDSAT false-color composites and low altitude aerial photographs of selected areas is desirable.

Platelet biomechanics, platelet bioenergetics, and applications to clinical practice and translational research.

PubMed

George, Mitchell J; Bynum, James; Nair, Prajeeda; Cap, Andrew P; Wade, Charles E; Cox, Charles S; Gill, Brijesh S

2018-07-01

The purpose of this review is to explore the relationship between platelet bioenergetics and biomechanics and how this relationship affects the clinical interpretation of platelet function devices. Recent experimental and technological advances highlight platelet bioenergetics and biomechanics as alternative avenues for collecting clinically relevant data. Platelet bioenergetics drive energy production for key biomechanical processes like adhesion, spreading, aggregation, and contraction. Platelet function devices like thromboelastography, thromboelastometry, and aggregometry measure these biomechanical processes. Platelet storage, stroke, sepsis, trauma, or the activity of antiplatelet drugs alters measures of platelet function. However, the specific mechanisms governing these alterations in platelet function and how they relate to platelet bioenergetics are still under investigation.

Measurement of in vitro microtubule polymerization by turbidity and fluorescence.

PubMed

Mirigian, Matthew; Mukherjee, Kamalika; Bane, Susan L; Sackett, Dan L

2013-01-01

Tubulin polymerization may be conveniently monitored by the increase in turbidity (optical density, or OD) or by the increase in fluorescence intensity of diamidino-phenylindole. The resulting data can be a quantitative measure of microtubule (MT) assembly, but some care is needed in interpretation, especially of OD data. Buffer formulations used for the assembly reaction significantly influence the polymerization, both by altering the critical concentration for polymerization and by altering the exact polymer produced-for example, by increasing the production of sheet polymers in addition to MT. Both the turbidity and the fluorescence methods are useful for demonstrating the effect of MT-stabilizing or -destabilizing additives. 2013 Published by Elsevier Inc.

Lithologic discrimination and alteration mapping from AVIRIS Data, Socorro, New Mexico

NASA Technical Reports Server (NTRS)

Beratan, K. K.; Delillo, N.; Jacobson, A.; Blom, R.; Chapin, C. E.

1993-01-01

Geologic maps are, by their very nature, interpretive documents. In contrasts, images prepared from AVIRIS data can be used as uninterpreted, and thus unbiased, geologic maps. We are having significant success applying AVIRIS data in this non-quantitative manner to geologic problems. Much of our success has come from the power of the Linked Windows Interactive Data System. LinkWinds is a visual data analysis and exploration system under development at JPL which is designed to rapidly and interactively investigate large multivariate data sets. In this paper, we present information on the analysis technique, and preliminary results from research on potassium metasomatism, a distinctive and structurally significant type of alteration associated with crustal extension.

Transmission Electron Microscope Observations of Phyllosilicate Development During Experimental Aqueous Alteration of Allende

NASA Technical Reports Server (NTRS)

Jones, C. L.; Brearley, A. J.

2000-01-01

Samples of Allende have been altered hydrothermally under oxidizing conditions at 200 C. TEM studies show that within 30 days evidence of replacement of matrix olivines by fine-grained serpentine is present and by 90 days complete alteration of many grains has occurred.

Evaluation of an automated milk leukocyte differential test and the California Mastitis Test for detecting intramammary infection in early- and late-lactation quarters and cows.

PubMed

Godden, S M; Royster, E; Timmerman, J; Rapnicki, P; Green, H

2017-08-01

Study objectives were to (1) describe the diagnostic test characteristics of an automated milk leukocyte differential (MLD) test and the California Mastitis Test (CMT) to identify intramammary infection (IMI) in early- (EL) and late-lactation (LL) quarters and cows when using 3 different approaches to define IMI from milk culture, and (2) describe the repeatability of MLD test results at both the quarter and cow level. Eighty-six EL and 90 LL Holstein cows were sampled from 3 Midwest herds. Quarter milk samples were collected for a cow-side CMT test, milk culture, and MLD testing. Quarter IMI status was defined by 3 methods: culture of a single milk sample, culture of duplicate samples with parallel interpretation, and culture of duplicate samples with serial interpretation. The MLD testing was completed in duplicate within 8 h of sample collection; MLD results (positive/negative) were reported at each possible threshold setting (1-18 for EL; 1-12 for LL) and CMT results (positive/negative) were reported at each possible cut-points (trace, ≥1, ≥2, or 3). We created 2 × 2 tables to compare MLD and CMT results to milk culture, at both the quarter and cow level, when using each of 3 different definitions of IMI as the referent test. Paired MLD test results were compared with evaluate repeatability. The MLD test showed excellent repeatability. The choice of definition of IMI from milk culture had minor effects on estimates of MLD and CMT test characteristics. For EL samples, when interpreting MLD and CMT results at the quarter level, and regardless of the referent test used, both tests had low sensitivity (MLD = 11.7-39.1%; CMT = 0-52.2%) but good to very good specificity (MLD = 82.1-95.2%; CMT = 68.1-100%), depending on the cut-point used. Sensitivity improved slightly if diagnosis was interpreted at the cow level (MLD = 25.6-56.4%; CMT = 0-72.2%), though specificity generally declined (MLD = 61.8-100%; CMT = 25.0-100%) depending on the cut-point used. For LL samples, when interpreted at the quarter level, both tests had variable sensitivity (MLD = 46.6-84.8%; CMT = 9.6-72.7%) and variable specificity (MLD = 59.2-79.8%; CMT = 52.5-97.3%), depending on the cut-point used. Test sensitivity improved if interpreted at the cow level (MLD = 59.6-86.4%; CMT = 19.1-86.4%), though specificity declined (MLD = 32.4-56.8%; CMT = 14.3-92.3%). Producers considering adopting either test for LL or EL screening programs will need to carefully consider the goals and priorities of the program (e.g., whether to prioritize test sensitivity or specificity) when deciding on the level of interpretation (quarter or cow) and when selecting the optimal cut-point for interpreting test results. Additional validation studies and large randomized field studies will be needed to evaluate the effect of adopting either test in selective dry cow therapy or fresh cow screening programs on udder health, antibiotic use, and economics. The Authors. Published by the Federation of Animal Science Societies and Elsevier Inc. on behalf of the American Dairy Science Association®. This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/3.0/).

Fluid/rock Interaction History of a Faulted Rhyolite-Granite Contact Determined by Sr- Pb-Isotopes, Th/U-Disequilibria and Elemental Distributions (Eastern Rhine Graben Shoulder, SW-Germany)

NASA Astrophysics Data System (ADS)

Marbach, T.; Mangini, A.; Kober, B.; Schleicher, A.; Warr, L. N.

2003-04-01

Major and trace element analyses allow to obtain information concerning the chemical changes induced by alteration. Differences are partly petrographic because the profile crosses the granite-rhyolite contact, but they are also due to different alteration levels induced by fluid circulation along the fault system which has drained the alteration processes. The granite-rhyolite contact constitutes the primary structure. Only the most incompatible elements (Si, Al, Zr, Hf) retain their original signatures and reflect a mixing between typical granite and rhyolite lithologies across the altered zones (cataclasite). The more mobile elements show a different composition within the altered zones (cataclasite) notably a high leaching of cations. The geochemical tracers also suggest at least one strong hydrothermal event with reducing conditions in the altered zones. The isotopic analyses delivered qualitative and temporal information. The use of several isotopic systems, Rb/Sr-, U/Pb-isotopes and Th/U disequilibria, reveals a complex history of polyphase fluid/rock interaction following the Permian volcanic extrusion, showing notable disturbances during the late Jurassic hydrothermal activities, the Tertiary rifting of the Rhine Graben and more recent Quaternary alteration. The granite zone of the sampling profile has underwent an event which set up a new Rb-Sr isotopic composition and reset the Rb/Sr system which originatly corresponded to the Carboniferous intrusion ages. The Rb-Sr data of the granite samples produce a whole rock isochron of 152 ± 5,7 Ma (2σ error) in good agreement with the well-known late Jurassic hydrothermal event (135--160 Ma). The rocks evolution lines for Pb support a Tertiary hydrothermal event (54 Ma ± 16; 1σ error), potentially connected with the development of the Rhine Graben. The profile samples have undergone uranium and thorium redistribution processes which have occurred within the last ˜10^6 years. The samples of the altered zones record a more complex history of uranium exchange with the aqueous phase. This uranium exchange is proportional to the porosity. The best approximation is reached for an exchange coefficient (λ_E) for uranium ranging from 2,5 E-06 [a-1] in the middle of the altered zones to 2,5 E-05 [a-1] on the sides of the altered zones.

Integrative analysis of gene expression and copy number alterations using canonical correlation analysis.

PubMed

Soneson, Charlotte; Lilljebjörn, Henrik; Fioretos, Thoas; Fontes, Magnus

2010-04-15

With the rapid development of new genetic measurement methods, several types of genetic alterations can be quantified in a high-throughput manner. While the initial focus has been on investigating each data set separately, there is an increasing interest in studying the correlation structure between two or more data sets. Multivariate methods based on Canonical Correlation Analysis (CCA) have been proposed for integrating paired genetic data sets. The high dimensionality of microarray data imposes computational difficulties, which have been addressed for instance by studying the covariance structure of the data, or by reducing the number of variables prior to applying the CCA. In this work, we propose a new method for analyzing high-dimensional paired genetic data sets, which mainly emphasizes the correlation structure and still permits efficient application to very large data sets. The method is implemented by translating a regularized CCA to its dual form, where the computational complexity depends mainly on the number of samples instead of the number of variables. The optimal regularization parameters are chosen by cross-validation. We apply the regularized dual CCA, as well as a classical CCA preceded by a dimension-reducing Principal Components Analysis (PCA), to a paired data set of gene expression changes and copy number alterations in leukemia. Using the correlation-maximizing methods, regularized dual CCA and PCA+CCA, we show that without pre-selection of known disease-relevant genes, and without using information about clinical class membership, an exploratory analysis singles out two patient groups, corresponding to well-known leukemia subtypes. Furthermore, the variables showing the highest relevance to the extracted features agree with previous biological knowledge concerning copy number alterations and gene expression changes in these subtypes. Finally, the correlation-maximizing methods are shown to yield results which are more biologically interpretable than those resulting from a covariance-maximizing method, and provide different insight compared to when each variable set is studied separately using PCA. We conclude that regularized dual CCA as well as PCA+CCA are useful methods for exploratory analysis of paired genetic data sets, and can be efficiently implemented also when the number of variables is very large.

Distance geometry protocol to generate conformations of natural products to structurally interpret ion mobility-mass spectrometry collision cross sections.

PubMed

Stow, Sarah M; Goodwin, Cody R; Kliman, Michal; Bachmann, Brian O; McLean, John A; Lybrand, Terry P

2014-12-04

Ion mobility-mass spectrometry (IM-MS) allows the separation of ionized molecules based on their charge-to-surface area (IM) and mass-to-charge ratio (MS), respectively. The IM drift time data that is obtained is used to calculate the ion-neutral collision cross section (CCS) of the ionized molecule with the neutral drift gas, which is directly related to the ion conformation and hence molecular size and shape. Studying the conformational landscape of these ionized molecules computationally provides interpretation to delineate the potential structures that these CCS values could represent, or conversely, structural motifs not consistent with the IM data. A challenge in the IM-MS community is the ability to rapidly compute conformations to interpret natural product data, a class of molecules exhibiting a broad range of biological activity. The diversity of biological activity is, in part, related to the unique structural characteristics often observed for natural products. Contemporary approaches to structurally interpret IM-MS data for peptides and proteins typically utilize molecular dynamics (MD) simulations to sample conformational space. However, MD calculations are computationally expensive, they require a force field that accurately describes the molecule of interest, and there is no simple metric that indicates when sufficient conformational sampling has been achieved. Distance geometry is a computationally inexpensive approach that creates conformations based on sampling different pairwise distances between the atoms within the molecule and therefore does not require a force field. Progressively larger distance bounds can be used in distance geometry calculations, providing in principle a strategy to assess when all plausible conformations have been sampled. Our results suggest that distance geometry is a computationally efficient and potentially superior strategy for conformational analysis of natural products to interpret gas-phase CCS data.

Distance Geometry Protocol to Generate Conformations of Natural Products to Structurally Interpret Ion Mobility-Mass Spectrometry Collision Cross Sections

PubMed Central

2015-01-01

Ion mobility-mass spectrometry (IM-MS) allows the separation of ionized molecules based on their charge-to-surface area (IM) and mass-to-charge ratio (MS), respectively. The IM drift time data that is obtained is used to calculate the ion-neutral collision cross section (CCS) of the ionized molecule with the neutral drift gas, which is directly related to the ion conformation and hence molecular size and shape. Studying the conformational landscape of these ionized molecules computationally provides interpretation to delineate the potential structures that these CCS values could represent, or conversely, structural motifs not consistent with the IM data. A challenge in the IM-MS community is the ability to rapidly compute conformations to interpret natural product data, a class of molecules exhibiting a broad range of biological activity. The diversity of biological activity is, in part, related to the unique structural characteristics often observed for natural products. Contemporary approaches to structurally interpret IM-MS data for peptides and proteins typically utilize molecular dynamics (MD) simulations to sample conformational space. However, MD calculations are computationally expensive, they require a force field that accurately describes the molecule of interest, and there is no simple metric that indicates when sufficient conformational sampling has been achieved. Distance geometry is a computationally inexpensive approach that creates conformations based on sampling different pairwise distances between the atoms within the molecule and therefore does not require a force field. Progressively larger distance bounds can be used in distance geometry calculations, providing in principle a strategy to assess when all plausible conformations have been sampled. Our results suggest that distance geometry is a computationally efficient and potentially superior strategy for conformational analysis of natural products to interpret gas-phase CCS data. PMID:25360896

Hydrothermal alteration and diagenesis of terrestrial lacustrine pillow basalts: Coordination of hyperspectral imaging with laboratory measurements

NASA Astrophysics Data System (ADS)

Greenberger, Rebecca N.; Mustard, John F.; Cloutis, Edward A.; Mann, Paul; Wilson, Janette H.; Flemming, Roberta L.; Robertson, Kevin M.; Salvatore, Mark R.; Edwards, Christopher S.

2015-12-01

We investigate an outcrop of ∼187 Ma lacustrine pillow basalts of the Talcott Formation exposed in Meriden, Connecticut, USA, focusing on coordinated analyses of one pillow lava to characterize the aqueous history of these basalts in the Hartford Basin. This work uses a suite of multidisciplinary measurements, including hyperspectral imaging, other spectroscopic techniques, and chemical and mineralogical analyses, from the microscopic scale up to the scale of an outcrop. The phases identified in the sample are albite, large iron oxides, and titanite throughout; calcite in vesicles; calcic clinopyroxene, aegirine, and Fe/Mg-bearing clay in the rind; and fine-grained hematite and pyroxenes in the interior. Using imaging spectroscopy, the chemistry and mineralogy results extend to the hand sample and larger outcrop. From all of the analyses, we suggest that the pillow basalts were altered initially after emplacement, either by heated lake water or magmatic fluids, at temperatures of at least 400-600 °C, and the calcic clinopyroxenes and aegirine identified in the rind are a preserved record of that alteration. As the hydrothermal system cooled to slightly lower temperatures, clays formed in the rind, and, during this alteration, the sample oxidized to form hematite in the matrix of the interior and Fe3+ in the pyroxenes in the rind. During the waning stages of the hydrothermal system, calcite precipitated in vesicles within the rind. Later, diagenetic processes albitized the sample, with albite replacing plagioclase, lining vesicles, and accreting onto the exterior of the sample. This albitization or Na-metasomatism occurred when the lake within the Hartford Basin evaporated during a drier past climatic era, resulting in Na-rich brines. As Ca-rich plagioclase altered to albite, Ca was released into solution, eventually precipitating as calcite in previously-unfilled vesicles, dominantly in the interior of the pillow. Coordinated analyses of this sample permit identification of the alteration phases and help synthesize the aqueous history of pillow lavas of the Talcott Formation. These results are also relevant to Mars, where volcanically-resurfaced open basin lakes have been found, and this Hartford Basin outcrop may be a valuable analog for any potential volcano-lacustrine interactions. The results can also help to inform the utility and optimization of potentially complementary, synergistic, and uniquely-suited techniques for characterization of hydrothermally-altered terrains.

The value of Bayes' theorem for interpreting abnormal test scores in cognitively healthy and clinical samples.

PubMed

Gavett, Brandon E

2015-03-01

The base rates of abnormal test scores in cognitively normal samples have been a focus of recent research. The goal of the current study is to illustrate how Bayes' theorem uses these base rates--along with the same base rates in cognitively impaired samples and prevalence rates of cognitive impairment--to yield probability values that are more useful for making judgments about the absence or presence of cognitive impairment. Correlation matrices, means, and standard deviations were obtained from the Wechsler Memory Scale--4th Edition (WMS-IV) Technical and Interpretive Manual and used in Monte Carlo simulations to estimate the base rates of abnormal test scores in the standardization and special groups (mixed clinical) samples. Bayes' theorem was applied to these estimates to identify probabilities of normal cognition based on the number of abnormal test scores observed. Abnormal scores were common in the standardization sample (65.4% scoring below a scaled score of 7 on at least one subtest) and more common in the mixed clinical sample (85.6% scoring below a scaled score of 7 on at least one subtest). Probabilities varied according to the number of abnormal test scores, base rates of normal cognition, and cutoff scores. The results suggest that interpretation of base rates obtained from cognitively healthy samples must also account for data from cognitively impaired samples. Bayes' theorem can help neuropsychologists answer questions about the probability that an individual examinee is cognitively healthy based on the number of abnormal test scores observed.

Research, policy, and programmatic considerations from the Biomarkers Reflecting Inflammation and Nutritional Determinants of Anemia (BRINDA) project

PubMed Central

Klemm, Rolf

2017-01-01

The Biomarkers Reflecting Inflammation and Nutritional Determinants of Anemia (BRINDA) project sought to inform the interpretation of iron and vitamin A biomarkers (ferritin, serum transferrin receptor, and retinol binding protein) in settings of prevalent inflammation as well as the prevention of and control strategies to address anemia. Our purpose is to comment on the contributions of the BRINDA to advance global knowledge with regard to iron and vitamin A status assessment in women and preschool children and to analyze the findings in terms of their rigor and usefulness for global nutrition research and programs. BRINDA investigators found that the acute-phase response is so prevalent that it must be assessed in surveys of iron and vitamin A status for valid interpretation of micronutrient biomarkers. Furthermore, they found that C-reactive protein and α-1-acid glycoprotein provide important and different information about these responses and that common survey variables cannot replace the information they provide. Developing a method for adjusting micronutrient biomarkers for the independent influence of inflammation is challenging and complex, and BRINDA has brought greater clarity to this challenge through the use of large and diverse data sets. When comparing approaches, the regression methods appear to perform best when sample sizes are sufficient and adequate statistical capacity is available. Further correction for malaria does not appear to materially alter regression-adjusted prevalence estimates. We suggest that researchers present both adjusted and unadjusted values for the micronutrient biomarkers. BRINDA findings confirm that iron deficiency is a common and consistent risk factor for anemia globally and that anemia control must combine iron interventions with control of infection and inflammation. Anemia control strategies must be informed by local data. By applying the knowledge in these studies, researchers, program planners, and evaluators working in populations with prevalent inflammation can use and interpret biomarkers with more confidence, tempered with necessary caution. PMID:28615252

Bifenthrin causes trophic cascades and alters insect emergence in mesocosms: implication for small streams

USGS Publications Warehouse

Rogers, Holly; Schmidt, Travis S.; Dabney, Brittanie L.; Hladik, Michelle; Mahler, Barbara J.; Van Metre, Peter C.

2016-01-01

Direct and indirect ecological effects of the widely used insecticide bifenthrin on stream ecosystems are largely unknown. To investigate such effects, a manipulative experiment was conducted in stream mesocosms that were colonized by aquatic insect communities and exposed to bifenthrin-contaminated sediment; implications for natural streams were interpreted through comparison of mesocosm results to a survey of 100 Midwestern streams, USA. In the mesocosm experiment, direct effects of bifenthrin exposure included reduced larval macroinvertebrate abundance, richness, and biomass at concentrations (EC50s ranged 197.6 – 233.5 ng bifenthrin/ g organic carbon) previously thought safe for aquatic life. Indirect effects included a trophic cascade in which periphyton abundance increased after macroinvertebrate scrapers decreased. Adult emergence dynamics and corresponding terrestrial subsidies were altered at all bifenthrin concentrations tested. Extrapolating these results to the Midwestern stream assessment suggests pervasive ecological effects, with altered emergence dynamics likely in 40% of streams and a trophic cascade in 7% of streams. This study provides new evidence that a common pyrethroid might alter aquatic and terrestrial ecosystem function at the regional scale.

Hawai'i and Gale Crater: A Mars Analogue Study of Igneous, Sedimentary, Weathering, and Alteration Trends in Geochemistry

NASA Technical Reports Server (NTRS)

Berger, J. A.; Flemming, R. L.; Schmidt, M. E.; Gellert, R.; Morris, R. V.; Ming, D. W.

2017-01-01

Sedimentary rocks in Gale Crater on Mars indicate a varied provenance with a range of alteration and weathering [1, 2]. Geochemical trends identified in basaltic and alkalic sedimentary rocks by the Alpha Particle X-ray Spectrometer (APXS) on the Mars rover Curiosity represent a complex interplay of igneous, sedimentary, weathering, and alteration processes. Assessing the relative importance of these processes is challenging with unknown compositions for parent sediment sources and with the constraints provided by Curiosity's instruments. We therefore look to Mars analogues on Earth where higher-resolution analyses and geologic context can constrain interpretations of Gale Crater geochemical observations. We selected Maunakea (AKA Mauna Kea) and Kohala volcanoes, Hawai'i, for an analogue study because they are capped by post-shield transitional basalts and alkalic lavas (hawaiites, mugearites) with compositions similar to Gale Crater [1, 3]. Our aim was to characterize Hawaiian geochemical trends associated with igneous processes, sediment transport, weathering, and alteration. Here, we present initial results and discuss implications for selected trends observed by APXS in Gale Crater.

Bifenthrin Causes Trophic Cascade and Altered Insect Emergence in Mesocosms: Implications for Small Streams.

PubMed

Rogers, Holly A; Schmidt, Travis S; Dabney, Brittanie L; Hladik, Michelle L; Mahler, Barbara J; Van Metre, Peter C

2016-11-01

Direct and indirect ecological effects of the widely used insecticide bifenthrin on stream ecosystems are largely unknown. To investigate such effects, a manipulative experiment was conducted in stream mesocosms that were colonized by aquatic insect communities and exposed to bifenthrin-contaminated sediment; implications for natural streams were interpreted through comparison of mesocosm results to a survey of 100 Midwestern streams, USA. In the mesocosm experiment, direct effects of bifenthrin exposure included reduced larval macroinvertebrate abundance, richness, and biomass at concentrations (EC 50 's ranged from 197.6 to 233.5 ng bifenthrin/g organic carbon) previously thought safe for aquatic life. Indirect effects included a trophic cascade in which periphyton abundance increased after macroinvertebrate scrapers decreased. Adult emergence dynamics and corresponding terrestrial subsidies were altered at all bifenthrin concentrations tested. Extrapolating these results to the Midwestern stream assessment suggests pervasive ecological effects, with altered emergence dynamics likely in 40% of streams and a trophic cascade in 7% of streams. This study provides new evidence that a common pyrethroid might alter aquatic and terrestrial ecosystem function at the regional scale.

Utility of high-altitude infrared spectral data in mineral exploration: Application to Northern Patagonia Mountains, Arizona

USGS Publications Warehouse

Berger, B.R.; King, T.V.V.; Morath, L.C.; Phillips, J.D.

2003-01-01

Synoptic views of hydrothermal alteration assemblages are of considerable utility in regional-scale minerals exploration. Recent advances in data acquisition and analysis technologies have greatly enhanced the usefulness of remotely sensed imaging spectroscopy for reliable alteration mineral assemblages mapping. Using NASA's Airborne Visible Infrared Imaging Spectrometer (AVIRIS) sensor, this study mapped large areas of advanced argillic and phyllic-argillic alteration assemblages in the southeastern Santa Rita and northern Patagonia mountains, Arizona. Two concealed porphyry copper deposits have been identified during past exploration, the Red Mountain and Sunnyside deposits, and related published hydrothermal alteration zoning studies allow the comparison of the results obtained from AVIRIS data to the more traditional field mapping approaches. The AVIRIS mapping compares favorably with field-based studies. An analysis of iron-bearing oxide minerals above a concealed supergene chalcocite deposit at Red Mountain also indicates that remotely sensed data can be of value in the interpretation of leached caps above porphyry copper deposits. In conjunction with other types of geophysical data, AVIRIS mineral maps can be used to discriminate different exploration targets within a region.

Absorption of Solar Radiation by the Cloudy Atmosphere: Further Interpretations of Collocated Aircraft Measurements

NASA Technical Reports Server (NTRS)

Cess, R. D.; Zhang, Minghua; Valero, Francisco P. J.; Pope, Shelly K.; Bucholtz, Anthony; Bush, Brett; Zender, Charles S.

1998-01-01

We have extended the interpretations made in two prior studies of the aircraft shortwave radiation measurements that were obtained as part of the Atmospheric Radiation Measurements (ARM) Enhanced Shortwave Experiments (ARESE). These extended interpretations use the 500 nm (10 nm bandwidth) measurements to minimize sampling errors in the broadband measurements. It is indicated that the clouds present during this experiment absorb more shortwave radiation than predicted by clear skies and thus by theoretical models, that at least some (less than or equal to 20%) of this enhanced cloud absorption occurs at wavelengths less than 680 nm, and that the observed cloud absorption does not appear to be an artifact of sampling errors nor of instrument calibration errors.

Insights into the Martian Regolith from Martian Meteorite Northwest Africa 7034

NASA Technical Reports Server (NTRS)

McCubbin, Francis M.; Boyce, Jeremy W.; Szabo, Timea; Santos, Alison R.; Domokos, Gabor; Vazquez, Jorge; Moser, Desmond E.; Jerolmack, Douglas J.; Keller, Lindsay P.; Tartese, Romain

2015-01-01

Everything we know about sedimentary processes on Mars is gleaned from remote sensing observations. Here we report insights from meteorite Northwest Africa (NWA) 7034, which is a water-rich martian regolith breccia that hosts both igneous and sedimentary clasts. The sedimentary clasts in NWA 7034 are poorly-sorted clastic siltstones that we refer to as protobreccia clasts. These protobreccia clasts record aqueous alteration process that occurred prior to breccia formation. The aqueous alteration appears to have occurred at relatively low Eh, high pH conditions based on the co-precipitation of pyrite and magnetite, and the concomitant loss of SiO2 from the system. To determine the origin of the NWA 7034 breccia, we examined the textures and grain-shape characteristics of NWA 7034 clasts. The shapes of the clasts are consistent with rock fragmentation in the absence of transport. Coupled with the clast size distribution, we interpret the protolith of NWA 7034 to have been deposited by atmospheric rainout resulting from pyroclastic eruptions and/or asteroid impacts. Cross-cutting and inclusion relationships and U-Pb data from zircon, baddelleyite, and apatite indicate NWA 7034 lithification occurred at 1.4-1.5 Ga, during a short-lived hydrothermal event at 600-700 C that was texturally imprinted upon the submicron groundmass. The hydrothermal event caused Pb-loss from apatite and U-rich metamict zircons, and it caused partial transformation of pyrite to submicron mixtures of magnetite and maghemite, indicating the fluid had higher Eh than the fluid that caused pyrite-magnetite precipitation in the protobreccia clasts. NWA 7034 also hosts ancient 4.4 Ga crustal materials in the form of baddelleyites and zircons, providing up to a 2.9 Ga record of martian geologic history. This work demonstrates the incredible value of sedimentary basins as scientific targets for Mars sample return missions, but it also highlights the importance of targeting samples that have not been overprinted by metamorphic processes, which is the case for NWA 7034.

New Constraints on the Deposition and Alteration History of Mt. Sharp in Gale Crater, Mars

NASA Astrophysics Data System (ADS)

Rice, M. S.; Horgan, B. H. N.; Fraeman, A.; Ackiss, S. E.

2015-12-01

The Mars Science Laboratory (MSL) rover is currently investigating the lower stratigraphy of northwestern Mt. Sharp, the 5 km thick stack of layered rock that makes up the central mound of Gale Crater. Previous near-infrared spectral investigations from orbit using CRISM have shown that this portion of the mound exhibits a diverse mineralogy that may indicate changing aqueous environments on early Mars. The relationship of these mineralogic units to stratigraphic units across the full extent of Mt. Sharp is not well understood, although such relationships are key to interpreting the depositional and digenetic history. Here we present new mineral maps derived from CRISM data, as well as detailed stratigraphic columns from around the mound, and we use these new results to constrain hypotheses for the modes of aqueous alteration. Our new CRISM mineral maps are projected and co-registered to HiRISE imagery and DEMs, and include Fe/Mg-smectites, poly- and mono-hydrated sulfates, iron oxides, high-Ca pyroxene, and a ferrous phase with a strong red spectral slope between 1.1-1.8 μm, which is consistent with ferrous alteration phases like ferrous clays. This latter unit consistently overlies Fe/Mg-smectites in NW and SW Mt. Sharp, and is located in topographic benches that are either immediately stratigaphically above hematite-bearing ridges. The presence of ferrous alteration phases supports previous interpretations that hematite formed when an Fe2+-bearing fluid encountered an oxidizing environment. In this scenario, the reducing fluids were created by long-term oxygen limited alteration of Fe-bearing minerals in the near-surface. Downward movement of these fluids may have been limited by the underlying clay layer, forcing lateral flow. On emergence at the surface, the iron was oxidized by photochemical or other redox reactions. On Earth, similar pedogenic processes form hematite ironpans on slopes surrounding poorly-drained hilltops, as well as ancient banded iron formations in shallow coastal waters. The reducing environment inferred from the ferrous phases could be a site of high organic preservation potential, and the redox gradient inferred from the ferric/ferrous mineral relationship could have served as an energy source for chemolithotrophic microbes.

Alteration heterogeneities in peridotites tectonically exhumed along slow-spreading ridges

NASA Astrophysics Data System (ADS)

Rouméjon, S.; Frueh-Green, G. L.; Williams, M. J.

2017-12-01

Serpentinized peridotites associated with mafic lithologies commonly outcrop along slow-spreading ridges. They are exhumed along large offset normal faults, called detachment faults, that uplift fresh peridotites and gabbros from the base of the brittle lithosphere to shallower levels where they are hydrothermally altered. Numerous petrological studies in these environments reveal that peridotites are variably altered depending on factors such as the temperature, redox state, intensity of hydrothermal fluid input and the chemistry of these fluids. It follows that the detachment footwalls are heterogeneous at scales less than a kilometer, reflecting initial distribution of primary lithologies and later variable alteration. Here we investigate the nature, distribution and typical length scales of alteration heterogeneities. We primarily focus on samples drilled at five sites across the Atlantis Massif (Mid-Atlantic Ridge, 30°N) during IODP Exp. 357 (Nov. 2015, RRS James Cook) and on samples dredged along the easternmost Southwest Indian Ridge (Smoothseafloor cruise, Oct. 2010, N/O Marion Dufresne). Multiple petrological observations are combined: hand sample description, sequences of textures and the associated mineralogical assemblages identifiable in thin section, in situ major and trace elements data as well as bulk rock and in situ oxygen isotopes ratios in serpentine textures. We show that all serpentinized peridotites develop serpentine mesh textures. However, some domains of the footwall are overprinted by further serpentine recrystallization and veins (mostly chrysotile- or antigorite-bearing) as a result of localized fluid-rock interaction and evolving fluids. Other domains are impacted by the alteration of the surrounding mafic bodies that influences both the mineralogy and chemistry of the altered peridotites. Using these results, we propose a conceptual model for the development of alteration heterogeneities during exhumation at slow-spreading ridges.

PIK3CA gene alterations in bladder cancer are frequent and associate with reduced recurrence in non-muscle invasive tumors.

PubMed

Dueñas, Marta; Martínez-Fernández, Mónica; García-Escudero, Ramón; Villacampa, Felipe; Marqués, Miriam; Saiz-Ladera, Cristina; Duarte, José; Martínez, Victor; Gómez, M José; Martín, M Luisa; Fernández, Manoli; Castellano, Daniel; Real, Francisco X; Rodriguez-Peralto, Jose L; De La Rosa, Federico; Paramio, Jesús M

2015-07-01

Bladder cancer (BC) is the fifth most common cancer in the world, being the non-muscle invasive tumors (NMIBC) the most frequent. NMIBC shows a very high frequency of recurrence and, in certain cases, tumor progression. The phosphatidylinositol 3-kinase (PI3K) pathway, which controls cell growth, tumorigenesis, cell invasion and drug response, is frequently activated in numerous human cancers, including BC, in part through alterations of PIK3CA gene. However, the significance of PIK3CA gene alterations with respect to clinicopathological characteristics, and in particular tumor recurrence and progression, remains elusive. Here, we analyzed the presence of mutations in FGFR3 and PIK3CA genes and copy number alterations of PIK3CA gene in bladder tumor and their correspondent paired normal samples from 87 patients. We observed an extremely high frequency of PIK3CA gene alterations (mutations, copy gains, or both) in tumor samples, affecting primarily T1 and T2 tumors. A significant number of normal tissues also showed mutations and copy gains, being coincident with those found in the corresponding tumor sample. In low-grade tumors PIK3CA mutations associated with FGFR3 mutations. Alterations in PIK3CA gene resulted in increased Akt activity in tumors. Interestingly, the presence of PIK3CA gene alterations, and in particular gene mutations, is significantly associated with reduced recurrence of NMIBC patients. Importantly, the presence of FGFR3 mutations may influence the clinical outcome of patients bearing alterations in PIK3CA gene, and increased recurrence was associated to FGFR3 mutated, PIK3CA wt tumors. These findings may have high relevance in terms of using PI3K-targeted therapies for BC treatment. © 2013 Wiley Periodicals, Inc.

Conodont color and surface textural alteration in the Muschelkalk (Triassic) of the Silesian-Cracow Zn-Pb district, Poland

USGS Publications Warehouse

Repetski, J.E.; Narkiewicz, M.

1996-01-01

Limestone and dolostone samples were collected from sites within and adjacent to ore zones in the Trzebionka mine, Silesia-Cracow zinc-lead mining district, southern Poland, to assess the level of thermal alteration of the enclosed conodonts, via the color alteration index (CAI) technique, and to study any surface alteration effects on these microfossils. Additional conodont sampling from stratigraphic levels correlative with the horizons being mined in the Trzebionka mine was accomplished at four surface and two borehole localities in the district, to compare the CAI and surface alteration effects at these, commercially non-mineralized, localities with those effects in the mine. Data show that: 1. The overall background thermal level of the Triassic strata studied, presumably due to only shallow burial, is very low: CAI = 1; in the range of 50 to 80??C. 2. CAI values in the ore zones in the Trzebionka mine are slightly higher than this regional background: 1+ to 1.5 (in the range ???50 to 90??C minimum heating over geologic time of about 0.1 to more than 1 m. y.). This implies that heating "events" of higher temperatures affecting the conodonts, including the passage of the local ore-bearing solutions, were of rather short duration(s), on the order of about 1,000 to 50,000 years. CAI data from the Trzebionka Mine is consistent with temperature data from fluid inclusions, indicating ore-bearing fluid temperatures in the 100 to 138??C range, and the scenario that these fluids were resident in these strata for a geologically short period. 3. Conodonts from both surface and subsurface samples rarely show surface corrosion effects, but tend to show apatite overgrowths. These overgrowths vary in degree of development, but are consistent for each morphological type of conodont element, and qualitatively are consistent in each sample observed. 4. Ichthyoliths (fish teeth, spines, and scales), found in most of the samples, do not exhibit either mineral overgrowths or apparent corrosion effects to the extent seen in the conodont elements. 5. Ichthyoliths show color alteration effects that are consistent within-sample but which are very different from the CAI values of conodonts in the same sample. The color alteration of the fish teeth might be of value as a thermal maturation index in the future, if and when calibrated through controlled laboratory experimental testing, but at present cannot and should not be used as equivalent to conodont CAI.

Association of deletion in the chromosomal 8p21.3-23 region with the development of invasive head & neck squamous cell carcinoma in Indian patients.

PubMed

Bhattacharya, N; Tripathi, A; Dasgupta, S; Sabbir, Md G; Roy, A; Sengupta, A; Roy, B; Roychowdhury, S; Panda, C K

2003-08-01

Deletions in chromosome 8 (chr.8) have been shown to be necessary for the development of head and neck squamous cell carcinoma (HNSCC). Attempts have been made in this study to detect the minimal deleted region in chr.8 associated with the development of HNSCC in Indian patients and to study the association of clinicopathological features with the progression of the disease. The deletion mapping of chr.8 was done in samples from 10 primary dysplastic lesions and 43 invasive squamous cell carcinomas from the head and neck region of Indian patients to detect allelic alterations (deletion or size alteration) using 12 highly polymorphic microsatellite markers. The association of the highly deleted region was correlated with the tumour node metastasis (TNM) stages, nodal involvement, tobacco habit and human papilloma virus (HPV) infection of the samples. High frequency (49%) of loss of heterozygosity (LOH) was seen within 13.12 megabase (Mb) region of chromosomal 8p21.3-23 region in the HNSCC samples, whereas the dysplastic samples did not show any allelic alterations in this region. The highest frequency (17%) of microsatellite size alterations (MA) was observed in the chr.8p22 region. The loss of short arm or normal copy of chr.8 and rare bi-allelic alterations were seen in the stage II-IV tumours (939, 5184, 2772, 1319 and 598) irrespective of their primary sites. The highly deleted region did not show any significant association with any of the clinical parameters. However, HPV infection was significantly associated (P < 0.05) with the differentiation grades and overall allelic alterations (LOH/MA) of the samples. Our data indicate that the 13.12 Mb deleted region in the chromosomal 8p21.3-23 region could harbour candidate tumour suppressor gene(s) (TSGs) associated with the progression anti invasion of HNSCC tumours in Indian patients.

Chaotic rotation of Hyperion?

NASA Technical Reports Server (NTRS)

Binzel, R. P.; Green, J. R.; Opal, C. B.

1986-01-01

Thomas et al. (1984) analyzed 14 Voyager 2 images of Saturn's satellite Hyperion and interpreted them to be consistent with a coherent (nonchaotic) rotation period of 13.1 days. This interpretation was criticized by Peale and Wisdom (1984), who argued that the low sampling frequency of Voyager data does not allow chaotic or nonchaotic rotation to be distinguished. New observations obtained with a higher sampling frequency are reported here which conclusively show that the 13.1 day period found by Thomas et al. was not due to coherent rotation.

The cancer precision medicine knowledge base for structured clinical-grade mutations and interpretations.

PubMed

Huang, Linda; Fernandes, Helen; Zia, Hamid; Tavassoli, Peyman; Rennert, Hanna; Pisapia, David; Imielinski, Marcin; Sboner, Andrea; Rubin, Mark A; Kluk, Michael; Elemento, Olivier

2017-05-01

This paper describes the Precision Medicine Knowledge Base (PMKB; https://pmkb.weill.cornell.edu ), an interactive online application for collaborative editing, maintenance, and sharing of structured clinical-grade cancer mutation interpretations. PMKB was built using the Ruby on Rails Web application framework. Leveraging existing standards such as the Human Genome Variation Society variant description format, we implemented a data model that links variants to tumor-specific and tissue-specific interpretations. Key features of PMKB include support for all major variant types, standardized authentication, distinct user roles including high-level approvers, and detailed activity history. A REpresentational State Transfer (REST) application-programming interface (API) was implemented to query the PMKB programmatically. At the time of writing, PMKB contains 457 variant descriptions with 281 clinical-grade interpretations. The EGFR, BRAF, KRAS, and KIT genes are associated with the largest numbers of interpretable variants. PMKB's interpretations have been used in over 1500 AmpliSeq tests and 750 whole-exome sequencing tests. The interpretations are accessed either directly via the Web interface or programmatically via the existing API. An accurate and up-to-date knowledge base of genomic alterations of clinical significance is critical to the success of precision medicine programs. The open-access, programmatically accessible PMKB represents an important attempt at creating such a resource in the field of oncology. The PMKB was designed to help collect and maintain clinical-grade mutation interpretations and facilitate reporting for clinical cancer genomic testing. The PMKB was also designed to enable the creation of clinical cancer genomics automated reporting pipelines via an API. © The Author 2016. Published by Oxford University Press on behalf of the American Medical Informatics Association.

Does English proficiency impact on health outcomes for inpatients undergoing stroke rehabilitation?

PubMed

Davies, Sarah E; Dodd, Karen J; Tu, April; Zucchi, Emiliano; Zen, Stefania; Hill, Keith D

2016-07-01

To determine whether English proficiency and/or the frequency of interpreter use impacts on health outcomes for inpatient stroke rehabilitation. Retrospective case-control study. People admitted for inpatient stroke rehabilitation. A high English proficiency group comprised people with native or near native English proficiency (n = 80), and a low English proficiency group comprised people who preferred a language other than English (n = 80). Length of stay (LOS), discharge destination and Functional Independence Measure (FIM). The low English proficiency group showed a greater improvement in FIM from admission to discharge (p = 0.04). No significant differences were found between groups in LOS, discharge destination and number of encounters with allied health professionals. Increased interpreter usage improved FIM efficiency but did not significantly alter other outcomes. English proficiency does not appear to impact on health outcomes in inpatient rehabilitation with a primarily in-house professional interpreter service. However, there is a need for a larger powered study to confirm these findings. Implications for rehabilitation People with low English proficiency undergoing inpatient stroke rehabilitation in a setting with a primarily in-house professional interpreter service, achieved similar outcomes to those with high English proficiency irrespective of frequency of interpreter usage. A non-significant increase of 4 days length of stay was observed in the low English proficiency group compared to the high English proficiency group. For patients with low English proficiency, greater change in Functional Independence Measure efficiency scores was observed for those with higher levels of interpreter use relative to those with low interpreter use. Clinicians should optimise use of interpreters with patients with low English proficiency when possible.

The cancer precision medicine knowledge base for structured clinical-grade mutations and interpretations

PubMed Central

Huang, Linda; Fernandes, Helen; Zia, Hamid; Tavassoli, Peyman; Rennert, Hanna; Pisapia, David; Imielinski, Marcin; Sboner, Andrea; Rubin, Mark A; Kluk, Michael

2017-01-01

Objective: This paper describes the Precision Medicine Knowledge Base (PMKB; https://pmkb.weill.cornell.edu), an interactive online application for collaborative editing, maintenance, and sharing of structured clinical-grade cancer mutation interpretations. Materials and Methods: PMKB was built using the Ruby on Rails Web application framework. Leveraging existing standards such as the Human Genome Variation Society variant description format, we implemented a data model that links variants to tumor-specific and tissue-specific interpretations. Key features of PMKB include support for all major variant types, standardized authentication, distinct user roles including high-level approvers, and detailed activity history. A REpresentational State Transfer (REST) application-programming interface (API) was implemented to query the PMKB programmatically. Results: At the time of writing, PMKB contains 457 variant descriptions with 281 clinical-grade interpretations. The EGFR, BRAF, KRAS, and KIT genes are associated with the largest numbers of interpretable variants. PMKB’s interpretations have been used in over 1500 AmpliSeq tests and 750 whole-exome sequencing tests. The interpretations are accessed either directly via the Web interface or programmatically via the existing API. Discussion: An accurate and up-to-date knowledge base of genomic alterations of clinical significance is critical to the success of precision medicine programs. The open-access, programmatically accessible PMKB represents an important attempt at creating such a resource in the field of oncology. Conclusion: The PMKB was designed to help collect and maintain clinical-grade mutation interpretations and facilitate reporting for clinical cancer genomic testing. The PMKB was also designed to enable the creation of clinical cancer genomics automated reporting pipelines via an API. PMID:27789569

Proceedings of the fire history workshop; October 20-24, 1980; Tucson, Arizona

Treesearch

Marvin A. Stokes; John H. Dieterich

1980-01-01

The purpose of the workshop was to exchange information on sampling procedures, research methodologies, preparation and interpretation of specimen material, terminology, and the application and significance of findings, emphasizing the relationship of dendrochronology procedures to fire history interpretations.

Merits of a Locality Sample for Accomplishing Mars Exploration Goals: The First Sample Return Mission

NASA Astrophysics Data System (ADS)

Draper, D. S.; Bogard, D. D.; Agee, C. B.; McKay, G. A.; Jones, J. H.

2002-05-01

A major stumbling block to a Mars sample return (MSR) mission is the seemingly prohibitive cost of maximizing sample diversity. The use of rovers, sophisticated on-board instrumentation, and various sample selection techniques are perceived by some to be necessary to maximize the scientific return by making it possible to acquire as diverse a suite of samples as possible. Here, we argue that many key science goals of the Mars Exploration Program may be accomplished by returning only a "locality sample" at a well-chosen landing site. A locality sample would be local regolith consisting of soil, windblown fines, and lithic fragments (plus Martian atmosphere). We argue that even the simplest sample return mission could revolutionize our understanding of the planet, without requiring the large outlays for technology development currently envisioned. By the time a MSR mission could realistically be flown, it is reasonable to expect that information from the Mars Odyssey, Mars Express, 2003 Mars Exploration Rovers, and 2005 Mars Reconnaissance Orbiter will be sufficient to make a good choice of landing site. Returned samples of Martian regolith have the potential to answer key questions of fundamental importance to the Mars Exploration Program: The search for life; understanding the role and history of water and other volatiles; helping to interpret remotely-sensed spectral data; and understanding the planet as a system. The value of such samples has been studied exhaustively for decades and detailed in publications dating back at least to 1974. A locality sample can further the search for life by identifying, among other things, trace quantities of surface organics, biogenic elements and their isotopic compositions, evidence for water in the form of hydrous minerals and/or cements, the nature of the Martian soil oxidant, trace biomarkers, and evidence for clay-forming processes. The role of water will be better understood by revealing, in addition, whether interactions between soil/rocks and the Martian atmosphere have recently occurred, and whether there are currently pathways among cyclic reservoirs (e.g. for carbon). Fundamental information regarding the current atmosphere is certain to be gained as well. Interpreting remotely-sensed data will be greatly strengthened by providing ground truth in the form of mineralogy and lithology of sample materials and by allowing an estimate of the extent of regolith gardening by impacts, the nature and thickness of dust coatings and/or alteration rinds, the nature of Martian layered deposits, and the extent to which materials like the Martian meteorites are present at the surface. Basic planetology questions that might be answered include the compositions and ages of the highlands or lowlands, and how wet Mars was, and at what time in its history. The much-discussed alternative, a mission built around a very capable rover, has several large drawbacks. First, the mass and expense of making the rover highly autonomous diminishes science return. Second, the rover represents a single-point failure; if the rover is stranded, the samples cannot be returned. Third, there is no demonstrable positive correlation between roving ability/range and sampling diversity. A simple locality-sample MSR mission provides the foundation for later, targeted return missions. Such a mission "follows the water" down into surface minerals and soils, and uniquely provides understanding of the surface environment that will best enable us to target the most promising sites to look for life.

Lack of viable seeds in the forest floor after clearcutting

Treesearch

Robert M. Frank; Lawrence O. Safford

1970-01-01

The viability of seeds o[ northern conifers apparently does not persist in the forest floor for more than one year. A set of forest-floor samples collected two years alter a heavy seed crop and one year alter a seedcrop failure did not produce any conifer germinants, regardless of whether or not the surfaces of the samples were disturbed. A second set of forest-floor...

[X-ray diffraction (XRD) and near infrared spectrum (NIR) analysis of the soil overlying the Bairendaba deposit of the Inner Mongolia Grassland].

PubMed

Luo, Song-ying; Cao, Jian-jin; Wu, Zheng-quan

2014-08-01

The soil samples uniformly overlying the Bairendaba deposit of the Inner Mongolia grassland were collected, and ana- lyzed with X-ray diffraction (XRD) and near infrared spectrum (NIR), for exploring the origins of the soil from the, grassland mining area and the relationship with the underground rock. The results show that the samp]s consist of quartz, graphite, carbonate, hornblende, mica, chlorite, montmorillonite, illite, berlinite, diaspore, azurite, hen tite, etc. These indicate that the soil samples were not only from the weathering products of the surface rock, but also from the underground rock mass and the alteration of the wall rock. The azurite and the hematite contained in the soil, mainly coming from the oxidation zone of the orebodies, can be used as the prospecting marks. The alteration mineral assemblage is mainly chlorite-illite-montmorillonite and it experienced the alteration process of potassic alteration-->silicification-->carbonatization-->silk greisenization-->clayization. Also, the wall rock alteration and the physical weathering processes can be accurately restored by analyzing the combination of the alteration minerals, which can provide important reference information for the deep ore prospecting and the ore deposit genesis study, improving the rate of the prospecting. The XRD and NIR with the characteristics of the economy and quickness can be used for the identification of mineral composition of soil, and in the study of mineral and mineral deposits. Especially, NIR has its unique superiority, that is, its sample request is low, and it can analyze a batch of samples quickly. With the development of INR, it will be more and more widely applied in geological field, and can play an important role in the ore exploration.

Second consensus on the assessment of sublingual microcirculation in critically ill patients: results from a task force of the European Society of Intensive Care Medicine.

PubMed

Ince, Can; Boerma, E Christiaan; Cecconi, Maurizio; De Backer, Daniel; Shapiro, Nathan I; Duranteau, Jacques; Pinsky, Michael R; Artigas, Antonio; Teboul, Jean-Louis; Reiss, Irwin K M; Aldecoa, Cesar; Hutchings, Sam D; Donati, Abele; Maggiorini, Marco; Taccone, Fabio S; Hernandez, Glenn; Payen, Didier; Tibboel, Dick; Martin, Daniel S; Zarbock, Alexander; Monnet, Xavier; Dubin, Arnaldo; Bakker, Jan; Vincent, Jean-Louis; Scheeren, Thomas W L

2018-03-01

Hand-held vital microscopes (HVMs) were introduced to observe sublingual microcirculatory alterations at the bedside in different shock states in critically ill patients. This consensus aims to provide clinicians with guidelines for practical use and interpretation of the sublingual microcirculation. Furthermore, it aims to promote the integration of routine application of HVM microcirculatory monitoring in conventional hemodynamic monitoring of systemic hemodynamic variables. In accordance with the Delphi method we organized three international expert meetings to discuss the various aspects of the technology, physiology, measurements, and clinical utility of HVM sublingual microcirculatory monitoring to formulate this consensus document. A task force from the Cardiovascular Dynamics Section of the European Society of Intensive Care Medicine (with endorsement of its Executive Committee) created this consensus as an update of a previous consensus in 2007. We classified consensus statements as definitions, requirements, and/or recommendations, with a minimum requirement of 80% agreement of all participants. In this consensus the nature of microcirculatory alterations is described. The nature of variables, which can be extracted from analysis of microcirculatory images, is presented and the needed dataset of variables to identify microcirculatory alterations is defined. Practical aspects of sublingual HVM measurements and the nature of artifacts are described. Eleven statements were formulated that pertained to image acquisitions and quality statements. Fourteen statements addressed the analysis of the images, and 13 statements are related to future developments. This consensus describes 25 statements regarding the acquisition and interpretation of microcirculatory images needed to guide the assessment of the microcirculation in critically ill patients.

Identification of altered pathways in breast cancer based on individualized pathway aberrance score.

PubMed

Shi, Sheng-Hong; Zhang, Wei; Jiang, Jing; Sun, Long

2017-08-01

The objective of the present study was to identify altered pathways in breast cancer based on the individualized pathway aberrance score (iPAS) method combined with the normal reference (nRef). There were 4 steps to identify altered pathways using the iPAS method: Data preprocessing conducted by the robust multi-array average (RMA) algorithm; gene-level statistics based on average Z ; pathway-level statistics according to iPAS; and a significance test dependent on 1 sample Wilcoxon test. The altered pathways were validated by calculating the changed percentage of each pathway in tumor samples and comparing them with pathways from differentially expressed genes (DEGs). A total of 688 altered pathways with P<0.01 were identified, including kinesin (KIF)- and polo-like kinase (PLK)-mediated events. When the percentage of change reached 50%, 310 pathways were involved in the total 688 altered pathways, which may validate the present results. In addition, there were 324 DEGs and 155 common genes between DEGs and pathway genes. DEGs and common genes were enriched in the same 9 significant terms, which also were members of altered pathways. The iPAS method was suitable for identifying altered pathways in breast cancer. Altered pathways (such as KIF and PLK mediated events) were important for understanding breast cancer mechanisms and for the future application of customized therapeutic decisions.

Analysis and interpretation of electrical resistivity tomography data of alluvial aquifer of Tamanrasset Southern Algeria

NASA Astrophysics Data System (ADS)

Zeddouri, Aziez; Elkheir, Abderrahmane Ben; Hadj-Said, Samia; Taupin, Jean-Denis; Leduc, Christian; Patris, Nicholas

2018-05-01

A groundwater exploration work in the Tamanrasset region in southern Algeria was started in August 2016 to assess the water reserves in the hydrogeological system related to the Oued Tamanrasset underflow water table which overcomes a volcanic basement. Five (05) electrical resistivity tomography (ERT) surveys were conducted in Tamanrasset area by using ABEM Terrameter LS system. the low electrical contrast between wet alluvium and water saturated alterites makes difficult the electrical response interpretation. to overcome the difficulties of interpretation of ERT profiles, field investigations, laboratory tests and software simulations, were carried out in order to clearly identify the structure of the hydrogeological system. The experimental investigation of the electrical characteristics of the alluvium as a function of water saturation was carried by the use of two devices (Wenner α and Schlumberger). Samples true resistivity values varies between 50 Ω.m for a 100% saturated sample and 1250 Ω.m for a 25% saturation sample. The interpretation of the measurements by the RES2DINV software made it possible to give 2D images of the subsoil up to a depth of 50 m. the electrical contrast between the bedrock and the overlying formations made it possible to identify it, however, it was difficult to distinguish alterites from alluvium. A methodology combining piezometric survey, geo-electrical measurements and field observations improves the interpretation of electrical tomography profiles and the application of the ERT method for accurate characterization of water resources in the Tamanrasset region.

Histopathological examination of nerve samples from pure neural leprosy patients: obtaining maximum information to improve diagnostic efficiency.

PubMed

Antunes, Sérgio Luiz Gomes; Chimelli, Leila; Jardim, Márcia Rodrigues; Vital, Robson Teixeira; Nery, José Augusto da Costa; Corte-Real, Suzana; Hacker, Mariana Andréa Vilas Boas; Sarno, Euzenir Nunes

2012-03-01

Nerve biopsy examination is an important auxiliary procedure for diagnosing pure neural leprosy (PNL). When acid-fast bacilli (AFB) are not detected in the nerve sample, the value of other nonspecific histological alterations should be considered along with pertinent clinical, electroneuromyographical and laboratory data (the detection of Mycobacterium leprae DNA with polymerase chain reaction and the detection of serum anti-phenolic glycolipid 1 antibodies) to support a possible or probable PNL diagnosis. Three hundred forty nerve samples [144 from PNL patients and 196 from patients with non-leprosy peripheral neuropathies (NLN)] were examined. Both AFB-negative and AFB-positive PNL samples had more frequent histopathological alterations (epithelioid granulomas, mononuclear infiltrates, fibrosis, perineurial and subperineurial oedema and decreased numbers of myelinated fibres) than the NLN group. Multivariate analysis revealed that independently, mononuclear infiltrate and perineurial fibrosis were more common in the PNL group and were able to correctly classify AFB-negative PNL samples. These results indicate that even in the absence of AFB, these histopathological nerve alterations may justify a PNL diagnosis when observed in conjunction with pertinent clinical, epidemiological and laboratory data.

Lithogeochemistry of Carlin-type gold mineralization in the Gold Bar district, Battle Mountain-Eureka trend, Nevada

USGS Publications Warehouse

Yigit, O.; Hofstra, A.H.

2003-01-01

The Gold Bar district contains five Carlin-type gold deposits and four resources for a combined gold endowment of 1.6 M oz [50 t]. The gold deposits are hosted in Devonian carbonate rocks below parautochthonous and allochthonous Paleozoic siliciclastic rocks emplaced during the Early Mississippian Antler orogeny. The district is in the Battle Mountain-Eureka trend, a long-lived structural feature that localized intrusions and ore deposits of different types and ages. The whole-rock geochemistry of four different mineralized and unmineralized Devonian carbonate rock units (two favorable and two unfavorable) were determined and interpreted in the context of the regional geology. A combination of basic statistics, R-mode factor analysis, isocon plots, and alteration diagrams were utilized to (1) identify favorable geochemical attributes of the host rocks, (2) characterize alteration and associated element enrichments and depletions, and (3) identify the mechanism of gold precipitation. This approach also led to the recognition of other types of alteration and mineralization in host rocks previously thought to be solely affected by Carlin-type mineralization. Unit 2 of the Upper Member of the Denay Formation, with the highest Al2O3, Fe2O3 and SiO2 contents and the lowest CaO content, is the most favorable host rock. Based on the high regression coefficients of data arrays on X-Y plots that project toward the origin, Al2O3 and TiO2 were immobile and K2O and Fe2O3 were relatively immobile during alteration and mineralization. Specific element associations identified by factor analysis are also prominent on isocon diagrams that compare the composition of fresh and altered equivalents of the same rock units. The most prominent associations are: Au, As, Sb, SiO2, TI, -CaO and -LOI, the main gold mineralizing event and related silicification and decalcification; Cd, Zn, Ag, P, Ni and Tl, an early base metal event; and MgO, early dolomitization. Alteration diagrams, consisting of X-Y plots of SiO2/Al2O3, K2O/Al2O3, CO2/Al2O3, that documented in classic Carlin-type gold deposits in the region, but the size of the deposits and the intensity of alteration and mineralization are less. The presence of other types of mineralization in the Gold Bar district is also common to most of the other Carlin-type districts located in major mineral belts. The approach used in this study is well suited to the interpretation of multi-element geochemical data from other study areas with superimposed alteration and mineralization. ?? 2002 Elsevier Science B.V. All rights reserved.

Low-temperature aqueous alteration on the CR chondrite parent body: Implications from in situ oxygen-isotope analyses

NASA Astrophysics Data System (ADS)

Jilly-Rehak, Christine E.; Huss, Gary R.; Nagashima, Kazu; Schrader, Devin L.

2018-02-01

The presence of hydrated minerals in chondrites indicates that water played an important role in the geologic evolution of the early Solar System; however, the process of aqueous alteration is still poorly understood. Renazzo-like carbonaceous (CR) chondrites are particularly well-suited for the study of aqueous alteration. Samples range from being nearly anhydrous to fully altered, essentially representing snapshots of the alteration process through time. We studied oxygen isotopes in secondary-minerals from six CR chondrites of varying hydration states to determine how aqueous fluid conditions (including composition and temperature) evolved on the parent body. Secondary minerals analyzed included calcite, dolomite, and magnetite. The O-isotope composition of calcites ranged from δ18O ≈ 9 to 35‰, dolomites from δ18O ≈ 23 to 27‰, and magnetites from δ18O ≈ -18 to 5‰. Calcite in less-altered samples showed more evidence of fluid evolution compared to heavily altered samples, likely reflecting lower water/rock ratios. Most magnetite plotted on a single trend, with the exception of grains from the extensively hydrated chondrite MIL 090292. The MIL 090292 magnetite diverges from this trend, possibly indicating an anomalous origin for the meteorite. If magnetite and calcite formed in equilibrium, then the relative 18O fractionation between them can be used to extract the temperature of co-precipitation. Isotopic fractionation in Al Rais carbonate-magnetite assemblages revealed low precipitation temperatures (∼60 °C). Assuming that the CR parent body experienced closed-system alteration, a similar exercise for parallel calcite and magnetite O-isotope arrays yields "global" alteration temperatures of ∼55 to 88 °C. These secondary mineral arrays indicate that the O-isotopic composition of the altering fluid evolved upon progressive alteration, beginning near the Al Rais water composition of Δ17O ∼ 1‰ and δ18O ∼ 10‰, and becoming increasingly 16O-enriched toward a final fluid composition of Δ17O ∼ -1.2‰ and δ18O ∼ -15‰.

Magnetic Field Is the Dominant Factor to Induce the Response of Streptomyces avermitilis in Altered Gravity Simulated by Diamagnetic Levitation

PubMed Central

Shang, Peng; Zhou, Xianlong; Ashforth, Elizabeth; Zhuo, Ying; Chen, Difei; Ren, Biao; Liu, Zhiheng; Zhang, Lixin

2011-01-01

Background Diamagnetic levitation is a technique that uses a strong, spatially varying magnetic field to simulate an altered gravity environment, as in space. In this study, using Streptomyces avermitilis as the test organism, we investigate whether changes in magnetic field and altered gravity induce changes in morphology and secondary metabolism. We find that a strong magnetic field (12T) inhibit the morphological development of S. avermitilis in solid culture, and increase the production of secondary metabolites. Methodology/Principal Findings S. avermitilis on solid medium was levitated at 0 g*, 1 g* and 2 g* in an altered gravity environment simulated by diamagnetic levitation and under a strong magnetic field, denoted by the asterix. The morphology was obtained by electromicroscopy. The production of the secondary metabolite, avermectin, was determined by OD245 nm. The results showed that diamagnetic levitation could induce a physiological response in S. avermitilis. The difference between 1 g* and the control group grown without the strong magnetic field (1 g), showed that the magnetic field was a more dominant factor influencing changes in morphology and secondary metabolite production, than altered gravity. Conclusion/Significance We have discovered that magnetic field, rather than altered gravity, is the dominant factor in altered gravity simulated by diamagnetic levitation, therefore care should to be taken in the interpretation of results when using diamagnetic levitation as a technique to simulate altered gravity. Hence, these results are significant, and timely to researchers considering the use of diamagnetic levitation to explore effects of weightlessness on living organisms and on physical phenomena. PMID:22039402

Separation/extraction, detection, and interpretation of DNA mixtures in forensic science (review).

PubMed

Tao, Ruiyang; Wang, Shouyu; Zhang, Jiashuo; Zhang, Jingyi; Yang, Zihao; Sheng, Xiang; Hou, Yiping; Zhang, Suhua; Li, Chengtao

2018-05-25

Interpreting mixed DNA samples containing material from multiple contributors has long been considered a major challenge in forensic casework, especially when encountering low-template DNA (LT-DNA) or high-order mixtures that may involve missing alleles (dropout) and unrelated alleles (drop-in), among others. In the last decades, extraordinary progress has been made in the analysis of mixed DNA samples, which has led to increasing attention to this research field. The advent of new methods for the separation and extraction of DNA from mixtures, novel or jointly applied genetic markers for detection and reliable interpretation approaches for estimating the weight of evidence, as well as the powerful massively parallel sequencing (MPS) technology, has greatly extended the range of mixed samples that can be correctly analyzed. Here, we summarized the investigative approaches and progress in the field of forensic DNA mixture analysis, hoping to provide some assistance to forensic practitioners and to promote further development involving this issue.

Interpreting and Reporting Radiological Water-Quality Data

USGS Publications Warehouse

McCurdy, David E.; Garbarino, John R.; Mullin, Ann H.

2008-01-01

This document provides information to U.S. Geological Survey (USGS) Water Science Centers on interpreting and reporting radiological results for samples of environmental matrices, most notably water. The information provided is intended to be broadly useful throughout the United States, but it is recommended that scientists who work at sites containing radioactive hazardous wastes need to consult additional sources for more detailed information. The document is largely based on recognized national standards and guidance documents for radioanalytical sample processing, most notably the Multi-Agency Radiological Laboratory Analytical Protocols Manual (MARLAP), and on documents published by the U.S. Environmental Protection Agency and the American National Standards Institute. It does not include discussion of standard USGS practices including field quality-control sample analysis, interpretive report policies, and related issues, all of which shall always be included in any effort by the Water Science Centers. The use of 'shall' in this report signifies a policy requirement of the USGS Office of Water Quality.

American Indian influence on fire regimes in Calfornia's coastal ranges

USGS Publications Warehouse

Keeley, Jon E.

2004-01-01

Understanding the historical pattern of human impacts on landscapes is critical to correctly interpreting the ecological basis for vegetation distribution. In some parts of the world, such as the Mediterranean Basin, a long and intensive utilization of resources has greatly altered the distribution of forests and woodlands. Was vegetation distribution in the coastal ranges of California similarly influenced by humans before Euro-American colonization?

Previous Estimates of Mitochondrial DNA Mutation Level Variance Did Not Account for Sampling Error: Comparing the mtDNA Genetic Bottleneck in Mice and Humans

PubMed Central

Wonnapinij, Passorn; Chinnery, Patrick F.; Samuels, David C.

2010-01-01

In cases of inherited pathogenic mitochondrial DNA (mtDNA) mutations, a mother and her offspring generally have large and seemingly random differences in the amount of mutated mtDNA that they carry. Comparisons of measured mtDNA mutation level variance values have become an important issue in determining the mechanisms that cause these large random shifts in mutation level. These variance measurements have been made with samples of quite modest size, which should be a source of concern because higher-order statistics, such as variance, are poorly estimated from small sample sizes. We have developed an analysis of the standard error of variance from a sample of size n, and we have defined error bars for variance measurements based on this standard error. We calculate variance error bars for several published sets of measurements of mtDNA mutation level variance and show how the addition of the error bars alters the interpretation of these experimental results. We compare variance measurements from human clinical data and from mouse models and show that the mutation level variance is clearly higher in the human data than it is in the mouse models at both the primary oocyte and offspring stages of inheritance. We discuss how the standard error of variance can be used in the design of experiments measuring mtDNA mutation level variance. Our results show that variance measurements based on fewer than 20 measurements are generally unreliable and ideally more than 50 measurements are required to reliably compare variances with less than a 2-fold difference. PMID:20362273

U-Pb zircon geochronologycal investigation on the Morro dos Seis Lagos Carbonatite Complex and associated Nb deposit (Amazonas, Brazil)

NASA Astrophysics Data System (ADS)

Rossoni, Marco B.; Bastos Neto, Artur C.; Souza, Valmir S.; Marques, Juliana C.; Dantas, Elton; Botelho, Nilson F.; Giovannini, Arthur L.; Pereira, Vitor P.

2017-12-01

We present results of U-Pb dating (by MC-ICP-MS) of zircons from samples that cover all of the known lithotypes in the Seis Lagos Carbonatite Complex and associated lateritic mineralization (the Morro dos Seis Lagos Nb deposit). The host rock (gneiss) yielded an age of 1828 ± 09 Ma interpreted as the crystallization time of this unit. The altered feldspar vein in the same gneiss yielded an age of 1839 ± 29 Ma. Carbonatite samples provided 3 groups of ages. The first group comprises inherited zircons with ages compatible with the gneissic host rock: 1819 ± 10 Ma (superior intercept), 1826 ± 5 Ma (concordant age), and 1812 ± 27 Ma (superior intercept), all from the Orosirian. The second and the third group of ages are from the same carbonatite sample: the superior intercept age of 1525 ± 21 Ma (MSWD = 0.77) and the superior intercept age of 1328 ± 58 Ma (MSWD = 1.4). The mineralogical study indicates that the ∼1.3 Ga zircons have affinity with carbonatite. It is, however, a tendence rather than a well-defined result. The data allow state that the age of 1328 ± 58 Ma represents the maximum age of the carbonatite. Without the same certainty, we consider that the data suggest that this age may be the carbonatite age, whose emplacement would have been related to the evolution of the K'Mudku belt. The best age obtained in laterite samples (a superior intercept age of 1828 ± 12 Ma) is considered the age of the main source for the inherited zircons related to the gneissic host rock.

Ribosomal RNA gene detection and targeted culture of novel nitrogen-responsive fungal taxa from temperate pine forest soil.

PubMed

Hesse, Cedar N; Torres-Cruz, Terry J; Tobias, Terri Billingsley; Al-Matruk, Maryam; Porras-Alfaro, Andrea; Kuske, Cheryl R

Soil fungal communities are responsible for carbon and nitrogen (N) cycling. The high complexity of the soil fungal community and the high proportion of taxonomically unidentifiable sequences confound ecological interpretations in field studies because physiological information is lacking for many organisms known only by their rRNA sequences. This situation forces experimental comparisons to be made at broader taxonomic racks where functions become difficult to infer. The objective of this study was to determine OTU (operational taxonomic units) level responses of the soil fungal community to N enrichment in a temperate pine forest experiment and to use the sequencing data to guide culture efforts of novel N-responsive fungal taxa. Replicate samples from four soil horizons (up to 10 cm depth) were obtained from ambient, enriched CO 2 and N-fertilization plots. Through a fungal large subunit rRNA gene (LSU) sequencing survey, we identified two novel fungal clades that were abundant in our soil sampling (representing up to 27% of the sequences in some samples) and responsive to changes in soil N. The two N-responsive taxa with no predicted taxonomic association were targeted for isolation and culturing from specific soil samples where their sequences were abundant. Representatives of both OTUs were successfully cultured using a filtration approach. One taxon (OTU6) was most closely related to Saccharomycotina; the second taxon (OTU69) was most closely related to Mucoromycotina. Both taxa likely represent novel species. This study shows how observation of specific OTUs level responses to altered N status in a large rRNA gene field survey provided the impetus to design targeted culture approaches for isolation of novel N-responsive fungal taxa.

Men's interpretations of graphical information in a videotape decision aid 1

PubMed Central

Pylar, Jan; Wills, Celia E.; Lillie, Janet; Rovner, David R.; Kelly‐Blake, Karen; Holmes‐Rovner, Margaret

2007-01-01

Abstract Objective  To examine men's interpretations of graphical information types viewed in a high‐quality, previously tested videotape decision aid (DA). Setting, participants, design  A community‐dwelling sample of men >50 years of age (N = 188) balanced by education (college/non‐college) and race (Black/White) were interviewed just following their viewing of a videotape DA. A descriptive study design was used to examine men's interpretations of a representative sample of the types of graphs that were shown in the benign prostatic hyperplasia videotape DA. Main variables studied  Men provided their interpretation of graphs information presented in three formats that varied in complexity: pictograph, line and horizontal bar graph. Audiotape transcripts of men's responses were coded for meaning and content‐related interpretation statements. Results  Men provided both meaning and content‐focused interpretations of the graphs. Accuracy of interpretation was lower than hypothesized on the basis of literature review (85.4% for pictograph, 65.7% for line graph, 47.8% for horizontal bar graph). Accuracy for pictograph and line graphs was associated with education level,  = 3.94, P = 0.047, and  = 7.55, P = 0.006, respectively. Accuracy was uncorrelated with men's reported liking of the graphs,  = 2.00, P = 0.441. Conclusion  While men generally liked the DA, accuracy of graphs interpretation was associated with format complexity and education level. Graphs are often recommended to improve comprehension of information in DAs. However, additional evaluation is needed in experimental and naturalistic observational settings to develop best practice standards for data representation. PMID:17524011

Temporal and spatial patterns of wetland sedimentation, West Tennessee

USGS Publications Warehouse

Hupp, C.R.; Bazemore, D.E.

1993-01-01

Dendrogeomorphic techniques were used to describe and interpret patterns of sedimentation rates at two forested wetland sites in West Tennessee. Fifty-five sampling stations were established along transects upstream and downstream from bridge structures, and 515 trees were examined for depth of sediment accretion and cored for age determination. Temporal variation in sedimentation rate may be related more to stream channelization and agricultural activity than to bridge and causeway construction. Sedimentation rates have increased substantially in the last 28 years, although channelized streams may have overall lower rates than unchannelized streams. Comparisons of sedimentation rates from deposition over artificial markers (short term) with those determined from tree-ring analysis (long-term) indicate that trends are similar where hydrogeomorphic conditions have not been altered substantially. No tendency for increased sedimentation upstream from bridges was observed. Deposition rates were inversely correlated with elevation and degree of ponding. Downstream deposition of sand splays appears to be related to flow constrictions and may be extensive. Mean overall rates of sedimentation (between 0.24 and 0.28 cm year-1), determined dendrogeomorphically, are comparable with other published rates. ?? 1993.

Network diffusion-based analysis of high-throughput data for the detection of differentially enriched modules

PubMed Central

Bersanelli, Matteo; Mosca, Ettore; Remondini, Daniel; Castellani, Gastone; Milanesi, Luciano

2016-01-01

A relation exists between network proximity of molecular entities in interaction networks, functional similarity and association with diseases. The identification of network regions associated with biological functions and pathologies is a major goal in systems biology. We describe a network diffusion-based pipeline for the interpretation of different types of omics in the context of molecular interaction networks. We introduce the network smoothing index, a network-based quantity that allows to jointly quantify the amount of omics information in genes and in their network neighbourhood, using network diffusion to define network proximity. The approach is applicable to both descriptive and inferential statistics calculated on omics data. We also show that network resampling, applied to gene lists ranked by quantities derived from the network smoothing index, indicates the presence of significantly connected genes. As a proof of principle, we identified gene modules enriched in somatic mutations and transcriptional variations observed in samples of prostate adenocarcinoma (PRAD). In line with the local hypothesis, network smoothing index and network resampling underlined the existence of a connected component of genes harbouring molecular alterations in PRAD. PMID:27731320

Experiences of patients with laryngectomies as they reintegrate into their community.

PubMed

Dooks, Penny; McQuestion, Maurene; Goldstein, David; Molassiotis, Alex

2012-03-01

The purpose of this qualitative study is to describe the patient's experiences as they reintegrate into the community following laryngectomy surgery and identify their perceived support and barriers within this transition. Using Thorne's interpretive descriptive approach, purposeful sampling was used to recruit participants from two large urban hospitals. In-depth, audio-taped interviews were conducted with nine participants 6-12 months following surgery. Enveloped under an overarching theme of a "Constant Accommodation to Life with a Laryngectomy," were three main themes: (1) "Impact of Cancer Diagnosis," (2) "Coping with Illness: Trying to Live Life like Before," and (3) "Transitions in Recovery." Subthemes further illuminated the constant accommodation participants had to make following cancer recurrence, surgery, and returning home. Patients with laryngectomies face major changes in lifestyle related to altered airway, loss of voice, body image concerns, and challenges with eating. Support of family, friends, and health care professionals is critical for successful transition during this stressful period. Instant messaging, email, Web-based support groups, and video messaging can contribute to a great improvement in communication and engagement for this population.

Age-associated and breed-associated variations in haematological and biochemical variables in young labrador retriever and miniature schnauzer dogs

PubMed Central

Brenten, Thomas; Morris, Penelope J.; Salt, Carina; Raila, Jens; Kohn, Barbara; Schweigert, Florian J.; Zentek, Jürgen

2016-01-01

Breed, sex and age effects on haematological and biochemical variables were investigated in 24 labrador retriever and 25 miniature schnauzer dogs during the first year of life. Blood samples were taken regularly between weeks 8 and 52. White blood cell and red blood cell counts, haemoglobin concentration, haematocrit, mean cell volume, mean cell haemoglobin, mean cell haemoglobin concentration, platelet count as well as total protein, albumin, calcium, phosphate, alkaline phosphatase, alanine aminotransferase, aspartate aminotransferase, glutamate dehydrogenase, total cholesterol, triglycerides, creatine and urea were evaluated. For all haematological and biochemical parameters, there were significant effects of age on test results. Statistically significant effects for breed and the breed×age interaction on test results were observed for most of the parameters with the exception of haemoglobin. Variations in test results illustrate growth related alterations in body tissue and metabolism leading to dynamic and marked changes in haematological and biochemical parameters, which have to be considered for the interpretation of clinical data obtained from dogs in the first year of life. PMID:27252875

Age-associated and breed-associated variations in haematological and biochemical variables in young labrador retriever and miniature schnauzer dogs.

PubMed

Brenten, Thomas; Morris, Penelope J; Salt, Carina; Raila, Jens; Kohn, Barbara; Schweigert, Florian J; Zentek, Jürgen

2016-01-01

Breed, sex and age effects on haematological and biochemical variables were investigated in 24 labrador retriever and 25 miniature schnauzer dogs during the first year of life. Blood samples were taken regularly between weeks 8 and 52. White blood cell and red blood cell counts, haemoglobin concentration, haematocrit, mean cell volume, mean cell haemoglobin, mean cell haemoglobin concentration, platelet count as well as total protein, albumin, calcium, phosphate, alkaline phosphatase, alanine aminotransferase, aspartate aminotransferase, glutamate dehydrogenase, total cholesterol, triglycerides, creatine and urea were evaluated. For all haematological and biochemical parameters, there were significant effects of age on test results. Statistically significant effects for breed and the breed×age interaction on test results were observed for most of the parameters with the exception of haemoglobin. Variations in test results illustrate growth related alterations in body tissue and metabolism leading to dynamic and marked changes in haematological and biochemical parameters, which have to be considered for the interpretation of clinical data obtained from dogs in the first year of life.

Diagenesis in the Murray Formation, Gale Crater, Mars

NASA Technical Reports Server (NTRS)

Rampe, E. B.; Ming, D. W.; Morris, R. V.; Blake, D. F.; Bristow, T. F.; Chipera. S. J.; Vaniman, D. T.; Yen, A. S.; Grotzinger, J. P.; Downs, R. T.;

Magnetic properties, acid neutralization capacity, and net acid production of rocks in the Animas River Watershed Silverton, Colorado

USGS Publications Warehouse

McCafferty, Anne E.; Yager, Douglas B.; Horton, Radley M.; Diehl, Sharon F.

2006-01-01

Federal land managers along with local stakeholders in the Upper Animas River watershed near Silverton, Colorado are actively designing and implementing mine waste remediation projects to mitigate the effects of acid mine drainage from several abandoned hard rock metal mines and mills. Local source rocks with high acid neutralization capacity (ANC) within the watershed are of interest to land managers for use in these remediation projects. A suite of representative samples was collected from propylitic to weakly sericitic-altered volcanic and plutonic rocks exposed in outcrops throughout the watershed. Acid-base accounting laboratory methods coupled with mineralogic and geochemical characterization provide insight into lithologies that have a range of ANC and net acid production (NAP). Petrophysical lab determinations of magnetic susceptibility converted to estimates for percent magnetite show correlation with the environmental properties of ANC and NAP for many of the lithologies. A goal of our study is to interpret watershed-scale airborne magnetic data for regional mapping of rocks that have varying degrees of ANC and NAP. Results of our preliminary work are presented here.

The biological response chain to pollution: a case study from the "Italian Triangle of Death" assessed with the liverwort Lunularia cruciata.

PubMed

Basile, Adriana; Loppi, Stefano; Piscopo, Marina; Paoli, Luca; Vannini, Andrea; Monaci, Fabrizio; Sorbo, Sergio; Lentini, Marco; Esposito, Sergio

2017-12-01

The liverwort Lunularia cruciata, known for being a species tolerant to pollution able to colonize urban areas, was collected in the town of Acerra (South Italy) to investigate the biological effects of air pollution in one of the three vertices of the so-called Italian Triangle of Death. The ultrastructural damages observed by transmission electron microscopy in specimens collected in Acerra were compared with samples collected in the city center of Naples and in a small rural site far from sources of air pollution (Riccia, Molise, Southern Italy). The biological response chain to air pollution was investigated considering vitality, photosynthetic efficiency, heat shock protein 70 (Hsp70) induction and gene expression levels, and chlorophyll degradation and related ultrastructural alterations. Particularly, a significant increment in Hsp70 expression and occurrence, and modifications in the chloroplasts' ultrastructure can be strictly related to the environmental pollution conditions in the three sites. The results could be interpreted in relation to the use of these parameters as biomarkers for environmental pollution.

Monitoring irrigated land acreage using Landsat imagery: an application example

USGS Publications Warehouse

Draeger, William C.

1976-01-01

A demonstration of the utility of Landsat imagery for quickly and cheaply estimating irrigated land area was conducted in the Klamath River basin of Oregon. Landsat color composite images, at 1:250,000 scale and acquired on two dates during the 1975 growing season, were interpreted. Irrigated lands were delineated manually, and the irrigated area was estimated, based on dot-grid sampling of the manually delineated lands. The image interpretation estimate of irrigated area was then adjusted by a comparison of interpretation results with ground data on 45 sample plots, each 1 mi2 (2.6 km2) in size.Two interpreters independently estimated the irrigated area.  Their adjusted estimates were 285,000 acres (115,000 ha) and 267,000 acres (108,000 ha) respectively, with corresponding 95 percent confidence intervals of ±19,500 acres (7,880 ha) and ±34,700 acres (14,000 ha). The estimated cost of the survey, exclusive of management costs and training, was $1,500.

A preliminary study of older hot spring alteration in Sevenmile Hole, Grand Canyon of the Yellowstone River, Yellowstone Caldera, Wyoming

USGS Publications Warehouse

Larson, Peter B.; Phillips, Allison; John, David A.; Cosca, Michael A.; Pritchard, Chad; Andersen, Allen; Manion, Jennifer

2009-01-01

Erosion in the Grand Canyon of the Yellowstone River, Yellowstone Caldera (640 ka), Wyoming, has exposed a cross section of older hydrothermal alteration in the canyon walls. The altered outcrops of the post-collapse tuff of Sulphur Creek (480 ka) extend from the canyon rim to more than 300 m beneath it. The hydrothermal minerals are zoned, with an advanced argillic alteration consisting of an association of quartz (opal) + kaolinite ± alunite ± dickite, and an argillic or potassic alteration association with quartz + illite ± adularia. Disseminated fine-grained pyrite or marcasite is ubiquitous in both alteration types. These alteration associations are characteristic products of shallow volcanic epithermal environments. The contact between the two alteration types is about 100 m beneath the rim. By analogy to other active geothermal systems including active hydrothermal springs in the Yellowstone Caldera, the transition from kaolinite to illite occurred at temperatures in the range 150 to 170 °C. An 40Ar/39Ar age on alunite of 154,000 ± 16,000 years suggests that hydrothermal activity has been ongoing since at least that time. A northwest-trending linear array of extinct and active hot spring centers in the Sevenmile Hole area implies a deeper structural control for the upflowing hydrothermal fluids. We interpret this deeper structure to be the Yellowstone Caldera ring fault that is covered by the younger tuff of Sulphur Creek. The Sevenmile Hole altered area lies at the eastern end of a band of hydrothermal centers that may mark the buried extension of the Yellowstone Caldera ring fault across the northern part of the Caldera.

Elemental Gains/Losses Associated with Alteration Fractures in an Eolian Sandstone, Gale Crater, Mars

NASA Technical Reports Server (NTRS)

Ming, D. W.; Yen, A. S.; Gellert, R.; Sutter, B.; Berger, J. A.; Thompson, L. M.; Schmidt, M. E.; Morris, R. V.; Treiman, A. H.

2016-01-01

The Mars Science Laboratory rover Curiosity has traversed up section through approximately 100 m of sedimentary rocks deposited in fluvial, deltaic, lacustrine, and eolian environments (Bradbury group and overlying Mount Sharp group). The Stimson formation unconformably overlies a lacustrine mudstone at the base of the Mount Sharp group and has been interpreted to be a cross-bedded sandstone of lithified eolian dunes. Unaltered Stimson sandstone has a basaltic composition similar to the average Mars crustal composition, but is more variable and ranges to lower K and higher Al. Fluids passing through alteration "halos" adjacent to fractures have altered the chemistry and mineralogy of the sandstone. Elemental mass gains and losses in the alteration halos were quantified using immobile element concentrations, i.e., Ti (taus). Alteration halos have elemental gains in Si, Ca, S, and P and large losses in Al, Fe, Mn, Mg, Na, K, Ni, and Zn. Mineralogy of the altered Stimson is dominated by Ca-sulfates, Si-rich X-ray amorphous materials along with plagioclase feldspar, magnetite, and pyroxenes. The igneous phases were less abundant in the altered sandstone with a lower pyroxene/plagioclase feldspar. Large elemental losses suggest acidic fluids initially removed these elements (Al mobile under acid conditions). Enrichments in Si, Ca, and S suggest secondary fluids (possibly alkaline) passed through these fractures leaving behind X-ray amorphous Si and Ca-sulfates. The mechanism for the large elemental gains in P is unclear. The geochemistry and mineralogy of the altered sandstone suggests a complicated diagenetic history with multiple episodes of aqueous alteration under a variety of environmental conditions (e.g., acidic, alkaline).

Dealing with taste and smell alterations-A qualitative interview study of people treated for lung cancer.

PubMed

Belqaid, Kerstin; Tishelman, Carol; Orrevall, Ylva; Månsson-Brahme, Eva; Bernhardson, Britt-Marie

2018-01-01

Taste and smell alterations have been recognized as common symptoms in relation to various cancers. However, previous research suggests that patients do not receive sufficient support in managing taste and smell alterations. Therefore, the objective of this study is to investigate how persons with experience from lung cancer-related taste and smell alterations reason about resources and strategies offered and used to manage these symptoms. Data from semi-structured individual interviews with 13 women and four men were analyzed with qualitative content analysis. We used Kleinman's now classic medical anthropological model of local health care systems, consisting of the personal, professional, and folk sector, to interpret and understand how people respond to sickness experiences in their daily lives. By presenting the findings using this model, we demonstrate that most strategies for dealing with taste and smell alterations were undertaken in the personal sector, i.e. in participants' daily lives, on an individual level and in interaction with family, social networks and communities. Taste and smell alterations implied two overarching challenges: 1) adjusting to no longer being able to trust information provided by one's own senses of taste and/or smell, and 2) coming to terms with taste and smell alterations as a part of having lung cancer. Health care professionals' involvement was described as limited, but appeared to fulfil most participants' expectations. However, through provision of normalizing information, practical advice, and to some extent, emotional support, health care professionals had potential to influence strategies and resources used for dealing with taste and smell alterations. With this study, we further the understanding of how people deal with lung cancer-related taste and smell alterations and discuss the role of health care professionals for this process.

Self organizing map neural networks approach for lithologic interpretation of nuclear and electrical well logs in basaltic environment, Southern Syria.

PubMed

Asfahani, J; Ahmad, Z; Ghani, B Abdul

2018-07-01

An approach based on self organizing map (SOM) artificial neural networks is proposed herewith oriented towards interpreting nuclear and electrical well logging data. The well logging measurements of Kodana well in Southern Syria have been interpreted by applying the proposed approach. Lithological cross-section model of the basaltic environment has been derived and four different kinds of basalt have been consequently distinguished. The four basalts are hard massive basalt, hard basalt, pyroclastic basalt and the alteration basalt products- clay. The results obtained by SOM artificial neural networks are in a good agreement with the previous published results obtained by other different techniques. The SOM approach is practiced successfully in the case study of the Kodana well logging data, and can be therefore recommended as a suitable and effective approach for handling huge well logging data with higher number of variables required for lithological discrimination purposes. Copyright © 2018 Elsevier Ltd. All rights reserved.

Low Temperature Reflectance Spectra of Titan Tholins

NASA Technical Reports Server (NTRS)

Roush, T. L.; Dalton, J. B.; Fonda, Mark (Technical Monitor)

2001-01-01

Compositional interpretation of remotely obtained reflectance spectra of outer solar system surfaces is achieved by a variety of methods. These include matching spectral curves, matching spectral features, quantitative spectral interpretation, and theoretical modeling of spectra. All of these approaches rely upon laboratory measurements of one kind or another. The bulk of these laboratory measurements are obtained with the sample of interest at ambient temperatures and pressures. However, surface temperatures of planets, satellites, and asteroids in the outer solar system are significantly cooler than ambient laboratory conditions on Earth. The infrared spectra of many materials change as a function of temperature. As has been recently demonstrated it is important to assess what effects colder temperatures have on spectral properties and hence, compositional interpretations. Titan tholin is a solid residue created by energetic processing of H-, C-, and N-bearing gases. Such residues can also be created by energetic processing if the gases are condensed into ices. Titan tholin has been suggested as a coloring agent for several surfaces in the outer solar system. Here we report laboratory measurements of Titan tholin at a temperature of 100 K and compare these to measurements of the same sample near room temperature. At low temperature the absorption features beyond 1 micrometer narrow slightly. At wavelengths greater than approx. 0.8 micrometer the overall reflectance of the sample decreases slightly making the sample less red at low temperatures. We will discuss the implications of the laboratory measurements for interpretation of cold outer solar system surfaces.

Influence of diagnostic criteria on the interpretation of adrenal vein sampling.

PubMed

Lethielleux, Gaëlle; Amar, Laurence; Raynaud, Alain; Plouin, Pierre-François; Steichen, Olivier

2015-04-01

Guidelines promote the use of adrenal vein sampling (AVS) to document lateralized aldosterone hypersecretion in primary aldosteronism. However, there are large discrepancies between institutions in the criteria used to interpret its results. This study evaluates the consequences of these differences on the classification and management of patients. The results of all 537 AVS procedures performed between January 2001 and July 2010 in our institution were interpreted with 4 diagnostic criteria used in experienced institutions where AVS is performed without cosyntropin (Brisbane, Padua, Paris, and Turin) and with criteria proposed by a recent consensus statement. AVS procedures were classified as unsuccessful, lateralized, or not lateralized according to each set of criteria. Almost 5× more AVS procedures were classified as unsuccessful with the strictest criteria than with the least strict criteria (18% versus 4%, respectively). Similarly, over 2× more AVS procedures were classified as lateralized with the least stringent criteria than with the most stringent criteria (60% versus 26%, respectively). Multiple samples were available from ≥1 side for 155 AVS procedures. These procedures were classified differently by ≥2 right-left sample pairs in 12% to 20% of cases. Thus, different sets of criteria used to interpret AVS in experienced institutions translate into heterogeneous classifications and hence management decisions, for patients with primary aldosteronism. Defining the most appropriate procedures and diagnostic criteria is needed for AVS to achieve optimal performance and fully justify its status as a gold standard. © 2015 American Heart Association, Inc.

Pre-analytical issues in the haemostasis laboratory: guidance for the clinical laboratories.

PubMed

Magnette, A; Chatelain, M; Chatelain, B; Ten Cate, H; Mullier, F

2016-01-01

Ensuring quality has become a daily requirement in laboratories. In haemostasis, even more than in other disciplines of biology, quality is determined by a pre-analytical step that encompasses all procedures, starting with the formulation of the medical question, and includes patient preparation, sample collection, handling, transportation, processing, and storage until time of analysis. This step, based on a variety of manual activities, is the most vulnerable part of the total testing process and is a major component of the reliability and validity of results in haemostasis and constitutes the most important source of erroneous or un-interpretable results. Pre-analytical errors may occur throughout the testing process and arise from unsuitable, inappropriate or wrongly handled procedures. Problems may arise during the collection of blood specimens such as misidentification of the sample, use of inadequate devices or needles, incorrect order of draw, prolonged tourniquet placing, unsuccessful attempts to locate the vein, incorrect use of additive tubes, collection of unsuitable samples for quality or quantity, inappropriate mixing of a sample, etc. Some factors can alter the result of a sample constituent after collection during transportation, preparation and storage. Laboratory errors can often have serious adverse consequences. Lack of standardized procedures for sample collection accounts for most of the errors encountered within the total testing process. They can also have clinical consequences as well as a significant impact on patient care, especially those related to specialized tests as these are often considered as "diagnostic". Controlling pre-analytical variables is critical since this has a direct influence on the quality of results and on their clinical reliability. The accurate standardization of the pre-analytical phase is of pivotal importance for achieving reliable results of coagulation tests and should reduce the side effects of the influence factors. This review is a summary of the most important recommendations regarding the importance of pre-analytical factors for coagulation testing and should be a tool to increase awareness about the importance of pre-analytical factors for coagulation testing.

Extreme Hafnium Values in Archean Banded Iron Formations: Evidence for Sedimentary Lu/Hf Fractionation at 3.2 Ga or Diagenesis?

NASA Astrophysics Data System (ADS)

Foster, I. S.; Agranier, A.; Heubeck, C. E.; Köhler, I.; Homann, M.; Tripati, A. K.; Nonnotte, P.; Ponzevera, E.; Lalonde, S.

2017-12-01

The emergence of continental crust above sea level in the early Precambrian would have created the first terrestrial habitats, and initiated atmosphere-driven weathering of the continents, yet the history of continental emergence is largely unknown[1]. Precambrian chemical sediments, specifically Banded Iron Formation (BIF), appear to have sampled the Hf-Nd isotope composition of ancient seawater, and may preserve a historical record of the emergence of the continental landmass[2] via Lu/Hf fractionation induced by subaerial differential weathering[3,4]. However, paired Hf-Nd isotope data are available for only one BIF to date, indicating appreciable emerged continental landmass ca. 2.7 Ga[2]. Our work extends this record back into the Eo- and Meso-Archean using samples of 3.8 Ga BIF from Isua, Greenland, and 3.2 Ga BIF from the Moodies Group, S. Africa. Isua samples appear to have been altered by amphibolite-grade metamorphism, however Moodies Group samples appear primary, having experienced significantly lower metamorphic grades. Moodies samples appear to retain their primary seawater signatures, however, their range of ˜Hf(i) values, from -54.6 to +40.7, is among the most extreme ever reported. Such extreme values may be indicative of one of several possibilities: unusual and intense sedimentary Lu/Hf fractionation during the Mesoarchean relative to today, sampling of a continuum of compositions from two sources with distinct Hf-compositions, or the result of early diagenetic processes occurring soon after the deposition of the Moodies Group BIF. These results suggest that interpretation of ˜Hf and ˜Nd data from BIF is not as straightforward as previously suggested[2], and positive ˜Hf values are not necessarily indicative of emerged continental crust. [1] Flament et al. (2013), Precambrian Research, 229, 177-188. [2] Veihmann et al. (2014), Geology, 42, 115-118. [3] Bayon et al. (2006), Geology, 34, 433-436. [4] Vervoort et al. (2011), Geochimica et Cosmochimica Acta, 75, 5903-5926.

Label-Free LC-MS/MS Proteomic Analysis of Cerebrospinal Fluid Identifies Protein/Pathway Alterations and Candidate Biomarkers for Amyotrophic Lateral Sclerosis.

PubMed

Collins, Mahlon A; An, Jiyan; Hood, Brian L; Conrads, Thomas P; Bowser, Robert P

2015-11-06

Analysis of the cerebrospinal fluid (CSF) proteome has proven valuable to the study of neurodegenerative disorders. To identify new protein/pathway alterations and candidate biomarkers for amyotrophic lateral sclerosis (ALS), we performed comparative proteomic profiling of CSF from sporadic ALS (sALS), healthy control (HC), and other neurological disease (OND) subjects using label-free liquid chromatography-tandem mass spectrometry (LC-MS/MS). A total of 1712 CSF proteins were detected and relatively quantified by spectral counting. Levels of several proteins with diverse biological functions were significantly altered in sALS samples. Enrichment analysis was used to link these alterations to biological pathways, which were predominantly related to inflammation, neuronal activity, and extracellular matrix regulation. We then used our CSF proteomic profiles to create a support vector machines classifier capable of discriminating training set ALS from non-ALS (HC and OND) samples. Four classifier proteins, WD repeat-containing protein 63, amyloid-like protein 1, SPARC-like protein 1, and cell adhesion molecule 3, were identified by feature selection and externally validated. The resultant classifier distinguished ALS from non-ALS samples with 83% sensitivity and 100% specificity in an independent test set. Collectively, our results illustrate the utility of CSF proteomic profiling for identifying ALS protein/pathway alterations and candidate disease biomarkers.

Diffusion Modelling Reveals the Decision Making Processes Underlying Negative Judgement Bias in Rats.

PubMed

Hales, Claire A; Robinson, Emma S J; Houghton, Conor J

2016-01-01

Human decision making is modified by emotional state. Rodents exhibit similar biases during interpretation of ambiguous cues that can be altered by affective state manipulations. In this study, the impact of negative affective state on judgement bias in rats was measured using an ambiguous-cue interpretation task. Acute treatment with an anxiogenic drug (FG7142), and chronic restraint stress and social isolation both induced a bias towards more negative interpretation of the ambiguous cue. The diffusion model was fit to behavioural data to allow further analysis of the underlying decision making processes. To uncover the way in which parameters vary together in relation to affective state manipulations, independent component analysis was conducted on rate of information accumulation and distances to decision threshold parameters for control data. Results from this analysis were applied to parameters from negative affective state manipulations. These projected components were compared to control components to reveal the changes in decision making processes that are due to affective state manipulations. Negative affective bias in rodents induced by either FG7142 or chronic stress is due to a combination of more negative interpretation of the ambiguous cue, reduced anticipation of the high reward and increased anticipation of the low reward.

Alterations of ATM and CADM1 in chromosomal 11q22.3-23.2 region are associated with the development of invasive cervical carcinoma.

PubMed

Mazumder Indra, Dipanjana; Mitra, Sraboni; Roy, Anup; Mondal, Ranajit Kumar; Basu, Partha Sarathi; Roychoudhury, Susanta; Chakravarty, Runu; Panda, Chinmay Kumar

2011-12-01

To understand the importance of chr11q22.3-23.2 region in the development of cervical cancer, we have studied the genetic and epigenetic alterations of the candidate genes ATM, PPP2R1B, SDHD and CADM1 in cervical intraepithelial neoplasia (CIN) and cervical carcinoma (CACX) samples. Our study revealed low expression and high alterations (methylation/deletion) (55-59%) of ATM and CADM1 genes along with poor patient outcome. The alterations of ATM and CADM1 are associated with the progression of tumor from CIN to Stage I/II, thus implying their role in early invasiveness. The two genes, PPP2R1B and SDHD, lying in between ATM and CADM1, have low frequency of alterations, and majority of the alterations are in CACX samples, indicating that their alterations might be associated with disease progression. Expressions (mRNA/protein) of the genes showed concordance with their molecular alterations. Significant co-alteration of ATM and CADM1 points to their synergic action for the development of CACX. Mutation is, however, a rare phenomenon for inactivation of ATM. Association between the alteration of ATM and CHEK1 and poor survival of the patients having co-alterations of ATM and CHEK1 points to the DNA damage response pathway disruption in development of CACX. Thus, our data suggest that inactivation of ATM-CHEK1-associated DNA damage response pathway and CADM1-associated signaling network might have an important role in the development of CACX.

The Viking X ray fluorescence experiment - Sampling strategies and laboratory simulations. [Mars soil sampling

NASA Technical Reports Server (NTRS)

Baird, A. K.; Castro, A. J.; Clark, B. C.; Toulmin, P., III; Rose, H., Jr.; Keil, K.; Gooding, J. L.

1977-01-01

Ten samples of Mars regolith material (six on Viking Lander 1 and four on Viking Lander 2) have been delivered to the X ray fluorescence spectrometers as of March 31, 1977. An additional six samples at least are planned for acquisition in the remaining Extended Mission (to January 1979) for each lander. All samples acquired are Martian fines from the near surface (less than 6-cm depth) of the landing sites except the latest on Viking Lander 1, which is fine material from the bottom of a trench dug to a depth of 25 cm. Several attempts on each lander to acquire fresh rock material (in pebble sizes) for analysis have yielded only cemented surface crustal material (duricrust). Laboratory simulation and experimentation are required both for mission planning of sampling and for interpretation of data returned from Mars. This paper is concerned with the rationale for sample site selections, surface sampler operations, and the supportive laboratory studies needed to interpret X ray results from Mars.

Lessons learned from surface wipe sampling for lead in three workplaces.

PubMed

Beaucham, Catherine; Ceballos, Diana; King, Bradley

2017-08-01

Surface wipe sampling in the occupational environment is a technique widely used by industrial hygienists. Although several organizations have promulgated standards for sampling lead and other metals, uncertainty still exists when trying to determine an appropriate wipe sampling strategy and how to interpret sampling results. Investigators from the National Institute for Occupational Safety and Health (NIOSH) Health Hazard Evaluation Program have used surface wipe sampling as part of their exposure assessment sampling strategies in a wide range of workplaces. This article discusses wipe sampling for measuring lead on surfaces in three facilities: (1) a battery recycling facility; (2) a firing range and gun store; and (3) an electronic scrap recycling facility. We summarize our findings from the facilities and what we learned by integrating wipe sampling into our sampling plan. Wiping sampling demonstrated lead in non-production surfaces in all three workplaces and that the potential that employees were taking lead home to their families existed. We also found that the presence of metals such as tin can interfere with the colorimetric results. We also discuss the advantages and disadvantages of colorimetric analysis of surface wipe samples and the challenges we faced when interpreting wipe sampling results.

Methods for the Determination of Rates of Glucose and Fatty Acid Oxidation in the Isolated Working Rat Heart

PubMed Central

Bakrania, Bhavisha; Granger, Joey P.; Harmancey, Romain

2016-01-01

The mammalian heart is a major consumer of ATP and requires a constant supply of energy substrates for contraction. Not surprisingly, alterations of myocardial metabolism have been linked to the development of contractile dysfunction and heart failure. Therefore, unraveling the link between metabolism and contraction should shed light on some of the mechanisms governing cardiac adaptation or maladaptation in disease states. The isolated working rat heart preparation can be used to follow, simultaneously and in real time, cardiac contractile function and flux of energy providing substrates into oxidative metabolic pathways. The present protocol aims to provide a detailed description of the methods used in the preparation and utilization of buffers for the quantitative measurement of the rates of oxidation for glucose and fatty acids, the main energy providing substrates of the heart. The methods used for sample analysis and data interpretation are also discussed. In brief, the technique is based on the supply of 14C- radiolabeled glucose and a 3H- radiolabeled long-chain fatty acid to an ex vivo beating heart via normothermic crystalloid perfusion. 14CO2 and 3H2O, end byproducts of the enzymatic reactions involved in the utilization of these energy providing substrates, are then quantitatively recovered from the coronary effluent. With knowledge of the specific activity of the radiolabeled substrates used, it is then possible to individually quantitate the flux of glucose and fatty acid in the oxidation pathways. Contractile function of the isolated heart can be determined in parallel with the appropriate recording equipment and directly correlated to metabolic flux values. The technique is extremely useful to study the metabolism/contraction relationship in response to various stress conditions such as alterations in pre and after load and ischemia, a drug or a circulating factor, or following the alteration in the expression of a gene product. PMID:27768055

Sulfur and oxygen isotopic study of Paleozoic sediment-hosted Zn-Pb(-Ag-Au-Ba-F) deposits and associated hydrothermal alteration zones in the Nome Complex, Seward Peninsula, Alaska

USGS Publications Warehouse

Shanks, W.C. Pat; Slack, John F.; Till, Alison B.; Thurston, Roland; Gemery-Hill, Pamela

2014-01-01

The stratabound Nelson deposit, and the deformed veins at the Galena and Quarry deposits, may be older than the Aurora Creek-Christophosen and Wheeler North deposits. The Nelson deposit has a lower and narrower range of δ34S values (1.9 to 10.4‰), averaging about 8‰. The Galena and Quarry veins display δ34S values that are similar to those of the stratabound Nelson deposit. Barite samples from the Aurora Creek-Christophosen, Wheeler North, and Quarry deposits have 34S-enriched δ34S values between 25 and 30‰ that are consistent with derivation of the sulfur from coeval (Paleozoic) seawater sulfate. Given their δ34S values, it is likely that the Aurora Creek-Christophosen and Wheeler North deposits formed in closed sub-basins with euxinic conditions that led to extreme Rayleigh distillation to produce the very large range and very high δ34S values. The Nelson deposit probably formed within an anoxic but not euxinic sub-basin. At Nelson, sulfide was likely derived by a subsurface thermochemical sulfate reduction (TSR) reaction, similar to reactions that are inferred to have produced the sulfides in the Galena and Quarry deposits, which are interpreted as feeder veins for the stratabound deposits. Calculations of oxygen isotope temperatures are based on the assumption that evolved seawater with δ18O of 3‰ was the mineralizing and altering fluid related to the formation of the sulfide deposits. Temperatures of aluminous alteration and sulfide mineralization were between 109 and 209 °C, determined on the basis of oxygen isotope fractionations between the mineralizing fluid and proportionate amounts of quartz and muscovite in the rocks. These temperature estimates agree well with known temperatures of SEDEX mineralization worldwide. Sulfur isotope values also are generally consistent with the known ranges in SEDEX deposits worldwide (δ34S ≈ -5 to 25‰).

Exploring metabolic pathway disruption in the subchronic phencyclidine model of schizophrenia with the Generalized Singular Value Decomposition

PubMed Central

2011-01-01

Background The quantification of experimentally-induced alterations in biological pathways remains a major challenge in systems biology. One example of this is the quantitative characterization of alterations in defined, established metabolic pathways from complex metabolomic data. At present, the disruption of a given metabolic pathway is inferred from metabolomic data by observing an alteration in the level of one or more individual metabolites present within that pathway. Not only is this approach open to subjectivity, as metabolites participate in multiple pathways, but it also ignores useful information available through the pairwise correlations between metabolites. This extra information may be incorporated using a higher-level approach that looks for alterations between a pair of correlation networks. In this way experimentally-induced alterations in metabolic pathways can be quantitatively defined by characterizing group differences in metabolite clustering. Taking this approach increases the objectivity of interpreting alterations in metabolic pathways from metabolomic data. Results We present and justify a new technique for comparing pairs of networks--in our case these networks are based on the same set of nodes and there are two distinct types of weighted edges. The algorithm is based on the Generalized Singular Value Decomposition (GSVD), which may be regarded as an extension of Principle Components Analysis to the case of two data sets. We show how the GSVD can be interpreted as a technique for reordering the two networks in order to reveal clusters that are exclusive to only one. Here we apply this algorithm to a new set of metabolomic data from the prefrontal cortex (PFC) of a translational model relevant to schizophrenia, rats treated subchronically with the N-methyl-D-Aspartic acid (NMDA) receptor antagonist phencyclidine (PCP). This provides us with a means to quantify which predefined metabolic pathways (Kyoto Encyclopedia of Genes and Genomes (KEGG) metabolite pathway database) were altered in the PFC of PCP-treated rats. Several significant changes were discovered, notably: 1) neuroactive ligands active at glutamate and GABA receptors are disrupted in the PFC of PCP-treated animals, 2) glutamate dysfunction in these animals was not limited to compromised glutamatergic neurotransmission but also involves the disruption of metabolic pathways linked to glutamate; and 3) a specific series of purine reactions Xanthine ← Hypoxyanthine ↔ Inosine ← IMP → adenylosuccinate is also disrupted in the PFC of PCP-treated animals. Conclusions Network reordering via the GSVD provides a means to discover statistically validated differences in clustering between a pair of networks. In practice this analytical approach, when applied to metabolomic data, allows us to quantify the alterations in metabolic pathways between two experimental groups. With this new computational technique we identified metabolic pathway alterations that are consistent with known results. Furthermore, we discovered disruption in a novel series of purine reactions that may contribute to the PFC dysfunction and cognitive deficits seen in schizophrenia. PMID:21575198

Oxygen and Hydrogen Isotope Values for Unaltered and Hydrothermally Altered Samples from the Cretaceous Linga Plutonic Complex of the Peruvian Coastal Batholith near Ica.

NASA Astrophysics Data System (ADS)

Gonzalez, L. U.; Holk, G. J.; Clausen, B. L.; Poma Porras, O. A.

2015-12-01

A portion of the Peruvian Coastal Batholith near Ica, Peru is being studied using stable isotopes to determine the source of hydrothermal fluids that caused propylitic, phyllic, and potassic alteration in the mineralized Linga plutonic complex. Sources of hydrothermal fluids and water/rock ratios are estimated to understand the role of such fluids in alteration during cooling. A set of 64 mineral analysis from 18 igneous samples, 7 unaltered and 11 altered, were analyzed for D/H and 18O/16O isotopes. The δ18O values for whole rocks with no apparent alteration vary from +6.8‰ to +7.9‰, with sets of δ18O mineral values indicating isotopic equilibrium at closure temperatures from 571°C to 651°C, and no interaction with meteoric water. This conclusion is bolstered by hornblende (-87‰ to -64‰) and biotite (-81‰ to -74‰) δD values Most δ18O values for samples with hydrothermal alteration suggest that alteration results from magmatic fluids; however, several analyses indicate interaction with other fluids. The high δ18O values for plagioclase (+9.3‰) and hornblende (+6.3‰) from a metamorphic aureole in volcanic host rock near a plutonic intrusion may be due to interaction with metamorphic or low temperature magmatic fluids. Plagioclase (+2.6‰) and biotite (+0.1‰) δ18O values in a sample from the Jurassic volcanic envelope indicate a significant effect from meteoric-hydrothermal fluids. An altered monzonite yielded δ18O values for quartz (+5.5‰), K-spar (+5.6‰), and magnetite (+0.4‰), also suggesting interaction with meteoric fluids. A diorite from an area with strong epidotization produced an epidote δD value of -25.8‰ and a monzonite from a highly veined area has an epidote δD value of -36.1‰ suggesting interaction with sea water. This new data indicate that the Linga complex was primarily influenced by magmatic hydrothermal fluids, but metamorphic, meteoric, and sea water may have had some influence in producing alteration assemblages and in cooling the magmatic complex.

Smartphone-based assessment of blood alteration severity

NASA Astrophysics Data System (ADS)

Li, Xianglin; Xue, Jiaxin; Li, Wei; Li, Ting

2018-02-01

Blood quality and safety management is a critical issue for cold chain transportation of blood or blood-based biological reagent. The conventional methods of blood alteration severity assessment mainly rely on kit test or blood-gas analysis required opening the blood package to get samples, which cause possible blood pollution and are complicate, timeconsuming, and expensive. Here we proposed to develop a portable, real-time, safety, easy-operated and low cost method aimed at assessing blood alteration severity. Color images of the blood in transparent blood bags were collected with a smartphone and the alteration severity of the blood was assessed by the smartphone app offered analysis of RGB color values of the blood. The algorithm is based on a large number sample of RGB values of blood at different alteration degree. The blood quality results evaluated by the smartphone are in accordance with the actual data. This study indicates the potential of smart phone in real time, convenient, and reliable blood quality assessment.

Random Splicing of Several Exons Caused by a Single Base Change in the Target Exon of CRISPR/Cas9 Mediated Gene Knockout.

PubMed

Kapahnke, Marcel; Banning, Antje; Tikkanen, Ritva

2016-12-14

The clustered regularly interspaced short palindromic repeats (CRISPR)-associated sequence 9 (CRISPR/Cas9) system is widely used for genome editing purposes as it facilitates an efficient knockout of a specific gene in, e.g. cultured cells. Targeted double-strand breaks are introduced to the target sequence of the guide RNAs, which activates the cellular DNA repair mechanism for non-homologous-end-joining, resulting in unprecise repair and introduction of small deletions or insertions. Due to this, sequence alterations in the coding region of the target gene frequently cause frame-shift mutations, facilitating degradation of the mRNA. We here show that such CRISPR/Cas9-mediated alterations in the target exon may also result in altered splicing of the respective pre-mRNA, most likely due to mutations of splice-regulatory sequences. Using the human FLOT-1 gene as an example, we demonstrate that such altered splicing products also give rise to aberrant protein products. These may potentially function as dominant-negative proteins and thus interfere with the interpretation of the data generated with these cell lines. Since most researchers only control the consequences of CRISPR knockout at genomic and protein level, our data should encourage to also check the alterations at the mRNA level.

Long-term experiences of Norwegian live kidney donors: qualitative in-depth interviews.

PubMed

Meyer, Käthe B; Bjørk, Ida Torunn; Wahl, Astrid Klopstad; Lennerling, Annette; Andersen, Marit Helen

2017-02-16

Live kidney donation is generally viewed as a welcome treatment option for severe kidney disease. However, there is a disparity in the body of research on donor experiences and postdonation outcome, and lack of knowledge on long-term consequences described by the donors. This study was conducted to provide insight into donors' subjective meanings and interpretation of their experiences ∼10 years after donation. Qualitative explorative in-depth interviews. The sampling strategy employed maximum variation. Setting Oslo University Hospital is the national centre for organ transplantation and donation in Norway, and there are 26 local nephrology centres. 16 donors representing all parts of Norway who donated a kidney in 2001-2004 participated in the study. The interviews were analysed using an interpretative approach. The analysis resulted in 4 main themes; the recipient outcome justified long-term experiences, family dynamics-tension still under the surface, ambivalence-healthy versus the need for regular follow-up, and life must go on. These themes reflect the complexity of live kidney donation, which fluctuated from positive experiences such as pride and feeling privileged to adverse experiences such as altered family relationships or reduced health. Live kidney donors seemed to possess resilient qualities that enabled them to address the long-term consequences of donation. The challenge is to provide more uniform information about long-term consequences. In future research, resilient qualities could be a topic to explore in live donation. Published by the BMJ Publishing Group Limited. For permission to use (where not already granted under a licence) please go to http://www.bmj.com/company/products-services/rights-and-licensing/.

Compound-specific isotopic analyses: a novel tool for reconstruction of ancient biogeochemical processes

NASA Technical Reports Server (NTRS)

Hayes, J. M.; Freeman, K. H.; Popp, B. N.; Hoham, C. H.

1990-01-01

Patterns of isotopic fractionation in biogeochemical processes are reviewed and it is suggested that isotopic fractionations will be small when substrates are large. If so, isotopic compositions of biomarkers will reflect those of their biosynthetic precursors. This prediction is tested by consideration of results of analyses of geoporphyrins and geolipids from the Greenhorn Formation (Cretaceous, Western Interior Seaway of North America) and the Messel Shale (Eocene, lacustrine, southern Germany). It is shown (i) that isotopic compositions of porphyrins that are related to a common source, but which have been altered structurally, cluster tightly and (ii) that isotopic differences between geolipids and porphyrins related to a common source are equal to those observed in modern biosynthetic products. Both of these observations are consistent with preservation of biologically controlled isotopic compositions during diagenesis. Isotopic compositions of individual compounds can thus be interpreted in terms of biogeochemical processes in ancient depositional environments. In the Cretaceous samples, isotopic compositions of n-alkanes are covariant with those of total organic carbon, while delta values for pristane and phytane are covariant with those of porphyrins. In this unit representing an open marine environment, the preserved acyclic polyisoprenoids apparently derive mainly from primary material, while the extractable, n-alkanes derive mainly from lower levels of the food chain. In the Messel Shale, isotopic compositions of individual biomarkers range from -20.9 to -73.4% vs PDB. Isotopic compositions of specific compounds can be interpreted in terms of origin from methylotrophic, chemautotrophic, and chemolithotrophic microorganisms as well as from primary producers that lived in the water column and sediments of this ancient lake.

Influence of ns-laser wavelength in laser-induced breakdown spectroscopy for discrimination of painting techniques

NASA Astrophysics Data System (ADS)

Bai, Xueshi; Syvilay, Delphine; Wilkie-Chancellier, Nicolas; Texier, Annick; Martinez, Loic; Serfaty, Stéphane; Martos-Levif, Dominique; Detalle, Vincent

2017-08-01

The influence of ns-laser wavelength to discriminate ancient painting techniques such as are fresco, casein, animal glue, egg yolk and oil was investigated in this work. This study was carried out with a single shot laser on samples covered by a layer made of a mixture of the cinnabar pigment and different binders. Three wavelengths based on Nd: YAG laser were investigated (1064, 532 and 266 nm). The plasma is controlled at the same electron temperature after an adjustment of pulse energy for these three wavelengths on a fresco sample without organic binder. This approach allows to eliminate the effects of laser pulse energy and the material laser absorption. Afterwards, the emission spectra were compared to separate different techniques. The organic binding media has been separated based on the relative emission intensity of the present CN or C2 rovibrational emissions. In order to test the capability of separating or identifying, the chemometric approach (PCA) was applied to the different matrix. The different solutions in term of wavelength range to optimise the identification was investigated. We focused on the evaluation for the laser wavelength to insure a better separation. The different capacity was interpreted by differentiating the binders by the altered interaction mechanisms between the laser photon and the binders. Also, the electron temperature in the plasma was estimated, which provided the evidences to our findings.

Exploring Valleys without Climbing Every Peak: More Efficient and Forgiving Metabasin Metadynamics via Robust On-the-Fly Bias Domain Restriction

PubMed Central

2015-01-01

Metadynamics is an enhanced sampling method designed to flatten free energy surfaces uniformly. However, the highest-energy regions are often irrelevant to study and dangerous to explore because systems often change irreversibly in unforeseen ways in response to driving forces in these regions, spoiling the sampling. Introducing an on-the-fly domain restriction allows metadynamics to flatten only up to a specified energy level and no further, improving efficiency and safety while decreasing the pressure on practitioners to design collective variables that are robust to otherwise irrelevant high energy driving. This paper describes a new method that achieves this using sequential on-the-fly estimation of energy wells and redefinition of the metadynamics hill shape, termed metabasin metadynamics. The energy level may be defined a priori or relative to unknown barrier energies estimated on-the-fly. Altering only the hill ensures that the method is compatible with many other advances in metadynamics methodology. The hill shape has a natural interpretation in terms of multiscale dynamics, and the computational overhead in simulation is minimal when studying systems of any reasonable size, for instance proteins or other macromolecules. Three example applications show that the formula is accurate and robust to complex dynamics, making metadynamics significantly more forgiving with respect to CV quality and thus more feasible to apply to the most challenging biomolecular systems. PMID:26587809

Hydrothermal system of the Papandayan Volcano from temperature, self-potential (SP) and geochemical measurements

NASA Astrophysics Data System (ADS)

Byrdina, Svetlana; Revil, André; Gunawan, Hendra; Saing, Ugan B.; Grandis, Hendra

2017-07-01

Papandayan volcano in West Java, Indonesia, is characterized by intense hydrothermal activities manifested by numerous fumaroles at three craters or kawah, i.e. Mas, Manuk and Baru. The latter was created after November 2002 phreatic eruption. Since 2011, numerous volcano-tectonic B events are encountered and the volcano was set on alert status on several occasions. The purpose of the present study is to delineate the structure of the summital hydrothermal system from Self-Potential (SP), soil temperature and gas concentrations in the soil (CO2, SO2 and H2S) data. This combination of geophysical and geochemical methods allows identification of the weak permeable zones serving as preferential pathways for hydrothermal circulation and potential candidates to future landslides or flank collapses. This study is an on-going collaborative research project and we plan to conduct electrical resistivity tomography (ERT) and also Induced-Polarization (IP) surveys. Additional data would allow the 3D imaging of the studied area. The IP parameters will be used to characterise and to quantify the degree of alteration of the volcanic rocks as has been shown very recently in the laboratory studies. There are also rocks and soil samples that will undergo laboratory analyses at ISTerre for IP and complex resistivity parameters at the sample scale that will help to interpret the survey results.

Spectroscopic examinations of hydro- and glaciovolcanic basaltic tuffs: Modes of alteration and relevance for Mars

NASA Astrophysics Data System (ADS)

Farrand, W. H.; Wright, S. P.; Glotch, T. D.; Schröder, C.; Sklute, E. C.; Dyar, M. D.

2018-07-01

Hydro- and glaciovolcanism are processes that have taken place on both Earth and Mars. The amount of materials produced by these processes that are present in the martian surface layer is unknown, but may be substantial. We have used Mars rover analogue analysis techniques to examine altered tuff samples collected from multiple hydrovolcanic features, tuff rings and tuff cones, in the American west and from glaciovolcanic hyaloclastite ridges in Washington state and in Iceland. Analysis methods include VNIR-SWIR reflectance, MWIR thermal emissivity, thin section petrography, XRD, XRF, and Mössbauer spectroscopy. We distinguish three main types of tuff that differ prominently in petrography and VNIR-SWIR reflectance: minimally altered sideromelane tuff, gray to brown colored smectite-bearing tuff, and highly palagonitized tuff. Differences are also observed between the tuffs associated with hydrovolcanic tuff rings and tuff cones and those forming glaciovolcanic hyaloclastite ridges. For the locations sampled, hydrovolcanic palagonite tuffs are more smectite and zeolite rich while the palagonitized hyaloclastites from the sampled glaciovolcanic sites are largely devoid of zeolites and relatively lacking in smectites as well. The gray to brown colored tuffs are only observed in the hydrovolcanic deposits and appear to represent a distinct alteration pathway, with formation of smectites without associated palagonite formation. This is attributed to lower temperatures and possibly longer time scale alteration. Altered hydro- or glaciovolcanic materials might be recognized on the surface of Mars with rover-based instrumentation based on the results of this study.

The evolution of the Cappadocia Geothermal Province, Anatolia (Turkey): geochemical and geochronological evidence

NASA Astrophysics Data System (ADS)

Şener, M. Furkan; Şener, Mehmet; Uysal, I. Tonguç

2017-12-01

Cappadocia Geothermal Province (CGP), central Turkey, consists of nine individual geothermal regions controlled by active regional fault systems. This paper examines the age dating of alteration minerals and the geochemistry (trace elements and isotopes) of the alteration minerals and geothermal waters, to assess the evolution of CGP in relation to regional tectonics. Ar-Ar age data of jarosite and alunite show that the host rocks were exposed to oxidizing conditions near the Earth's surface at about 5.30 Ma. Based on the δ18O-δD relationhip, water samples had a high altitude meteoric origin. The δ34S values of jarosite and alunite indicate that water samples from the southern part of the study area reached the surface after circulation through volcanic rocks, while northern samples had traveled to the surface after interacting with evaporates at greater depths. REY (rare earth elements and yttrium) diagrams of alteration minerals (especially illite, jarosite and alunite) from rock samples, taken from the same locations as the water samples, display a similar REY pattern to water samples. This suggests that thermal fluids, which reached the surface along a fault zone and caused the mineral alteration in the past, had similar chemical composition to the current geothermal water. The geothermal conceptual model, which defines a volcanically heated reservoir and cap rocks, suggests there are no structural drawbacks to the use of the CGP geothermal system as a resource. However, fluid is insufficient to drive the geothermal system as a result of scanty supply of meteoric water due to evaporation significantly exceeding rainfall.

The Cretaceous glauconitic sandstones of Abu Tartur, Egypt

NASA Astrophysics Data System (ADS)

Pestitschek, Brigitte; Gier, Susanne; Essa, Mahmoud; Kurzweil, Johannes

2010-05-01

The Abu Tartur mine is located in the Western Desert of Egypt, 50 km west of El Kharga City. Geologically, the Abu Tartur plateau is built by a sequence of Upper Cretaceous (Campanian - Maastrichtian) phosphorites, black shales and glauconitic sandstones. The phosphate deposits are of great economic importance and have been mined since their discovery in 1967. Outcrop sections were measured, sampled, sedimentologically characterized and described. One specific glaucony layer was investigated mineralogically and chemically in detail and compared to a subsurface sample from the mine. Two depositional regimes can be interpreted based on sedimentary architecture and structures: 1) a deeper-water hemipelagic environment, where phosphorites and organic carbon-rich shales were deposited and 2) a shallower, prograding higher energy shelf environment with glauconies. From a sequence stratigraphic perspective 1) was deposited during the transgressive systems tract and the early highstand while 2) was deposited during the remaining highstand and a lowstand prograding wedge (Glenn & Arthur, 1990). Petrographic and SEM investigations show that the glaucony grains are of authochtonous origin. XRF, EMPA and thin-section analyses show that the glaucony grains from the outcrop differ significantly in their chemical composition, morphology and color from the grains of the mine sample. The fresh glauconies are enriched in Fe2O3 and K2O compared to the surface samples. XRD analyses of the clay fraction of the six outcrop samples and the mine sample show that the grains consist of illite(glauconite)/smectite mixed-layers, with more illite layers (80 %) in the mine sample. The charge distribution diagram muscovite-pyrophyllite-celadonite shows a clear trend from smectitic glaucony to illitic glaucony, the mine sample plots exactly in the field for glauconites. All these features indicate that the surface samples are strongly altered by weathering and that glauconite progressively transforms into iron-rich illte/smectite mixed layers and then into smectites. For any chemical and mineralogical characterization of glauconites at surface, these weathering effects have to be taken into consideration. GLENN, C. R. & ARTHUR, M. A. (1990): Anatomy and origin of a Cretaceous phosphorites-greensand giant, Egypt. Sedimentology, 37, 123-154.

The role of sample preparation in interpretation of trace element concentration variability in moss bioindication studies

USGS Publications Warehouse

Migaszewski, Z.M.; Lamothe, P.J.; Crock, J.G.; Galuszka, A.; Dolegowska, S.

2011-01-01

Trace element concentrations in plant bioindicators are often determined to assess the quality of the environment. Instrumental methods used for trace element determination require digestion of samples. There are different methods of sample preparation for trace element analysis, and the selection of the best method should be fitted for the purpose of a study. Our hypothesis is that the method of sample preparation is important for interpretation of the results. Here we compare the results of 36 element determinations performed by ICP-MS on ashed and on acid-digested (HNO3, H2O2) samples of two moss species (Hylocomium splendens and Pleurozium schreberi) collected in Alaska and in south-central Poland. We found that dry ashing of the moss samples prior to analysis resulted in considerably lower detection limits of all the elements examined. We also show that this sample preparation technique facilitated the determination of interregional and interspecies differences in the chemistry of trace elements. Compared to the Polish mosses, the Alaskan mosses displayed more positive correlations of the major rock-forming elements with ash content, reflecting those elements' geogenic origin. Of the two moss species, P. schreberi from both Alaska and Poland was also highlighted by a larger number of positive element pair correlations. The cluster analysis suggests that the more uniform element distribution pattern of the Polish mosses primarily reflects regional air pollution sources. Our study has shown that the method of sample preparation is an important factor in statistical interpretation of the results of trace element determinations. ?? 2010 Springer-Verlag.

"Magnitude-based inference": a statistical review.

PubMed

Welsh, Alan H; Knight, Emma J

2015-04-01

We consider "magnitude-based inference" and its interpretation by examining in detail its use in the problem of comparing two means. We extract from the spreadsheets, which are provided to users of the analysis (http://www.sportsci.org/), a precise description of how "magnitude-based inference" is implemented. We compare the implemented version of the method with general descriptions of it and interpret the method in familiar statistical terms. We show that "magnitude-based inference" is not a progressive improvement on modern statistics. The additional probabilities introduced are not directly related to the confidence interval but, rather, are interpretable either as P values for two different nonstandard tests (for different null hypotheses) or as approximate Bayesian calculations, which also lead to a type of test. We also discuss sample size calculations associated with "magnitude-based inference" and show that the substantial reduction in sample sizes claimed for the method (30% of the sample size obtained from standard frequentist calculations) is not justifiable so the sample size calculations should not be used. Rather than using "magnitude-based inference," a better solution is to be realistic about the limitations of the data and use either confidence intervals or a fully Bayesian analysis.

Considerations on the ASTM standards 1789-04 and 1422-05 on the forensic examination of ink.

PubMed

Neumann, Cedric; Margot, Pierre

2010-09-01

The ASTM standards on Writing Ink Identification (ASTM 1789-04) and on Writing Ink Comparison (ASTM 1422-05) are the most up-to-date guidelines that have been published on the forensic analysis of ink. The aim of these documents is to cover most aspects of the forensic analysis of ink evidence, from the analysis of ink samples, the comparison of the analytical profile of these samples (with the aim to differentiate them or not), through to the interpretation of the result of the examination of these samples in a forensic context. Significant evolutions in the technology available to forensic scientists, in the quality assurance requirements brought onto them, and in the understanding of frameworks to interpret forensic evidence have been made in recent years. This article reviews the two standards in the light of these evolutions and proposes some practical improvements in terms of the standardization of the analyses, the comparison of ink samples, and the interpretation of ink examination. Some of these suggestions have already been included in a DHS funded project aimed at creating a digital ink library for the United States Secret Service. © 2010 American Academy of Forensic Sciences.

Learning from samples of one or fewer*

PubMed Central

March, J; Sproull, L; Tamuz, M

2003-01-01



 Organizations learn from experience. Sometimes, however, history is not generous with experience. We explore how organizations convert infrequent events into interpretations of history, and how they balance the need to achieve agreement on interpretations with the need to interpret history correctly. We ask what methods are used, what problems are involved, and what improvements might be made. Although the methods we observe are not guaranteed to lead to consistent agreement on interpretations, valid knowledge, improved organizational performance, or organizational survival, they provide possible insights into the possibilities for and problems of learning from fragments of history. PMID:14645764

Concept for facilitating analyst-mediated interpretation of qualitative chromatographic-mass spectral data: an alternative to manual examination of extracted ion chromatograms.

PubMed

Borges, Chad R

2007-07-01

A chemometrics-based data analysis concept has been developed as a substitute for manual inspection of extracted ion chromatograms (XICs), which facilitates rapid, analyst-mediated interpretation of GC- and LC/MS(n) data sets from samples undergoing qualitative batchwise screening for prespecified sets of analytes. Automatic preparation of data into two-dimensional row space-derived scatter plots (row space plots) eliminates the need to manually interpret hundreds to thousands of XICs per batch of samples while keeping all interpretation of raw data directly in the hands of the analyst-saving great quantities of human time without loss of integrity in the data analysis process. For a given analyte, two analyte-specific variables are automatically collected by a computer algorithm and placed into a data matrix (i.e., placed into row space): the first variable is the ion abundance corresponding to scan number x and analyte-specific m/z value y, and the second variable is the ion abundance corresponding to scan number x and analyte-specific m/z value z (a second ion). These two variables serve as the two axes of the aforementioned row space plots. In order to collect appropriate scan number (retention time) information, it is necessary to analyze, as part of every batch, a sample containing a mixture of all analytes to be tested. When pure standard materials of tested analytes are unavailable, but representative ion m/z values are known and retention time can be approximated, data are evaluated based on two-dimensional scores plots from principal component analysis of small time range(s) of mass spectral data. The time-saving efficiency of this concept is directly proportional to the percentage of negative samples and to the total number of samples processed simultaneously.

Scoring Methods for Building Genotypic Scores: An Application to Didanosine Resistance in a Large Derivation Set

PubMed Central

Houssaini, Allal; Assoumou, Lambert; Miller, Veronica; Calvez, Vincent; Marcelin, Anne-Geneviève; Flandre, Philippe

2013-01-01

Background Several attempts have been made to determine HIV-1 resistance from genotype resistance testing. We compare scoring methods for building weighted genotyping scores and commonly used systems to determine whether the virus of a HIV-infected patient is resistant. Methods and Principal Findings Three statistical methods (linear discriminant analysis, support vector machine and logistic regression) are used to determine the weight of mutations involved in HIV resistance. We compared these weighted scores with known interpretation systems (ANRS, REGA and Stanford HIV-db) to classify patients as resistant or not. Our methodology is illustrated on the Forum for Collaborative HIV Research didanosine database (N = 1453). The database was divided into four samples according to the country of enrolment (France, USA/Canada, Italy and Spain/UK/Switzerland). The total sample and the four country-based samples allow external validation (one sample is used to estimate a score and the other samples are used to validate it). We used the observed precision to compare the performance of newly derived scores with other interpretation systems. Our results show that newly derived scores performed better than or similar to existing interpretation systems, even with external validation sets. No difference was found between the three methods investigated. Our analysis identified four new mutations associated with didanosine resistance: D123S, Q207K, H208Y and K223Q. Conclusions We explored the potential of three statistical methods to construct weighted scores for didanosine resistance. Our proposed scores performed at least as well as already existing interpretation systems and previously unrecognized didanosine-resistance associated mutations were identified. This approach could be used for building scores of genotypic resistance to other antiretroviral drugs. PMID:23555613

The Role of Self-reports and Behavioral Measures of Interpretation Biases in Children with Varying Levels of Anxiety.

PubMed

Klein, Anke M; Flokstra, Emmelie; van Niekerk, Rianne; Klein, Steven; Rapee, Ronald M; Hudson, Jennifer L; Bögels, Susan M; Becker, Eni S; Rinck, Mike

2018-04-21

We investigated the role of self-reports and behavioral measures of interpretation biases and their content-specificity in children with varying levels of spider fear and/or social anxiety. In total, 141 selected children from a community sample completed an interpretation bias task with scenarios that were related to either spider threat or social threat. Specific interpretation biases were found; only spider-related interpretation bias and self-reported spider fear predicted unique variance in avoidance behavior on the Behavior Avoidance Task for spiders. Likewise, only social-threat related interpretation bias and self-reported social anxiety predicted anxiety during the Social Speech Task. These findings support the hypothesis that fearful children display cognitive biases that are specific to particular fear-relevant stimuli. Clinically, this insight might be used to improve treatments for anxious children by targeting content-specific interpretation biases related to individual disorders.

Social anxiety and the interpretation of positive social events.

PubMed

Alden, Lynn E; Taylor, Charles T; Mellings, Tanna M J B; Laposa, Judith M

2008-05-01

We report four independent studies that examined the relationship between social interaction anxiety and the tendency to interpret positive social events in a threat-maintaining manner. Study 1 described the development of a scale that measures negative interpretations of positive social events, the interpretation of positive events scale (IPES). Study 2 cross-validated the structure of the IPES and established that social interaction anxiety explained significant variance in negative interpretations of positive social events beyond negative affect in general. Study 3 demonstrated that negative interpretation of positive events was significantly greater in a clinical sample of patients with generalized social anxiety disorder (GSAD) than a matched group of non-anxious community controls. In addition, within the GSAD group, the IPES was associated with negative social predictions following a positive interaction. Finally, study 4 confirmed that negative interpretations of positive social events mediated the relationship between social interaction anxiety and low positive affect.

Training interpretation biases among individuals with body dysmorphic disorder symptoms.

PubMed

Premo, Julie E; Sarfan, Laurel D; Clerkin, Elise M

2016-03-01

The current study provided an initial test of a Cognitive Bias Modification for Interpretations (CBM-I) training paradigm among a sample with elevated BDD symptoms (N=86). As expected, BDD-relevant interpretations were reduced among participants who completed a positive (vs. comparison) training program. Results also pointed to the intriguing possibility that modifying biased appearance-relevant interpretations is causally related to changes in biased, socially relevant interpretations. Further, providing support for cognitive behavioral models, residual change in interpretations was associated with some aspects of in vivo stressor responding. However, contrary to expectations there were no significant effects of condition on emotional vulnerability to a BDD stressor, potentially because participants in both training conditions experienced reductions in biased socially-threatening interpretations following training (suggesting that the "comparison" condition was not inert). These findings have meaningful theoretical and clinical implications, and fit with transdiagnostic conceptualizations of psychopathology. Copyright © 2015 Elsevier Ltd. All rights reserved.

Forensic trace DNA: a review

PubMed Central

2010-01-01

DNA analysis is frequently used to acquire information from biological material to aid enquiries associated with criminal offences, disaster victim identification and missing persons investigations. As the relevance and value of DNA profiling to forensic investigations has increased, so too has the desire to generate this information from smaller amounts of DNA. Trace DNA samples may be defined as any sample which falls below recommended thresholds at any stage of the analysis, from sample detection through to profile interpretation, and can not be defined by a precise picogram amount. Here we review aspects associated with the collection, DNA extraction, amplification, profiling and interpretation of trace DNA samples. Contamination and transfer issues are also briefly discussed within the context of trace DNA analysis. Whilst several methodological changes have facilitated profiling from trace samples in recent years it is also clear that many opportunities exist for further improvements. PMID:21122102

Changes in muscle protein composition induced by disuse atrophy - Analysis by two-dimensional electrophoresis

NASA Technical Reports Server (NTRS)

Ellis, S.; Giometti, C. S.; Riley, D. A.

1985-01-01

Using 320 g rats, a two-dimensional electrophoretic analysis of muscle proteins in the soleus and EDL muscles from hindlimbs maintained load-free for 10 days is performed. Statistical analysis of the two-dimensional patterns of control and suspended groups reveals more protein alteration in the soleus muscle, with 25 protein differences, than the EDL muscle, with 9 protein differences, as a result of atrophy. Most of the soleus differences reside in minor components. It is suggested that the EDL may also show alteration in its two-dimensional protein map, even though no significant atrophy occurred in muscle wet weight. It is cautioned that strict interpretation of data must take into account possible endocrine perturbations.

Brief report: altered horizontal binding of single dots to coherent motion in autism.

PubMed

David, Nicole; Rose, Michael; Schneider, Till R; Vogeley, Kai; Engel, Andreas K

2010-12-01

Individuals with autism often show a fragmented way of perceiving their environment, suggesting a disorder of information integration, possibly due to disrupted communication between brain areas. We investigated thirteen individuals with high-functioning autism (HFA) and thirteen healthy controls using the metastable motion quartet, a stimulus consisting of two dots alternately presented at four locations of a hypothetical square, thereby inducing an apparent motion percept. This percept is vertical or horizontal, the latter requiring binding of motion signals across cerebral hemispheres. Decreasing the horizontal distance between dots could facilitate horizontal percepts. We found evidence for altered horizontal binding in HFA: Individuals with HFA needed stronger facilitation to experience horizontal motion. These data are interpreted in light of reduced cross-hemispheric communication.

Technical Pitfall in 68Ga-Prostate Specific Membrane Antigen Imaging: Altered Biodistribution Caused by Free 68Ga-Citrate Due to Radiolysis Showing Increased Vascular Activity.

PubMed

Hod, Nir; Anconina, Reut; Levin, Daniel; Ezroh Kazap, Dina; Lantsberg, Sophie

2018-06-01

As with any new molecular imaging modality, accurate characterization of abnormalities on Ga-PSMA PET/CT imaging can be accomplished only if one is aware of the normal distribution pattern, physiological variants, and potential sources of false imaging findings. Altered biodistribution can have a significant impact on scan interpretation. Presented here is a rare case in which radiopharmaceutical radiolysis occurred causing excessive free Ga-citrate showing as an increased vascular activity. As Ga-PSMA PET/CT imaging is a relatively new imaging technique, it is important to be aware of such a potential technical pitfall in clinical practice in order to prevent scan misinterpretation.

The effects of oxaloacetate on hydrogen peroxide generation from ascorbate and epigallocatechin gallate in cell culture media: potential for altering cell metabolism.

PubMed

Long, Lee Hua; Halliwell, Barry

2012-01-06

Several phenolic compounds as well as ascorbate can oxidise in certain cell culture media (especially Dulbecco's modified Eagle's medium (DMEM)) to generate hydrogen peroxide. Addition of oxaloacetate decreased the levels of H(2)O(2) detected and the oxaloacetate was depleted. Oxaloacetate was approximately as effective as pyruvate in decreasing H(2)O(2) levels and more effective than α-ketoglutarate. Our data raise important issues to consider when interpreting the behaviour and metabolism of cells in culture (which are both altered by the oxidative stress of cell culture) and their apparent response to addition of autooxidisable compounds such as ascorbate and epigallocatechin gallate. Copyright © 2011 Elsevier Inc. All rights reserved.

Remote sensing applications for range management

NASA Technical Reports Server (NTRS)

Haas, R. H.

1981-01-01

The use of satellite information for range management is discussed. The use of infrared photography and color photography for analysis of vegetation cover is described. The methods of interpreting LANDSAT imagery are highlighted and possible applications of such interpretive methods to range management are considered. The concept of using LANDSAT as a sampling frame for renewable natural resource inventories was examined. It is concluded that a blending of LANDSAT vegetation data with soils and digital terrain data, will define a basic sampling unit that is appropriate for range management utilization.

Propensity, Probability, and Quantum Theory

NASA Astrophysics Data System (ADS)

Ballentine, Leslie E.

2016-08-01

Quantum mechanics and probability theory share one peculiarity. Both have well established mathematical formalisms, yet both are subject to controversy about the meaning and interpretation of their basic concepts. Since probability plays a fundamental role in QM, the conceptual problems of one theory can affect the other. We first classify the interpretations of probability into three major classes: (a) inferential probability, (b) ensemble probability, and (c) propensity. Class (a) is the basis of inductive logic; (b) deals with the frequencies of events in repeatable experiments; (c) describes a form of causality that is weaker than determinism. An important, but neglected, paper by P. Humphreys demonstrated that propensity must differ mathematically, as well as conceptually, from probability, but he did not develop a theory of propensity. Such a theory is developed in this paper. Propensity theory shares many, but not all, of the axioms of probability theory. As a consequence, propensity supports the Law of Large Numbers from probability theory, but does not support Bayes theorem. Although there are particular problems within QM to which any of the classes of probability may be applied, it is argued that the intrinsic quantum probabilities (calculated from a state vector or density matrix) are most naturally interpreted as quantum propensities. This does not alter the familiar statistical interpretation of QM. But the interpretation of quantum states as representing knowledge is untenable. Examples show that a density matrix fails to represent knowledge.

How to interpret methylation sensitive amplified polymorphism (MSAP) profiles?

PubMed

Fulneček, Jaroslav; Kovařík, Aleš

2014-01-06

DNA methylation plays a key role in development, contributes to genome stability, and may also respond to external factors supporting adaptation and evolution. To connect different types of stimuli with particular biological processes, identifying genome regions with altered 5-methylcytosine distribution at a genome-wide scale is important. Many researchers are using the simple, reliable, and relatively inexpensive Methylation Sensitive Amplified Polymorphism (MSAP) method that is particularly useful in studies of epigenetic variation. However, electrophoretic patterns produced by the method are rather difficult to interpret, particularly when MspI and HpaII isoschizomers are used because these enzymes are methylation-sensitive, and any C within the CCGG recognition motif can be methylated in plant DNA. Here, we evaluate MSAP patterns with respect to current knowledge of the enzyme activities and the level and distribution of 5-methylcytosine in plant and vertebrate genomes. We discuss potential caveats related to complex MSAP patterns and provide clues regarding how to interpret them. We further show that addition of combined HpaII + MspI digestion would assist in the interpretation of the most controversial MSAP pattern represented by the signal in the HpaII but not in the MspI profile. We recommend modification of the MSAP protocol that definitely discerns between putative hemimethylated mCCGG and internal CmCGG sites. We believe that our view and the simple improvement will assist in correct MSAP data interpretation.

Chemical compositions and classifica tion of five thermally altered carbonaceous chondrites

NASA Astrophysics Data System (ADS)

Noronha, Bianca A.; Friedrich, Jon M.

2014-08-01

To establish the chemical group provenance of the five thermally altered carbonaceous chondrites Asuka (A-) 881551, Asuka-882113, Elephant Moraine (EET) 96026, Mulga (west), and Northwest Africa (NWA) 3133, we quantified 44 trace elements in each of them. We also analyzed Larkman Nunatak (LAR) 04318 (CK4), Miller Range (MIL) 090001 (CR2), Roberts Massif (RBT) 03522 (CK5) as reference samples as their chemical group affinity is already recognized. We conclude that Asuka-881551, Asuka-882113, and Mulga (west) are thermally metamorphosed CK chondrites. Compositionally, Elephant Moraine 96026 most resembles the CV chondrites. NWA 3133 is the most significantly thermally altered carbonaceous chondrite in our suite of samples. It is completely recrystallized (no chondrules or matrix remain), but its bulk composition is consistent with a CV-CK clan provenance. The thermally labile element (e.g., Se, Te, Zn, and Bi) depletion in NWA 3133 indicates a chemically open system during the heating episode. It remains unclear if the heat necessary for its thermal alteration of NWA 3133 was due to the decay of 26Al or was impact related. Finally, we infer that MIL 090001, Mulga (west), and NWA 3133 show occasional compositional signatures indicative of terrestrial alteration. The alteration is especially evident within the elements Sr, Ba, La, Ce, Th, U, and possibly Sb. Despite the alteration, we can still confidently place each of the altered chondrites within an established chemical group or clan.

Biased Facial Expression Interpretation in Shy Children

ERIC Educational Resources Information Center

Kokin, Jessica; Younger, Alastair; Gosselin, Pierre; Vaillancourt, Tracy

2016-01-01

The relationship between shyness and the interpretations of the facial expressions of others was examined in a sample of 123 children aged 12 to 14?years. Participants viewed faces displaying happiness, fear, anger, disgust, sadness, surprise, as well as a neutral expression, presented on a computer screen. The children identified each expression…

Discourse Approaches to Oral Language Assessment.

ERIC Educational Resources Information Center

Young, Richard F.

2002-01-01

Looks at a sample conversation and examines layers of interpretation that different academic traditions have constructed to interpret it. Reviews studies that have compared the discourse of oral interaction in assessment with oral discourse in contexts outside the assessment. Discusses studies that related ways of speaking to cultural values of…