Untwisting the Caenorhabditis elegans embryo

PubMed Central

Christensen, Ryan Patrick; Bokinsky, Alexandra; Santella, Anthony; Wu, Yicong; Marquina-Solis, Javier; Guo, Min; Kovacevic, Ismar; Kumar, Abhishek; Winter, Peter W; Tashakkori, Nicole; McCreedy, Evan; Liu, Huafeng; McAuliffe, Matthew; Mohler, William; Colón-Ramos, Daniel A; Bao, Zhirong; Shroff, Hari

2015-01-01

The nematode Caenorhabditis elegans possesses a simple embryonic nervous system with few enough neurons that the growth of each cell could be followed to provide a systems-level view of development. However, studies of single cell development have largely been conducted in fixed or pre-twitching live embryos, because of technical difficulties associated with embryo movement in late embryogenesis. We present open-source untwisting and annotation software (http://mipav.cit.nih.gov/plugin_jws/mipav_worm_plugin.php) that allows the investigation of neurodevelopmental events in late embryogenesis and apply it to track the 3D positions of seam cell nuclei, neurons, and neurites in multiple elongating embryos. We also provide a tutorial describing how to use the software (Supplementary file 1) and a detailed description of the untwisting algorithm (Appendix). The detailed positional information we obtained enabled us to develop a composite model showing movement of these cells and neurites in an 'average' worm embryo. The untwisting and cell tracking capabilities of our method provide a foundation on which to catalog C. elegans neurodevelopment, allowing interrogation of developmental events in previously inaccessible periods of embryogenesis. DOI: http://dx.doi.org/10.7554/eLife.10070.001 PMID:26633880

Performance studies towards a TOF-PET sensor using Compton scattering at plastic scintillators

NASA Astrophysics Data System (ADS)

Kuramoto, M.; Nakamori, T.; Gunji, S.; Kamada, K.; Shoji, Y.; Yoshikawa, A.; Aoki, T.

2018-01-01

We have developed a sensor head for a time-of-flight (TOF) PET scanner using plastic scintillators that have a very fast timing property. Given the very small cross section of photoelectric absorption in plastic scintillators at 511 keV, we use Compton scattering in order to compensate for detection efficiency. The detector will consist of two layers of scatterers and absorbers which are made of plastic and inorganic scintillators such as GAGG:Ce, respectively. Signals are read by monolithic Multi Pixel Photon Counters, and with energy deposits and interaction time stamps are being acquired. The scintillators are built to be capable of resolving interaction position in three dimensions, so that our system has also a function of depth-of-interaction (DOI) PET scanners. TOF resolution of ~ 200 ps (FWHM) is achieved in both cases of using the leading-edge discriminator and time-walk correction and using a configuration sensitive to DOI. Both the position resolution and spectroscopy are demonstrated using the prototype data acquisition system, with Compton scattering events subsequently being obtained. We also demonstrated that the background rejection technique using the Compton cone constraint could be valid with our system.

Investigation of depth-of-interaction (DOI) effects in single- and dual-layer block detectors by the use of light sharing in scintillators.

PubMed

Yamamoto, Seiichi

2012-01-01

In block detectors for PET scanners that use different lengths of slits in scintillators to share light among photomultiplier tubes (PMTs), a position histogram is distorted when the depth of interaction (DOI) of the gamma photons is near the PMTs (DOI effect). However, it remains unclear whether a DOI effect is observed for block detectors that use light sharing in scintillators. To investigate the effect, I tested the effect for single- and dual-layer block detectors. In the single-layer block detector, Ce doped Gd₂SiO₅ (GSO) crystals of 1.9 × 1.9 × 15 mm³ (0.5 mol% Ce) were used. In the dual-layer block detector, GSO crystals of a 1.9 × 1.9 × 6 mm³ (1.5 mol% Ce) were used for the front layer and GSO crystals of 1.9 × 1.9 × 9 mm³ (0.5 mol% Ce) for the back layer. These scintillators were arranged to form an 8 × 8 matrix with multi-layer optical film inserted partly between the scintillators for obtaining an optimized position response with use of two dual-PMTs. Position histograms and energy responses were measured for these block detectors at three different DOI positions, and the flood histograms were obtained. The results indicated that DOI effects are observed in both block detectors, but the dual-layer block showed more severe distortion in the position histogram as well as larger energy variations. We conclude that, in the block detectors that use light sharing in the scintillators, the DOI effect is an important factor for the performance of the detectors, especially for DOI block detectors.

Bacterial autolysins trim cell surface peptidoglycan to prevent detection by the Drosophila innate immune system

PubMed Central

Atilano, Magda Luciana; Pereira, Pedro Matos; Vaz, Filipa; Catalão, Maria João; Reed, Patricia; Grilo, Inês Ramos; Sobral, Rita Gonçalves; Ligoxygakis, Petros; Pinho, Mariana Gomes; Filipe, Sérgio Raposo

2014-01-01

Bacteria have to avoid recognition by the host immune system in order to establish a successful infection. Peptidoglycan, the principal constituent of virtually all bacterial surfaces, is a specific molecular signature recognized by dedicated host receptors, present in animals and plants, which trigger an immune response. Here we report that autolysins from Gram-positive pathogenic bacteria, enzymes capable of hydrolyzing peptidoglycan, have a major role in concealing this inflammatory molecule from Drosophila peptidoglycan recognition proteins (PGRPs). We show that autolysins trim the outermost peptidoglycan fragments and that in their absence bacterial virulence is impaired, as PGRPs can directly recognize leftover peptidoglycan extending beyond the external layers of bacterial proteins and polysaccharides. The activity of autolysins is not restricted to the producer cells but can also alter the surface of neighboring bacteria, facilitating the survival of the entire population in the infected host. DOI: http://dx.doi.org/10.7554/eLife.02277.001 PMID:24692449

Emergence of transformation-tolerant representations of visual objects in rat lateral extrastriate cortex

PubMed Central

Tafazoli, Sina; Safaai, Houman; De Franceschi, Gioia; Rosselli, Federica Bianca; Vanzella, Walter; Riggi, Margherita; Buffolo, Federica; Panzeri, Stefano; Zoccolan, Davide

2017-01-01

Rodents are emerging as increasingly popular models of visual functions. Yet, evidence that rodent visual cortex is capable of advanced visual processing, such as object recognition, is limited. Here we investigate how neurons located along the progression of extrastriate areas that, in the rat brain, run laterally to primary visual cortex, encode object information. We found a progressive functional specialization of neural responses along these areas, with: (1) a sharp reduction of the amount of low-level, energy-related visual information encoded by neuronal firing; and (2) a substantial increase in the ability of both single neurons and neuronal populations to support discrimination of visual objects under identity-preserving transformations (e.g., position and size changes). These findings strongly argue for the existence of a rat object-processing pathway, and point to the rodents as promising models to dissect the neuronal circuitry underlying transformation-tolerant recognition of visual objects. DOI: http://dx.doi.org/10.7554/eLife.22794.001 PMID:28395730

Reconstitution of a eukaryotic replisome reveals suppression mechanisms that define leading/lagging strand operation

PubMed Central

Georgescu, Roxana E; Schauer, Grant D; Yao, Nina Y; Langston, Lance D; Yurieva, Olga; Zhang, Dan; Finkelstein, Jeff; O'Donnell, Mike E

2015-01-01

We have reconstituted a eukaryotic leading/lagging strand replisome comprising 31 distinct polypeptides. This study identifies a process unprecedented in bacterial replisomes. While bacteria and phage simply recruit polymerases to the fork, we find that suppression mechanisms are used to position the distinct eukaryotic polymerases on their respective strands. Hence, Pol ε is active with CMG on the leading strand, but it is unable to function on the lagging strand, even when Pol δ is not present. Conversely, Pol δ-PCNA is the only enzyme capable of extending Okazaki fragments in the presence of Pols ε and α. We have shown earlier that Pol δ-PCNA is suppressed on the leading strand with CMG (Georgescu et al., 2014). We propose that CMG, the 11-subunit helicase, is responsible for one or both of these suppression mechanisms that spatially control polymerase occupancy at the fork. DOI: http://dx.doi.org/10.7554/eLife.04988.001 PMID:25871847

A High Resolution Monolithic Crystal, DOI, MR Compatible, PET Detector

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

Robert S Miyaoka

The principle objective of this proposal is to develop a positron emission tomography (PET) detector with depth-of-interaction (DOI) positioning capability that will achieve state of the art spatial resolution and sensitivity performance for small animal PET imaging. When arranged in a ring or box detector geometry, the proposed detector module will support <1 mm3 image resolution and >15% absolute detection efficiency. The detector will also be compatible with operation in a MR scanner to support simultaneous multi-modality imaging. The detector design will utilize a thick, monolithic crystal scintillator readout by a two-dimensional array of silicon photomultiplier (SiPM) devices using amore » novel sensor on the entrance surface (SES) design. Our hypothesis is that our single-ended readout SES design will provide an effective DOI positioning performance equivalent to more expensive dual-ended readout techniques and at a significantly lower cost. Our monolithic crystal design will also lead to a significantly lower cost system. It is our goal to design a detector with state of the art performance but at a price point that is affordable so the technology can be disseminated to many laboratories. A second hypothesis is that using SiPM arrays, the detector will be able to operate in a MR scanner without any degradation in performance to support simultaneous PET/MR imaging. Having a co-registered MR image will assist in radiotracer localization and may also be used for partial volume corrections to improve radiotracer uptake quantitation. The far reaching goal of this research is to develop technology for medical research that will lead to improvements in human health care.« less

Color sensitive silicon photomultiplers with micro-cell level encoding for DOI PET detectors

NASA Astrophysics Data System (ADS)

Shimazoe, Kenji; Koyama, Akihiro; Takahashi, Hiroyuki; Ganka, Thomas; Iskra, Peter; Marquez Seco, Alicia; Schneider, Florian; Wiest, Florian

2017-11-01

There have been many studies on Depth Of Interaction (DOI) identification for high resolution Positron Emission Tomography (PET) systems, including those on phoswich detectors, double-sided readout, light sharing methods, and wavelength discrimination. The wavelength discrimination method utilizes the difference in wavelength of stacked scintillators and requires a color sensitive photodetector. Here, a new silicon photomultiplier (SiPM) coupled to a color filter (colorSiPM) was designed and fabricated for DOI detection. The fabricated colorSiPM has two anode readouts that are sensitive to blue and green color. The colorSiPM's response and DOI identification capability for stacked GAGG and LYSO crystals are characterized. The fabricated colorSiPM is sensitive enough to detect a peak of 662 keV from a 137 Cs source.

Isolation of 2-deoxy-scyllo-inosose (DOI)-assimilating yeasts and cloning and characterization of the DOI reductase gene of Cryptococcus podzolicus ND1.

PubMed

Ara, Satoshi; Yamazaki, Harutake; Takaku, Hiroaki

2018-04-01

2-Deoxy-scyllo-inosose (DOI) is the first intermediate in the 2-deoxystreptamine-containing aminoglycoside antibiotic biosynthesis pathway and has a six-membered carbocycle structure. DOI is a valuable material because it is easily converted to aromatic compounds and carbasugar derivatives. In this study, we isolated yeast strains capable of assimilating DOI as a carbon source. One of the strains, Cryptococcus podzolicus ND1, mainly converted DOI to scyllo-quercitol and (-)-vibo-quercitol, which is a valuable compound used as an antihypoglycemia agent and as a heat storage material. An NADH-dependent DOI reductase coding gene, DOIR, from C. podzolicus ND1 was cloned and successfully overexpressed in Escherichia coli. The purified protein catalyzed the irreversible reduction of DOI with NADH and converted DOI into (-)-vibo-quercitol. The enzyme had an optimal pH of 8.5 and optimal temperature of 35°C, respectively. The k cat of this enzyme was 9.98 s -1 , and the K m values for DOI and NADH were 4.38 and 0.24 mM, respectively. The enzyme showed a strong preference for NADH and showed no activity with NADPH. Multiple-alignment analysis of DOI reductase revealed that it belongs to the GFO_IDH_MocA protein family and is an inositol dehydrogenase homolog in other fungi, such as Cryptococcus gattii, and bacteria, such as Bacillus subtilis. This is the first identification of a DOI-assimilating yeast and a gene involved in DOI metabolism in fungi. Copyright © 2017 The Society for Biotechnology, Japan. Published by Elsevier B.V. All rights reserved.

Optimization, evaluation and calibration of a cross-strip DOI detector

NASA Astrophysics Data System (ADS)

Schmidt, F. P.; Kolb, A.; Pichler, B. J.

2018-02-01

This study depicts the evaluation of a SiPM detector with depth of interaction (DOI) capability via a dual-sided readout that is suitable for high-resolution positron emission tomography and magnetic resonance (PET/MR) imaging. Two different 12  ×  12 pixelated LSO scintillator arrays with a crystal pitch of 1.60 mm are examined. One array is 20 mm-long with a crystal separation by the specular reflector Vikuiti enhanced specular reflector (ESR), and the other one is 18 mm-long and separated by the diffuse reflector Lumirror E60 (E60). An improvement in energy resolution from 22.6% to 15.5% for the scintillator array with the E60 reflector is achieved by taking a nonlinear light collection correction into account. The results are FWHM energy resolutions of 14.0% and 15.5%, average FWHM DOI resolutions of 2.96 mm and 1.83 mm, and FWHM coincidence resolving times of 1.09 ns and 1.48 ns for the scintillator array with the ESR and that with the E60 reflector, respectively. The measured DOI signal ratios need to be assigned to an interaction depth inside the scintillator crystal. A linear and a nonlinear method, using the intrinsic scintillator radiation from lutetium, are implemented for an easy to apply calibration and are compared to the conventional method, which exploits a setup with an externally collimated radiation beam. The deviation between the DOI functions of the linear or nonlinear method and the conventional method is determined. The resulting average of differences in DOI positions is 0.67 mm and 0.45 mm for the nonlinear calibration method for the scintillator array with the ESR and with the E60 reflector, respectively; Whereas the linear calibration method results in 0.51 mm and 0.32 mm for the scintillator array with the ESR and the E60 reflector, respectively; and is, due to its simplicity, also applicable in assembled detector systems.

Optimization, evaluation and calibration of a cross-strip DOI detector.

PubMed

Schmidt, F P; Kolb, A; Pichler, B J

2018-02-20

This study depicts the evaluation of a SiPM detector with depth of interaction (DOI) capability via a dual-sided readout that is suitable for high-resolution positron emission tomography and magnetic resonance (PET/MR) imaging. Two different 12  ×  12 pixelated LSO scintillator arrays with a crystal pitch of 1.60 mm are examined. One array is 20 mm-long with a crystal separation by the specular reflector Vikuiti enhanced specular reflector (ESR), and the other one is 18 mm-long and separated by the diffuse reflector Lumirror E60 (E60). An improvement in energy resolution from 22.6% to 15.5% for the scintillator array with the E60 reflector is achieved by taking a nonlinear light collection correction into account. The results are FWHM energy resolutions of 14.0% and 15.5%, average FWHM DOI resolutions of 2.96 mm and 1.83 mm, and FWHM coincidence resolving times of 1.09 ns and 1.48 ns for the scintillator array with the ESR and that with the E60 reflector, respectively. The measured DOI signal ratios need to be assigned to an interaction depth inside the scintillator crystal. A linear and a nonlinear method, using the intrinsic scintillator radiation from lutetium, are implemented for an easy to apply calibration and are compared to the conventional method, which exploits a setup with an externally collimated radiation beam. The deviation between the DOI functions of the linear or nonlinear method and the conventional method is determined. The resulting average of differences in DOI positions is 0.67 mm and 0.45 mm for the nonlinear calibration method for the scintillator array with the ESR and with the E60 reflector, respectively; Whereas the linear calibration method results in 0.51 mm and 0.32 mm for the scintillator array with the ESR and the E60 reflector, respectively; and is, due to its simplicity, also applicable in assembled detector systems.

High resolution gamma detector for small-animal positron emission tomography

NASA Astrophysics Data System (ADS)

Ling, Tao

In this study, the performance of continuous miniature crystal element (cMiCE) detectors with LYSO crystals of different thickness were investigated. Potential designs of a cMiCE small animal positron emission tomography scanner were also evaluated by an analytical simulation approach. The cMiCE detector was proposed as a high sensitivity, low cost alternative to the prevailing discrete crystal detectors. A statistics based positioning (SBP) algorithm was developed to solve the scintillation position estimation problem and proved to be successful on a cMiCE detector with a 4 mm thick crystal. By assuming a Gaussian distribution, the distributions of the photomultiplier signals could be characterized by mean and variance, which are functions of scintillation position. After calibrating the detector on a grid of locations, a 2D table of the mean and variance can be built. The SBP algorithm searches the tables to find the location that maximizes the likelihood between the mean and variance of known positions and the incoming scintillation event. In this work, the performance of the SBP algorithm on cMiCE detectors with thicker crystals (6 and 8 mm) was studied. The stopping power of a cMiCE detector is 40% and 49% for 6 and 8 mm thick crystals respectively. The intrinsic spatial resolution is 1.2 mm and 1.4 mm FWHM for the center and corner sections of a 6 mm thick crystal detector, and 1.3 mm and 1.6 mm for center and corner of an 8 mm thick crystal detector. These results demonstrate that the cMiCE detector is a promising candidate for high resolution, high sensitivity PET applications. A maximum-likelihood (ML) clustering method was developed to empirically separate the experimental data set into two to four subgroups according to the depth-of-interaction of the detected photons. This method enabled us to build 2-DOI lookup tables (LUT) (mean and variance lookup tables for front group and back group). Using the 2-DOI SBP LUTs, the scintillation position and DOI could be estimated at the same time. The experimental measured misclassification rate for the 8 mm thick crystal detector is approximately 25%. The ML clustering method also provided a better fit to the distributions of the experimental signals, especially for the skewed ones. It therefore led to a significant improvement in the intrinsic spatial resolution in the corner region of the detector. In order to eliminate the effort in calibrating a cMiCE detector, a parametric positioning method was studied. Gaussian, Cauchy, and parametric models for the light distribution inside the crystal were tested. From the diagnosis of the sum of squared residues and the goodness of fit to the experimental data, the parametric model was found to be the best fit to the light distribution. It was also the best performer in terms of intrinsic spatial resolution and DOI resolution. Using the parametric model, the intrinsic spatial resolution is 1.1 mm and 1.3 mm FWHM for the center and corner regions of the 8 mm thick crystal detector respectively. The DOI resolution is 3.2 mm FWHM. Another variation of the SBP algorithm was tried to reduce the number of readouts need to be digitized. Several themes of different trade-offs between the readout number and spatial resolution were tested. The results show that excluding the PMT channels with less 1% of the total signal or digitizing only the nearest 21 channels around the channel with the maximum signal are the best choices, while the intrinsic spatial resolution is not compromised. An analytical simulation approach was developed to investigate how the choice of cMiCE detectors affect image figures of merit for mouse-imaging cMICE PET scanners. For a high resolution imaging system, important physical effects that impact image quality are positron range, detector point-spread function and coincident photon count levels (i.e., statistical noise). Modeling of these effects was included in an analytical simulation that generated multiple realizations of sinograms with varying levels of each effect. To evaluate image quality with respect to quantitation and detection task performance, four different figures of merit were measured: (1) root mean square error; (2) a region of interest SNR (SNRROI); (3) non-prewhitening matched filter SNR (SNRNPW); and (4) recovery coefficient. The results indicate that positron range and non-stationary detector point-spread response effects cause significant reductions of quantitation (SNRROI) and detection (SNRNPW) accuracy for small regions, e.g., a 0.01 cc sphere. A cMiCE detector with 6 mm thick crystal is better for quantitation, while the one with 8 mm thick crystal is better for detection. DOI capability makes a major impact on the FOMs. cMiCE detector with 8 mm thick crystal + 2-DOI capability proved to be the best candidate for both quantitation and detection.

KSC-03PD-2443

NASA Technical Reports Server (NTRS)

2003-01-01

KENNEDY SPACE CENTER, FLA. From left, the Consul General of Japan Ko Kodaira, his daughter Reiko, astronaut Dr. Takao Doi, and Kodaira's wife Marie pause for a photograph in the Space Station Processing Facility during their visit to Kennedy Space Center (KSC). Doi represented Japan on Space Shuttle mission STS-87, the fourth U.S Microgravity Payload flight. Kodaira is touring the facilities at KSC at the invitation of the local office of the National Space Development Agency of Japan (NASDA) to acquaint him with KSC's unique processing capabilities.

Pulse shape discrimination and classification methods for continuous depth of interaction encoding PET detectors.

PubMed

Roncali, Emilie; Phipps, Jennifer E; Marcu, Laura; Cherry, Simon R

2012-10-21

In previous work we demonstrated the potential of positron emission tomography (PET) detectors with depth-of-interaction (DOI) encoding capability based on phosphor-coated crystals. A DOI resolution of 8 mm full-width at half-maximum was obtained for 20 mm long scintillator crystals using a delayed charge integration linear regression method (DCI-LR). Phosphor-coated crystals modify the pulse shape to allow continuous DOI information determination, but the relationship between pulse shape and DOI is complex. We are therefore interested in developing a sensitive and robust method to estimate the DOI. Here, linear discriminant analysis (LDA) was implemented to classify the events based on information extracted from the pulse shape. Pulses were acquired with 2×2×20 mm(3) phosphor-coated crystals at five irradiation depths and characterized by their DCI values or Laguerre coefficients. These coefficients were obtained by expanding the pulses on a Laguerre basis set and constituted a unique signature for each pulse. The DOI of individual events was predicted using LDA based on Laguerre coefficients (Laguerre-LDA) or DCI values (DCI-LDA) as discriminant features. Predicted DOIs were compared to true irradiation depths. Laguerre-LDA showed higher sensitivity and accuracy than DCI-LDA and DCI-LR and was also more robust to predict the DOI of pulses with higher statistical noise due to low light levels (interaction depths further from the photodetector face). This indicates that Laguerre-LDA may be more suitable to DOI estimation in smaller crystals where lower collected light levels are expected. This novel approach is promising for calculating DOI using pulse shape discrimination in single-ended readout depth-encoding PET detectors.

Pulse Shape Discrimination and Classification Methods for Continuous Depth of Interaction Encoding PET Detectors

PubMed Central

Roncali, Emilie; Phipps, Jennifer E.; Marcu, Laura; Cherry, Simon R.

2012-01-01

In previous work we demonstrated the potential of positron emission tomography (PET) detectors with depth-of-interaction (DOI) encoding capability based on phosphor-coated crystals. A DOI resolution of 8 mm full-width at half-maximum was obtained for 20 mm long scintillator crystals using a delayed charge integration linear regression method (DCI-LR). Phosphor-coated crystals modify the pulse shape to allow continuous DOI information determination, but the relationship between pulse shape and DOI is complex. We are therefore interested in developing a sensitive and robust method to estimate the DOI. Here, linear discriminant analysis (LDA) was implemented to classify the events based on information extracted from the pulse shape. Pulses were acquired with 2 × 2 × 20 mm3 phosphor-coated crystals at five irradiation depths and characterized by their DCI values or Laguerre coefficients. These coefficients were obtained by expanding the pulses on a Laguerre basis set and constituted a unique signature for each pulse. The DOI of individual events was predicted using LDA based on Laguerre coefficients (Laguerre-LDA) or DCI values (DCI-LDA) as discriminant features. Predicted DOIs were compared to true irradiation depths. Laguerre-LDA showed higher sensitivity and accuracy than DCI-LDA and DCI-LR and was also more robust to predict the DOI of pulses with higher statistical noise due to low light levels (interaction depths further from the photodetector face). This indicates that Laguerre-LDA may be more suitable to DOI estimation in smaller crystals where lower collected light levels are expected. This novel approach is promising for calculating DOI using pulse shape discrimination in single-ended readout depth-encoding PET detectors. PMID:23010690

Choice of crystal surface finishing for a dual-ended readout depth-of-interaction (DOI) detector.

PubMed

Fan, Peng; Ma, Tianyu; Wei, Qingyang; Yao, Rutao; Liu, Yaqiang; Wang, Shi

2016-02-07

The objective of this study was to choose the crystal surface finishing for a dual-ended readout (DER) DOI detector. Through Monte Carlo simulations and experimental studies, we evaluated 4 crystal surface finishing options as combinations of crystal surface polishing (diffuse or specular) and reflector (diffuse or specular) options on a DER detector. We also tested one linear and one logarithm DOI calculation algorithm. The figures of merit used were DOI resolution, DOI positioning error, and energy resolution. Both the simulation and experimental results show that (1) choosing a diffuse type in either surface polishing or reflector would improve DOI resolution but degrade energy resolution; (2) crystal surface finishing with a diffuse polishing combined with a specular reflector appears a favorable candidate with a good balance of DOI and energy resolution; and (3) the linear and logarithm DOI calculation algorithms show overall comparable DOI error, and the linear algorithm was better for photon interactions near the ends of the crystal while the logarithm algorithm was better near the center. These results provide useful guidance in DER DOI detector design in choosing the crystal surface finishing and DOI calculation methods.

Performance evaluation for 120 four-layer DOI block detectors of the jPET-D4.

PubMed

Inadama, Naoko; Murayama, Hideo; Ono, Yusuke; Tsuda, Tomoaki; Hamamoto, Manabu; Yamaya, Taiga; Yoshida, Eiji; Shibuya, Kengo; Nishikido, Fumihiko; Takahashi, Kei; Kawai, Hideyuki

2008-01-01

The jPET-D4 is a brain positron emission tomography (PET) scanner that we have developed to meet user demands for high sensitivity and high spatial resolution. For this scanner, we developed a four-layer depth-of-interaction (DOI) detector. The four-layer DOI detector is a key component for the jPET-D4, its performance has great influence on the overall system performance. Previously, we reported the original technique for encoding four-layer DOI. Here, we introduce the final design of the jPET-D4 detector and present the results of an investigation on uniformity in performance of the detector. The performance evaluation was done over the 120 DOI crystal blocks for the detectors, which are to be assembled into the jPET-D4 scanner. We also introduce the crystal assembly method, which is simple enough, even though each DOI crystal block is composed of 1,024 crystal elements. The jPET-D4 detector consists of four layers of 16 x 16 Gd(2)SiO(5) (GSO) crystals and a 256-channel flat-panel position-sensitive photomultiplier tube (256ch FP-PMT). To identify scintillated crystals in the four-layer DOI detector, we use pulse shape discrimination and position discrimination on the two-dimensional (2D) position histogram. For pulse shape discrimination, two kinds of GSO crystals that show different scintillation decay time constants are used in the upper two and lower two layers, respectively. Proper reflector arrangement in the crystal block then allows the scintillated crystals to be identified in these two-layer groupings with two 2D position histograms. We produced the 120 DOI crystal blocks for the jPET-D4 system, and measured their characteristics such as the accuracy of pulse shape discrimination, energy resolution, and the pulse height of the full energy peak. The results show a satisfactory and uniform performance of the four-layer DOI crystal blocks; for example, misidentification rate in each GSO layer is <5% based on pulse shape discrimination, the averaged energy resolutions for the central four crystals of the first (farthest from the FP-PMT), second, third, and 4th layers are 15.7 +/- 1.0, 15.8 +/- 0.6, 17.7 +/- 1.2, and 17.3 +/- 1.4%, respectively, and variation in pulse height of the full energy peak among the four layers is <5% on average.

A novel depth-of-interaction block detector for positron emission tomography using a dichotomous orthogonal symmetry decoding concept.

PubMed

Zhang, Yuxuan; Yan, Han; Baghaei, Hossain; Wong, Wai-Hoi

2016-02-21

Conventionally, a dual-end depth-of-interaction (DOI) block detector readout requires two two-dimensional silicon photomultiplier (SiPM) arrays, one on top and one on the bottom, to define the XYZ positions. However, because both the top and bottom SiPM arrays are reading the same pixels, this creates information redundancy. We propose a dichotomous orthogonal symmetric (DOS) dual-end readout block detector design, which removes this redundancy by reducing the number of SiPMs and still achieves XY and DOI (Z) decoding for positron emission tomography (PET) block detector. Reflecting films are used within the block detector to channel photons going to the top of the block to go only in the X direction, and photons going to the bottom are channeled along the Y direction. Despite the unidirectional channeling on each end, the top readout provides both X and Y information using two one-dimensional SiPM arrays instead of a two-dimensional SiPM array; similarly, the bottom readout also provides both X and Y information with just two one-dimensional SiPM arrays. Thus, a total of four one-dimensional SiPM arrays (4  ×  N SiPMs) are used to decode the XYZ positions of the firing pixels instead of two two-dimensional SiPM arrays (2  ×  N  ×  N SiPMs), reducing the number of SiPM arrays per block from 2N(2) to 4 N for PET/MR or PET/CT systems. Moreover, the SiPM arrays on one end can be replaced by two regular photomultiplier tubes (PMTs), so that a block needs only 2 N SiPMs  +  2 half-PMTs; this hybrid-DOS DOI block detector can be used in PET/CT systems. Monte Carlo simulations were carried out to study the performance of our DOS DOI block detector design, including the XY-decoding quality, energy resolution, and DOI resolution. Both BGO and LSO scintillators were studied. We found that 4 mm pixels were well decoded for 5  ×  5 BGO and 9  ×  9 LSO arrays with 4 to 5 mm DOI resolution and 16-20% energy resolution. By adding light-channel decoding, we modified the DOS design to a high-resolution design, which resolved scintillator pixels smaller than the SiPM dimensions. Detector pixels of 2.4 mm were decoded for 8  ×  8 BGO and 15  ×  15 LSO arrays with 5 mm DOI resolution and 20-23% energy resolution. Time performance was also studied for the 8  ×  8 BGO and 15  ×  15 LSO HR-DOS arrays. The timing resolution for the corner and central crystals is 986  ±  122 ps and 1.89  ±  0.17 μs respectively with BGO, 137  ±  42 ps and 458  ±  67 ps respectively with LSO. Monte Carlo simulations with GATE/Geant4 demonstrated the feasibility of our DOS DOI block detector design. In conclusion, our novel design achieved good performance except the time performance while using fewer SiPMs and supporting electronic channels than the current non-DOI PET detectors. This novel design can significantly reduce the cost, heat, and readout complexity of DOI block detectors for PET/MR/CT systems that don't require the time-of-flight capability.

Publications - DDS 9 | Alaska Division of Geological & Geophysical Surveys

Science.gov Websites

Surveys Digital Data Series 9, http://doi.org/10.14509/shoreline. http://doi.org/10.14509/29504 positions in the Alaska shoreline change tool, 11 p. Digital Geospatial Data Digital Geospatial Data Emmonak

Design study of a high-resolution breast-dedicated PET system built from cadmium zinc telluride detectors

PubMed Central

Peng, Hao; Levin, Craig S

2013-01-01

We studied the performance of a dual-panel positron emission tomography (PET) camera dedicated to breast cancer imaging using Monte Carlo simulation. The proposed system consists of two 4 cm thick 12 × 15 cm2 area cadmium zinc telluride (CZT) panels with adjustable separation, which can be put in close proximity to the breast and/or axillary nodes. Unique characteristics distinguishing the proposed system from previous efforts in breast-dedicated PET instrumentation are the deployment of CZT detectors with superior spatial and energy resolution, using a cross-strip electrode readout scheme to enable 3D positioning of individual photon interaction coordinates in the CZT, which includes directly measured photon depth-of-interaction (DOI), and arranging the detector slabs edge-on with respect to incoming 511 keV photons for high photon sensitivity. The simulation results show that the proposed CZT dual-panel PET system is able to achieve superior performance in terms of photon sensitivity, noise equivalent count rate, spatial resolution and lesion visualization. The proposed system is expected to achieve ~32% photon sensitivity for a point source at the center and a 4 cm panel separation. For a simplified breast phantom adjacent to heart and torso compartments, the peak noise equivalent count (NEC) rate is predicted to be ~94.2 kcts s−1 (breast volume: 720 cm3 and activity concentration: 3.7 kBq cm−3) for a ~10% energy window around 511 keV and ~8 ns coincidence time window. The system achieves 1 mm intrinsic spatial resolution anywhere between the two panels with a 4 cm panel separation if the detectors have DOI resolution less than 2 mm. For a 3 mm DOI resolution, the system exhibits excellent sphere resolution uniformity (σrms/mean) ≤ 10%) across a 4 cm width FOV. Simulation results indicate that the system exhibits superior hot sphere visualization and is expected to visualize 2 mm diameter spheres with a 5:1 activity concentration ratio within roughly 7 min imaging time. Furthermore, we observe that the degree of spatial resolution degradation along the direction orthogonal to the two panels that is typical of a limited angle tomography configuration is mitigated by having high-resolution DOI capabilities that enable more accurate positioning of oblique response lines. PMID:20400807

Interior's Climate Science Centers: Focus or Fail

NASA Astrophysics Data System (ADS)

Udall, B.

2012-12-01

After a whirlwind two years of impressive and critical infrastructure building, the Department of Interior's Climate Science Centers are now in a position to either succeed or fail. The CSCs have a number of difficult structural problems including too many constituencies relative to the available resources, an uneasy relationship among many of the constituencies including the DOI agencies themselves, a need to do science in a new, difficult and non-traditional way, and a short timeframe to produce useful products. The CSCs have built a broad and impressive network of scientists and stakeholders. These entities include science providers of the universities and the USGS, and decision makers from the states, tribes, DOI land managers and other federal agencies and NGOs. Rather than try to support all of these constituencies the CSCs would be better served by refocusing on a core mission of supporting DOI climate related decision making. The CSCs were designed to service the climate science needs of DOI agencies, many of which lost their scientific capabilities in the 1990s due to a well-intentioned but ultimately harmful re-organization at DOI involving the now defunct National Biological Survey. Many of these agencies would like to have their own scientists, have an uneasy relationship with the nominal DOI science provider, the USGS, and don't communicate effectively among themselves. The CSCs must not succumb to pursuing science in either the traditional mode of the USGS or in the traditional mode of the universities, or worse, both of them. These scientific partners will need to be flexible, learn how to collaborate and should expect to see fewer resources. Useful CSC processes and outputs should start with the recommendations of the 2009 NRC Report Informing Decisions in a Changing Climate: (1) begin with users' needs; (2) give priority to process over products; (3) link information producers and users; (4) build connections across disciplines and organizations; (5) seek institutional stability; and (6) design processes for learning. In addition, CSC outputs should help decision makers to embrace and focus on uncertainty rather than on attempts to reduce uncertainty. Model building can be a useful exercise if used as a broad intellectual exercise to understand systems instead of narrow projection-based efforts. In some cases DOI agencies may want very simple products including scientific syntheses. Social science work including but not limited to economics and policy should be considered when appropriate to decision maker needs. One method for allocating CSC resources would involve a limited number of small scoping meetings with climate sensitive regional DOI agencies. In the Southwest, for example, regional entities would include at least the Landscape Conservation Cooperatives, National Park Service, Fish and Wildlife Service, Bureau of Land Management, Reclamation and the US Forest Service, a critically important land manager with a well-funded and well-structured climate program. Given DOI's trust responsibility to the tribes, at least one project should be focused on meeting those needs in this region. The goal of these meetings would be to identify a small number of projects each with adequate funding for interdisciplinary teams of university and USGS scientists and DOI decision makers. Done correctly, the CSCs should be able to leverage resources with these DOI partners.

CHERENCUBE: concept definition and implementation challenges of a Cherenkov-based detector block for PET.

PubMed

Somlai-Schweiger, I; Ziegler, S I

2015-04-01

A new concept for a depth-of-interaction (DOI) capable time-of-flight (TOF) PET detector is defined, based only on the detection of Cherenkov photons. The proposed "CHERENCUBE" consists of a cubic Cherenkov radiator with position-sensitive photodetectors covering each crystal face. By means of the spatial distribution of the detected photons and their time of arrival, the point of interaction of the gamma-ray in the crystal can be determined. This study analyzes through theoretical calculations and Monte Carlo simulations the potential advantages of the concept toward reaching a Cherenkov-only detector for TOF-PET with DOI capability. Furthermore, an algorithm for the DOI estimation is presented and the requirements for a practical implementation of the proposed concept are defined. The Monte Carlo simulations consisted of a cubic crystal with one photodetector coupled to each one of the faces of the cube. The sensitive area of the detector matched exactly the crystal size, which was varied in 1 mm steps between 1 × 1 × 1 mm(3) and 10 × 10 × 10 mm(3). For each size, five independent simulations of ten thousand 511 keV gamma-rays were triggered at a fixed distance of 10 mm. The crystal chosen was PbWO4. Its scintillation properties were simulated, but only Cherenkov photons were analyzed. Photodetectors were simulated having perfect photodetection efficiency and infinite time resolution. For every generated particle, the analysis considered its creation process, parent and daughter particles, energy, origin coordinates, trajectory, and time and position of detection. The DOI determination is based on the distribution of the emission time of all photons per event. These values are calculated as a function of the coordinates of detection and origin for every photon. The common origin is estimated by finding the distribution with the most similar emission time-points. Detection efficiency increases with crystal size from 8.2% (1 × 1 × 1 mm(3)) to 58.6% (10 × 10 × 10 mm(3)) and decreases applying a photon detection threshold of 5/10/20 photons to 6.3%/4.3%/0.7% and 49.3%/30.4%/2.8%, respectively. The detection rate in the six photodetectors is uniform due to the nearly isotropic cone emission. Most cones originated after a photoelectric effect interaction, with two dominating peaks for the kinetic energy of the electron at 422.99 and 441.47 keV. The detection distance between same-event photons defines the spatial resolution of the detector required for individual photon recognition, with 20% of the detected photons having their closest neighbor within a distance of 5% of the length of the cube. Same-event photons are detected within a time window whose width is determined by the crystal size, with values of 30 and 150 ps for a 1 × 1 × 1 mm(3) and a 10 × 10 × 10 mm(3) cube, respectively. The DOI reconstruction has an accuracy of approximately 23% of the length of the cube, with an average value of 2.2 mm for a 10 × 10 × 10 mm(3) CHERENCUBE. The proposed concept requires a detector with high photodetection efficiency. The structure of the sensitive surface of the detector should be a two dimensional array of microcells, able to provide individual detection coordinates and time stamps. The microcell size determines the ability to recognize individual photons, influencing detection efficiency. The 3D DOI recognition relies on the accuracy of the time stamps and detection coordinates, without the need for a recognition of the projected patterns of photons. The refractive index of the material defines a detector intrinsic energy-based rejection of scattered PET events at the cost of reduced sensitivity.

CHERENCUBE: Concept definition and implementation challenges of a Cherenkov-based detector block for PET

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

Somlai-Schweiger, I., E-mail: ian.somlai@tum.de; Ziegler, S. I.

Purpose: A new concept for a depth-of-interaction (DOI) capable time-of-flight (TOF) PET detector is defined, based only on the detection of Cherenkov photons. The proposed “CHERENCUBE” consists of a cubic Cherenkov radiator with position-sensitive photodetectors covering each crystal face. By means of the spatial distribution of the detected photons and their time of arrival, the point of interaction of the gamma-ray in the crystal can be determined. This study analyzes through theoretical calculations and Monte Carlo simulations the potential advantages of the concept toward reaching a Cherenkov-only detector for TOF-PET with DOI capability. Furthermore, an algorithm for the DOI estimationmore » is presented and the requirements for a practical implementation of the proposed concept are defined. Methods: The Monte Carlo simulations consisted of a cubic crystal with one photodetector coupled to each one of the faces of the cube. The sensitive area of the detector matched exactly the crystal size, which was varied in 1 mm steps between 1 × 1 × 1 mm{sup 3} and 10 × 10 × 10 mm{sup 3}. For each size, five independent simulations of ten thousand 511 keV gamma-rays were triggered at a fixed distance of 10 mm. The crystal chosen was PbWO{sub 4}. Its scintillation properties were simulated, but only Cherenkov photons were analyzed. Photodetectors were simulated having perfect photodetection efficiency and infinite time resolution. For every generated particle, the analysis considered its creation process, parent and daughter particles, energy, origin coordinates, trajectory, and time and position of detection. The DOI determination is based on the distribution of the emission time of all photons per event. These values are calculated as a function of the coordinates of detection and origin for every photon. The common origin is estimated by finding the distribution with the most similar emission time-points. Results: Detection efficiency increases with crystal size from 8.2% (1 × 1 × 1 mm{sup 3}) to 58.6% (10 × 10 × 10 mm{sup 3}) and decreases applying a photon detection threshold of 5/10/20 photons to 6.3%/4.3%/0.7% and 49.3%/30.4%/2.8%, respectively. The detection rate in the six photodetectors is uniform due to the nearly isotropic cone emission. Most cones originated after a photoelectric effect interaction, with two dominating peaks for the kinetic energy of the electron at 422.99 and 441.47 keV. The detection distance between same-event photons defines the spatial resolution of the detector required for individual photon recognition, with 20% of the detected photons having their closest neighbor within a distance of 5% of the length of the cube. Same-event photons are detected within a time window whose width is determined by the crystal size, with values of 30 and 150 ps for a 1 × 1 × 1 mm{sup 3} and a 10 × 10 × 10 mm{sup 3} cube, respectively. The DOI reconstruction has an accuracy of approximately 23% of the length of the cube, with an average value of 2.2 mm for a 10 × 10 × 10 mm{sup 3} CHERENCUBE. Conclusions: The proposed concept requires a detector with high photodetection efficiency. The structure of the sensitive surface of the detector should be a two dimensional array of microcells, able to provide individual detection coordinates and time stamps. The microcell size determines the ability to recognize individual photons, influencing detection efficiency. The 3D DOI recognition relies on the accuracy of the time stamps and detection coordinates, without the need for a recognition of the projected patterns of photons. The refractive index of the material defines a detector intrinsic energy-based rejection of scattered PET events at the cost of reduced sensitivity.« less

Unmanned aircraft systems (UAS) activities at the Department of the Interior

USGS Publications Warehouse

Quirk, Bruce K.; Hutt, Michael E.

2014-01-01

The U.S. Department of the Interior (DOI) is responsible for protecting and managing the natural resources and heritage on almost 20% of the land in the United States. The DOI’s mission requires access to remotely sensed data over vast lands, including areas that are remote and potentially dangerous to access. Unmanned Aircraft Systems (UAS) technology has the potential to enable the DOI to be a better steward of the land by: (1) Improving natural hazard forecasting and the analysis of the impacts. (2) Improving the understanding of climate change to better plan for likely impacts. (3) Developing precipitation and evaporation forecasting to better manage water resources. (4) Monitoring Arctic ice change and its impacts on ecosystems, coasts, and transportation. (5) Increasing safety and effectiveness of wildland fire management. (6) Enhancing search and rescue capabilities. (7) Broadening the abilities to monitor environmental or landscape conditions and changes. (8) Better understanding and protecting the Nation’s ecosystems. The initial operational testing and evaluations performed by the DOI have proven that UAS technology can be used to support many of the Department’s activities. UAS technology provides scientists a way to look longer, closer and more frequently at some of Earth’s most remote areas—places that were previously too dangerous or expensive to monitor in detail. The flexibility of operations and relative low cost to purchase and operate Small Unmanned Aerial System (sUAS) enhances the ability to track long-term landscape and environmental change. The initial testing indicates the operational costs are approximately 10% of traditional manned aircraft. In addition, users can quickly assess landscape-altering events such as wildland fires, floods and volcanoes. UAS technology will allow the DOI to do more with less and in the process enhance the Department’s ability to provide unbiased scientific information to help stakeholders make informed decisions. It will also provide a digital baseline record that can be archived and used when monitoring future events or conditions. One possible future scenario has scientists carrying sUAS into the field allowing quick deployment and operation to observe the environment or for emergency response. This scenario could also include a persistent monitoring capability provided by a UAS that can stay airborne over a small geographic area for days or weeks, or possibly longer. While the DOI focus is on sUAS, the Department recognizes that larger UAS systems will also play a role in meeting its mission. The Department anticipates meeting long-duration or specialized acquisition commitments, such as state or national aerial photography, by collaboration with other agencies or through commercial contracts. Even though the DOI continues to evaluate UAS and sensor technology to meet the Department’s mission, some of its bureaus are already moving towards an operational capability. The authors fully anticipate that by 2020 UAS will emerge as one of the primary platforms for DOI remote sensing applications.

Estimation of position resolution for DOI-PET detector using diameter 0.2 mm WLS fibers

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

Kaneko, Naomi; Ito, Hiroshi; Kawai, Hideyuki

We have been developing sub mm resolution andmore » $$ 1 million DOI-PET detector using wavelength shifting fibers (WLSF), scintillation crystals of plate shape and SiPM (MPPC: HAMAMATSU K. K.). Conventional design of DOI-PET detector is obtained about mm{sup 3} of resolution by using some blocks detecting gamma-ray in mm 3 voxel. It requires the production cost of $$ a few ten million or more for high technique of processing crystal and a lot of number of photo-devices, and this technology is reaching the limit of the resolution. Both higher resolution and lower cost of DOI-PET detector production is challenging for PET diagnosis population. We propose two type of detector. One is a whole body PET system, and the other for brain or small animal. Both PET system consist 6 blocks. the former consist of 6 layers 300 mm x 300 mm x 4 mm crystal plate. The latter consist 16 crystal layers, 4 x 4 crystal array. The size of crystal plate is 40 mm x 40 mm x 1 mm.The WLSF sheets connect to upper and lower plane. The whole PET systems connect 8 SiPMs are bonded on each side. For the brain PET, 9 WLSF fibers are bond on the each side. The expected position resolution maybe less than 1 mm at the former. We have estimation experimental performance the system using {sup 22}Na radioactive source. The collection efficiency of WLSF (R-3) sheet was achieved 10% with GAGG at 511 keV. The relation between reconstruction position and incident position is obtained linearity and achieved the resolution of 0.7 mm FWHM for x-axis of DOI by readout WLSF. (authors)« less

Influence of depth of interaction upon the performance of scintillator detectors.

PubMed

Brown, Mark S; Gundacker, Stefan; Taylor, Alaric; Tummeltshammer, Clemens; Auffray, Etiennette; Lecoq, Paul; Papakonstantinou, Ioannis

2014-01-01

The uncertainty in time of particle detection within a scintillator detector, characterised by the coincidence time resolution (CTR), is explored with respect to the interaction position within the scintillator crystal itself. Electronic collimation between two scintillator detectors is utilised to determine the CTR with depth of interaction (DOI) for different materials, geometries and wrappings. Significantly, no relationship between the CTR and DOI is observed within experimental error. Confinement of the interaction position is seen to degrade the CTR in long scintillator crystals by 10%.

New analysis of magnetic tornadoes

NASA Astrophysics Data System (ADS)

Arter, Wayne

2017-04-01

The recent work[1] showed how the equations of ideal, compressible magnetohydrodynamics (MHD) may be elegantly formulated in terms of Lie derivatives, building on the work of Helmholtz, Walen and Arnold. The ``linear" fields approach reduces ideal MHD to a low order set of non-linear ordinary differential equations capable of further simplification, so has the potential to enrich understanding of this difficult subject, which has application both to laboratory and geophysical/astrophysical plasmas. The just published work [2] extends the linear fields' solution of compressible nonlinear MHD to the case where the magnetic field depends on superlinear powers of position vector, usually but not always, expressed in Cartesian components. Implications of the resulting Lie-Taylor series expansion for physical applicability of the Dolzhansky-Kirchhoff (D-K) ``linear field" equations are found to be positive. It is demonstrated how resistivity may be included in the D-K model. Arguments are put forward that the D-K equations may be regarded as illustrating properties of nonlinear MHD in the same sense that the Lorenz equations inform about the onset of convective turbulence. It is thereby suggested that the Lie-Taylor series approach may lead to valuable insights into MHD turbulence, especially fast timescale transients and the role of plasmoids. This work has been part-funded by the RCUK Energy Programme. 1. Arter, W. 2013 ``Potential vorticity formulation of compressible magnetohydrodynamics. Phys. Rev. Lett. 110, 015004." (doi:10.1103/PhysRevLett.110.015004) 2. Arter, W. 2017 ``Beyond linear fields: the Lie-Taylor expansion", Proc. R. Soc. A473, 20160525; http://dx.doi.org/10.1098/rspa.2016.0525

SAGES: A Suite of Freely-Available Software Tools for Electronic Disease Surveillance in Resource-Limited Settings

DTIC Science & Technology

2011-05-10

concert with existing surveillance applications or the SAGES tools may be used en masse for an end-to-end biosurveillance capability. This flexibility...existing surveillance applications or the SAGES tools may be used en masse for an end–to-end biosurveillance capability. doi:10.1371/journal.pone...health resources, and the costs of proprietary software. The Suite for Automated Global Electronic bioSurveillance (SAGES) is a collection of modular

Influence of Depth of Interaction upon the Performance of Scintillator Detectors

PubMed Central

Brown, Mark S.; Gundacker, Stefan; Taylor, Alaric; Tummeltshammer, Clemens; Auffray, Etiennette; Lecoq, Paul; Papakonstantinou, Ioannis

2014-01-01

The uncertainty in time of particle detection within a scintillator detector, characterised by the coinci- dence time resolution (CTR), is explored with respect to the interaction position within the scintillator crystal itself. Electronic collimation between two scintillator detectors is utilised to determine the CTR with depth of interaction (DOI) for different materials, geometries and wrappings. Significantly, no rela- tionship between the CTR and DOI is observed within experimental error. Confinement of the interaction position is seen to degrade the CTR in long scintillator crystals by 10%. PMID:24875832

Generation of an expandable intermediate mesoderm restricted progenitor cell line from human pluripotent stem cells

PubMed Central

Kumar, Nathan; Richter, Jenna; Cutts, Josh; Bush, Kevin T; Trujillo, Cleber; Nigam, Sanjay K; Gaasterland, Terry; Brafman, David; Willert, Karl

2015-01-01

The field of tissue engineering entered a new era with the development of human pluripotent stem cells (hPSCs), which are capable of unlimited expansion whilst retaining the potential to differentiate into all mature cell populations. However, these cells harbor significant risks, including tumor formation upon transplantation. One way to mitigate this risk is to develop expandable progenitor cell populations with restricted differentiation potential. Here, we used a cellular microarray technology to identify a defined and optimized culture condition that supports the derivation and propagation of a cell population with mesodermal properties. This cell population, referred to as intermediate mesodermal progenitor (IMP) cells, is capable of unlimited expansion, lacks tumor formation potential, and, upon appropriate stimulation, readily acquires properties of a sub-population of kidney cells. Interestingly, IMP cells fail to differentiate into other mesodermally-derived tissues, including blood and heart, suggesting that these cells are restricted to an intermediate mesodermal fate. DOI: http://dx.doi.org/10.7554/eLife.08413.001 PMID:26554899

Estimation of position resolution for DOI-PET detector using diameter 0.2 mm WLS fibers [ANIMMA--2015-IO-x5

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

Kaneko, Naomi; Ito, H.; Han, S.

We have been developing a submillimeter resolution and low-cost DOI-PET detector using wavelength shifting fibers (WLSF), scintillating crystal plates and MPPCs (Hamamatsu Photonics). Conventional design of DOI-PET detectors had approximately mm{sup 3} of resolution by using some scintillating blocks with a volume of 1 mm{sup 3}, which detects gamma-ray. They are expensive due to difficulties in processing scintillating crystals and a large number of photo-detectors, and these technologies are likely to reach the limit of the resolution. Development of a lower cost DOI-PET detector with higher resolution is challenging to popularize the PET diagnosis. We propose two type of PETmore » detector. One is a whole body PET system, and the other is a PET system for brain or small animals. Each PET system consists 6 blocks. The former consists of 6 layers of crystal plates with 300 mm x 300 mm x 4 mm. The latter consists of 16 crystal layers, forming 4 x 4 crystal arrays. The size of the crystal plate is 40 mm x 40 mm x 1 mm. Wavelength shifting fiber (WLSF) sheets are attached to above and up and down side of crystal planes. The whole PET system has 8 MPPCs attached on each side. For the brain PET detector, 9 WLSF fibers are attached on the each side. The expected position resolution would be less than 1 mm at the former system. We have performed an experimental performance estimation for the system component using {sup 22}Na radioactive source. We achieved a collection efficiency of 10% using the WLSF sheet and Ce:Gd{sub 3}(Al,Ga){sub 5}O{sub 12} (GAGG) crystals at 511 keV. The linear relationship between reconstruction position and incident position was obtained, and a resolution of 0.7 mm (FWHM) for x-axis of DOI by the WLSF readout was achieved. (authors)« less

The effect of the sigma-1 receptor selective compound LS-1-137 on the DOI-induced head twitch response in mice.

PubMed

Malik, Maninder; Rangel-Barajas, Claudia; Mach, Robert H; Luedtke, Robert R

2016-09-01

Several receptor mediated pathways have been shown to modulate the murine head twitch response (HTR). However, the role of sigma receptors in the murine (±)-2,5-dimethoxy-4-iodoamphetamine (DOI)-induced HTR has not been previously investigated. We examined the ability of LS-1-137, a novel sigma-1 vs. sigma-2 receptor selective phenylacetamide, to modulate the DOI-induced HTR in DBA/2J mice. We also assessed the in vivo efficacy of reference sigma-1 receptor antagonists and agonists PRE-084 and PPCC. The effect of the sigma-2 receptor selective antagonist RHM-1-86 was also examined. Rotarod analysis was performed to monitor motor coordination after LS-1-137 administration. Radioligand binding techniques were used to determine the affinity of LS-1-137 at 5-HT2A and 5-HT2C receptors. LS-1-137 and the sigma-1 receptor antagonists haloperidol and BD 1047 were able to attenuate a DOI-induced HTR, indicating that LS-1-137 was acting in vivo as a sigma-1 receptor antagonist. LS-1-137 did not compromise rotarod performance within a dose range capable of attenuating the effects of DOI. Radioligand binding studies indicate that LS-1-137 exhibits low affinity binding at both 5-HT2A and 5-HT2C receptors. Based upon the results from these and our previous studies, LS-1-137 is a neuroprotective agent that attenuates the murine DOI-induced HTR independent of activity at 5-HT2 receptor subtypes, D2-like dopamine receptors, sigma-2 receptors and NMDA receptors. LS-1-137 appears to act as a sigma-1 receptor antagonist to inhibit the DOI-induced HTR. Therefore, the DOI-induced HTR can be used to assess the in vivo efficacy of sigma-1 receptor selective compounds. Copyright © 2016. Published by Elsevier Inc.

Studying post-etching silicon crystal defects on 300mm wafer by automatic defect review AFM

NASA Astrophysics Data System (ADS)

Zandiatashbar, Ardavan; Taylor, Patrick A.; Kim, Byong; Yoo, Young-kook; Lee, Keibock; Jo, Ahjin; Lee, Ju Suk; Cho, Sang-Joon; Park, Sang-il

2016-03-01

Single crystal silicon wafers are the fundamental elements of semiconductor manufacturing industry. The wafers produced by Czochralski (CZ) process are very high quality single crystalline materials with known defects that are formed during the crystal growth or modified by further processing. While defects can be unfavorable for yield for some manufactured electrical devices, a group of defects like oxide precipitates can have both positive and negative impacts on the final device. The spatial distribution of these defects may be found by scattering techniques. However, due to limitations of scattering (i.e. light wavelength), many crystal defects are either poorly classified or not detected. Therefore a high throughput and accurate characterization of their shape and dimension is essential for reviewing the defects and proper classification. While scanning electron microscopy (SEM) can provide high resolution twodimensional images, atomic force microscopy (AFM) is essential for obtaining three-dimensional information of the defects of interest (DOI) as it is known to provide the highest vertical resolution among all techniques [1]. However AFM's low throughput, limited tip life, and laborious efforts for locating the DOI have been the limitations of this technique for defect review for 300 mm wafers. To address these limitations of AFM, automatic defect review AFM has been introduced recently [2], and is utilized in this work for studying DOI on 300 mm silicon wafer. In this work, we carefully etched a 300 mm silicon wafer with a gaseous acid in a reducing atmosphere at a temperature and for a sufficient duration to decorate and grow the crystal defects to a size capable of being detected as light scattering defects [3]. The etched defects form a shallow structure and their distribution and relative size are inspected by laser light scattering (LLS). However, several groups of defects couldn't be properly sized by the LLS due to the very shallow depth and low light scattering. Likewise, SEM cannot be used effectively for post-inspection defect review and classification of these very shallow types of defects. To verify and obtain accurate shape and three-dimensional information of those defects, automatic defect review AFM (ADR AFM) is utilized for accurate locating and imaging of DOI. In ADR AFM, non-contact mode imaging is used for non-destructive characterization and preserving tip sharpness for data repeatability and reproducibility. Locating DOI and imaging are performed automatically with a throughput of many defects per hour. Topography images of DOI has been collected and compared with SEM images. The ADR AFM has been shown as a non-destructive metrology tool for defect review and obtaining three-dimensional topography information.

Spatial resolution recovery utilizing multi-ray tracing and graphic processing unit in PET image reconstruction.

PubMed

Liang, Yicheng; Peng, Hao

2015-02-07

Depth-of-interaction (DOI) poses a major challenge for a PET system to achieve uniform spatial resolution across the field-of-view, particularly for small animal and organ-dedicated PET systems. In this work, we implemented an analytical method to model system matrix for resolution recovery, which was then incorporated in PET image reconstruction on a graphical processing unit platform, due to its parallel processing capacity. The method utilizes the concepts of virtual DOI layers and multi-ray tracing to calculate the coincidence detection response function for a given line-of-response. The accuracy of the proposed method was validated for a small-bore PET insert to be used for simultaneous PET/MR breast imaging. In addition, the performance comparisons were studied among the following three cases: 1) no physical DOI and no resolution modeling; 2) two physical DOI layers and no resolution modeling; and 3) no physical DOI design but with a different number of virtual DOI layers. The image quality was quantitatively evaluated in terms of spatial resolution (full-width-half-maximum and position offset), contrast recovery coefficient and noise. The results indicate that the proposed method has the potential to be used as an alternative to other physical DOI designs and achieve comparable imaging performances, while reducing detector/system design cost and complexity.

A depth-of-interaction PET detector using a stair-shaped reflector arrangement and a single-ended scintillation light readout.

PubMed

Son, Jeong-Whan; Lee, Min Sun; Lee, Jae Sung

2017-01-21

Positron emission tomography (PET) detectors with the ability to encode depth-of-interaction (DOI) information allow us to simultaneously improve the spatial resolution and sensitivity of PET scanners. In this study, we propose a DOI PET detector based on a stair-pattern reflector arrangement inserted between pixelated crystals and a single-ended scintillation light readout. The main advantage of the proposed method is its simplicity; DOI information is decoded from a flood map and the data can be simply acquired by using a single-ended readout system. Another potential advantage is that the two-step DOI detectors can provide the largest peak position distance in a flood map because two-dimensional peak positions can be evenly distributed. We conducted a Monte Carlo simulation and obtained flood maps. Then, we conducted experimental studies using two-step DOI arrays of 5  ×  5 Lu 1.9 Y 0.1 SiO 5 :Ce crystals with a cross-section of 1.7  ×  1.7 mm 2 and different detector configurations: an unpolished single-layer ( U S) array, a polished single-layer ( P S) array and a polished stacked two-layer ( P T) array. For each detector configuration, both air gaps and room-temperature vulcanization (RTV) silicone gaps were tested. Detectors U S and P T showed good peak separation in each scintillator with an average peak-to-valley ratio (PVR) and distance-to-width ratio (DWR) of 2.09 and 1.53, respectively. Detector P S RTV showed lower PVR and DWR (1.65 and 1.34, respectively). The configuration of detector P T Air is preferable for the construction of time-of-flight-DOI detectors because timing resolution was degraded by only about 40 ps compared with that of a non-DOI detector. The performance of detectors U S Air and P S RTV was lower than that of a non-DOI detector, and thus these designs are favorable when the manufacturing cost is more important than timing performance. The results demonstrate that the proposed DOI-encoding method is a promising candidate for PET scanners that require high resolution and sensitivity and operate with conventional acquisition systems.

An FPGA-Based Real-Time Maximum Likelihood 3D Position Estimation for a Continuous Crystal PET Detector

NASA Astrophysics Data System (ADS)

Wang, Yonggang; Xiao, Yong; Cheng, Xinyi; Li, Deng; Wang, Liwei

2016-02-01

For the continuous crystal-based positron emission tomography (PET) detector built in our lab, a maximum likelihood algorithm adapted for implementation on a field programmable gate array (FPGA) is proposed to estimate the three-dimensional (3D) coordinate of interaction position with the single-end detected scintillation light response. The row-sum and column-sum readout scheme organizes the 64 channels of photomultiplier (PMT) into eight row signals and eight column signals to be readout for X- and Y-coordinates estimation independently. By the reference events irradiated in a known oblique angle, the probability density function (PDF) for each depth-of-interaction (DOI) segment is generated, by which the reference events in perpendicular irradiation are assigned to DOI segments for generating the PDFs for X and Y estimation in each DOI layer. Evaluated by the experimental data, the algorithm achieves an average X resolution of 1.69 mm along the central X-axis, and DOI resolution of 3.70 mm over the whole thickness (0-10 mm) of crystal. The performance improvements from 2D estimation to the 3D algorithm are also presented. Benefiting from abundant resources of FPGA and a hierarchical storage arrangement, the whole algorithm can be implemented into a middle-scale FPGA. By a parallel structure in pipelines, the 3D position estimator on the FPGA can achieve a processing throughput of 15 M events/s, which is sufficient for the requirement of real-time PET imaging.

Concerning RNA-guided gene drives for the alteration of wild populations

PubMed Central

Esvelt, Kevin M; Smidler, Andrea L; Catteruccia, Flaminia; Church, George M

2014-01-01

Gene drives may be capable of addressing ecological problems by altering entire populations of wild organisms, but their use has remained largely theoretical due to technical constraints. Here we consider the potential for RNA-guided gene drives based on the CRISPR nuclease Cas9 to serve as a general method for spreading altered traits through wild populations over many generations. We detail likely capabilities, discuss limitations, and provide novel precautionary strategies to control the spread of gene drives and reverse genomic changes. The ability to edit populations of sexual species would offer substantial benefits to humanity and the environment. For example, RNA-guided gene drives could potentially prevent the spread of disease, support agriculture by reversing pesticide and herbicide resistance in insects and weeds, and control damaging invasive species. However, the possibility of unwanted ecological effects and near-certainty of spread across political borders demand careful assessment of each potential application. We call for thoughtful, inclusive, and well-informed public discussions to explore the responsible use of this currently theoretical technology. DOI: http://dx.doi.org/10.7554/eLife.03401.001 PMID:25035423

A depth-encoding PET detector that uses light sharing and single-ended readout with silicon photomultipliers

NASA Astrophysics Data System (ADS)

Kuang, Zhonghua; Yang, Qian; Wang, Xiaohui; Fu, Xin; Ren, Ning; Sang, Ziru; Wu, San; Zheng, Yunfei; Zhang, Xianming; Hu, Zhanli; Du, Junwei; Liang, Dong; Liu, Xin; Zheng, Hairong; Yang, Yongfeng

2018-02-01

Detectors with depth-encoding capability and good timing resolution are required to develop high-performance whole-body or total-body PET scanners. In this work, depth-encoding PET detectors that use light sharing between two discrete crystals and single-ended readout with silicon photomultipliers (SiPMs) were manufactured and evaluated. The detectors consisted of two unpolished 3  ×  3  ×  20 mm3 LYSO crystals with different coupling materials between them and were read out by Hamamatsu 3  ×  3 mm2 SiPMs with one-to-one coupling. The ratio of the energy of one SiPM to the total energy of two SiPMs was used to measure the depth of interaction (DOI). Detectors with different coupling materials in-between the crystals were measured in the singles mode in an effort to obtain detectors that can provide good DOI resolution. The DOI resolution and energy resolution of three types of detector were measured and the timing resolution was measured for the detector with the best DOI and energy resolution. The optimum detector, with 5 mm optical glue, a 9 mm triangular ESR and a 6 mm rectangular ESR in-between the unpolished crystals, provides a DOI resolution of 2.65 mm, an energy resolution of 10.0% and a timing resolution of 427 ps for events of E  >  400 keV. The detectors simultaneously provide good DOI and timing resolution, and show great promise for the development of high-performance whole-body and total-body PET scanners.

Long-distance Dating: In situ geochronology for planetary missions

NASA Astrophysics Data System (ADS)

Cho, Y.; Cohen, B. A.

2016-12-01

Isotopic dating is an essential tool to establish an absolute chronology for geological events. It enables a planet's crystallization history, magmatic evolution, and alteration to be placed into the framework of solar system history. The capability for in situ geochronology will open up the ability for this crucial measurement to be accomplished as part of lander or rover complement. An in situ geochronology package can also complement sample return missions by identifying the most interesting rocks to cache or return to Earth. The capability of flight instruments to conduct in situ geochronology is called out in the NASA Planetary Science Decadal Survey and the NASA Technology Roadmap as needing development to serve the community's needs. Beagle 2 is the only mission launched to date with the explicit aim to perform in situ K-Ar isotopic dating [1], but it failed to communicate and was lost. The first in situ K-Ar date on Mars, using SAM and APXS measurements on the Cumberland mudstone [2], yielded an age of 4.21 ± 0.35 Ga and validated the idea of K-Ar dating on other planets, though the Curiosity method is not purpose-built for dating and requires many assumptions that degrade its precision. To get more precise and meaningful ages, multiple groups are developing dedicated in situ dating instruments [3-7], including the K-Ar Laser Experiment (KArLE) [5]. KArLE ablates a rock sample, measures K using laser-induced breakdown spectroscopy (LIBS), measures liberated Ar using mass spectrometry (MS), and relates the two by measuring the volume of the ablated pit with optical imaging. The KArLE breadboard tested planetary analog samples yielding ages with 25% uncertainty on very young samples (<50Ma) and 10% uncertainties on older samples. [1] Talboys, et al. (2009) Planetary and Space Science 57, 1237-1245, doi:10.1016/j.pss.2009.02.012. [2] Farley, et al. (2014) Science 343, doi:10.1126/science.1247166. [3] Anderson, et al. (2015) Rapid Comm. Mass Spec. 29, 191-204, doi:10.1002/rcm.7095. [4] Solé (2014) Chem. Geo. doi: 10.1016/j.chemgeo.2014.08.027. [5] Cohen, et al. (2014) Geostand. Geoanaly. Res. 38, 421-439, doi:10.1111/j.1751-908X.2014.00319.x. [6] Farley, et al. (2013) Geochim. Cosmochim. Acta 110, 1-12, doi:10.1016/j.gca.2013.02.010. [7] Cho, et al. (2016) Planet. Space Sci. 128, 14-29.

Flattop regulates basal body docking and positioning in mono- and multiciliated cells

PubMed Central

Gegg, Moritz; Böttcher, Anika; Burtscher, Ingo; Hasenoeder, Stefan; Van Campenhout, Claude; Aichler, Michaela; Walch, Axel; Grant, Seth G N; Lickert, Heiko

2014-01-01

Planar cell polarity (PCP) regulates basal body (BB) docking and positioning during cilia formation, but the underlying mechanisms remain elusive. In this study, we investigate the uncharacterized gene Flattop (Fltp) that is transcriptionally activated during PCP acquisition in ciliated tissues. Fltp knock-out mice show BB docking and ciliogenesis defects in multiciliated lung cells. Furthermore, Fltp is necessary for kinocilium positioning in monociliated inner ear hair cells. In these cells, the core PCP molecule Dishevelled 2, the BB/spindle positioning protein Dlg3, and Fltp localize directly adjacent to the apical plasma membrane, physically interact and surround the BB at the interface of the microtubule and actin cytoskeleton. Dlg3 and Fltp knock-outs suggest that both cooperatively translate PCP cues for BB positioning in the inner ear. Taken together, the identification of novel BB/spindle positioning components as potential mediators of PCP signaling might have broader implications for other cell types, ciliary disease, and asymmetric cell division. DOI: http://dx.doi.org/10.7554/eLife.03842.001 PMID:25296022

Predicting the timing properties of phosphor-coated scintillators using Monte Carlo light transport simulation

PubMed Central

Roncali, Emilie; Schmall, Jeffrey P.; Viswanath, Varsha; Berg, Eric; Cherry, Simon R.

2014-01-01

Current developments in positron emission tomography (PET) focus on improving timing performance for scanners with time-of-flight (TOF) capability, and incorporating depth-of-interaction (DOI) information. Recent studies have shown that incorporating DOI correction in TOF detectors can improve timing resolution, and that DOI also becomes more important in long axial field-of-view scanners. We have previously reported the development of DOI-encoding detectors using phosphor-coated scintillation crystals; here we study the timing properties of those crystals to assess the feasibility of providing some level of DOI information without significantly degrading the timing performance. We used Monte Carlo simulations to provide a detailed understanding of light transport in phosphor-coated crystals which cannot be fully characterized experimentally. Our simulations used a custom reflectance model based on 3D crystal surface measurements. Lutetium oxyorthosilicate (LSO) crystals were simulated with a phosphor coating in contact with the scintillator surfaces and an external diffuse reflector (teflon). Light output, energy resolution, and pulse shape showed excellent agreement with experimental data obtained on 3 × 3 × 10 mm3 crystals coupled to a photomultiplier tube (PMT). Scintillator intrinsic timing resolution was simulated with head-on and side-on configurations, confirming the trends observed experimentally. These results indicate that the model may be used to predict timing properties in phosphor-coated crystals and guide the coating for optimal DOI resolution/timing performance trade-off for a given crystal geometry. Simulation data suggested that a time stamp generated from early photoelectrons minimizes degradation of the timing resolution, thus making this method potentially more useful for TOF-DOI detectors than our initial experiments suggested. Finally, this approach could easily be extended to the study of timing properties in other scintillation crystals, with a range of treatments and materials attached to the surface. PMID:24694727

Integrating Models of Diffusion and Behavior to Predict Innovation Adoption, Maintenance, and Social Diffusion.

PubMed

Smith, Rachel A; Kim, Youllee; Zhu, Xun; Doudou, Dimi Théodore; Sternberg, Eleanore D; Thomas, Matthew B

2018-01-01

This study documents an investigation into the adoption and diffusion of eave tubes, a novel mosquito vector control, during a large-scale scientific field trial in West Africa. The diffusion of innovations (DOI) and the integrated model of behavior (IMB) were integrated (i.e., innovation attributes with attitudes and social pressures with norms) to predict participants' (N = 329) diffusion intentions. The findings showed that positive attitudes about the innovation's attributes were a consistent positive predictor of diffusion intentions: adopting it, maintaining it, and talking with others about it. As expected by the DOI and the IMB, the social pressure created by a descriptive norm positively predicted intentions to adopt and maintain the innovation. Drawing upon sharing research, we argued that the descriptive norm may dampen future talk about the innovation, because it may no longer be seen as a novel, useful topic to discuss. As predicted, the results showed that as the descriptive norm increased, the intention to talk about the innovation decreased. These results provide broad support for integrating the DOI and the IMB to predict diffusion and for efforts to draw on other research to understand motivations for social diffusion.

Performance and field tests of a handheld Compton camera using 3-D position-sensitive scintillators coupled to multi-pixel photon counter arrays

NASA Astrophysics Data System (ADS)

Kishimoto, A.; Kataoka, J.; Nishiyama, T.; Fujita, T.; Takeuchi, K.; Okochi, H.; Ogata, H.; Kuroshima, H.; Ohsuka, S.; Nakamura, S.; Hirayanagi, M.; Adachi, S.; Uchiyama, T.; Suzuki, H.

2014-11-01

After the nuclear disaster in Fukushima, radiation decontamination has become particularly urgent. To help identify radiation hotspots and ensure effective decontamination operation, we have developed a novel Compton camera based on Ce-doped Gd3Al2Ga3O12 scintillators and multi-pixel photon counter (MPPC) arrays. Even though its sensitivity is several times better than that of other cameras being tested in Fukushima, we introduce a depth-of-interaction (DOI) method to further improve the angular resolution. For gamma rays, the DOI information, in addition to 2-D position, is obtained by measuring the pulse-height ratio of the MPPC arrays coupled to ends of the scintillator. We present the detailed performance and results of various field tests conducted in Fukushima with the prototype 2-D and DOI Compton cameras. Moreover, we demonstrate stereo measurement of gamma rays that enables measurement of not only direction but also approximate distance to radioactive hotspots.

Experimental Evaluation of Depth-of-Interaction Correction in a Small-Animal Positron Emission Tomography Scanner

PubMed Central

Green, Michael V.; Ostrow, Harold G.; Seidel, Jurgen; Pomper, Martin G.

2013-01-01

Human and small-animal positron emission tomography (PET) scanners with cylindrical geometry and conventional detectors exhibit a progressive reduction in radial spatial resolution with increasing radial distance from the geometric axis of the scanner. This “depth-of-interaction” (DOI) effect is sufficiently deleterious that many laboratories have devised novel schemes to reduce the magnitude of this effect and thereby yield PET images of greater quantitative accuracy. Here we examine experimentally the effects of a particular DOI correction method (dual-scintillator phoswich detectors with pulse shape discrimination) implemented in a small-animal PET scanner by comparing the same phantom and same mouse images with and without DOI correction. The results suggest that even this relatively coarse, two-level estimate of radial gamma ray interaction position significantly reduces the DOI parallax error. This study also confirms two less appreciated advantages of DOI correction: a reduction in radial distortion and radial source displacement as a source is moved toward the edge of the field of view and a resolution improvement detectable in the central field of view likely owing to improved spatial sampling. PMID:21084028

Experimental evaluation of depth-of-interaction correction in a small-animal positron emission tomography scanner.

PubMed

Green, Michael V; Ostrow, Harold G; Seidel, Jurgen; Pomper, Martin G

2010-12-01

Human and small-animal positron emission tomography (PET) scanners with cylindrical geometry and conventional detectors exhibit a progressive reduction in radial spatial resolution with increasing radial distance from the geometric axis of the scanner. This "depth-of-interaction" (DOI) effect is sufficiently deleterious that many laboratories have devised novel schemes to reduce the magnitude of this effect and thereby yield PET images of greater quantitative accuracy. Here we examine experimentally the effects of a particular DOI correction method (dual-scintillator phoswich detectors with pulse shape discrimination) implemented in a small-animal PET scanner by comparing the same phantom and same mouse images with and without DOI correction. The results suggest that even this relatively coarse, two-level estimate of radial gamma ray interaction position significantly reduces the DOI parallax error. This study also confirms two less appreciated advantages of DOI correction: a reduction in radial distortion and radial source displacement as a source is moved toward the edge of the field of view and a resolution improvement detectable in the central field of view likely owing to improved spatial sampling.

Combining growth-promoting genes leads to positive epistasis in Arabidopsis thaliana

PubMed Central

Vanhaeren, Hannes; Gonzalez, Nathalie; Coppens, Frederik; De Milde, Liesbeth; Van Daele, Twiggy; Vermeersch, Mattias; Eloy, Nubia B; Storme, Veronique; Inzé, Dirk

2014-01-01

Several genes positively influence final leaf size in Arabidopsis when mutated or overexpressed. The connections between these growth regulators are still poorly understood although such knowledge would further contribute to understand the processes driving leaf growth. In this study, we performed a combinatorial screen with 13 transgenic Arabidopsis lines with an increased leaf size. We found that from 61 analyzed combinations, 39% showed an additional increase in leaf size and most resulted from a positive epistasis on growth. Similar to what is found in other organisms in which such an epistasis assay was performed, only few genes were highly connected in synergistic combinations as we observed a positive epistasis in the majority of the combinations with samba, BRI1OE or SAUR19OE. Furthermore, positive epistasis was found with combinations of genes with a similar mode of action, but also with genes which affect distinct processes, such as cell proliferation and cell expansion. DOI: http://dx.doi.org/10.7554/eLife.02252.001 PMID:24843021

Spatial signals link exit from mitosis to spindle position

PubMed Central

Falk, Jill Elaine; Tsuchiya, Dai; Verdaasdonk, Jolien; Lacefield, Soni; Bloom, Kerry; Amon, Angelika

2016-01-01

In budding yeast, if the spindle becomes mispositioned, cells prevent exit from mitosis by inhibiting the mitotic exit network (MEN). The MEN is a signaling cascade that localizes to spindle pole bodies (SPBs) and activates the phosphatase Cdc14. There are two competing models that explain MEN regulation by spindle position. In the 'zone model', exit from mitosis occurs when a MEN-bearing SPB enters the bud. The 'cMT-bud neck model' posits that cytoplasmic microtubule (cMT)-bud neck interactions prevent MEN activity. Here we find that 1) eliminating cMT– bud neck interactions does not trigger exit from mitosis and 2) loss of these interactions does not precede Cdc14 activation. Furthermore, using binucleate cells, we show that exit from mitosis occurs when one SPB enters the bud despite the presence of a mispositioned spindle. We conclude that exit from mitosis is triggered by a correctly positioned spindle rather than inhibited by improper spindle position. DOI: http://dx.doi.org/10.7554/eLife.14036.001 PMID:27166637

Reaching 200-ps timing resolution in a time-of-flight and depth-of-interaction positron emission tomography detector using phosphor-coated crystals and high-density silicon photomultipliers

PubMed Central

Kwon, Sun Il; Ferri, Alessandro; Gola, Alberto; Berg, Eric; Piemonte, Claudio; Cherry, Simon R.; Roncali, Emilie

2016-01-01

Abstract. Current research in the field of positron emission tomography (PET) focuses on improving the sensitivity of the scanner with thicker detectors, extended axial field-of-view, and time-of-flight (TOF) capability. These create the need for depth-of-interaction (DOI) encoding to correct parallax errors. We have proposed a method to encode DOI using phosphor-coated crystals. Our initial work using photomultiplier tubes (PMTs) demonstrated the possibilities of the proposed method, however, a major limitation of PMTs for this application is poor quantum efficiency in yellow light, corresponding to the wavelengths of the converted light by the phosphor coating. In contrast, the red-green-blue-high-density (RGB-HD) silicon photomultipliers (SiPMs) have a high photon detection efficiency across the visible spectrum. Excellent coincidence resolving time (CRT; <210  ps) was obtained by coupling RGB-HD SiPMs and  3 × 3 × 20  mm3 lutetium fine silicate crystals coated on a third of one of their lateral sides. Events were classified in three DOI bins (∼6.7-mm width) with an average sensitivity of 83.1%. A CRT of ∼200  ps combined with robust DOI encoding is a marked improvement in the phosphor-coated approach that we pioneered. For the first time, we read out these crystals with SiPMs and clearly demonstrated the potential of the RGB-HD SiPMs for this TOF-DOI PET detector. PMID:27921069

Identity of neocortical layer 4 neurons is specified through correct positioning into the cortex

PubMed Central

Oishi, Koji; Nakagawa, Nao; Tachikawa, Kashiko; Sasaki, Shinji; Aramaki, Michihiko; Hirano, Shinji; Yamamoto, Nobuhiko; Yoshimura, Yumiko; Nakajima, Kazunori

2016-01-01

Many cell-intrinsic mechanisms have been shown to regulate neuronal subtype specification in the mammalian neocortex. However, how much cell environment is crucial for subtype determination still remained unclear. Here, we show that knockdown of Protocadherin20 (Pcdh20), which is expressed in post-migratory neurons of layer 4 (L4) lineage, caused the cells to localize in L2/3. The ectopically positioned “future L4 neurons” lost their L4 characteristics but acquired L2/3 characteristics. Knockdown of a cytoskeletal protein in the future L4 neurons, which caused random disruption of positioning, also showed that those accidentally located in L4 acquired the L4 characteristics. Moreover, restoration of positioning of the Pcdh20-knockdown neurons into L4 rescued the specification failure. We further suggest that the thalamocortical axons provide a positional cue to specify L4 identity. These results suggest that the L4 identity is not completely determined at the time of birth but ensured by the surrounding environment after appropriate positioning. DOI: http://dx.doi.org/10.7554/eLife.10907.001 PMID:26880563

Developing Communication as a Graduate Outcome: Using "Writing across the Curriculum" as a Whole-of-Institution Approach to Curriculum and Pedagogy

ERIC Educational Resources Information Center

Harper, Rowena; Vered, Karen Orr

2017-01-01

Communication is widely recognised as an important capability for university graduates [Organisation for Economic Co-operation and Development. (2013). "OECD skills outlook 2013: First results from the survey of adult skills." Author. Retrieved from http://dx.doi.org/10.1787/9789264204256-en]. Yet, research suggests that it is often not…

Basic performance evaluation of a Si-PM array-based LGSO phoswich DOI block detector for a high-resolution small animal PET system.

PubMed

Yamamoto, Seiichi

2013-07-01

The silicon photomultiplier (Si-PM) is a promising photodetector for PET. However, it remains unclear whether Si-PM can be used for a depth-of-interaction (DOI) detector based on the decay time differences of the scintillator where pulse shape analysis is used. For clarification, we tested the Hamamatsu 4 × 4 Si-PM array (S11065-025P) combined with scintillators that used different decay times to develop DOI block detectors using the pulse shape analysis. First, Ce-doped Gd(2)SiO(5) (GSO) scintillators of 0.5 mol% Ce were arranged in a 4 × 4 matrix and were optically coupled to the center of each pixel of the Si-PM array for measurement of the energy resolution as well as its gain variations according to the temperature. Then two types of Ce-doped Lu(1.9)Gd(0.1)Si0(5) (LGSO) scintillators, 0.025 mol% Ce (decay time: ~31 ns) and 0.75 mol% Ce (decay time: ~46 ns), were optically coupled in the DOI direction, arranged in a 11 × 7 matrix, and optically coupled to a Si-PM array for testing of the possibility of a high-resolution DOI detector. The energy resolution of the Si-PM array-based GSO block detector was 18 ± 4.4 % FWHM for a Cs-137 gamma source (662 keV). Less than 1 mm crystals were clearly resolved in the position map of the LGSO DOI block detector. The peak-to-valley ratio (P/V) derived from the pulse shape spectra of the LGSO DOI block detector was 2.2. These results confirmed that Si-PM array-based DOI block detectors are promising for high-resolution small animal PET systems.

Atom Resolved Electron Microscpe Images of Polyvinylidene Fluoride Nanofibers for Water Desalination

NASA Astrophysics Data System (ADS)

Liu, Suqi; Reneker, Darrell

Ultra-thin nanofibers of polyvinylidene fluoride (PVDF), observed with an aberration corrected transmission electron microscope, in a through focus series of 50 images, revealed three-dimensional positions and motions of some molecular segments. The x,y positions of fluorine atoms in the PVDF segments were observed at high resolution as described in (DOI: 10.1039/c5nr01619c). The methods described in (DOI:10.1038/nature11074) were used to measure the positions of fluorine atoms along the observation direction of the microscope. PVDF is widely used to separate salt ions from water in reverse osmosis systems. The observed separation depends on the atomic scale positions and motions of segments of the PVDF molecules. Conformational changes and the associated changes in the directions of the dipole moments of PVDF segments distinguish the diffusion of dipolar water molecules from diffusion of salt ions to accomplish desalination. Authors thank Coalescence Filtration Nanofibers Consortium at The University of Akron for support.

Wnt, Ptk7, and FGFRL expression gradients control trunk positional identity in planarian regeneration

PubMed Central

Lander, Rachel; Petersen, Christian P

2016-01-01

Mechanisms enabling positional identity re-establishment are likely critical for tissue regeneration. Planarians use Wnt/beta-catenin signaling to polarize the termini of their anteroposterior axis, but little is known about how regeneration signaling restores regionalization along body or organ axes. We identify three genes expressed constitutively in overlapping body-wide transcriptional gradients that control trunk-tail positional identity in regeneration. ptk7 encodes a trunk-expressed kinase-dead Wnt co-receptor, wntP-2 encodes a posterior-expressed Wnt ligand, and ndl-3 encodes an anterior-expressed homolog of conserved FGFRL/nou-darake decoy receptors. ptk7 and wntP-2 maintain and allow appropriate regeneration of trunk tissue position independently of canonical Wnt signaling and with suppression of ndl-3 expression in the posterior. These results suggest that restoration of regional identity in regeneration involves the interpretation and re-establishment of axis-wide transcriptional gradients of signaling molecules. DOI: http://dx.doi.org/10.7554/eLife.12850.001 PMID:27074666

Observing terrestrial water storage and land-atmosphere dynamics from space: Implications for forecasting and climate projections

NASA Astrophysics Data System (ADS)

Seneviratne, S. I.; Humphrey, V.; Nicolai-Shaw, N.; Gudmundsson, L.; Guillod, B.; Hirschi, M.; Michel, D.; Orth, R.; Zscheischler, J.

2016-12-01

In recent years, several new satellite products have been derived which allow an unprecendented assessment of terrestrial water storage and land-atmosphere dynamics. This presentation will review some of these new developments, with a focus on drought dynamics, plant-water interactions, and soil moisture-atmosphere feedbacks. Results derived based on the Gravity Recovery and Climate Experiment (GRACE, Humphrey et al. 2016) and the European Space Agency Climate Change Initiative (ESA CCI) Soil Moisture dataset (Nicolai-Shaw et al. 2015, 2016; Hirschi et al. 2014) will be highlighted, as well as assessments using satellite-based estimates of evapotranspiration (Mueller and Seneviratne 2014, Michel et al. 2016), vegetation activity (Zscheischler et al. 2015), and combined soil moisture and precipitation analyses (Guillod et al. 2015). These findings provide new insights on the development of prediction capabilities for droughts, precipitation events, and heat waves, and the reduction of uncertainties in climate model projections. References: Guillod, B.P., B. Orlowsky, D.G. Miralles, A.J. Teuling, and S.I. Seneviratne, 2015. Nature Communications, 6:6443, DOI: 10.1038/ncomms7443 Hirschi, M., B. Mueller, W. Dorigo, and S.I. Seneviratne, 2014. Remote Sensing of Environment, 154, 246-252. Humphrey, V., L. Gudmundsson, and S.I. Seneviratne, 2016. Surv. Geophysics, 37, 357-395, DOI 10.1007/s10712-016-9367-1. Michel, D., et al. 2016. Hydrol. Earth Syst. Sci. 20, 803-822, doi:10.5194/hess-20-803-2016. Mueller, M., and S.I. Seneviratne, 2014. Geophys. Res. Lett., 41, 1-7, doi:10.1002/2013GL058055. Nicolai-Shaw, N., L. Gudmundsson, M. Hirschi, and S.I. Seneviratne, 2016. Geophys. Res. Lett., in review. Nicolai-Shaw, N., M. Hirschi, H. Mittelbach, and S.I. Seneviratne, 2015. Journal of Geophysical Research, 120, doi:10.1002/2015JD023305. Zscheischler, J., R. Orth, and S.I. Seneviratne, 2015. Geophys. Res. Lett., 42, 9816-9824, doi:10.1002/2015GL066563.

Role of competition between polarity sites in establishing a unique front

PubMed Central

Wu, Chi-Fang; Chiou, Jian-Geng; Minakova, Maria; Woods, Benjamin; Tsygankov, Denis; Zyla, Trevin R; Savage, Natasha S; Elston, Timothy C; Lew, Daniel J

2015-01-01

Polarity establishment in many cells is thought to occur via positive feedback that reinforces even tiny asymmetries in polarity protein distribution. Cdc42 and related GTPases are activated and accumulate in a patch of the cortex that defines the front of the cell. Positive feedback enables spontaneous polarization triggered by stochastic fluctuations, but as such fluctuations can occur at multiple locations, how do cells ensure that they make only one front? In polarizing cells of the model yeast Saccharomyces cerevisiae, positive feedback can trigger growth of several Cdc42 clusters at the same time, but this multi-cluster stage rapidly evolves to a single-cluster state, which then promotes bud emergence. By manipulating polarity protein dynamics, we show that resolution of multi-cluster intermediates occurs through a greedy competition between clusters to recruit and retain polarity proteins from a shared intracellular pool. DOI: http://dx.doi.org/10.7554/eLife.11611.001 PMID:26523396

Improvement of crystal identification performance for a four-layer DOI detector composed of crystals segmented by laser processing

NASA Astrophysics Data System (ADS)

Mohammadi, Akram; Inadama, Naoko; Yoshida, Eiji; Nishikido, Fumihiko; Shimizu, Keiji; Yamaya, Taiga

2017-09-01

We have developed a four-layer depth of interaction (DOI) detector with single-side photon readout, in which segmented crystals with the patterned reflector insertion are separately identified by the Anger-type calculation. Optical conditions between segmented crystals, where there is no reflector, affect crystal identification ability. Our objective of this work was to improve crystal identification performance of the four-layer DOI detector that uses crystals segmented with a recently developed laser processing technique to include laser processed boundaries (LPBs). The detector consisted of 2 × 2 × 4mm3 LYSO crystals and a 4 × 4 array multianode photomultiplier tube (PMT) with 4.5 mm anode pitch. The 2D position map of the detector was calculated by the Anger calculation method. At first, influence of optical condition on crystal identification was evaluated for a one-layer detector consisting of a 2 × 2 crystal array with three different optical conditions between the crystals: crystals stuck together using room temperature vulcanized (RTV) rubber, crystals with air coupling and segmented crystals with LPBs. The crystal array with LPBs gave the shortest distance between crystal responses in the 2D position map compared with the crystal array coupled with RTV rubber or air due to the great amount of cross-talk between segmented crystals with LPBs. These results were used to find optical conditions offering the optimum distance between crystal responses in the 2D position map for the four-layer DOI detector. Crystal identification performance for the four-layer DOI detector consisting of an 8 × 8 array of crystals segmented with LPBs was examined and it was not acceptable for the crystals in the first layer. The crystal identification was improved for the first layer by changing the optical conditions between all 2 × 2 crystal arrays of the first layer to RTV coupling. More improvement was observed by combining different optical conditions between all crystals of the first layer and some crystals of the second and the third layers of the segmented array.

Time-over-threshold for pulse shape discrimination in a time-of-flight phoswich PET detector.

PubMed

Chang, Chen-Ming; Cates, Joshua W; Levin, Craig S

2017-01-07

It is well known that a PET detector capable of measuring both photon time-of-flight (TOF) and depth-of-interaction (DOI) improves the image quality and accuracy. Phoswich designs have been realized in PET detectors to measure DOI for more than a decade. However, PET detectors based on phoswich designs put great demand on the readout circuits, which have to differentiate the pulse shape produced by different crystal layers. A simple pulse shape discrimination approach is required to realize the phoswich designs in a clinical PET scanner, which consists of thousands of scintillation crystal elements. In this work, we studied time-over-threshold (ToT) as a pulse shape parameter for DOI. The energy, timing and DOI performance were evaluated for a phoswich detector design comprising [Formula: see text] mm LYSO:Ce crystal optically coupled to [Formula: see text] mm calcium co-doped LSO:Ce,Ca(0.4%) crystal read out by a silicon photomultiplier (SiPM). A DOI accuracy of 97.2% has been achieved for photopeak events using the proposed time-over-threshold (ToT) processing. The energy resolution without correction for SiPM non-linearity was [Formula: see text]% and [Formula: see text]% FWHM at 511 keV for LYSO and LSO crystal layers, respectively. The coincidence time resolution for photopeak events ranges from 164.6 ps to 183.1 ps FWHM, depending on the layer combinations. The coincidence time resolution for inter-crystal scatter events ranges from 214.6 ps to 418.3 ps FWHM, depending on the energy windows applied. These results show great promises of using ToT for pulse shape discrimination in a TOF phoswich detector since a ToT measurement can be easily implemented in readout electronics.

MO-G-17A-01: Innovative High-Performance PET Imaging System for Preclinical Imaging and Translational Researches

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

Sun, X; Lou, K; Rice University, Houston, TX

Purpose: To develop a practical and compact preclinical PET with innovative technologies for substantially improved imaging performance required for the advanced imaging applications. Methods: Several key components of detector, readout electronics and data acquisition have been developed and evaluated for achieving leapfrogged imaging performance over a prototype animal PET we had developed. The new detector module consists of an 8×8 array of 1.5×1.5×30 mm{sup 3} LYSO scintillators with each end coupled to a latest 4×4 array of 3×3 mm{sup 2} Silicon Photomultipliers (with ∼0.2 mm insensitive gap between pixels) through a 2.0 mm thick transparent light spreader. Scintillator surface andmore » reflector/coupling were designed and fabricated to reserve air-gap to achieve higher depth-of-interaction (DOI) resolution and other detector performance. Front-end readout electronics with upgraded 16-ch ASIC was newly developed and tested, so as the compact and high density FPGA based data acquisition and transfer system targeting 10M/s coincidence counting rate with low power consumption. The new detector module performance of energy, timing and DOI resolutions with the data acquisition system were evaluated. Initial Na-22 point source image was acquired with 2 rotating detectors to assess the system imaging capability. Results: No insensitive gaps at the detector edge and thus it is capable for tiling to a large-scale detector panel. All 64 crystals inside the detector were clearly separated from a flood-source image. Measured energy, timing, and DOI resolutions are around 17%, 2.7 ns and 1.96 mm (mean value). Point source image is acquired successfully without detector/electronics calibration and data correction. Conclusion: Newly developed advanced detector and readout electronics will be enable achieving targeted scalable and compact PET system in stationary configuration with >15% sensitivity, ∼1.3 mm uniform imaging resolution, and fast acquisition counting rate capability for substantially improved imaging and quantification performance for small animal imaging and image-guided radiotherapy applications. This work was supported by a research award RP120326 from Cancer Prevention and Research Institute of Texas.« less

The National Climate Change and Wildlife Science Center annual report for 2012

USGS Publications Warehouse

Varela-Acevedo, Elda; O'Malley, Robin

2013-01-01

Welcome to the inaugural edition of the U.S. Geological Survey (USGS) National Climate Change and Wildlife Science Center (NCCWSC) and the Department of the Interior (DOI) Climate Science Centers (CSCs) annual report. In 2008, Congress created the National Climate Change and Wildlife Science Center (NCCWSC) within the U.S. Geological Survey (USGS). The center was formed to respond to the demands of natural resource managers for rigorous scientific information and effective tools for assessing and responding to climate change. Located at the USGS National Headquarters in Reston, Va., the NCCWSC has invested more than $70 million in cutting-edge climate change research and, in response to Secretarial Order No. 3289,established and is managing eight regional Department of Interior (DOI) Climate Science Centers (CSCs). The mission of the NCCWSC is to provide natural resource managers with the tools and information they need to develop and execute management strategies that address the impacts of climate and other ongoing global changes on fish and wildlife and their habitats. The DOI CSCs are joint Federal-university partnerships that focus their scientific work on regional priorities identified by DOI Landscape Conservation Cooperatives (LCCs) as well as Federal, State, Tribal, and other resource managers. The CSCs provide access to a wide range of scientific capabilities through their network of university partners along with the USGS and other Federal agency scientists. The focus of the NCCWSC on multiregion and national priorities complements the regionally focused agendas of the CSCs.

How do A-train Sensors Inter-Compare in the Retrieval of Above-Cloud Aerosol Optical Depth? A Case Study based Assessment

NASA Astrophysics Data System (ADS)

Jethva, H. T.; Torres, O.; Waquet, F.; Chand, D.

2013-12-01

Atmospheric aerosols are known to produce a net cooling effect in the cloud-free conditions. However, when present over the reflective cloud decks, absorbing aerosols such as biomass burning generated smoke and wind-blown dust can potentially exert a large positive forcing through enhanced atmospheric heating resulting from cloud-aerosol radiative interactions. The interest on this aspect of aerosol science has grown significantly in the recent years. Particularly, development of the satellite-based retrieval techniques and unprecedented knowledge on the above-cloud aerosol optical depth (ACAOD) is of great relevance. A direct validation of satellite ACAOD is a difficult task primarily due to lack of ample in situ and/or remote sensing measurements of aerosols above cloud. In these circumstances, a comparative analysis on the inter-satellite ACAOD retrievals can be performed for the sack of consistency check. Here, we inter-compare the ACAOD of biomass burning plumes observed from different A-train sensors, i.e., MODIS [Jethva et al., 2013], CALIOP [Chand et al., 2008], POLDER [Waquet et al., 2009], and OMI [Torres et al., 2012]. These sensors have been shown to acquire sensitivity and independent capabilities to detect and retrieve aerosol loading above marine stratocumulus clouds--a kind of situation often found over the southeastern Atlantic Ocean during dry burning season. A systematic one-to-one comparison reveals that, in general, all passive sensors and CALIOP-based research methods retrieve comparable ACAOD over homogeneous cloud fields. The high-resolution sensors (MODIS and CALIOP) are able to retrieve aerosols over thin clouds but with larger discrepancies. Given the different types of sensor measurements processed with different algorithms, a reasonable agreement between them is encouraging. A direct validation of satellite-based ACAOD remains an open challenge for which dedicated field measurements over the region of frequent aerosol/cloud overlap are a prime requirement. Jethva, H., O. Torres, L. A. Remer, P. K. Bhartia (2013), A Color Ratio Method for Simultaneous Retrieval of Aerosol and Cloud Optical Thickness of Above-Cloud Absorbing Aerosols From Passive Sensors: Application to MODIS Measurements, Geoscience and Remote Sensing, IEEE Transactions on, 51(7), pp. 3862-3870, doi: 10.1109/TGRS.2012.2230008. Chand, D., T. L. Anderson, R. Wood, R. J. Charlson, Y. Hu, Z. Liu, and M. Vaughan (2008), Quantifying above-cloud aerosol using spaceborne lidar for improved understanding of cloudy-sky direct climate forcing, J. Geophys. Res., 113, D13206, doi:10.1029/2007JD009433. Waquet, F., J. Riedi, L. C. Labonnote, P. Goloub, B. Cairns, J.-L. Deuzeand, and D. Tanre (2009), Aerosol remote sensing over clouds using a-train observations, J. Atmos. Sci., 66(8), 2468-2480, doi: http://dx.doi.org/10.1175/2009JAS3026.1 Torres, O., H. Jethva, and P. K. Bhartia (2012), Retrieval of aerosol optical depth above clouds from OMI observations: Sensitivity analysis and case studies, J. Atmos. Sci., 69(3), 1037-1053, doi: http://dx.doi.org/10.1175/JAS-D-11-0130.

Suitability of Commercial Transport Media for Biological Pathogens under Nonideal Conditions

DTIC Science & Technology

2011-01-01

microscopy (see supplemental data available online at doi:10.1155/2dl/463096), which showed the increase in recovery was the result of sporulation of...both nutrient poor, promoted sporulation [20]. Lower temper- atures inhibited B. anthracis Sterne sporulation , which in turn resulted in a rapid loss...for microorganisms capable of sporulation in nutrient-poor transport media. Unfortunately, if a sample slowly converts from the vegetative to the

Analysis of Self-Excited Combustion Instabilities Using Decomposition Techniques

DTIC Science & Technology

2016-07-05

are evaluated for the study of self-excited longitudinal combustion instabilities in laboratory-scaled single-element gas turbine and rocket...Air Force Base, California 93524 DOI: 10.2514/1.J054557 Proper orthogonal decomposition and dynamic mode decomposition are evaluated for the study of...instabilities. In addition, we also evaluate the capabilities of the methods to deal with data sets of different spatial extents and temporal resolution

Two FGFRL-Wnt circuits organize the planarian anteroposterior axis

PubMed Central

Scimone, M Lucila; Cote, Lauren E; Rogers, Travis; Reddien, Peter W

2016-01-01

How positional information instructs adult tissue maintenance is poorly understood. Planarians undergo whole-body regeneration and tissue turnover, providing a model for adult positional information studies. Genes encoding secreted and transmembrane components of multiple developmental pathways are predominantly expressed in planarian muscle cells. Several of these genes regulate regional identity, consistent with muscle harboring positional information. Here, single-cell RNA-sequencing of 115 muscle cells from distinct anterior-posterior regions identified 44 regionally expressed genes, including multiple Wnt and ndk/FGF receptor-like (ndl/FGFRL) genes. Two distinct FGFRL-Wnt circuits, involving juxtaposed anterior FGFRL and posterior Wnt expression domains, controlled planarian head and trunk patterning. ndl-3 and wntP-2 inhibition expanded the trunk, forming ectopic mouths and secondary pharynges, which independently extended and ingested food. fz5/8-4 inhibition, like that of ndk and wntA, caused posterior brain expansion and ectopic eye formation. Our results suggest that FGFRL-Wnt circuits operate within a body-wide coordinate system to control adult axial positioning. DOI: http://dx.doi.org/10.7554/eLife.12845.001 PMID:27063937

A 32 mm  ×  32 mm  ×  22 mm monolithic LYSO:Ce detector with dual-sided digital photon counter readout for ultrahigh-performance TOF-PET and TOF-PET/MRI

NASA Astrophysics Data System (ADS)

Borghi, Giacomo; Peet, Bart Jan; Tabacchini, Valerio; Schaart, Dennis R.

2016-07-01

New applications for positron emission tomography (PET) and combined PET/magnetic resonance imaging (MRI) are currently emerging, for example in the fields of neurological, breast, and pediatric imaging. Such applications require improved image quality, reduced dose, shorter scanning times, and more precise quantification. This can be achieved by means of dedicated scanners based on ultrahigh-performance detectors, which should provide excellent spatial resolution, precise depth-of-interaction (DOI) estimation, outstanding time-of-flight (TOF) capability, and high detection efficiency. Here, we introduce such an ultrahigh-performance TOF/DOI PET detector, based on a 32 mm  ×  32 mm  ×  22 mm monolithic LYSO:Ce crystal. The 32 mm  ×  32 mm front and back faces of the crystal are coupled to a digital photon counter (DPC) array, in so-called dual-sided readout (DSR) configuration. The fully digital detector offers a spatial resolution of ~1.1 mm full width at half maximum (FWHM)/~1.2 mm mean absolute error, together with a DOI resolution of ~2.4 mm FWHM, an energy resolution of 10.2% FWHM, and a coincidence resolving time of 147 ps FWHM. The time resolution closely approaches the best results (135 ps FWHM) obtained to date with small crystals made from the same material coupled to the same DPC arrays, illustrating the excellent correction for optical and electronic transit time spreads that can be achieved in monolithic scintillators using maximum-likelihood techniques for estimating the time of interaction. The performance barely degrades for events with missing data (up to 6 out of 32 DPC dies missing), permitting the use of almost all events registered under realistic acquisition conditions. Moreover, the calibration procedures and computational methods used for position and time estimation follow recently made improvements that make them fast and practical, opening up realistic perspectives for using DSR monolithic scintillator detectors in TOF-PET and TOF-PET/MRI systems.

MO-F-CAMPUS-J-03: Development of a Human Brain PET for On-Line Proton Beam-Range Verification

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

Shao, Yiping

Purpose: To develop a prototype PET for verifying proton beam-range before each fractionated therapy that will enable on-line re-planning proton therapy. Methods: Latest “edge-less” silicon photomultiplier arrays and customized ASIC readout electronics were used to develop PET detectors with depth-of-interaction (DOI) measurement capability. Each detector consists of one LYSO array with each end coupled to a SiPM array. Multiple detectors can be seamlessly tiled together to form a large detector panel. Detectors with 1.5×1.5 and 2.0×2.0 mm crystals at 20 or 30 mm lengths were studied. Readout of individual SiPM or signal multiplexing was used to transfer 3D interaction position-codedmore » analog signals through flexible-print-circuit cables or PCB board to dedicated ASIC front-end electronics to output digital timing pulses that encode interaction information. These digital pulses can be transferred to, through standard LVDS cables, and decoded by a FPGA-based data acquisition of coincidence events and data transfer. The modular detector and scalable electronics/data acquisition will enable flexible PET system configuration for different imaging geometry. Results: Initial detector performance measurement shows excellent crystal identification even with 30 mm long crystals, ∼18% and 2.8 ns energy and timing resolutions, and around 2–3 mm DOI resolution. A small prototype PET scanner with one detector ring has been built and evaluated, validating the technology and design. A large size detector panel has been fabricated by scaling up from modular detectors. Different designs of resistor and capacitor based signal multiplexing boards were tested and selected based on optimal crystal identification and timing performance. Stackable readout electronics boards and FPGA-based data acquisition boards were developed and tested. A brain PET is under construction. Conclusion: Technology of large-size DOI detector based on SiPM array and advanced readout has been developed. PET imaging performance and initial phantom studies of on-line proton beam-range measurement will be conducted and reported. NIH grant R21CA187717; Cancer Prevention and Research Institute of Texas grant RP120326.« less

Hunger neurons drive feeding through a sustained, positive reinforcement signal

PubMed Central

Chen, Yiming; Lin, Yen-Chu; Zimmerman, Christopher A; Essner, Rachel A; Knight, Zachary A

2016-01-01

The neural mechanisms underlying hunger are poorly understood. AgRP neurons are activated by energy deficit and promote voracious food consumption, suggesting these cells may supply the fundamental hunger drive that motivates feeding. However recent in vivo recording experiments revealed that AgRP neurons are inhibited within seconds by the sensory detection of food, raising the question of how these cells can promote feeding at all. Here we resolve this paradox by showing that brief optogenetic stimulation of AgRP neurons before food availability promotes intense appetitive and consummatory behaviors that persist for tens of minutes in the absence of continued AgRP neuron activation. We show that these sustained behavioral responses are mediated by a long-lasting potentiation of the rewarding properties of food and that AgRP neuron activity is positively reinforcing. These findings reveal that hunger neurons drive feeding by transmitting a positive valence signal that triggers a stable transition between behavioral states. DOI: http://dx.doi.org/10.7554/eLife.18640.001 PMID:27554486

De novo centriole formation in human cells is error-prone and does not require SAS-6 self-assembly

PubMed Central

Wang, Won-Jing; Acehan, Devrim; Kao, Chien-Han; Jane, Wann-Neng; Uryu, Kunihiro; Tsou, Meng-Fu Bryan

2015-01-01

Vertebrate centrioles normally propagate through duplication, but in the absence of preexisting centrioles, de novo synthesis can occur. Consistently, centriole formation is thought to strictly rely on self-assembly, involving self-oligomerization of the centriolar protein SAS-6. Here, through reconstitution of de novo synthesis in human cells, we surprisingly found that normal looking centrioles capable of duplication and ciliation can arise in the absence of SAS-6 self-oligomerization. Moreover, whereas canonically duplicated centrioles always form correctly, de novo centrioles are prone to structural errors, even in the presence of SAS-6 self-oligomerization. These results indicate that centriole biogenesis does not strictly depend on SAS-6 self-assembly, and may require preexisting centrioles to ensure structural accuracy, fundamentally deviating from the current paradigm. DOI: http://dx.doi.org/10.7554/eLife.10586.001 PMID:26609813

Streptomyces exploration is triggered by fungal interactions and volatile signals

PubMed Central

Jones, Stephanie E; Ho, Louis; Rees, Christiaan A; Hill, Jane E; Nodwell, Justin R; Elliot, Marie A

2017-01-01

It has long been thought that the life cycle of Streptomyces bacteria encompasses three developmental stages: vegetative hyphae, aerial hyphae and spores. Here, we show interactions between Streptomyces and fungi trigger a previously unobserved mode of Streptomyces development. We term these Streptomyces cells ‘explorers’, for their ability to adopt a non-branching vegetative hyphal conformation and rapidly transverse solid surfaces. Fungi trigger Streptomyces exploratory growth in part by altering the composition of the growth medium, and Streptomyces explorer cells can communicate this exploratory behaviour to other physically separated streptomycetes using an airborne volatile organic compound (VOC). These results reveal that interkingdom interactions can trigger novel developmental behaviours in bacteria, here, causing Streptomyces to deviate from its classically-defined life cycle. Furthermore, this work provides evidence that VOCs can act as long-range communication signals capable of propagating microbial morphological switches. DOI: http://dx.doi.org/10.7554/eLife.21738.001 PMID:28044982

Tissue absence initiates regeneration through follistatin-mediated inhibition of activin signaling.

PubMed

Gaviño, Michael A; Wenemoser, Danielle; Wang, Irving E; Reddien, Peter W

2013-09-10

Regeneration is widespread, but mechanisms that activate regeneration remain mysterious. Planarians are capable of whole-body regeneration and mount distinct molecular responses to wounds that result in tissue absence and those that do not. A major question is how these distinct responses are activated. We describe a follistatin homolog (Smed-follistatin) required for planarian regeneration. Smed-follistatin inhibition blocks responses to tissue absence but does not prevent normal tissue turnover. Two activin homologs (Smed-activin-1 and Smed-activin-2) are required for the Smed-follistatin phenotype. Finally, Smed-follistatin is wound-induced and expressed at higher levels following injuries that cause tissue absence. These data suggest that Smed-follistatin inhibits Smed-Activin proteins to trigger regeneration specifically following injuries involving tissue absence and identify a mechanism critical for regeneration initiation, a process important across the animal kingdom. DOI:http://dx.doi.org/10.7554/eLife.00247.001.

DOIDB: Reusing DataCite's search software as metadata portal for GFZ Data Services

NASA Astrophysics Data System (ADS)

Elger, K.; Ulbricht, D.; Bertelmann, R.

2016-12-01

GFZ Data Services is the central service point for the publication of research data at the Helmholtz Centre Potsdam GFZ German Research Centre for Geosciences (GFZ). It provides data publishing services to scientists of GFZ, associated projects, and associated institutions. The publishing services aim to make research data and physical samples visible and citable, by assigning persistent identifiers (DOI, IGSN) and by complementing existing IT infrastructure. To integrate several research domains a modular software stack that is made of free software components has been created to manage data and metadata as well as register persistent identifiers [1]. Pivotal component for the registration of DOIs is the DOIDB. It has been derived from three software components provided by DataCite [2] that moderate the registration of DOIs and the deposition of metadata, allow the dissemination of metadata, and provide a user interface to navigate and discover datasets. The DOIDB acts as a proxy to the DataCite infrastructure and in addition to the DataCite metadata schema, it allows to deposit and disseminate metadata following the schemas ISO19139 and NASA GCMD DIF. The search component has been modified to meet the requirements of a geosciences metadata portal. In particular, the search component has been altered to make use of Apache SOLRs capability to index and query spatial coordinates. Furthermore, the user interface has been adjusted to provide a first impression of the data by showing a map, summary information and subjects. DOIDB and its components are available on GitHub [3].We present a software solution for registration of DOIs that allows to integrate existing data systems, keeps track of registered DOIs, and provides a metadata portal to discover datasets [4]. [1] Ulbricht, D.; Elger, K.; Bertelmann, R.; Klump, J. panMetaDocs, eSciDoc, and DOIDB—An Infrastructure for the Curation and Publication of File-Based Datasets for GFZ Data Services. ISPRS Int. J. Geo-Inf. 2016, 5, 25. http://doi.org/10.3390/ijgi5030025[2] https://github.com/datacite[3] https://github.com/ulbricht/search/tree/doidb , https://github.com/ulbricht/mds/tree/doidb , https://github.com/ulbricht/oaip/tree/doidb[4] http://doidb.wdc-terra.org

Light-Sharing Interface for dMiCE Detectors Using Sub-Surface Laser Engraving

PubMed Central

Hunter, William C. J.; Miyaoka, Robert S.; MacDonald, Lawrence; McDougald, Wendy; Lewellen, Thomas K.

2015-01-01

We have previously reported on dMiCE, a method of resolving depth or interaction (DOI) in a pair of discrete crystals by encoding light sharing properties as a function of depth in the interface of a crystal-element pair. A challenge for this method is the cost and repeatability of interface treatment for each crystal pair. In this work, we report our preliminary results on using sub-surface laser engraving (SSLE) as a means of forming this depth-dependent interface in a dMiCE detector. A surplus first-generation SSLE system was used to create a partially reflective layer 100-microns thick at the boundary between two halves of a 1.4-by-2.9-by-20 mm3 LYSO crystal. The boundary of these paired crystal elements was positioned between two 3-mm wide Silicon photomultiplier arrays. The responses of these two photodetectors were acquired for an ensemble of 511-keV photons collimated to interact at a fixed depth in just one crystal element. Interaction position was then varied to measure detector response as a function of depth, which was then used to maximum-likelihood positions. Despite use of sub-optimal SSLE processing we found an average DOI resolution of 3.4 mm for front-sided readout and 3.9 mm for back-sided readout while obtaining energy resolutions on the order of 10%. We expect DOI resolution can be improved significantly by optimizing the SSLE process and pattern. PMID:25914421

Light-Sharing Interface for dMiCE Detectors using Sub-Surface Laser Engraving.

PubMed

Hunter, William C J; Miyaoka, Robert S; MacDonald, Lawrence; McDougald, Wendy; Lewellen, Thomas K

2013-10-01

We have previously reported on dMiCE, a method of resolving depth or interaction (DOI) in a pair of discrete crystals by encoding light sharing properties as a function of depth in the interface of this crystal-element pair. A challenge for this method is the cost and repeatability of interface treatment for a crystal pair. In this work, we report our preliminary results on using sub-surface laser engraving (SSLE) as a means of forming this depth-dependent interface in a dMiCE detector. A surplus first-generation SSLE system was used to create a partially reflective layer 100-microns thick at the boundary between two halves of a 1.4-by-2.9-by-20 mmˆ3 LYSO crystal. The boundary of these paired crystal elements was positioned between two 3-mm wide Geiger-Müller avalanche photodiodes from Hamamatsu. The responses of these two photodetectors were acquired for an ensemble of 511-keV photons collimated to interact at a fixed depth in just one crystal element. Interaction position was then varied to measure detector response as a function of depth, which was then used to maximum-likelihood positions events. Despite use of sub-optimal SSLE processing we found an average DOI resolution of 3.4 mm for front-sided readout and 3.9 mm for back-sided readout. We expect DOI resolution can be improved significantly by optimizing the SSLE process and pattern.

Light-Sharing Interface for dMiCE Detectors using Sub-Surface Laser Engraving

PubMed Central

Hunter, William C.J.; Miyaoka, Robert S.; MacDonald, Lawrence; McDougald, Wendy; Lewellen, Thomas K.

2014-01-01

We have previously reported on dMiCE, a method of resolving depth or interaction (DOI) in a pair of discrete crystals by encoding light sharing properties as a function of depth in the interface of this crystal-element pair. A challenge for this method is the cost and repeatability of interface treatment for a crystal pair. In this work, we report our preliminary results on using sub-surface laser engraving (SSLE) as a means of forming this depth-dependent interface in a dMiCE detector. A surplus first-generation SSLE system was used to create a partially reflective layer 100-microns thick at the boundary between two halves of a 1.4-by-2.9-by-20 mmˆ3 LYSO crystal. The boundary of these paired crystal elements was positioned between two 3-mm wide Geiger-Müller avalanche photodiodes from Hamamatsu. The responses of these two photodetectors were acquired for an ensemble of 511-keV photons collimated to interact at a fixed depth in just one crystal element. Interaction position was then varied to measure detector response as a function of depth, which was then used to maximum-likelihood positions events. Despite use of sub-optimal SSLE processing we found an average DOI resolution of 3.4 mm for front-sided readout and 3.9 mm for back-sided readout. We expect DOI resolution can be improved significantly by optimizing the SSLE process and pattern. PMID:25506194

Light-Sharing Interface for dMiCE Detectors Using Sub-Surface Laser Engraving.

PubMed

Hunter, William C J; Miyaoka, Robert S; MacDonald, Lawrence; McDougald, Wendy; Lewellen, Thomas K

2015-02-06

We have previously reported on dMiCE, a method of resolving depth or interaction (DOI) in a pair of discrete crystals by encoding light sharing properties as a function of depth in the interface of a crystal-element pair. A challenge for this method is the cost and repeatability of interface treatment for each crystal pair. In this work, we report our preliminary results on using sub-surface laser engraving (SSLE) as a means of forming this depth-dependent interface in a dMiCE detector. A surplus first-generation SSLE system was used to create a partially reflective layer 100-microns thick at the boundary between two halves of a 1.4-by-2.9-by-20 mm 3 LYSO crystal. The boundary of these paired crystal elements was positioned between two 3-mm wide Silicon photomultiplier arrays. The responses of these two photodetectors were acquired for an ensemble of 511-keV photons collimated to interact at a fixed depth in just one crystal element. Interaction position was then varied to measure detector response as a function of depth, which was then used to maximum-likelihood positions. Despite use of sub-optimal SSLE processing we found an average DOI resolution of 3.4 mm for front-sided readout and 3.9 mm for back-sided readout while obtaining energy resolutions on the order of 10%. We expect DOI resolution can be improved significantly by optimizing the SSLE process and pattern.

Spatial Patterns of Soil Organic Carbon in the United States

NASA Astrophysics Data System (ADS)

Bliss, N. B.

2005-12-01

The Department of the Interior (DOI) has jurisdiction influencing approximately 22 percent of the land area of the United States. The poster presents estimates of the current stocks of soil organic carbon (SOC) on all lands and Federal lands. The DOI lands have about 22 percent of the nation's SOC, so the average carbon intensity (8.66 kg C m-2) about matches the average for all lands (8.81 kg C m-2). However the carbon on DOI lands is not evenly distributed. Of the 17.76 Petagrams (1 Pg = 1015 grams) of SOC on DOI lands, 13.07 Pg (74 percent) are in Alaska, and 4.69 Pg (26 percent) are in the Conterminous U.S. The Alaska soils are wetter and colder than the national average, and the DOI lands in the conterminous U.S. are warmer and drier than the average. A set of SOC maps is shown, developed by intersecting the State Soil Geographic (STATSGO) database with data on federal lands from the National Atlas. With 22 percent of the nation's soil carbon, the DOI lands are important in a national accounting of greenhouse gas emission and sequestration. Future behavior of these lands is uncertain, but in scenarios of warming or drying, carbon released by respiration may exceed carbon captured by photosynthesis, resulting in a net release of carbon to the atmosphere. If warming stimulates a net release of greenhouse gases, this represents a positive feedback contributing to future global warming, a very unstable condition for the global climate system.

Gate-dependent Pseudospin Mixing in Graphene/boron Nitride Moire Superlattices

DTIC Science & Technology

2014-08-31

LETTERS PUBLISHED ONLINE: 31 AUGUST 2014 | DOI : 10.1038/NPHYS3075 Gate-dependent pseudospin mixing in graphene/boron nitride moiré superlattices... Dirac –Weyl spinors with a two-component pseudospin1–12. The unique pseudospin structure of Dirac electrons leads to emerging phenomena such as the...massless Dirac cone2, anomalous quantum Hall eect2,3, and Klein tunnelling4,5 in graphene. The capability to manipulate electron pseudospin is highly

Scott and Doi conduct tool evaluations during second EVA of STS-87

NASA Image and Video Library

1997-12-03

STS087-341-036 (3 Dec. 1997) --- Backdropped against a dark Earth and a light blue horizon, astronaut Takao Doi (right), international mission specialist representing Japan's National Space Development Agency (NASDA), works with a crane while astronaut Winston E. Scott looks on. This second extravehicular activity (EVA) of the mission continued the evaluation of techniques and hardware to be used in constructing the International Space Station (ISS). Near Scott can be seen the representation of a small Orbital Replacement Unit (ORU) in the grasp of the 156-pound crane operated by Doi. A similar crane could be used to transport various sized ORU’s from translation carts on the exterior of the ISS to various worksites on the truss structure. This view was captured, on 35mm film, by a crew mate in the shirt sleeve environment of the Space Shuttle Columbia's cabin. The SPARTAN-201 satellite is in its stowed position at frame center.

The antipsychotic-like effects of positive allosteric modulators of metabotropic glutamate mGlu4 receptors in rodents

PubMed Central

Sławińska, Anna; Wierońska, Joanna M; Stachowicz, Katarzyna; Marciniak, Marcin; Łasoń-Tyburkiewicz, Magdalena; Gruca, Piotr; Papp, Mariusz; Kusek, Magdalena; Tokarski, Krzysztof; Doller, Darío; Pilc, Andrzej

2013-01-01

Background and Purpose Because agonists at metabotropic glutamate receptors exert beneficial effects in schizophrenia, we have assessed the actions of Lu AF21934 and Lu AF32615, two chemically distinct, selective and brain-penetrant positive allosteric modulators (PAMs) of the mGlu4 receptor, in several tests reflecting positive, negative and cognitive symptoms of schizophrenia in rodents. Experimental Approach Hyperactivity induced by MK-801 or amphetamine and head twitches induced by 2,5-dimethoxy-4-iodoamphetamine (DOI) in mice were used as models for positive symptoms. Disruption of social interaction and spatial delayed alternation tests induced by MK-801 in rats were used as models for negative and cognitive symptoms of schizophrenia, respectively. Key Results Lu AF21934 (0.1–5 mg·kg−1) and Lu AF32615 (2–10 mg·kg−1) dose-dependently inhibited hyperactivity induced by MK-801 or amphetamine. They also antagonized head twitches and increased frequency of spontaneous excitatory postsynaptic currents (EPSCs) in brain slices, induced by DOI. In mice lacking the mGlu4 receptor (mGlu4−/−) mice, Lu AF21934 did not antagonize DOI-induced head twitches. MK-801-induced disruption in the social interaction test was decreased by Lu AF21934 at 0.5 mg·kg−1 and by Lu AF32615 at 10 mg·kg−1. In the delayed spatial alternation test, Lu AF21934 was active at 1 and 2 mg·kg−1, while Lu AF32615 was active at 10 mg·kg−1. Conclusions and Implications We propose that activation by PAMs of the mGlu4 receptor is a promising approach to the discovery of novel antipsychotic drugs. PMID:23714045

Time-over-threshold for pulse shape discrimination in a time-of-flight phoswich PET detector

PubMed Central

Chang, Chen-Ming; Cates, Joshua W.; Levin, Craig S.

2016-01-01

It is well known that a PET detector capable of measuring both photon time-of-flight (TOF) and depth-of-interaction (DOI) improves the image quality and accuracy. Phoswich designs have been realized in PET detectors to measure DOI for more than a decade. However, PET detectors based on phoswich designs put great demand on the readout circuits, which have to differentiate the pulse shape produced by different crystal layers. A simple pulse shape discrimination approach is required to realize the phoswich designs in a clinical PET scanner, which consists of thousands of scintillation crystal elements. In this work, we studied time-over-threshold (ToT) as a pulse shape parameter for DOI. The energy, timing and DOI performance were evaluated for a phoswich detector design comprising 3 mm × 3 mm × 10 mm LYSO:Ce crystal optically coupled to 3 mm × 3 mm × 10 mm calcium co-doped LSO:Ce,Ca(0.4%) crystal read out by a silicon photomultiplier (SiPM). A DOI accuracy of 97.2% has been achieved for photopeak events using the proposed time-over-threshold (ToT) processing. The energy resolution without correction for SiPM non-linearity was 9.7 ± 0.2% and 11.3 ± 0.2% FWHM at 511 keV for LYSO and LSO crystal layers, respectively. The coincidence time resolution for photopeak events ranges from 164.6 ps to 183.1 ps FWHM, depending on the layer combinations. The coincidence time resolution for inter-crystal scatter events ranges from 214.6 ps to 418.3 ps FWHM, depending on the energy windows applied. These results show great promises of using ToT for pulse shape discrimination in a TOF phoswich detector since a ToT measurement can be easily implemented in readout electronics. PMID:27991437

Designing a compact high performance brain PET scanner—simulation study

NASA Astrophysics Data System (ADS)

Gong, Kuang; Majewski, Stan; Kinahan, Paul E.; Harrison, Robert L.; Elston, Brian F.; Manjeshwar, Ravindra; Dolinsky, Sergei; Stolin, Alexander V.; Brefczynski-Lewis, Julie A.; Qi, Jinyi

2016-05-01

The desire to understand normal and disordered human brain function of upright, moving persons in natural environments motivates the development of the ambulatory micro-dose brain PET imager (AMPET). An ideal system would be light weight but with high sensitivity and spatial resolution, although these requirements are often in conflict with each other. One potential approach to meet the design goals is a compact brain-only imaging device with a head-sized aperture. However, a compact geometry increases parallax error in peripheral lines of response, which increases bias and variance in region of interest (ROI) quantification. Therefore, we performed simulation studies to search for the optimal system configuration and to evaluate the potential improvement in quantification performance over existing scanners. We used the Cramér-Rao variance bound to compare the performance for ROI quantification using different scanner geometries. The results show that while a smaller ring diameter can increase photon detection sensitivity and hence reduce the variance at the center of the field of view, it can also result in higher variance in peripheral regions when the length of detector crystal is 15 mm or more. This variance can be substantially reduced by adding depth-of-interaction (DOI) measurement capability to the detector modules. Our simulation study also shows that the relative performance depends on the size of the ROI, and a large ROI favors a compact geometry even without DOI information. Based on these results, we propose a compact ‘helmet’ design using detectors with DOI capability. Monte Carlo simulations show the helmet design can achieve four-fold higher sensitivity and resolve smaller features than existing cylindrical brain PET scanners. The simulations also suggest that improving TOF timing resolution from 400 ps to 200 ps also results in noticeable improvement in image quality, indicating better timing resolution is desirable for brain imaging.

Designing a compact high performance brain PET scanner—simulation study

PubMed Central

Gong, Kuang; Majewski, Stan; Kinahan, Paul E; Harrison, Robert L; Elston, Brian F; Manjeshwar, Ravindra; Dolinsky, Sergei; Stolin, Alexander V; Brefczynski-Lewis, Julie A; Qi, Jinyi

2016-01-01

The desire to understand normal and disordered human brain function of upright, moving persons in natural environments motivates the development of the ambulatory micro-dose brain PET imager (AMPET). An ideal system would be light weight but with high sensitivity and spatial resolution, although these requirements are often in conflict with each other. One potential approach to meet the design goals is a compact brain-only imaging device with a head-sized aperture. However, a compact geometry increases parallax error in peripheral lines of response, which increases bias and variance in region of interest (ROI) quantification. Therefore, we performed simulation studies to search for the optimal system configuration and to evaluate the potential improvement in quantification performance over existing scanners. We used the Cramér–Rao variance bound to compare the performance for ROI quantification using different scanner geometries. The results show that while a smaller ring diameter can increase photon detection sensitivity and hence reduce the variance at the center of the field of view, it can also result in higher variance in peripheral regions when the length of detector crystal is 15 mm or more. This variance can be substantially reduced by adding depth-of- interaction (DOI) measurement capability to the detector modules. Our simulation study also shows that the relative performance depends on the size of the ROI, and a large ROI favors a compact geometry even without DOI information. Based on these results, we propose a compact ‘helmet’ design using detectors with DOI capability. Monte Carlo simulations show the helmet design can achieve four-fold higher sensitivity and resolve smaller features than existing cylindrical brain PET scanners. The simulations also suggest that improving TOF timing resolution from 400 ps to 200 ps also results in noticeable improvement in image quality, indicating better timing resolution is desirable for brain imaging. PMID:27081753

WE-C-217BCD-10: Development of High Performance PET for Animal Imaging and Therapy Applications.

PubMed

Shao, Y; Sun, X; Lan, K; Bircher, C

2012-06-01

A prototype small animal PET is developed with several novel technologies to measure 3D gamma-interaction positions and to substantially improve imaging performance. Each new detector has an 8×8 array of 1.95×1.95×30 mm̂3 LYSO scintillators, with each end optically connected to a solid-state photo multiplier (SSPM) array through a light guide. This dual-ended-readout enables the depth-of-interaction (DOI) measurement. Each SSPM array has 16 SSPMs arranged in a 4×4 matrix. Each SSPM has active area about 3×3 mm̂2, with its output read by an ASIC electronics that directly converts analog signals to digital timing pulses which encode the interaction information for energy, timing, crystal of interaction, and DOI calculations. These digital pulses are transferred to and decoded by FPGA-based TDC for coincident event selection and data acquisition. This independent readout of each SSPM and parallel signal process significantly improve signal-to-noise ratio and permit applying flexible data processing algorithms. The current prototype system consists of two rotating detector panels on a portable gantry, with 4 detectors linearly packed together in each panel to provide ∼16 mm axial and variable trans- axial FOV with adjustable panel-to-panel distance. List-mode OSEM-based image reconstruction with resolution modeling was implemented. Both Na- 22 point source and phantom were used to evaluate the system performance. The measured energy, timing, spatial and DOI resolutions for each crystal were around 16%, 2.6 ns, 2.0 mm and 5.0 mm, respectively. The measured spatial resolutions with DOI were ∼1.7 mm across the entire FOV in all direction, while those without DOI were much worse and non-uniform across the FOV, in the range predominately around 3.0 to 4.0 mm. In addition, images from a F-18 hot-rod phantom with DOI show significantly improved quality compared to those without DOI. DOI- measurable PET shows substantially improved image performance for a compact system. National Institute of Health. University of Texas MD Anderson Cancer Center. © 2012 American Association of Physicists in Medicine.

Airflow and optic flow mediate antennal positioning in flying honeybees

PubMed Central

Roy Khurana, Taruni; Sane, Sanjay P

2016-01-01

To maintain their speeds during navigation, insects rely on feedback from their visual and mechanosensory modalities. Although optic flow plays an essential role in speed determination, it is less reliable under conditions of low light or sparse landmarks. Under such conditions, insects rely on feedback from antennal mechanosensors but it is not clear how these inputs combine to elicit flight-related antennal behaviours. We here show that antennal movements of the honeybee, Apis mellifera, are governed by combined visual and antennal mechanosensory inputs. Frontal airflow, as experienced during forward flight, causes antennae to actively move forward as a sigmoidal function of absolute airspeed values. However, corresponding front-to-back optic flow causes antennae to move backward, as a linear function of relative optic flow, opposite the airspeed response. When combined, these inputs maintain antennal position in a state of dynamic equilibrium. DOI: http://dx.doi.org/10.7554/eLife.14449.001 PMID:27097104

Invasive endocervical adenocarcinoma: proposal for a new pattern-based classification system with significant clinical implications: a multi-institutional study.

PubMed

Diaz De Vivar, Andrea; Roma, Andres A; Park, Kay J; Alvarado-Cabrero, Isabel; Rasty, Golnar; Chanona-Vilchis, Jose G; Mikami, Yoshiki; Hong, Sung R; Arville, Brent; Teramoto, Norihiro; Ali-Fehmi, Rouba; Rutgers, Joanne K L; Tabassum, Farah; Barbuto, Denise; Aguilera-Barrantes, Irene; Shaye-Brown, Alexandra; Daya, Dean; Silva, Elvio G

2013-11-01

The management of endocervical adenocarcinoma is largely based on tumor size and depth of invasion (DOI); however, DOI is difficult to measure accurately. The surgical treatment includes resection of regional lymph nodes, even though most lymph nodes are negative and lymphadenectomies can cause significant morbidity. We have investigated alternative parameters to better identify patients at risk of node metastases. Cases of invasive endocervical adenocarcinoma from 12 institutions were reviewed, and clinical/pathologic features assessed: patients' age, tumor size, DOI, differentiation, lymph-vascular invasion, lymph node metastases, recurrences, and stage. Cases were classified according to a new pattern-based system into Pattern A (well-demarcated glands), B (early destructive stromal invasion arising from well-demarcated glands), and C (diffuse destructive invasion). In total, 352 cases (FIGO Stages I-IV) were identified. Patients' age ranged from 20 to 83 years (mean 45), DOI ranged from 0.2 to 27 mm (mean 6.73), and lymph-vascular invasion was present in 141 cases. Forty-nine (13.9%) demonstrated lymph node metastases. Using this new system, 73 patients (20.7%) with Pattern A tumors (all Stage I) were identified. None had lymph node metastases and/or recurrences. Ninety patients (25.6%) had Pattern B tumors, of which 4 (4.4%) had positive nodes; whereas 189 (53.7%) had Pattern C tumors, of which 45 (23.8%) had metastatic nodes. The proposed classification system can spare 20.7% of patients (Pattern A) of unnecessary lymphadenectomy. Patients with Pattern B rarely present with positive nodes. An aggressive approach is justified in patients with Pattern C. This classification system is simple, easy to apply, and clinically significant.

Unmanned Aircraft Systems for Monitoring Department of the Interior Lands

NASA Astrophysics Data System (ADS)

Hutt, M. E.; Quirk, B.

2013-12-01

Unmanned Aircraft Systems (UAS) technology is quickly evolving and will have a significant impact on Earth science research. The U.S. Geological Survey (USGS) is conducting an operational test and evaluation of UAS to see how this technology supports the mission of the Department of the Interior (DOI). Over the last 4 years, the USGS, working with many partners, has been actively conducting proof of concept UAS operations, which are designed to evaluate the potential of UAS technology to support the mandated DOI scientific, resource and land management missions. UAS technology is being made available to monitor environmental conditions, analyze the impacts of climate change, respond to natural hazards, understand landscape change rates and consequences, conduct wildlife inventories and support related land management and law enforcement missions. Using small UAS (sUAS), the USGS is able to tailor solutions to meet project requirements by obtaining very high resolution video data, acquiring thermal imagery, detecting chemical plumes, and generating digital terrain models at a fraction of the cost of conventional surveying methods. UAS technology is providing a mechanism to collect timely remote sensing data at a low cost and at low risk over DOI lands that can be difficult to monitor and consequently enhances our ability to provide unbiased scientific information to better enable decision makers to make informed decisions. This presentation describes the UAS technology and infrastructure being employed, the application projects already accomplished, lessons learned and future of UAS within the DOI. We fully expect that by 2020 UAS will emerge as a primary platform for all DOI remote sensing applications. Much like the use of Internet technology, Geographic Information Systems (GIS) and Global Positioning Systems (GPS), UAS have the potential of enabling the DOI to be better stewards of the land.

Effects of Detector Thickness on Geometric Sensitivity and Event Positioning Errors in the Rectangular PET/X Scanner

NASA Astrophysics Data System (ADS)

MacDonald, Lawrence R.; Hunter, William C. J.; Kinahan, Paul E.; Miyaoka, Robert S.

2013-10-01

We used simulations to investigate the relationship between sensitivity and spatial resolution as a function of crystal thickness in a rectangular PET scanner intended for quantitative assessment of breast cancers. The system had two 20 × 15-cm2 and two 10 × 15-cm2 flat detectors forming a box, with the larger detectors separated by 4 or 8 cm. Depth-of-interaction (DOI) resolution was modeled as a function of crystal thickness based on prior measurements. Spatial resolution was evaluated independent of image reconstruction by deriving and validating a surrogate metric from list-mode data ( dFWHM). When increasing crystal thickness from 5 to 40 mm, and without using DOI information, the dFWHM for a centered point source increased from 0.72 to 1.6 mm. Including DOI information improved dFWHM by 12% and 27% for 5- and 40-mm-thick crystals, respectively. For a point source in the corner of the FOV, use of DOI information improved dFWHM by 20% (5-mm crystal) and 44% (40-mm crystal). Sensitivity was 7.7% for 10-mm-thick crystals (8-cm object). Increasing crystal thickness on the smaller side detectors from 10 to 20 mm (keeping 10-mm crystals on the larger detectors) boosted sensitivity by 24% (relative) and degraded dFWHM by only 3%/8% with/without DOI information. The benefits of measuring DOI must be evaluated in terms of the intended clinical task of assessing tracer uptake in small lesions. Increasing crystal thickness on the smaller side detectors provides substantial sensitivity increase with minimal accompanying loss in resolution.

Perception vs. Reality: Improving Mission Commander Decision Making Capabilities by use of Heart Rate Zone Feedback in Training Environments

DTIC Science & Technology

2017-03-23

literature identities the development of technology that could be used to enhance performance stamina in military communities while allowing critical...atrophy, and weight loss (O’Hara, Henry, Serres, Russell, & Locke , 2014). While the intense training of these elite warfighters is necessary; without...doi:10.1037//0033-295x.83.6.508. O’Hara, R., Henry, A., Serres, J., Russell, D., & Locke , R. (2014). Operational stressors on physical

Birth order dependent growth cone segregation determines synaptic layer identity in the Drosophila visual system

PubMed Central

Kulkarni, Abhishek; Ertekin, Deniz; Lee, Chi-Hon; Hummel, Thomas

2016-01-01

The precise recognition of appropriate synaptic partner neurons is a critical step during neural circuit assembly. However, little is known about the developmental context in which recognition specificity is important to establish synaptic contacts. We show that in the Drosophila visual system, sequential segregation of photoreceptor afferents, reflecting their birth order, lead to differential positioning of their growth cones in the early target region. By combining loss- and gain-of-function analyses we demonstrate that relative differences in the expression of the transcription factor Sequoia regulate R cell growth cone segregation. This initial growth cone positioning is consolidated via cell-adhesion molecule Capricious in R8 axons. Further, we show that the initial growth cone positioning determines synaptic layer selection through proximity-based axon-target interactions. Taken together, we demonstrate that birth order dependent pre-patterning of afferent growth cones is an essential pre-requisite for the identification of synaptic partner neurons during visual map formation in Drosophila. DOI: http://dx.doi.org/10.7554/eLife.13715.001 PMID:26987017

Human blindsight is mediated by an intact geniculo-extrastriate pathway

PubMed Central

Ajina, Sara; Pestilli, Franco; Rokem, Ariel; Kennard, Christopher; Bridge, Holly

2015-01-01

Although damage to the primary visual cortex (V1) causes hemianopia, many patients retain some residual vision; known as blindsight. We show that blindsight may be facilitated by an intact white-matter pathway between the lateral geniculate nucleus and motion area hMT+. Visual psychophysics, diffusion-weighted magnetic resonance imaging and fibre tractography were applied in 17 patients with V1 damage acquired during adulthood and 9 age-matched controls. Individuals with V1 damage were subdivided into blindsight positive (preserved residual vision) and negative (no residual vision) according to psychophysical performance. All blindsight positive individuals showed intact geniculo-hMT+ pathways, while this pathway was significantly impaired or not measurable in blindsight negative individuals. Two white matter pathways previously implicated in blindsight: (i) superior colliculus to hMT+ and (ii) between hMT+ in each hemisphere were not consistently present in blindsight positive cases. Understanding the visual pathways crucial for residual vision may direct future rehabilitation strategies for hemianopia patients. DOI: http://dx.doi.org/10.7554/eLife.08935.001 PMID:26485034

An effector of the Irish potato famine pathogen antagonizes a host autophagy cargo receptor

PubMed Central

Dagdas, Yasin F; Belhaj, Khaoula; Maqbool, Abbas; Chaparro-Garcia, Angela; Pandey, Pooja; Petre, Benjamin; Tabassum, Nadra; Cruz-Mireles, Neftaly; Hughes, Richard K; Sklenar, Jan; Win, Joe; Menke, Frank; Findlay, Kim; Banfield, Mark J; Kamoun, Sophien; Bozkurt, Tolga O

2016-01-01

Plants use autophagy to safeguard against infectious diseases. However, how plant pathogens interfere with autophagy-related processes is unknown. Here, we show that PexRD54, an effector from the Irish potato famine pathogen Phytophthora infestans, binds host autophagy protein ATG8CL to stimulate autophagosome formation. PexRD54 depletes the autophagy cargo receptor Joka2 out of ATG8CL complexes and interferes with Joka2's positive effect on pathogen defense. Thus, a plant pathogen effector has evolved to antagonize a host autophagy cargo receptor to counteract host defenses. DOI: http://dx.doi.org/10.7554/eLife.10856.001 PMID:26765567

Persistent Identifiers for Data Products: Adoption, Enhancement, and Use

NASA Astrophysics Data System (ADS)

Downs, R. R.; Schumacher, J.; Scialdone, J.; Hansen, M.

2016-12-01

Persistent identifiers offer value for science and for various science community stakeholders, such as data producers, data distributers, science article authors, scientific journal publishers, research sponsors, libraries, and affiliated institutions. However, to attain the benefits of persistent identifiers, they should be assigned to disseminated data products and included within the references reported in publications that describe the studies in which the data were used. Scientific data centers, archives, digital repositories, and other data publishers also need to determine the level of aggregation, or granularity, of data products to be assigned persistent identifiers as well as the elements to be included in the landing pages to which persistent identifiers will resolve. Similarly, policies and procedures should be clear on decisions about maintenance issues, including versioning of data products and how persistent identifiers to previous versions and new locations will be maintained. With some persistent identifiers, such as Digital Object Identifiers (DOIs), which provide capabilities to link to related identifiers of other works, decisions on the establishment of links also must be clear, including links between early versions of data products and subsequent versions, links between data products and associated documentation, and links between data products and other publications that describe the data. We describe decisions for enabling the adoption and assignment of DOIs as persistent identifiers for data products disseminated by the NASA Socioeconomic Data and Applications Center (SEDAC) along with considerations for policy decisions, testing, implementation, and enhancement. The prevalence of the adoption of DOIs for citing the use of Earth science data disseminated by SEDAC also is described to provide insight into how interdisciplinary data users have engaged in the use of DOIs within their publications along with the implications of such use.

KSC-03PD-2461

NASA Technical Reports Server (NTRS)

2003-01-01

KENNEDY SPACE CENTER, FLA. Takao Doi, an astronaut with the National Space Development Agency of Japan (NASDA), watches the sensors during a Multi-Equipment Interface Test (MEIT) on the Japanese Experiment Module (JEM). NASDA developed the laboratory at the Tsukuba Space Center near Tokyo. It is the first element, named 'Kibo' (Hope), to be delivered to KSC. The JEM is Japan's primary contribution to the Station. It will enhance the unique research capabilities of the orbiting complex by providing an additional environment for astronauts to conduct science experiments.

The Exile of Hansen's Disease Patients to Moloka'i: A Diffusion of Innovations Perspective.

PubMed

Pitman Harris, Adrea; Matusitz, Jonathan

2016-07-01

This article analyzes the exile of patients with Hansen's disease (leprosy) to Moloka'i (Hawaii) by applying the diffusion of innovations (DoI) theory. Developed by Rogers, DoI posits that an innovation (i.e., idea, movement, or trend) is initiated within a culture. Then, it is diffused via particular channels across diverse cultures. Instead of evolving independently, innovations diffuse from one culture to another through various forms of contact and communication. In the context of this analysis, the objective is to examine how the diffusion of certain ideas, namely, abolishing the stigma associated with leprosy, could have improved the lives of Hawaiians. An important premise of this article is that the Hawaiian government barely applied the tenets of DoI, which is the reason why many people lost their lives. So, this article seeks to explore what could have been done to improve their situation and what pitfalls should be avoided in the future.

GLO-Roots: an imaging platform enabling multidimensional characterization of soil-grown root systems

PubMed Central

Rellán-Álvarez, Rubén; Lobet, Guillaume; Lindner, Heike; Pradier, Pierre-Luc; Sebastian, Jose; Yee, Muh-Ching; Geng, Yu; Trontin, Charlotte; LaRue, Therese; Schrager-Lavelle, Amanda; Haney, Cara H; Nieu, Rita; Maloof, Julin; Vogel, John P; Dinneny, José R

2015-01-01

Root systems develop different root types that individually sense cues from their local environment and integrate this information with systemic signals. This complex multi-dimensional amalgam of inputs enables continuous adjustment of root growth rates, direction, and metabolic activity that define a dynamic physical network. Current methods for analyzing root biology balance physiological relevance with imaging capability. To bridge this divide, we developed an integrated-imaging system called Growth and Luminescence Observatory for Roots (GLO-Roots) that uses luminescence-based reporters to enable studies of root architecture and gene expression patterns in soil-grown, light-shielded roots. We have developed image analysis algorithms that allow the spatial integration of soil properties, gene expression, and root system architecture traits. We propose GLO-Roots as a system that has great utility in presenting environmental stimuli to roots in ways that evoke natural adaptive responses and in providing tools for studying the multi-dimensional nature of such processes. DOI: http://dx.doi.org/10.7554/eLife.07597.001 PMID:26287479

Role of visual and non-visual cues in constructing a rotation-invariant representation of heading in parietal cortex

PubMed Central

Sunkara, Adhira

2015-01-01

As we navigate through the world, eye and head movements add rotational velocity patterns to the retinal image. When such rotations accompany observer translation, the rotational velocity patterns must be discounted to accurately perceive heading. The conventional view holds that this computation requires efference copies of self-generated eye/head movements. Here we demonstrate that the brain implements an alternative solution in which retinal velocity patterns are themselves used to dissociate translations from rotations. These results reveal a novel role for visual cues in achieving a rotation-invariant representation of heading in the macaque ventral intraparietal area. Specifically, we show that the visual system utilizes both local motion parallax cues and global perspective distortions to estimate heading in the presence of rotations. These findings further suggest that the brain is capable of performing complex computations to infer eye movements and discount their sensory consequences based solely on visual cues. DOI: http://dx.doi.org/10.7554/eLife.04693.001 PMID:25693417

Arabidopsis plants perform arithmetic division to prevent starvation at night

PubMed Central

Scialdone, Antonio; Mugford, Sam T; Feike, Doreen; Skeffington, Alastair; Borrill, Philippa; Graf, Alexander; Smith, Alison M; Howard, Martin

2013-01-01

Photosynthetic starch reserves that accumulate in Arabidopsis leaves during the day decrease approximately linearly with time at night to support metabolism and growth. We find that the rate of decrease is adjusted to accommodate variation in the time of onset of darkness and starch content, such that reserves last almost precisely until dawn. Generation of these dynamics therefore requires an arithmetic division computation between the starch content and expected time to dawn. We introduce two novel chemical kinetic models capable of implementing analog arithmetic division. Predictions from the models are successfully tested in plants perturbed by a night-time light period or by mutations in starch degradation pathways. Our experiments indicate which components of the starch degradation apparatus may be important for appropriate arithmetic division. Our results are potentially relevant for any biological system dependent on a food reserve for survival over a predictable time period. DOI: http://dx.doi.org/10.7554/eLife.00669.001 PMID:23805380

Global, quantitative and dynamic mapping of protein subcellular localization

PubMed Central

Itzhak, Daniel N; Tyanova, Stefka; Cox, Jürgen; Borner, Georg HH

2016-01-01

Subcellular localization critically influences protein function, and cells control protein localization to regulate biological processes. We have developed and applied Dynamic Organellar Maps, a proteomic method that allows global mapping of protein translocation events. We initially used maps statically to generate a database with localization and absolute copy number information for over 8700 proteins from HeLa cells, approaching comprehensive coverage. All major organelles were resolved, with exceptional prediction accuracy (estimated at >92%). Combining spatial and abundance information yielded an unprecedented quantitative view of HeLa cell anatomy and organellar composition, at the protein level. We subsequently demonstrated the dynamic capabilities of the approach by capturing translocation events following EGF stimulation, which we integrated into a quantitative model. Dynamic Organellar Maps enable the proteome-wide analysis of physiological protein movements, without requiring any reagents specific to the investigated process, and will thus be widely applicable in cell biology. DOI: http://dx.doi.org/10.7554/eLife.16950.001 PMID:27278775

Substrate stiffness governs the initiation of B cell activation by the concerted signaling of PKCβ and focal adhesion kinase

PubMed Central

Shaheen, Samina; Wan, Zhengpeng; Li, Zongyu; Chau, Alicia; Li, Xinxin; Zhang, Shaosen; Liu, Yang; Yi, Junyang; Zeng, Yingyue; Wang, Jing; Chen, Xiangjun; Xu, Liling; Chen, Wei; Wang, Fei; Lu, Yun; Zheng, Wenjie; Shi, Yan; Sun, Xiaolin; Li, Zhanguo; Xiong, Chunyang; Liu, Wanli

2017-01-01

The mechanosensing ability of lymphocytes regulates their activation in response to antigen stimulation, but the underlying mechanism remains unexplored. Here, we report that B cell mechanosensing-governed activation requires BCR signaling molecules. PMA-induced activation of PKCβ can bypass the Btk and PLC-γ2 signaling molecules that are usually required for B cells to discriminate substrate stiffness. Instead, PKCβ-dependent activation of FAK is required, leading to FAK-mediated potentiation of B cell spreading and adhesion responses. FAK inactivation or deficiency impaired B cell discrimination of substrate stiffness. Conversely, adhesion molecules greatly enhanced this capability of B cells. Lastly, B cells derived from rheumatoid arthritis (RA) patients exhibited an altered BCR response to substrate stiffness in comparison with healthy controls. These results provide a molecular explanation of how initiation of B cell activation discriminates substrate stiffness through a PKCβ-mediated FAK activation dependent manner. DOI: http://dx.doi.org/10.7554/eLife.23060.001 PMID:28755662

Convergence of pontine and proprioceptive streams onto multimodal cerebellar granule cells

PubMed Central

Huang, Cheng-Chiu; Sugino, Ken; Shima, Yasuyuki; Guo, Caiying; Bai, Suxia; Mensh, Brett D; Nelson, Sacha B; Hantman, Adam W

2013-01-01

Cerebellar granule cells constitute the majority of neurons in the brain and are the primary conveyors of sensory and motor-related mossy fiber information to Purkinje cells. The functional capability of the cerebellum hinges on whether individual granule cells receive mossy fiber inputs from multiple precerebellar nuclei or are instead unimodal; this distinction is unresolved. Using cell-type-specific projection mapping with synaptic resolution, we observed the convergence of separate sensory (upper body proprioceptive) and basilar pontine pathways onto individual granule cells and mapped this convergence across cerebellar cortex. These findings inform the long-standing debate about the multimodality of mammalian granule cells and substantiate their associative capacity predicted in the Marr-Albus theory of cerebellar function. We also provide evidence that the convergent basilar pontine pathways carry corollary discharges from upper body motor cortical areas. Such merging of related corollary and sensory streams is a critical component of circuit models of predictive motor control. DOI: http://dx.doi.org/10.7554/eLife.00400.001 PMID:23467508

Massive cortical reorganization in sighted Braille readers

PubMed Central

Siuda-Krzywicka, Katarzyna; Bola, Łukasz; Paplińska, Małgorzata; Sumera, Ewa; Jednoróg, Katarzyna; Marchewka, Artur; Śliwińska, Magdalena W; Amedi, Amir; Szwed, Marcin

2016-01-01

The brain is capable of large-scale reorganization in blindness or after massive injury. Such reorganization crosses the division into separate sensory cortices (visual, somatosensory...). As its result, the visual cortex of the blind becomes active during tactile Braille reading. Although the possibility of such reorganization in the normal, adult brain has been raised, definitive evidence has been lacking. Here, we demonstrate such extensive reorganization in normal, sighted adults who learned Braille while their brain activity was investigated with fMRI and transcranial magnetic stimulation (TMS). Subjects showed enhanced activity for tactile reading in the visual cortex, including the visual word form area (VWFA) that was modulated by their Braille reading speed and strengthened resting-state connectivity between visual and somatosensory cortices. Moreover, TMS disruption of VWFA activity decreased their tactile reading accuracy. Our results indicate that large-scale reorganization is a viable mechanism recruited when learning complex skills. DOI: http://dx.doi.org/10.7554/eLife.10762.001 PMID:26976813

Mesolimbic confidence signals guide perceptual learning in the absence of external feedback

PubMed Central

Guggenmos, Matthias; Wilbertz, Gregor; Hebart, Martin N; Sterzer, Philipp

2016-01-01

It is well established that learning can occur without external feedback, yet normative reinforcement learning theories have difficulties explaining such instances of learning. Here, we propose that human observers are capable of generating their own feedback signals by monitoring internal decision variables. We investigated this hypothesis in a visual perceptual learning task using fMRI and confidence reports as a measure for this monitoring process. Employing a novel computational model in which learning is guided by confidence-based reinforcement signals, we found that mesolimbic brain areas encoded both anticipation and prediction error of confidence—in remarkable similarity to previous findings for external reward-based feedback. We demonstrate that the model accounts for choice and confidence reports and show that the mesolimbic confidence prediction error modulation derived through the model predicts individual learning success. These results provide a mechanistic neurobiological explanation for learning without external feedback by augmenting reinforcement models with confidence-based feedback. DOI: http://dx.doi.org/10.7554/eLife.13388.001 PMID:27021283

43 CFR Appendix B to Part 2 - Internet Addresses

Code of Federal Regulations, 2010 CFR

2010-10-01

... Page: http://www.doi.gov 2. DOI FOIA Home Page: http://www.doi.gov/foia/ 3. DOI Reference Guide for Obtaining Information: http://www.doi.gov/foia/foitabl.htm 4. List of DOI Public Affairs Offices: http://www.doi.gov/foia/list.html 5. DOI FOIA Contacts: http://www.doi.gov/foia/contacts.html 6. DOI FOIA...

43 CFR Appendix B to Part 2 - Internet Addresses

Code of Federal Regulations, 2012 CFR

2012-10-01

... Page: http://www.doi.gov 2. DOI FOIA Home Page: http://www.doi.gov/foia/ 3. DOI Reference Guide for Obtaining Information: http://www.doi.gov/foia/foitabl.htm 4. List of DOI Public Affairs Offices: http://www.doi.gov/foia/list.html 5. DOI FOIA Contacts: http://www.doi.gov/foia/contacts.html 6. DOI FOIA...

Enhancing Geoscience Research Discovery Through the Semantic Web

NASA Astrophysics Data System (ADS)

Rowan, Linda R.; Gross, M. Benjamin; Mayernik, Matthew; Khan, Huda; Boler, Frances; Maull, Keith; Stott, Don; Williams, Steve; Corson-Rikert, Jon; Johns, Erica M.; Daniels, Michael; Krafft, Dean B.; Meertens, Charles

2016-04-01

UNAVCO, UCAR, and Cornell University are working together to leverage semantic web technologies to enable discovery of people, datasets, publications and other research products, as well as the connections between them. The EarthCollab project, a U.S. National Science Foundation EarthCube Building Block, is enhancing an existing open-source semantic web application, VIVO, to enhance connectivity across distributed networks of researchers and resources related to the following two geoscience-based communities: (1) the Bering Sea Project, an interdisciplinary field program whose data archive is hosted by NCAR's Earth Observing Laboratory (EOL), and (2) UNAVCO, a geodetic facility and consortium that supports diverse research projects informed by geodesy. People, publications, datasets and grant information have been mapped to an extended version of the VIVO-ISF ontology and ingested into VIVO's database. Much of the VIVO ontology was built for the life sciences, so we have added some components of existing geoscience-based ontologies and a few terms from a local ontology that we created. The UNAVCO VIVO instance, connect.unavco.org, utilizes persistent identifiers whenever possible; for example using ORCIDs for people, publication DOIs, data DOIs and unique NSF grant numbers. Data is ingested using a custom set of scripts that include the ability to perform basic automated and curated disambiguation. VIVO can display a page for every object ingested, including connections to other objects in the VIVO database. A dataset page, for example, includes the dataset type, time interval, DOI, related publications, and authors. The dataset type field provides a connection to all other datasets of the same type. The author's page shows, among other information, related datasets and co-authors. Information previously spread across several unconnected databases is now stored in a single location. In addition to VIVO's default display, the new database can be queried using SPARQL, a query language for semantic data. EarthCollab is extending the VIVO web application. One such extension is the ability to cross-link separate VIVO instances across institutions, allowing local display of externally curated information. For example, Cornell's VIVO faculty pages will display UNAVCO's dataset information and UNAVCO's VIVO will display Cornell faculty member contact and position information. About half of UNAVCO's membership is international and we hope to connect our data to institutions in other countries with a similar approach. Additional extensions, including enhanced geospatial capabilities, will be developed based on task-centered usability testing.

ResDE Two-Component Regulatory System Mediates Oxygen Limitation-Induced Biofilm Formation by Bacillus amyloliquefaciens SQR9.

PubMed

Zhou, Xuan; Zhang, Nan; Xia, Liming; Li, Qing; Shao, Jiahui; Shen, Qirong; Zhang, Ruifu

2018-04-15

Efficient biofilm formation and root colonization capabilities facilitate the ability of beneficial plant rhizobacteria to promote plant growth and antagonize soilborne pathogens. Biofilm formation by plant-beneficial Bacillus strains is triggered by environmental cues, including oxygen deficiency, but the pathways that sense these environmental signals and regulate biofilm formation have not been thoroughly elucidated. In this study, we showed that the ResDE two-component regulatory system in the plant growth-promoting rhizobacterium Bacillus amyloliquefaciens strain SQR9 senses the oxygen deficiency signal and regulates biofilm formation. ResE is activated by sensing the oxygen limitation-induced reduction of the NAD + /NADH pool through its PAS domain, stimulating its kinase activity, and resulting in the transfer of a phosphoryl group to ResD. The phosphorylated ResD directly binds to the promoter regions of the qoxABCD and ctaCDEF operons to improve the biosynthesis of terminal oxidases, which can interact with KinB to activate biofilm formation. These results not only revealed the novel regulatory function of the ResDE two-component system but also contributed to the understanding of the complicated regulatory network governing Bacillus biofilm formation. This research may help to enhance the root colonization and the plant-beneficial efficiency of SQR9 and other Bacillus rhizobacteria used in agriculture. IMPORTANCE Bacillus spp. are widely used as bioinoculants for plant growth promotion and disease suppression. The exertion of their plant-beneficial functions is largely dependent on their root colonization, which is closely related to their biofilm formation capabilities. On the other hand, Bacillus is the model bacterium for biofilm study, and the process and molecular network of biofilm formation are well characterized (B. Mielich-Süss and D. Lopez, Environ Microbiol 17:555-565, 2015, https://doi.org/10.1111/1462-2920.12527; L. S. Cairns, L. Hobley, and N. R. Stanley-Wall, Mol Microbiol 93:587-598, 2014, https://doi.org/10.1111/mmi.12697; H. Vlamakis, C. Aguilar, R. Losick, and R. Kolter, Genes Dev 22:945-953, 2008, https://doi.org/10.1101/gad.1645008; S. S. Branda, A. Vik, L. Friedman, and R. Kolter, Trends Microbiol 13:20-26, 2005, https://doi.org/10.1016/j.tim.2004.11.006; C. Aguilar, H. Vlamakis, R. Losick, and R. Kolter, Curr Opin Microbiol 10:638-643, 2007, https://doi.org/10.1016/j.mib.2007.09.006; S. S. Branda, J. E. González-Pastor, S. Ben-Yehuda, R. Losick, and R. Kolter, Proc Natl Acad Sci U S A 98:11621-11626, 2001, https://doi.org/10.1073/pnas.191384198). However, the identification and sensing of environmental signals triggering Bacillus biofilm formation need further research. Here, we report that the oxygen deficiency signal inducing Bacillus biofilm formation is sensed by the ResDE two-component regulatory system. Our results not only revealed the novel regulatory function of the ResDE two-component regulatory system but also identified the sensing system of a biofilm-triggering signal. This knowledge can help to enhance the biofilm formation and root colonization of plant-beneficial Bacillus strains and also provide new insights of bacterial biofilm formation regulation. Copyright © 2018 American Society for Microbiology.

A cellular and regulatory map of the GABAergic nervous system of C. elegans

PubMed Central

Gendrel, Marie; Atlas, Emily G; Hobert, Oliver

2016-01-01

Neurotransmitter maps are important complements to anatomical maps and represent an invaluable resource to understand nervous system function and development. We report here a comprehensive map of neurons in the C. elegans nervous system that contain the neurotransmitter GABA, revealing twice as many GABA-positive neuron classes as previously reported. We define previously unknown glia-like cells that take up GABA, as well as 'GABA uptake neurons' which do not synthesize GABA but take it up from the extracellular environment, and we map the expression of previously uncharacterized ionotropic GABA receptors. We use the map of GABA-positive neurons for a comprehensive analysis of transcriptional regulators that define the GABA phenotype. We synthesize our findings of specification of GABAergic neurons with previous reports on the specification of glutamatergic and cholinergic neurons into a nervous system-wide regulatory map which defines neurotransmitter specification mechanisms for more than half of all neuron classes in C. elegans. DOI: http://dx.doi.org/10.7554/eLife.17686.001 PMID:27740909

Effects of dopamine on reinforcement learning and consolidation in Parkinson’s disease

PubMed Central

Grogan, John P; Tsivos, Demitra; Smith, Laura; Knight, Brogan E; Bogacz, Rafal; Whone, Alan; Coulthard, Elizabeth J

2017-01-01

Emerging evidence suggests that dopamine may modulate learning and memory with important implications for understanding the neurobiology of memory and future therapeutic targeting. An influential hypothesis posits that dopamine biases reinforcement learning. More recent data also suggest an influence during both consolidation and retrieval. Eighteen Parkinson’s disease patients learned through feedback ON or OFF medication, with memory tested 24 hr later ON or OFF medication (4 conditions, within-subjects design with matched healthy control group). Patients OFF medication during learning decreased in memory accuracy over the following 24 hr. In contrast to previous studies, however, dopaminergic medication during learning and testing did not affect expression of positive or negative reinforcement. Two further experiments were run without the 24 hr delay, but they too failed to reproduce effects of dopaminergic medication on reinforcement learning. While supportive of a dopaminergic role in consolidation, this study failed to replicate previous findings on reinforcement learning. DOI: http://dx.doi.org/10.7554/eLife.26801.001 PMID:28691905

Determination of ubiquitin fitness landscapes under different chemical stresses in a classroom setting

PubMed Central

Mavor, David; Barlow, Kyle; Thompson, Samuel; Barad, Benjamin A; Bonny, Alain R; Cario, Clinton L; Gaskins, Garrett; Liu, Zairan; Deming, Laura; Axen, Seth D; Caceres, Elena; Chen, Weilin; Cuesta, Adolfo; Gate, Rachel E; Green, Evan M; Hulce, Kaitlin R; Ji, Weiyue; Kenner, Lillian R; Mensa, Bruk; Morinishi, Leanna S; Moss, Steven M; Mravic, Marco; Muir, Ryan K; Niekamp, Stefan; Nnadi, Chimno I; Palovcak, Eugene; Poss, Erin M; Ross, Tyler D; Salcedo, Eugenia C; See, Stephanie K; Subramaniam, Meena; Wong, Allison W; Li, Jennifer; Thorn, Kurt S; Conchúir, Shane Ó; Roscoe, Benjamin P; Chow, Eric D; DeRisi, Joseph L; Kortemme, Tanja; Bolon, Daniel N; Fraser, James S

2016-01-01

Ubiquitin is essential for eukaryotic life and varies in only 3 amino acid positions between yeast and humans. However, recent deep sequencing studies indicate that ubiquitin is highly tolerant to single mutations. We hypothesized that this tolerance would be reduced by chemically induced physiologic perturbations. To test this hypothesis, a class of first year UCSF graduate students employed deep mutational scanning to determine the fitness landscape of all possible single residue mutations in the presence of five different small molecule perturbations. These perturbations uncover 'shared sensitized positions' localized to areas around the hydrophobic patch and the C-terminus. In addition, we identified perturbation specific effects such as a sensitization of His68 in HU and a tolerance to mutation at Lys63 in DTT. Our data show how chemical stresses can reduce buffering effects in the ubiquitin proteasome system. Finally, this study demonstrates the potential of lab-based interdisciplinary graduate curriculum. DOI: http://dx.doi.org/10.7554/eLife.15802.001 PMID:27111525

A 14-year dataset of in situ glacier surface velocities for a tidewater and a land-terminating glacier in Livingston Island, Antarctica

NASA Astrophysics Data System (ADS)

Machío, Francisco; Rodríguez-Cielos, Ricardo; Navarro, Francisco; Lapazaran, Javier; Otero, Jaime

2017-10-01

We present a 14-year record of in situ glacier surface velocities determined by repeated global navigation satellite system (GNSS) measurements in a dense network of 52 stakes distributed across two glaciers, Johnsons (tidewater) and Hurd (land-terminating), located on Livingston Island, South Shetland Islands, Antarctica. The measurements cover the time period 2000-2013 and were collected at the beginning and end of each austral summer season. A second-degree polynomial approximation is fitted to each stake position, which allows estimating the approximate positions and associated velocities at intermediate times. This dataset is useful as input data for numerical models of glacier dynamics or for the calibration and validation of remotely sensed velocities for a region where very scarce in situ glacier surface velocity measurements have been available so far. The link to the data repository is as follows: http://doi.pangaea.de/10.1594/PANGAEA.846791.

Mapping the dynamics of force transduction at cell–cell junctions of epithelial clusters

PubMed Central

Ng, Mei Rosa; Besser, Achim; Brugge, Joan S; Danuser, Gaudenz

2014-01-01

Force transduction at cell-cell adhesions regulates tissue development, maintenance and adaptation. We developed computational and experimental approaches to quantify, with both sub-cellular and multi-cellular resolution, the dynamics of force transmission in cell clusters. Applying this technology to spontaneously-forming adherent epithelial cell clusters, we found that basal force fluctuations were coupled to E-cadherin localization at the level of individual cell-cell junctions. At the multi-cellular scale, cell-cell force exchange depended on the cell position within a cluster, and was adaptive to reconfigurations due to cell divisions or positional rearrangements. Importantly, force transmission through a cell required coordinated modulation of cell-matrix adhesion and actomyosin contractility in the cell and its neighbors. These data provide insights into mechanisms that could control mechanical stress homeostasis in dynamic epithelial tissues, and highlight our methods as a resource for the study of mechanotransduction in cell-cell adhesions. DOI: http://dx.doi.org/10.7554/eLife.03282.001 PMID:25479385

Assembly and positioning of actomyosin rings by contractility and planar cell polarity

PubMed Central

Sehring, Ivonne M; Recho, Pierre; Denker, Elsa; Kourakis, Matthew; Mathiesen, Birthe; Hannezo, Edouard; Dong, Bo; Jiang, Di

2015-01-01

The actomyosin cytoskeleton is a primary force-generating mechanism in morphogenesis, thus a robust spatial control of cytoskeletal positioning is essential. In this report, we demonstrate that actomyosin contractility and planar cell polarity (PCP) interact in post-mitotic Ciona notochord cells to self-assemble and reposition actomyosin rings, which play an essential role for cell elongation. Intriguingly, rings always form at the cells′ anterior edge before migrating towards the center as contractility increases, reflecting a novel dynamical property of the cortex. Our drug and genetic manipulations uncover a tug-of-war between contractility, which localizes cortical flows toward the equator and PCP, which tries to reposition them. We develop a simple model of the physical forces underlying this tug-of-war, which quantitatively reproduces our results. We thus propose a quantitative framework for dissecting the relative contribution of contractility and PCP to the self-assembly and repositioning of cytoskeletal structures, which should be applicable to other morphogenetic events. DOI: http://dx.doi.org/10.7554/eLife.09206.001 PMID:26486861

Developmental lineage priming in Dictyostelium by heterogeneous Ras activation.

PubMed

Chattwood, Alex; Nagayama, Koki; Bolourani, Parvin; Harkin, Lauren; Kamjoo, Marzieh; Weeks, Gerald; Thompson, Christopher R L

2013-11-26

In cell culture, genetically identical cells often exhibit heterogeneous behavior, with only 'lineage primed' cells responding to differentiation inducing signals. It has recently been proposed that such heterogeneity exists during normal embryonic development to allow position independent patterning based on 'salt and pepper' differentiation and sorting out. However, the molecular basis of lineage priming and how it leads to reproducible cell type proportioning are poorly understood. To address this, we employed a novel forward genetic approach in the model organism Dictyostelium discoideum. These studies reveal that the Ras-GTPase regulator gefE is required for normal lineage priming and salt and pepper differentiation. This is because Ras-GTPase activity sets the intrinsic response threshold to lineage specific differentiation signals. Importantly, we show that although gefE expression is uniform, transcription of its target, rasD, is both heterogeneous and dynamic, thus providing a novel mechanism for heterogeneity generation and position-independent differentiation. DOI: http://dx.doi.org/10.7554/eLife.01067.001.

Position-specific isotope modeling of organic micropollutants transformations through different reaction pathways

NASA Astrophysics Data System (ADS)

Jin, Biao; Rolle, Massimo

2016-04-01

Organic compounds are produced in vast quantities for industrial and agricultural use, as well as for human and animal healthcare [1]. These chemicals and their metabolites are frequently detected at trace levels in fresh water environments where they undergo degradation via different reaction pathways. Compound specific stable isotope analysis (CSIA) is a valuable tool to identify such degradation pathways in different environmental systems. Recent advances in analytical techniques have promoted the fast development and implementation of multi-element CSIA. However, quantitative frameworks to evaluate multi-element stable isotope data and incorporating mechanistic information on the degradation processes [2,3] are still lacking. In this study we propose a mechanism-based modeling approach to simultaneously evaluate concentration as well as bulk and position-specific multi-element isotope evolution during the transformation of organic micropollutants. The model explicitly simulates position-specific isotopologues for those atoms that experience isotope effects and, thereby, provides a mechanistic description of isotope fractionation occurring at different molecular positions. We validate the proposed approach with the concentration and multi-element isotope data of three selected organic micropollutants: dichlorobenzamide (BAM), isoproturon (IPU) and diclofenac (DCF). The model precisely captures the dual element isotope trends characteristic of different reaction pathways and their range of variation consistent with observed multi-element (C, N) bulk isotope fractionation. The proposed approach can also be used as a tool to explore transformation pathways in scenarios for which position-specific isotope data are not yet available. [1] Schwarzenbach, R.P., Egli, T., Hofstetter, T.B., von Gunten, U., Wehrli, B., 2010. Global Water Pollution and Human Health. Annu. Rev. Environ. Resour. doi:10.1146/annurev-environ-100809-125342. [2] Jin, B., Haderlein, S.B., Rolle, M., 2013. Integrated carbon and chlorine isotope modeling: Applications to chlorinated aliphatic hydrocarbons dechlorination. Environ. Sci. Technol. 47, 1443-1451. doi:10.1021/es304053h. [3] Jin, B., Rolle, M., 2014. Mechanistic approach to multi-element isotope modeling of organic contaminant degradation. Chemosphere 95, 131-139. doi:10.1016/j.chemosphere.2013.08.050.

Adaptive Image Processing Methods for Improving Contaminant Detection Accuracy on Poultry Carcasses

USDA-ARS?s Scientific Manuscript database

Technical Abstract A real-time multispectral imaging system has demonstrated a science-based tool for fecal and ingesta contaminant detection during poultry processing. In order to implement this imaging system at commercial poultry processing industry, the false positives must be removed. For doi...

Cannabinoids: clearing the smoke on pain, inflammation and neurodegeneration.

PubMed

Downer, E J; Finn, D P

2014-03-01

This article is part of a themed section on Cannabinoids 2013. To view the other articles in this section, see Fagan and Campbell (2014) DOI: 10.1111/bph.12492, Ignatowska-Jankowska et al. (2014) DOI: 10.1111/bph.12298, Ligresti et al. (2014) DOI: 10.1111/bph.12410, Lopez-Rodriguez et al. (2014) DOI: 10.1111/bph.12519, Murataeva et al. (2014) DOI: 10.1111/bph.12411, Okine et al. (2014) DOI: 10.1111/bph.12540, Rodríguez-Cueto et al. (2014) DOI: 10.1111/bph.12283, Stanley and O'Sullivan (2014) DOI: 10.1111/bph.12560, Toguri et al. (2014) DOI: 10.1111/bph.12545, Wu et al. (2014) DOI: 10.1111/bph.12500. Linked articles are: Avraham et al. (2014) DOI: 10.1111/bph.12478, Machado et al. (2014) DOI: 10.1111/bph.12488, Ward et al. (2014) DOI: 10.1111/bph.12439. © 2014 The British Pharmacological Society.

Leveraging electrokinetics for the active control of dendritic fullerene-1 release across a nanochannel membrane

NASA Astrophysics Data System (ADS)

Bruno, Giacomo; Geninatti, Thomas; Hood, R. Lyle; Fine, Daniel; Scorrano, Giovanni; Schmulen, Jeffrey; Hosali, Sharath; Ferrari, Mauro; Grattoni, Alessandro

2015-03-01

General adoption of advanced treatment protocols such as chronotherapy will hinge on progress in drug delivery technologies that provide precise temporal control of therapeutic release. Such innovation is also crucial to future medicine approaches such as telemedicine. Here we present a nanofluidic membrane technology capable of achieving active and tunable control of molecular transport through nanofluidic channels. Control was achieved through application of an electric field between two platinum electrodes positioned on either surface of a 5.7 nm nanochannel membrane designed for zero-order drug delivery. Two electrode configurations were tested: laser-cut foils and electron beam deposited thin-films, configurations capable of operating at low voltage (<=1.5 V), and power (100 nW). Temporal, reproducible tuning and interruption of dendritic fullerene 1 (DF-1) transport was demonstrated over multi-day release experiments. Conductance tests showed limiting currents in the low applied potential range, implying ionic concentration polarization (ICP) at the interface between the membrane's micro- and nanochannels, even in concentrated solutions (<=1 M NaCl). The ability of this nanotechnology platform to facilitate controlled delivery of molecules and particles has broad applicability to next-generation therapeutics for numerous pathologies, including autoimmune diseases, circadian dysfunction, pain, and stress, among others.General adoption of advanced treatment protocols such as chronotherapy will hinge on progress in drug delivery technologies that provide precise temporal control of therapeutic release. Such innovation is also crucial to future medicine approaches such as telemedicine. Here we present a nanofluidic membrane technology capable of achieving active and tunable control of molecular transport through nanofluidic channels. Control was achieved through application of an electric field between two platinum electrodes positioned on either surface of a 5.7 nm nanochannel membrane designed for zero-order drug delivery. Two electrode configurations were tested: laser-cut foils and electron beam deposited thin-films, configurations capable of operating at low voltage (<=1.5 V), and power (100 nW). Temporal, reproducible tuning and interruption of dendritic fullerene 1 (DF-1) transport was demonstrated over multi-day release experiments. Conductance tests showed limiting currents in the low applied potential range, implying ionic concentration polarization (ICP) at the interface between the membrane's micro- and nanochannels, even in concentrated solutions (<=1 M NaCl). The ability of this nanotechnology platform to facilitate controlled delivery of molecules and particles has broad applicability to next-generation therapeutics for numerous pathologies, including autoimmune diseases, circadian dysfunction, pain, and stress, among others. Electronic supplementary information (ESI) available. See DOI: 10.1039/c4nr06209d

Increasing evidence of mechanical force as a functional regulator in smooth muscle myosin light chain kinase

PubMed Central

Baumann, Fabian; Bauer, Magnus Sebastian; Rees, Martin; Alexandrovich, Alexander; Gautel, Mathias; Pippig, Diana Angela; Gaub, Hermann Eduard

2017-01-01

Mechanosensitive proteins are key players in cytoskeletal remodeling, muscle contraction, cell migration and differentiation processes. Smooth muscle myosin light chain kinase (smMLCK) is a member of a diverse group of serine/threonine kinases that feature cytoskeletal association. Its catalytic activity is triggered by a conformational change upon Ca2+/calmodulin (Ca2+/CaM) binding. Due to its significant homology with the force-activated titin kinase, smMLCK is suspected to be also regulatable by mechanical stress. In this study, a CaM-independent activation mechanism for smMLCK by mechanical release of the inhibitory elements is investigated via high throughput AFM single-molecule force spectroscopy. The characteristic pattern of transitions between different smMLCK states and their variations in the presence of different substrates and ligands are presented. Interaction between kinase domain and regulatory light chain (RLC) substrate is identified in the absence of CaM, indicating restored substrate-binding capability due to mechanically induced removal of the auto-inhibitory regulatory region. DOI: http://dx.doi.org/10.7554/eLife.26473.001 PMID:28696205

Phosphoprotein SAK1 is a regulator of acclimation to singlet oxygen in Chlamydomonas reinhardtii.

PubMed

Wakao, Setsuko; Chin, Brian L; Ledford, Heidi K; Dent, Rachel M; Casero, David; Pellegrini, Matteo; Merchant, Sabeeha S; Niyogi, Krishna K

2014-05-23

Singlet oxygen is a highly toxic and inevitable byproduct of oxygenic photosynthesis. The unicellular green alga Chlamydomonas reinhardtii is capable of acclimating specifically to singlet oxygen stress, but the retrograde signaling pathway from the chloroplast to the nucleus mediating this response is unknown. Here we describe a mutant, singlet oxygen acclimation knocked-out 1 (sak1), that lacks the acclimation response to singlet oxygen. Analysis of genome-wide changes in RNA abundance during acclimation to singlet oxygen revealed that SAK1 is a key regulator of the gene expression response during acclimation. The SAK1 gene encodes an uncharacterized protein with a domain conserved among chlorophytes and present in some bZIP transcription factors. The SAK1 protein is located in the cytosol, and it is induced and phosphorylated upon exposure to singlet oxygen, suggesting that it is a critical intermediate component of the retrograde signal transduction pathway leading to singlet oxygen acclimation.DOI: http://dx.doi.org/10.7554/eLife.02286.001. Copyright © 2014, Wakao et al.

Monochromatic multicomponent fluorescence sedimentation velocity for the study of high-affinity protein interactions

PubMed Central

Zhao, Huaying; Fu, Yan; Glasser, Carla; Andrade Alba, Eric J; Mayer, Mark L; Patterson, George; Schuck, Peter

2016-01-01

The dynamic assembly of multi-protein complexes underlies fundamental processes in cell biology. A mechanistic understanding of assemblies requires accurate measurement of their stoichiometry, affinity and cooperativity, and frequently consideration of multiple co-existing complexes. Sedimentation velocity analytical ultracentrifugation equipped with fluorescence detection (FDS-SV) allows the characterization of protein complexes free in solution with high size resolution, at concentrations in the nanomolar and picomolar range. Here, we extend the capabilities of FDS-SV with a single excitation wavelength from single-component to multi-component detection using photoswitchable fluorescent proteins (psFPs). We exploit their characteristic quantum yield of photo-switching to imprint spatio-temporal modulations onto the sedimentation signal that reveal different psFP-tagged protein components in the mixture. This novel approach facilitates studies of heterogeneous multi-protein complexes at orders of magnitude lower concentrations and for higher-affinity systems than previously possible. Using this technique we studied high-affinity interactions between the amino-terminal domains of GluA2 and GluA3 AMPA receptors. DOI: http://dx.doi.org/10.7554/eLife.17812.001 PMID:27436096

Angiopoietin-like proteins stimulate HSPC development through interaction with notch receptor signaling

PubMed Central

Lin, Michelle I; Price, Emily N; Boatman, Sonja; Hagedorn, Elliott J; Trompouki, Eirini; Satishchandran, Sruthi; Carspecken, Charles W; Uong, Audrey; DiBiase, Anthony; Yang, Song; Canver, Matthew C; Dahlberg, Ann; Lu, Zhigang; Zhang, Cheng Cheng; Orkin, Stuart H; Bernstein, Irwin D; Aster, Jon C; White, Richard M; Zon, Leonard I

2015-01-01

Angiopoietin-like proteins (angptls) are capable of ex vivo expansion of mouse and human hematopoietic stem and progenitor cells (HSPCs). Despite this intriguing ability, their mechanism is unknown. In this study, we show that angptl2 overexpression is sufficient to expand definitive HSPCs in zebrafish embryos. Angptl1/2 are required for definitive hematopoiesis and vascular specification of the hemogenic endothelium. The loss-of-function phenotype is reminiscent of the notch mutant mindbomb (mib), and a strong genetic interaction occurs between angptls and notch. Overexpressing angptl2 rescues mib while overexpressing notch rescues angptl1/2 morphants. Gene expression studies in ANGPTL2-stimulated CD34+ cells showed a strong MYC activation signature and myc overexpression in angptl1/2 morphants or mib restored HSPCs formation. ANGPTL2 can increase NOTCH activation in cultured cells and ANGPTL receptor interacted with NOTCH to regulate NOTCH cleavage. Together our data provide insight to the angptl-mediated notch activation through receptor interaction and subsequent activation of myc targets. DOI: http://dx.doi.org/10.7554/eLife.05544.001 PMID:25714926

Loss of MeCP2 disrupts cell autonomous and autocrine BDNF signaling in mouse glutamatergic neurons

PubMed Central

Sampathkumar, Charanya; Wu, Yuan-Ju; Vadhvani, Mayur; Trimbuch, Thorsten; Eickholt, Britta; Rosenmund, Christian

2016-01-01

Mutations in the MECP2 gene cause the neurodevelopmental disorder Rett syndrome (RTT). Previous studies have shown that altered MeCP2 levels result in aberrant neurite outgrowth and glutamatergic synapse formation. However, causal molecular mechanisms are not well understood since MeCP2 is known to regulate transcription of a wide range of target genes. Here, we describe a key role for a constitutive BDNF feed forward signaling pathway in regulating synaptic response, general growth and differentiation of glutamatergic neurons. Chronic block of TrkB receptors mimics the MeCP2 deficiency in wildtype glutamatergic neurons, while re-expression of BDNF quantitatively rescues MeCP2 deficiency. We show that BDNF acts cell autonomous and autocrine, as wildtype neurons are not capable of rescuing growth deficits in neighboring MeCP2 deficient neurons in vitro and in vivo. These findings are relevant for understanding RTT pathophysiology, wherein wildtype and mutant neurons are intermixed throughout the nervous system. DOI: http://dx.doi.org/10.7554/eLife.19374.001 PMID:27782879

Distinct roles of visual, parietal, and frontal motor cortices in memory-guided sensorimotor decisions

PubMed Central

Goard, Michael J; Pho, Gerald N; Woodson, Jonathan; Sur, Mriganka

2016-01-01

Mapping specific sensory features to future motor actions is a crucial capability of mammalian nervous systems. We investigated the role of visual (V1), posterior parietal (PPC), and frontal motor (fMC) cortices for sensorimotor mapping in mice during performance of a memory-guided visual discrimination task. Large-scale calcium imaging revealed that V1, PPC, and fMC neurons exhibited heterogeneous responses spanning all task epochs (stimulus, delay, response). Population analyses demonstrated unique encoding of stimulus identity and behavioral choice information across regions, with V1 encoding stimulus, fMC encoding choice even early in the trial, and PPC multiplexing the two variables. Optogenetic inhibition during behavior revealed that all regions were necessary during the stimulus epoch, but only fMC was required during the delay and response epochs. Stimulus identity can thus be rapidly transformed into behavioral choice, requiring V1, PPC, and fMC during the transformation period, but only fMC for maintaining the choice in memory prior to execution. DOI: http://dx.doi.org/10.7554/eLife.13764.001 PMID:27490481

Human DNA2 possesses a cryptic DNA unwinding activity that functionally integrates with BLM or WRN helicases

PubMed Central

Pinto, Cosimo; Kasaciunaite, Kristina; Seidel, Ralf; Cejka, Petr

2016-01-01

Human DNA2 (hDNA2) contains both a helicase and a nuclease domain within the same polypeptide. The nuclease of hDNA2 is involved in a variety of DNA metabolic processes. Little is known about the role of the hDNA2 helicase. Using bulk and single-molecule approaches, we show that hDNA2 is a processive helicase capable of unwinding kilobases of dsDNA in length. The nuclease activity prevents the engagement of the helicase by competing for the same substrate, hence prominent DNA unwinding by hDNA2 alone can only be observed using the nuclease-deficient variant. We show that the helicase of hDNA2 functionally integrates with BLM or WRN helicases to promote dsDNA degradation by forming a heterodimeric molecular machine. This collectively suggests that the hDNA2 motor promotes the enzyme's capacity to degrade dsDNA in conjunction with BLM or WRN and thus promote the repair of broken DNA. DOI: http://dx.doi.org/10.7554/eLife.18574.001 PMID:27612385

Effects of reflector and crystal surface on the performance of a depth-encoding PET detector with dual-ended readout

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

Ren, Silin; Yang, Yongfeng, E-mail: yfyang@ucdavis.edu; Cherry, Simon R.

Purpose: Depth encoding detectors are required to improve the spatial resolution and spatial resolution uniformity of small animal positron emission tomography (PET) scanners, as well as dedicated breast and brain scanners. Depth of interaction (DOI) can be measured by using dual-ended readout of lutetium oxyorthosilicate (LSO) scintillator arrays with position-sensitive avalanche photodiodes. Inter-crystal reflectors and crystal surface treatments play important roles in determining the performance of dual-ended detectors. In this paper, the authors evaluated five LSO arrays made with three different intercrystal reflectors and with either polished or unpolished crystal surfaces. Methods: The crystal size in all arrays was 1.5more » mm, which is typical of the detector size used in small animal and dedicated breast scanners. The LSO arrays were measured with dual-ended readout and were compared in terms of flood histogram, energy resolution, and DOI resolution performance. Results: The four arrays using enhanced specular reflector (ESR) and Toray reflector provided similar quality flood histograms and the array using Crystal Wrap reflector gave the worst flood histogram. The two arrays using ESR reflector provided the best energy resolution and the array using Crystal Wrap reflector yielded the worst energy resolution. All arrays except the polished ESR array provided good DOI resolution ranging from 1.9 mm to 2.9 mm. DOI resolution improved as the gradient in light collection efficiency with depth (GLCED) increased. The geometric mean energies were also calculated for these dual-ended readout detectors as an alternative to the conventional summed total energy. It was shown that the geometric mean energy is advantageous in that it provides more uniform photopeak amplitude at different depths for arrays with high GLCED, and is beneficial in event selection by allowing a fixed energy window independent of depth. A new method of DOI calculation that improved the linearity of DOI ratio vs depth and simplifies the DOI calibration procedure also was developed and tested. Conclusions: The results of these studies provide useful guidance in selecting the proper reflectors and crystal surface treatments when LSO arrays are used for high-resolution PET applications in small animal scanners or dedicated breast and brain scanners.« less

Process Architecture for Managing Digital Object Identifiers

NASA Astrophysics Data System (ADS)

Wanchoo, L.; James, N.; Stolte, E.

2014-12-01

In 2010, NASA's Earth Science Data and Information System (ESDIS) Project implemented a process for registering Digital Object Identifiers (DOIs) for data products distributed by Earth Observing System Data and Information System (EOSDIS). For the first 3 years, ESDIS evolved the process involving the data provider community in the development of processes for creating and assigning DOIs, and guidelines for the landing page. To accomplish this, ESDIS established two DOI User Working Groups: one for reviewing the DOI process whose recommendations were submitted to ESDIS in February 2014; and the other recently tasked to review and further develop DOI landing page guidelines for ESDIS approval by end of 2014. ESDIS has recently upgraded the DOI system from a manually-driven system to one that largely automates the DOI process. The new automated feature include: a) reviewing the DOI metadata, b) assigning of opaque DOI name if data provider chooses, and c) reserving, registering, and updating the DOIs. The flexibility of reserving the DOI allows data providers to embed and test the DOI in the data product metadata before formally registering with EZID. The DOI update process allows the changing of any DOI metadata except the DOI name unless the name has not been registered. Currently, ESDIS has processed a total of 557 DOIs of which 379 DOIs are registered with EZID and 178 are reserved with ESDIS. The DOI incorporates several metadata elements that effectively identify the data product and the source of availability. Of these elements, the Uniform Resource Locator (URL) attribute has the very important function of identifying the landing page which describes the data product. ESDIS in consultation with data providers in the Earth Science community is currently developing landing page guidelines that specify the key data product descriptive elements to be included on each data product's landing page. This poster will describe in detail the unique automated process and underlying system implemented by ESDIS for registering DOIs, as well as some of the lessons learned from the development of the process. In addition, this paper will summarize the recommendations made by the DOI Process and DOI Landing Page User Working Groups, and the procedures developed for implementing those recommendations.

A shift in anterior–posterior positional information underlies the fin-to-limb evolution

PubMed Central

Onimaru, Koh; Kuraku, Shigehiro; Takagi, Wataru; Hyodo, Susumu; Sharpe, James; Tanaka, Mikiko

2015-01-01

The pectoral fins of ancestral fishes had multiple proximal elements connected to their pectoral girdles. During the fin-to-limb transition, anterior proximal elements were lost and only the most posterior one remained as the humerus. Thus, we hypothesised that an evolutionary alteration occurred in the anterior–posterior (AP) patterning system of limb buds. In this study, we examined the pectoral fin development of catshark (Scyliorhinus canicula) and revealed that the AP positional values in fin buds are shifted more posteriorly than mouse limb buds. Furthermore, examination of Gli3 function and regulation shows that catshark fins lack a specific AP patterning mechanism, which restricts its expression to an anterior domain in tetrapods. Finally, experimental perturbation of AP patterning in catshark fin buds results in an expansion of posterior values and loss of anterior skeletal elements. Together, these results suggest that a key genetic event of the fin-to-limb transformation was alteration of the AP patterning network. DOI: http://dx.doi.org/10.7554/eLife.07048.001 PMID:26283004

Protein arginine methylation facilitates KCNQ channel-PIP2 interaction leading to seizure suppression

PubMed Central

Kim, Hyun-Ji; Jeong, Myong-Ho; Kim, Kyung-Ran; Jung, Chang-Yun; Lee, Seul-Yi; Kim, Hanna; Koh, Jewoo; Vuong, Tuan Anh; Jung, Seungmoon; Yang, Hyunwoo; Park, Su-Kyung; Choi, Dahee; Kim, Sung Hun; Kang, KyeongJin; Sohn, Jong-Woo; Park, Joo Min; Jeon, Daejong; Koo, Seung-Hoi; Ho, Won-Kyung; Kang, Jong-Sun; Kim, Seong-Tae; Cho, Hana

2016-01-01

KCNQ channels are critical determinants of neuronal excitability, thus emerging as a novel target of anti-epileptic drugs. To date, the mechanisms of KCNQ channel modulation have been mostly characterized to be inhibitory via Gq-coupled receptors, Ca2+/CaM, and protein kinase C. Here we demonstrate that methylation of KCNQ by protein arginine methyltransferase 1 (Prmt1) positively regulates KCNQ channel activity, thereby preventing neuronal hyperexcitability. Prmt1+/- mice exhibit epileptic seizures. Methylation of KCNQ2 channels at 4 arginine residues by Prmt1 enhances PIP2 binding, and Prmt1 depletion lowers PIP2 affinity of KCNQ2 channels and thereby the channel activities. Consistently, exogenous PIP2 addition to Prmt1+/- neurons restores KCNQ currents and neuronal excitability to the WT level. Collectively, we propose that Prmt1-dependent facilitation of KCNQ-PIP2 interaction underlies the positive regulation of KCNQ activity by arginine methylation, which may serve as a key target for prevention of neuronal hyperexcitability and seizures. DOI: http://dx.doi.org/10.7554/eLife.17159.001 PMID:27466704

The invariant cleavage pattern displayed by ascidian embryos depends on spindle positioning along the cell's longest axis in the apical plane and relies on asynchronous cell divisions

PubMed Central

Dumollard, Rémi; Minc, Nicolas; Salez, Gregory; Aicha, Sameh Ben; Bekkouche, Faisal; Hebras, Céline; Besnardeau, Lydia; McDougall, Alex

2017-01-01

The ascidian embryo is an ideal system to investigate how cell position is determined during embryogenesis. Using 3D timelapse imaging and computational methods we analyzed the planar cell divisions in ascidian early embryos and found that spindles in every cell tend to align at metaphase in the long length of the apical surface except in cells undergoing unequal cleavage. Furthermore, the invariant and conserved cleavage pattern of ascidian embryos was found to consist in alternate planar cell divisions between ectoderm and endomesoderm. In order to test the importance of alternate cell divisions we manipulated zygotic transcription induced by β-catenin or downregulated wee1 activity, both of which abolish this cell cycle asynchrony. Crucially, abolishing cell cycle asynchrony consistently disrupted the spindle orienting mechanism underpinning the invariant cleavage pattern. Our results demonstrate how an evolutionary conserved cell cycle asynchrony maintains the invariant cleavage pattern driving morphogenesis of the ascidian blastula. DOI: http://dx.doi.org/10.7554/eLife.19290.001 PMID:28121291

Compact and highly active next-generation libraries for CRISPR-mediated gene repression and activation

PubMed Central

Horlbeck, Max A; Gilbert, Luke A; Villalta, Jacqueline E; Adamson, Britt; Pak, Ryan A; Chen, Yuwen; Fields, Alexander P; Park, Chong Yon; Corn, Jacob E; Kampmann, Martin; Weissman, Jonathan S

2016-01-01

We recently found that nucleosomes directly block access of CRISPR/Cas9 to DNA (Horlbeck et al., 2016). Here, we build on this observation with a comprehensive algorithm that incorporates chromatin, position, and sequence features to accurately predict highly effective single guide RNAs (sgRNAs) for targeting nuclease-dead Cas9-mediated transcriptional repression (CRISPRi) and activation (CRISPRa). We use this algorithm to design next-generation genome-scale CRISPRi and CRISPRa libraries targeting human and mouse genomes. A CRISPRi screen for essential genes in K562 cells demonstrates that the large majority of sgRNAs are highly active. We also find CRISPRi does not exhibit any detectable non-specific toxicity recently observed with CRISPR nuclease approaches. Precision-recall analysis shows that we detect over 90% of essential genes with minimal false positives using a compact 5 sgRNA/gene library. Our results establish CRISPRi and CRISPRa as premier tools for loss- or gain-of-function studies and provide a general strategy for identifying Cas9 target sites. DOI: http://dx.doi.org/10.7554/eLife.19760.001 PMID:27661255

Position- and Hippo signaling-dependent plasticity during lineage segregation in the early mouse embryo

PubMed Central

Posfai, Eszter; Petropoulos, Sophie; de Barros, Flavia Regina Oliveira; Schell, John Paul; Jurisica, Igor; Sandberg, Rickard; Lanner, Fredrik; Rossant, Janet

2017-01-01

The segregation of the trophectoderm (TE) from the inner cell mass (ICM) in the mouse blastocyst is determined by position-dependent Hippo signaling. However, the window of responsiveness to Hippo signaling, the exact timing of lineage commitment and the overall relationship between cell commitment and global gene expression changes are still unclear. Single-cell RNA sequencing during lineage segregation revealed that the TE transcriptional profile stabilizes earlier than the ICM and prior to blastocyst formation. Using quantitative Cdx2-eGFP expression as a readout of Hippo signaling activity, we assessed the experimental potential of individual blastomeres based on their level of Cdx2-eGFP expression and correlated potential with gene expression dynamics. We find that TE specification and commitment coincide and occur at the time of transcriptional stabilization, whereas ICM cells still retain the ability to regenerate TE up to the early blastocyst stage. Plasticity of both lineages is coincident with their window of sensitivity to Hippo signaling. DOI: http://dx.doi.org/10.7554/eLife.22906.001 PMID:28226240

Estrogen receptor coregulator binding modulators (ERXs) effectively target estrogen receptor positive human breast cancers

PubMed Central

Raj, Ganesh V; Sareddy, Gangadhara Reddy; Ma, Shihong; Lee, Tae-Kyung; Viswanadhapalli, Suryavathi; Li, Rui; Liu, Xihui; Murakami, Shino; Chen, Chien-Cheng; Lee, Wan-Ru; Mann, Monica; Krishnan, Samaya Rajeshwari; Manandhar, Bikash; Gonugunta, Vijay K; Strand, Douglas; Tekmal, Rajeshwar Rao; Ahn, Jung-Mo; Vadlamudi, Ratna K

2017-01-01

The majority of human breast cancer is estrogen receptor alpha (ER) positive. While anti-estrogens/aromatase inhibitors are initially effective, resistance to these drugs commonly develops. Therapy-resistant tumors often retain ER signaling, via interaction with critical oncogenic coregulator proteins. To address these mechanisms of resistance, we have developed a novel ER coregulator binding modulator, ERX-11. ERX-11 interacts directly with ER and blocks the interaction between a subset of coregulators with both native and mutant forms of ER. ERX-11 effectively blocks ER-mediated oncogenic signaling and has potent anti-proliferative activity against therapy-sensitive and therapy-resistant human breast cancer cells. ERX-11 is orally bioavailable, with no overt signs of toxicity and potent activity in both murine xenograft and patient-derived breast tumor explant models. This first-in-class agent, with its novel mechanism of action of disrupting critical protein-protein interactions, overcomes the limitations of current therapies and may be clinically translatable for patients with therapy-sensitive and therapy-resistant breast cancers. DOI: http://dx.doi.org/10.7554/eLife.26857.001 PMID:28786813

Paracrine Met signaling triggers epithelial–mesenchymal transition in mammary luminal progenitors, affecting their fate

PubMed Central

Di-Cicco, Amandine; Petit, Valérie; Chiche, Aurélie; Bresson, Laura; Romagnoli, Mathilde; Orian-Rousseau, Véronique; Vivanco, Maria dM; Medina, Daniel; Faraldo, Marisa M; Glukhova, Marina A; Deugnier, Marie-Ange

2015-01-01

HGF/Met signaling has recently been associated with basal-type breast cancers, which are thought to originate from progenitor cells residing in the luminal compartment of the mammary epithelium. We found that ICAM-1 efficiently marks mammary luminal progenitors comprising hormone receptor-positive and receptor-negative cells, presumably ductal and alveolar progenitors. Both cell populations strongly express Met, while HGF is produced by stromal and basal myoepithelial cells. We show that persistent HGF treatment stimulates the clonogenic activity of ICAM1-positive luminal progenitors, controlling their survival and proliferation, and leads to the expression of basal cell characteristics, including stem cell potential. This is accompanied by the induction of Snai1 and Snai2, two major transcription factors triggering epithelial–mesenchymal transition, the repression of the luminal-regulatory genes Elf5 and Hey1, and claudin down-regulation. Our data strongly indicate that paracrine Met signaling can control the function of luminal progenitors and modulate their fate during mammary development and tumorigenesis. DOI: http://dx.doi.org/10.7554/eLife.06104.001 PMID:26165517

Evidence from a natural experiment that malaria parasitemia is pathogenic in retinopathy-negative cerebral malaria

PubMed Central

Small, Dylan S; Taylor, Terrie E; Postels, Douglas G; Beare, Nicholas AV; Cheng, Jing; MacCormick, Ian JC; Seydel, Karl B

2017-01-01

Cerebral malaria (CM) can be classified as retinopathy-positive or retinopathy-negative, based on the presence or absence of characteristic retinal features. While malaria parasites are considered central to the pathogenesis of retinopathy-positive CM, their contribution to retinopathy-negative CM is largely unknown. One theory is that malaria parasites are innocent bystanders in retinopathy-negative CM and the etiology of the coma is entirely non-malarial. Because hospitals in malaria-endemic areas often lack diagnostic facilities to identify non-malarial causes of coma, it has not been possible to evaluate the contribution of malaria infection to retinopathy-negative CM. To overcome this barrier, we studied a natural experiment involving genetically inherited traits, and find evidence that malaria parasitemia does contribute to the pathogenesis of retinopathy-negative CM. A lower bound for the fraction of retinopathy-negative CM that would be prevented if malaria parasitemia were to be eliminated is estimated to be 0.93 (95% confidence interval: 0.68, 1). DOI: http://dx.doi.org/10.7554/eLife.23699.001 PMID:28590246

Development of a dual-ended readout detector with segmented crystal bars made using a subsurface laser engraving technique

NASA Astrophysics Data System (ADS)

Mohammadi, Akram; Yoshida, Eiji; Nishikido, Fumihiko; Nitta, Munetaka; Shimizu, Keiji; Sakai, Toshiaki; Yamaya, Taiga

2018-01-01

Depth of interaction (DOI) information is indispensable to improving the sensitivity and spatial resolution of positron emission tomography (PET) systems, especially for small field-of-view PET such as small animal PET and human brain PET. We have already developed a series of X’tal cube detectors for isotropic spatial resolution and we obtained the best isotropic resolution of 0.77 mm for detectors with six-sided readout. However, it is still challenging to apply the detector for PET systems due to the high cost of six-sided readout electronics and carrying out segmentation of a monolithic cubic scintillator in three dimensions using the subsurface laser engraving (SSLE) technique. In this work, we propose a more practical X’tal cube with a two-sided readout detector, which is made of crystal bars segmented in the height direction only by using the SSLE technique. We developed two types of prototype detectors with a 3 mm cubic segment and a 1.5 mm cubic segment by using 3  ×  3  ×  20 mm3 and 1.5  ×  1.5  ×  20 mm3 crystal bars segmented into 7 and 13 DOI segments, respectively, using the SSLE technique. First, the performance of the detector, composed of one crystal bar with different DOI segments and two thorough silicon via (TSV) multi-pixel photon counters (MPPCs) as readout at both ends of the crystal bar, were evaluated in order to demonstrate the capability of the segmented crystal bars as a DOI detector. Then, performance evaluation was carried out for a 4  ×  4 crystal array of 3  ×  3  ×  20 mm3 with 7 DOI segments and an 8  ×  8 crystal array of 1.5  ×  1.5  ×  20 mm3 with 13 DOI segments. Each readout included a 4  ×  4 channel of the 3  ×  3 mm2 active area of the TSV MPPCs. The three-dimensional position maps of the detectors were obtained by the Anger-type calculation. All the segments in the 4  ×  4 array were identified very clearly when there was air between the crystal bars, as each crystal bar was coupled to one channel of the MPPCs; however, it was necessary to optimize optical conditions between crystal bars for the 8  ×  8 array because of light sharing between crystal bars coupled to one channel of the MPPCs. The optimization was performed for the 8  ×  8 array by inserting reflectors fully or partially between the crystal bars and the best crystal identification performance was obtained with the partial reflectors between the crystal bars. The mean energy resolutions at the 511 keV photo peak for the 4  ×  4 array with air between the crystal bars and for the 8  ×  8 array with partial reflectors between the crystal bars were 10.1%  ±  0.3% and 10.8%  ±  0.8%, respectively. Timing resolutions of 783  ±  36 ps and 1.14  ±  0.22 ns were obtained for the detectors composed of the 4  ×  4 array and the 8  ×  8 array with partial reflectors, respectively. These values correspond to single photon timing resolutions. Practical X’tal cubes with 3 mm and 1.5 mm DOI resolutions and two-sided readout were developed.

Development of a dual-ended readout detector with segmented crystal bars made using a subsurface laser engraving technique.

PubMed

Mohammadi, Akram; Yoshida, Eiji; Nishikido, Fumihiko; Nitta, Munetaka; Shimizu, Keiji; Sakai, Toshiaki; Yamaya, Taiga

2018-01-11

Depth of interaction (DOI) information is indispensable to improving the sensitivity and spatial resolution of positron emission tomography (PET) systems, especially for small field-of-view PET such as small animal PET and human brain PET. We have already developed a series of X'tal cube detectors for isotropic spatial resolution and we obtained the best isotropic resolution of 0.77 mm for detectors with six-sided readout. However, it is still challenging to apply the detector for PET systems due to the high cost of six-sided readout electronics and carrying out segmentation of a monolithic cubic scintillator in three dimensions using the subsurface laser engraving (SSLE) technique. In this work, we propose a more practical X'tal cube with a two-sided readout detector, which is made of crystal bars segmented in the height direction only by using the SSLE technique. We developed two types of prototype detectors with a 3 mm cubic segment and a 1.5 mm cubic segment by using 3  ×  3  ×  20 mm 3 and 1.5  ×  1.5  ×  20 mm 3 crystal bars segmented into 7 and 13 DOI segments, respectively, using the SSLE technique. First, the performance of the detector, composed of one crystal bar with different DOI segments and two thorough silicon via (TSV) multi-pixel photon counters (MPPCs) as readout at both ends of the crystal bar, were evaluated in order to demonstrate the capability of the segmented crystal bars as a DOI detector. Then, performance evaluation was carried out for a 4  ×  4 crystal array of 3  ×  3  ×  20 mm 3 with 7 DOI segments and an 8  ×  8 crystal array of 1.5  ×  1.5  ×  20 mm 3 with 13 DOI segments. Each readout included a 4  ×  4 channel of the 3  ×  3 mm 2 active area of the TSV MPPCs. The three-dimensional position maps of the detectors were obtained by the Anger-type calculation. All the segments in the 4  ×  4 array were identified very clearly when there was air between the crystal bars, as each crystal bar was coupled to one channel of the MPPCs; however, it was necessary to optimize optical conditions between crystal bars for the 8  ×  8 array because of light sharing between crystal bars coupled to one channel of the MPPCs. The optimization was performed for the 8  ×  8 array by inserting reflectors fully or partially between the crystal bars and the best crystal identification performance was obtained with the partial reflectors between the crystal bars. The mean energy resolutions at the 511 keV photo peak for the 4  ×  4 array with air between the crystal bars and for the 8  ×  8 array with partial reflectors between the crystal bars were 10.1%  ±  0.3% and 10.8%  ±  0.8%, respectively. Timing resolutions of 783  ±  36 ps and 1.14  ±  0.22 ns were obtained for the detectors composed of the 4  ×  4 array and the 8  ×  8 array with partial reflectors, respectively. These values correspond to single photon timing resolutions. Practical X'tal cubes with 3 mm and 1.5 mm DOI resolutions and two-sided readout were developed.

RETRACTED: Investigation of plasmonic studies on morphology of deposited silver thin films having different thicknesses by soft computing methodologies-A comparative study

NASA Astrophysics Data System (ADS)

Zakaria, Rozalina; Noh, Siti Munirah Che; Petković, Dalibor; Shamshirband, Shahaboddin; Penny, Richard

2014-09-01

This article has been retracted: please see Elsevier Policy on Article Withdrawal (http://www.elsevier.com/locate/withdrawalpolicy). This article has been retracted at the request of the Editor. After a thorough investigation, the Editor has concluded that the acceptance of this article was based upon the positive advice of at least one faked reviewer report. The report was submitted from a fictitious email account which was provided to the journal as a suggested reviewer by the corresponding author during the submission of the paper. This manipulation of the peer-review process represents a clear violation of the fundamentals of peer review, our publishing policies, and publishing ethics standards. Apologies are offered to the readers of the journal that this deception was not detected during the submission process. Section 3 of the article plagiarizes part of the text that appeared in the article published by R. Maity et al in Hydrological Processes 24 (2010) 917-923, http://dx.doi.org/10.1002/hyp.7535. The article also duplicates parts of the articles previously published by the authors in the Journal of the Optical Society of America A 31 (2014) 1023-1030, http://dx.doi.org/10.1364/JOSAA.31.001023, Infrared Physics & Technology 65 (2014) 94-102, http://dx.doi.org/10.1016/j.infrared.2014.04.005 and Plasmonics 9 (2014) 1189-1196, http://dx.doi.org/10.1007/s11468-014-9730-3.

Side readout of long scintillation crystal elements with digital SiPM for TOF-DOI PET.

PubMed

Yeom, Jung Yeol; Vinke, Ruud; Levin, Craig S

2014-12-01

Side readout of scintillation light from crystal elements in positron emission tomography (PET) is an alternative to conventional end-readout configurations, with the benefit of being able to provide accurate depth-of-interaction (DOI) information and good energy resolution while achieving excellent timing resolution required for time-of-flight PET. This paper explores different readout geometries of scintillation crystal elements with the goal of achieving a detector that simultaneously achieves excellent timing resolution, energy resolution, spatial resolution, and photon sensitivity. The performance of discrete LYSO scintillation elements of different lengths read out from the end/side with digital silicon photomultipliers (dSiPMs) has been assessed. Compared to 3 × 3 × 20 mm(3) LYSO crystals read out from their ends with a coincidence resolving time (CRT) of 162 ± 6 ps FWHM and saturated energy spectra, a side-readout configuration achieved an excellent CRT of 144 ± 2 ps FWHM after correcting for timing skews within the dSiPM and an energy resolution of 11.8% ± 0.2% without requiring energy saturation correction. Using a maximum likelihood estimation method on individual dSiPM pixel response that corresponds to different 511 keV photon interaction positions, the DOI resolution of this 3 × 3 × 20 mm(3) crystal side-readout configuration was computed to be 0.8 mm FWHM with negligible artifacts at the crystal ends. On the other hand, with smaller 3 × 3 × 5 mm(3) LYSO crystals that can also be tiled/stacked to provide DOI information, a timing resolution of 134 ± 6 ps was attained but produced highly saturated energy spectra. The energy, timing, and DOI resolution information extracted from the side of long scintillation crystal elements coupled to dSiPM have been acquired for the first time. The authors conclude in this proof of concept study that such detector configuration has the potential to enable outstanding detector performance in terms of timing, energy, and DOI resolution.

Experimental Line List of Water Vapor Absorption Lines in the Spectral Ranges 1850 - 2280 CM-1 and 2390-4000 CM-1

NASA Astrophysics Data System (ADS)

Loos, Joep; Birk, Manfred; Wagner, Georg

2017-06-01

A new experimental line parameter list of water vapor absorption lines in the spectral ranges 1850 - 2280 cm-1 and 2390 - 4000 cm-1 is presented. The line list is based on the analysis of several transmittance spectra measured using a Bruker IFS 125 HR high resolution Fourier transform spectrometer. A total of 54 measurements of pure water and water/air-mixtures at 296 K as well as water/air-mixtures at high and low temperatures were performed. A multispectrum fitting approach was used applying a quadratic speed-dependent hard collision line shape model in the Hartmann-Tran implementation extended to account for line mixing in the Rosenkranz approximation in order to retrieve line positions, intensities, self- and air-broadening parameters, their speed-dependence, self- and air-shifts as well as line mixing and in some cases collisional narrowing parameters. Additionally, temperature dependence parameters for widths, shifts and in a few cases line mixing were retrieved. For every parameter an extensive error estimation calculation was performed identifying and specifying systematic error sources. The resulting parameters are compared to the databases HITRAN12 as well as experimental values. For intensities, a detailed comparison to results of recent ab initio calculations performed at University College London was done showing an agreement within 2 % for a majority of the data. However, for some bands there are systematic deviations attributed to ab initio calculation errors. .H. Ngo et al. JQSRT 129, 89-100 (2013) doi:10.1016/j.jqsrt.2013.05.034; JQSRT 134, 105 (2014) doi:10.1016/j.jqsrt.2013.10.016. H. Tran et al. JQSRT 129, 199-203 (2013) doi:10.1016/j.jqsrt.2013.06.015; JQSRT 134, 104 (2014) doi:10.1016/j.jqsrt.2013.10.015. L.S. Rothman et al. JQSRT 130, 4-50 (2013) doi:10.1016/j.jqsrt.2013.07.002. N. Jacquinet-Husson et al. JMS 112, 2395-2445 (2016) doi:10.1016/j.jms.2016.06.007.

Side readout of long scintillation crystal elements with digital SiPM for TOF-DOI PET

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

Yeom, Jung Yeol, E-mail: yeomjy@kumoh.ac.kr, E-mail: cslevin@stanford.edu; Vinke, Ruud; Levin, Craig S., E-mail: yeomjy@kumoh.ac.kr, E-mail: cslevin@stanford.edu

Purpose: Side readout of scintillation light from crystal elements in positron emission tomography (PET) is an alternative to conventional end-readout configurations, with the benefit of being able to provide accurate depth-of-interaction (DOI) information and good energy resolution while achieving excellent timing resolution required for time-of-flight PET. This paper explores different readout geometries of scintillation crystal elements with the goal of achieving a detector that simultaneously achieves excellent timing resolution, energy resolution, spatial resolution, and photon sensitivity. Methods: The performance of discrete LYSO scintillation elements of different lengths read out from the end/side with digital silicon photomultipliers (dSiPMs) has been assessed.more » Results: Compared to 3 × 3 × 20 mm{sup 3} LYSO crystals read out from their ends with a coincidence resolving time (CRT) of 162 ± 6 ps FWHM and saturated energy spectra, a side-readout configuration achieved an excellent CRT of 144 ± 2 ps FWHM after correcting for timing skews within the dSiPM and an energy resolution of 11.8% ± 0.2% without requiring energy saturation correction. Using a maximum likelihood estimation method on individual dSiPM pixel response that corresponds to different 511 keV photon interaction positions, the DOI resolution of this 3 × 3 × 20 mm{sup 3} crystal side-readout configuration was computed to be 0.8 mm FWHM with negligible artifacts at the crystal ends. On the other hand, with smaller 3 × 3 × 5 mm{sup 3} LYSO crystals that can also be tiled/stacked to provide DOI information, a timing resolution of 134 ± 6 ps was attained but produced highly saturated energy spectra. Conclusions: The energy, timing, and DOI resolution information extracted from the side of long scintillation crystal elements coupled to dSiPM have been acquired for the first time. The authors conclude in this proof of concept study that such detector configuration has the potential to enable outstanding detector performance in terms of timing, energy, and DOI resolution.« less

Space Weather - Current Capabilities, Future Requirements, and the Path to Improved Forecasting

NASA Astrophysics Data System (ADS)

Mann, Ian

2016-07-01

We present an overview of Space Weather activities and future opportunities including assessments of current status and capabilities, knowledge gaps, and future directions in relation to both observations and modeling. The review includes input from the scientific community including from SCOSTEP scientific discipline representatives (SDRs), COSPAR Main Scientific Organizers (MSOs), and SCOSTEP/VarSITI leaders. The presentation also draws on results from the recent activities related to the production of the COSPAR-ILWS Space Weather Roadmap "Understanding Space Weather to Shield Society" [Schrijver et al., Advances in Space Research 55, 2745 (2015) http://dx.doi.org/10.1016/j.asr.2015.03.023], from the activities related to the United Nations (UN) Committee on the Peaceful Uses of Outer Space (COPUOS) actions in relation to the Long-term Sustainability of Outer Space (LTS), and most recently from the newly formed and ongoing efforts of the UN COPUOS Expert Group on Space Weather.

Tumor-free distance from outermost layer of cervix is of prognostic value in surgically treated cervical cancer patients: a multicenter study.

PubMed

Saatli, Bahadir; Olgan, Safak; Gorken, Iknur B; Uslu, Turhan; Saygili, Ugur; Dicle, Nilgun; Cingillioglu, Basak; Gumurdulu, Derya; Guzel, Ahmet Baris; Koyuncuoglu, Meral

2014-06-01

This study aimed at determining if tumor-free distance (TFD) from outermost layer of cervix predicts surgicopathologic factors and outcome in surgically treated cervical cancer patients. One hundred sixteen surgically treated cervical squamous cell carcinomas between 1991 and 2010 with FIGO stage IB/2A were identified and re-evaluated histologically regarding the TFD. TFD was defined as the distance between outermost layer of cervix and deepest cervical stromal invasion. Depth of invasion (DOI) and TFD were expressed as continuous variables and compared with traditional surgicopathologic variables and survival to determine their prognostic significance. The mean DOI was 10.3 mm and the mean TFD was 4.2 mm. The most common stage was IB1 (60 patients, 51.7 %). The mean number of removed pelvic lymph nodes was 32.2 (median 30; range 8-78). Positive pelvic lymph nodes were found in 27 (23 %) of the patients. Sixty-eight patients had lymphovascular space involvement (LVSI). Sixty-eight patients (59 %) received postoperative radiotherapy where the following items were present: tumor diameter >4 cm, positive lymph nodes, LVSI and positive surgical margins. With the median follow-up of 53 months (3-219 months); 14 patients had local and 13 patients had distant metastases (5 of the patients had both at the time of recurrence). With logistic regression analysis, TFD was a predictor of pelvic lymph involvement (p = 0.028) and LVSI (p = 0.008) while DOI was a predictor of LVSI (p = 0.044). In Cox regression analysis, increased TFD was associated with improved disease-free survival (DFS) (p = 0.007). DFS curves (for TFD cut off value 2.5 mm) according to Kaplan-Meier were found to be statistically significant (log rank test = 0.002). The results indicate that TFD is predictive of pelvic lymph node involvement, LVSI and patient outcome in surgically treated cervical cancer patients. However, prospective measurement of TFD is still necessary to determine its value in clinical practice.

Geomatic methods applied to the study of the front position changes of Johnsons and Hurd Glaciers, Livingston Island, Antarctica, between 1957 and 2013

NASA Astrophysics Data System (ADS)

Rodríguez Cielos, Ricardo; Aguirre de Mata, Julián; Díez Galilea, Andrés; Álvarez Alonso, Marina; Rodríguez Cielos, Pedro; Navarro Valero, Francisco

2016-08-01

Various geomatic measurement techniques can be efficiently combined for surveying glacier fronts. Aerial photographs and satellite images can be used to determine the position of the glacier terminus. If the glacier front is easily accessible, the classic surveys using theodolite or total station, GNSS (Global Navigation Satellite System) techniques, laser-scanner or close-range photogrammetry are possible. When the accessibility to the glacier front is difficult or impossible, close-range photogrammetry proves to be useful, inexpensive and fast. In this paper, a methodology combining photogrammetric methods and other techniques is applied to determine the calving front position of Johnsons Glacier. Images taken in 2013 with an inexpensive nonmetric digital camera are georeferenced to a global coordinate system by measuring, using GNSS techniques, support points in accessible areas close to the glacier front, from which control points in inaccessible points on the glacier surface near its calving front are determined with theodolite using the direct intersection method. The front position changes of Johnsons Glacier during the period 1957-2013, as well as those of the land-terminating fronts of Argentina, Las Palmas and Sally Rocks lobes of Hurd glacier, are determined from different geomatic techniques such as surface-based GNSS measurements, aerial photogrammetry and satellite optical imagery. This provides a set of frontal positions useful, e.g., for glacier dynamics modeling and mass balance studies.Link to the data repository: https://doi.pangaea.de/10.1594/PANGAEA.845379.

Prostate Cancer Diagnostics and Prognostics Based on Interphase Spatial Genome Positioning

DTIC Science & Technology

2016-03-01

the Drosophila melanogaster genome at the ...and van Steensel, B. (2006). 1176 Characterization of the Drosophila melanogaster genome at the nuclear lamina. Nat Genet 38, 1177 1005-1014. doi...region according to the gene distribution pattern in primary genomic sequence . J Cell Biol 174:27–38 Therizols P, Illingworth RS, Courilleau C,

Challenges of anamorphic high-NA lithography and mask making

NASA Astrophysics Data System (ADS)

Hsu, Stephen D.; Liu, Jingjing

2017-06-01

Chip makers are actively working on the adoption of 0.33 numerical aperture (NA) EUV scanners for the 7-nm and 5-nm nodes (B. Turko, S. L. Carson, A. Lio, T. Liang, M. Phillips, et al., in `Proc. SPIE9776, Extreme Ultraviolet (EUV) Lithography VII', vol. 977602 (2016) doi: 10.1117/12.2225014; A. Lio, in `Proc. SPIE9776, Extreme Ultraviolet (EUV) Lithography VII', vol. 97760V (2016) doi: 10.1117/12.2225017). In the meantime, leading foundries and integrated device manufacturers are starting to investigate patterning options beyond the 5-nm node (O. Wood, S. Raghunathan, P. Mangat, V. Philipsen, V. Luong, et al., in `Proc. SPIE. 9422, Extreme Ultraviolet (EUV) Lithography VI', vol. 94220I (2015) doi: 10.1117/12.2085022). To minimize the cost and process complexity of multiple patterning beyond the 5-nm node, EUV high-NA single-exposure patterning is a preferred method over EUV double patterning (O. Wood, S. Raghunathan, P. Mangat, V. Philipsen, V. Luong, et al., in `Proc. SPIE. 9422, Extreme Ultraviolet (EUV) Lithography VI', vol. 94220I (2015) doi: 10.1117/12.2085022; J. van Schoot, K. van Ingen Schenau, G. Bottiglieri, K. Troost, J. Zimmerman, et al., `Proc. SPIE. 9776, Extreme Ultraviolet (EUV) Lithography VII', vol. 97761I (2016) doi: 10.1117/12.2220150). The EUV high-NA scanner equipped with a projection lens of 0.55 NA is designed to support resolutions below 10 nm. The high-NA system is beneficial for enhancing resolution, minimizing mask proximity correction bias, improving normalized image log slope (NILS), and controlling CD uniformity (CDU). However, increasing NA from 0.33 to 0.55 reduces the depth of focus (DOF) significantly. Therefore, the source mask optimization (SMO) with sub-resolution assist features (SRAFs) are needed to increase DOF to meet the demanding full chip process control requirements (S. Hsu, R. Howell, J. Jia, H.-Y. Liu, K. Gronlund, et al., EUV `Proc. SPIE9048, Extreme Ultraviolet (EUV) Lithography VI', (2015) doi: 10.1117/12.2086074). To ensure no assist feature printing, the assist feature sizes need to be scaled with λ/NA. The extremely small SRAF width (below 25 nm on the reticle) is difficult to fabricate across the full reticle. In this paper, we introduce an innovative `attenuated SRAF' to improve SRAF manufacturability and still maintain the process window benefit. A new mask fabrication process is proposed to use existing mask-making capability to manufacture the attenuated SRAFs. The high-NA EUV system utilizes anamorphic reduction; 4× in the horizontal (slit) direction and 8× in the vertical (scanning) direction (J. van Schoot, K. van Ingen Schenau, G. Bottiglieri, K. Troost, J. Zimmerman, et al., `Proc. SPIE. 9776, Extreme Ultraviolet (EUV) Lithography VII', vol. 97761I (2016) doi: 10.1117/12.2220150; B. Kneer, S. Migura, W. Kaiser, J. T. Neumann, J. van Schoot, in `Proc. SPIE9422, Extreme Ultraviolet (EUV) Lithography VI', vol. 94221G (2015) doi: 10.1117/12.2175488). For an anamorphic system, the magnification has an angular dependency, and thus, familiar mask specifications such as mask error factor (MEF) need to be redefined. Similarly, mask-manufacturing rule check (MRC) needs to consider feature orientation.

Field-aligned currents onboard the Intercosmos Bulgaria-1300 satellite in comparison with modeled FAC

NASA Astrophysics Data System (ADS)

Danov, Dimitar

2008-02-01

The statistical field-aligned current (FAC) distribution has been demonstrated by [Iijima, T., Potemra, T.A., 1976. The amplitude distribution of field-aligned currents at northern high latitudes observed by Triad. Journal of Geophysical Research 81(13), 2165-2174] and many other authors. The large-scale (LS) FACs have been described by different empirical/statistical models [Feldstein, Ya. I., Levitin, A.E., 1986. Solar wind control of electric fields and currents in the ionosphere. Journal of Geomagnetism and Geoelectricity 38, 1143; Papitashvili, V.O., Rich, F.J., Heinemann, M.A., Hairston, M.R., 1999. Parameterization of the Defense Meteorological Satellite Program ionospheric electrostatic potentials by the interplanetary magnetic field strength and direction. Journal of Geophysical Research 104, 177-184; Papitashvili, V.O., Christiansen, F., Neubert, T., 2002. A new model of field-aligned currents derived from high-precision satellite magnetic field data. Geophysical Research Letters, 29(14), 1683, doi:10.1029/2001GL014207; Tsyganenko, N.A., 2001. A model of the near magnetosphere with a dawn-dusk asymetry (I. Mathematical structure). Journal of Geophysical Research 107(A8), doi:10.1029/2001JA000219; Weimer, D.R., 1996a. A new model for prediction of ionospheric electric potentials as a function of the IMF. In: Snowmass'96 Online Poster Session; Weimer, D.R., 1996b. Substorm influence on the ionospheric convection patterns. In: Snowmass'96 Online Poster Session; Weimer, D.R., 2001. Maps of ionospheric field-aligned currents as a function of the interplanetary magnetic field derived from Dynamic Explorer 2 data. Journal of Geophysical Research 106, 12,889-12,902; Weimer, D.R., 2005. Improved ionospheric electrodynamic models and application to calculating Joule heating rates. Journal of Geophysical Research 110, A05306, doi:10.1029/2004JA010884]. In the present work, we compare two cases of LS FAC obtained from magnetic field measurements onboard the Intercosmos Bulgaria-1300 satellite with three models: two empirical [Tsyganenko, N.A., 2001. A model of the near magnetosphere with a down-dusk asymetry (I. Mathematical structure). Journal of Geophysical Research 107(A8), doi:10.1029/2001JA000219; Weimer, D.R., 2005. Improved ionospheric electrodynamic models and application to calculating Joule heating rates. Journal of Geophysical Research 110, A05306, doi:10.1029/2004JA010884] and one computer-based MHD-simulation in "The Community Coordinated Modeling Center" (CCMC) [Toth, G., et al., 2005. Space weather modeling framework: a new tool for the space science community. Journal of Geophysical Research 110, A12226, doi:10.1029/2005JA011126]. We found that the position of the measured FAC is close to the positions predicted by the models, but the measured density can be greater than the model FAC densities. We discuss the possible reasons for the observed discrepancy between the measured and modeled FACs.

DOI Determination by Rise Time Discrimination in Single-Ended Readout for TOF PET Imaging

PubMed Central

Wiener, R.I.; Surti, S.; Karp, J.S.

2013-01-01

Clinical TOF PET systems achieve detection efficiency using thick crystals, typically of thickness 2–3cm. The resulting dispersion in interaction depths degrades spatial resolution for increasing radial positions due to parallax error. Furthermore, interaction depth dispersion results in time pickoff dispersion and thus in degraded timing resolution, and is therefore of added concern in TOF scanners. Using fast signal digitization, we characterize the timing performance, pulse shape and light output of LaBr3:Ce, CeBr3 and LYSO. Coincidence timing resolution is shown to degrade by ~50ps/cm for scintillator pixels of constant cross section and increasing length. By controlling irradiation depth in a scintillator pixel, we show that DOI-dependence of time pickoff is a significant factor in the loss of timing performance in thick detectors. Using the correlated DOI-dependence of time pickoff and charge collection, we apply a charge-based correction to the time pickoff, obtaining improved coincidence timing resolution of <200ps for a uniform 4×4×30mm3 LaBr3 pixel. In order to obtain both DOI identification and improved timing resolution, we design a two layer LaBr3[5%Ce]/LaBr3[30%Ce] detector of total size 4×4×30mm3, exploiting the dependence of scintillator rise time on [Ce] in LaBr3:Ce. Using signal rise time to determine interaction layer, excellent interaction layer discrimination is achieved, while maintaining coincidence timing resolution of <250ps and energy resolution <7% using a R4998 PMT. Excellent layer separation and timing performance is measured with several other commercially-available TOF photodetectors, demonstrating the practicality of this design. These results indicate the feasibility of rise time discrimination as a technique for measuring event DOI while maintaining sensitivity, timing and energy performance, in a well-known detector architecture. PMID:24403611

DOI Determination by Rise Time Discrimination in Single-Ended Readout for TOF PET Imaging.

PubMed

Wiener, R I; Surti, S; Karp, J S

2013-06-01

Clinical TOF PET systems achieve detection efficiency using thick crystals, typically of thickness 2-3cm. The resulting dispersion in interaction depths degrades spatial resolution for increasing radial positions due to parallax error. Furthermore, interaction depth dispersion results in time pickoff dispersion and thus in degraded timing resolution, and is therefore of added concern in TOF scanners. Using fast signal digitization, we characterize the timing performance, pulse shape and light output of LaBr 3 :Ce, CeBr 3 and LYSO. Coincidence timing resolution is shown to degrade by ~50ps/cm for scintillator pixels of constant cross section and increasing length. By controlling irradiation depth in a scintillator pixel, we show that DOI-dependence of time pickoff is a significant factor in the loss of timing performance in thick detectors. Using the correlated DOI-dependence of time pickoff and charge collection, we apply a charge-based correction to the time pickoff, obtaining improved coincidence timing resolution of <200ps for a uniform 4×4×30mm 3 LaBr 3 pixel. In order to obtain both DOI identification and improved timing resolution, we design a two layer LaBr 3 [5%Ce]/LaBr 3 [30%Ce] detector of total size 4×4×30mm 3 , exploiting the dependence of scintillator rise time on [Ce] in LaBr 3 :Ce. Using signal rise time to determine interaction layer, excellent interaction layer discrimination is achieved, while maintaining coincidence timing resolution of <250ps and energy resolution <7% using a R4998 PMT. Excellent layer separation and timing performance is measured with several other commercially-available TOF photodetectors, demonstrating the practicality of this design. These results indicate the feasibility of rise time discrimination as a technique for measuring event DOI while maintaining sensitivity, timing and energy performance, in a well-known detector architecture.

The GIK-Archive of sediment core radiographs with documentation

NASA Astrophysics Data System (ADS)

Grobe, Hannes; Winn, Kyaw; Werner, Friedrich; Driemel, Amelie; Schumacher, Stefanie; Sieger, Rainer

2017-12-01

The GIK-Archive of radiographs is a collection of X-ray negative and photographic images of sediment cores based on exposures taken since the early 1960s. During four decades of marine geological work at the University of Kiel, Germany, several thousand hours of sampling, careful preparation and X-raying were spent on producing a unique archive of sediment radiographs from several parts of the World Ocean. The archive consists of more than 18 500 exposures on chemical film that were digitized, geo-referenced, supplemented with metadata and archived in the data library PANGAEA®. With this publication, the images have become available open-access for use by the scientific community at https://doi.org/10.1594/PANGAEA.854841.

Evolution of DOI Usage and Registration

NASA Astrophysics Data System (ADS)

James, N.; Wanchoo, L.

2017-12-01

NASA's Earth Science Data and Information System (ESDIS) Project has implemented an automated system for assigning Digital Object Identifiers (DOIs) to Earth Science data products being managed by its network of 12 distributed active archive centers (DAACs). Using the ESDIS DOI system, over 3000 DOIs have been assigned, registered, and made publicly accessible while over 1000 assigned DOIs are being held in reserve until ready for public use. The goal is to assign a DOI to each of the 8000+ data collections under ESDIS management. DOIs make it easier for researchers to discover and use earth science data and they enable users to provide valid citations for the data they use in research. Also for the researcher wishing to reproduce the results presented in science publications, the DOI can be used to locate the exact data or data products being cited. ESDIS DOIs also provide data "Provenance" which is information about the creation and history of the data in question. This would include when the data was collected, which instrument was used to collect the data, and the version of the product at the time the DOI was assigned. Over the past few years, requests for DOIs have increased significantly as DAACs assign DOIs to both legacy data from earlier missions and new data products from in-orbit missions. This study will evaluate the evolution of DOI registration and its usage over those years comparing data products as they are organized by mission, science discipline and data product level. It is hoped that the study results will help NASA determine how to prioritize future products for DOI assignment and inform future studies that would identify trends over time of increased use of data citations resulting in increased discovery and distribution of NASA Earth science data products.

Acoustic duetting in Drosophila virilis relies on the integration of auditory and tactile signals

PubMed Central

LaRue, Kelly M; Clemens, Jan; Berman, Gordon J; Murthy, Mala

2015-01-01

Many animal species, including insects, are capable of acoustic duetting, a complex social behavior in which males and females tightly control the rate and timing of their courtship song syllables relative to each other. The mechanisms underlying duetting remain largely unknown across model systems. Most studies of duetting focus exclusively on acoustic interactions, but the use of multisensory cues should aid in coordinating behavior between individuals. To test this hypothesis, we develop Drosophila virilis as a new model for studies of duetting. By combining sensory manipulations, quantitative behavioral assays, and statistical modeling, we show that virilis females combine precisely timed auditory and tactile cues to drive song production and duetting. Tactile cues delivered to the abdomen and genitalia play the larger role in females, as even headless females continue to coordinate song production with courting males. These data, therefore, reveal a novel, non-acoustic, mechanism for acoustic duetting. Finally, our results indicate that female-duetting circuits are not sexually differentiated, as males can also produce ‘female-like’ duets in a context-dependent manner. DOI: http://dx.doi.org/10.7554/eLife.07277.001 PMID:26046297

A chloroplast retrograde signal, 3’-phosphoadenosine 5’-phosphate, acts as a secondary messenger in abscisic acid signaling in stomatal closure and germination

PubMed Central

Pornsiriwong, Wannarat; Estavillo, Gonzalo M; Chan, Kai Xun; Tee, Estee E; Ganguly, Diep; Crisp, Peter A; Phua, Su Yin; Zhao, Chenchen; Qiu, Jiaen; Park, Jiyoung; Yong, Miing Tiem; Nisar, Nazia; Yadav, Arun Kumar; Schwessinger, Benjamin; Rathjen, John; Cazzonelli, Christopher I; Wilson, Philippa B; Gilliham, Matthew; Chen, Zhong-Hua; Pogson, Barry J

2017-01-01

Organelle-nuclear retrograde signaling regulates gene expression, but its roles in specialized cells and integration with hormonal signaling remain enigmatic. Here we show that the SAL1-PAP (3′-phosphoadenosine 5′- phosphate) retrograde pathway interacts with abscisic acid (ABA) signaling to regulate stomatal closure and seed germination in Arabidopsis. Genetically or exogenously manipulating PAP bypasses the canonical signaling components ABA Insensitive 1 (ABI1) and Open Stomata 1 (OST1); priming an alternative pathway that restores ABA-responsive gene expression, ROS bursts, ion channel function, stomatal closure and drought tolerance in ost1-2. PAP also inhibits wild type and abi1-1 seed germination by enhancing ABA sensitivity. PAP-XRN signaling interacts with ABA, ROS and Ca2+; up-regulating multiple ABA signaling components, including lowly-expressed Calcium Dependent Protein Kinases (CDPKs) capable of activating the anion channel SLAC1. Thus, PAP exhibits many secondary messenger attributes and exemplifies how retrograde signals can have broader roles in hormone signaling, allowing chloroplasts to fine-tune physiological responses. DOI: http://dx.doi.org/10.7554/eLife.23361.001 PMID:28323614

TGF-β reduces DNA ds-break repair mechanisms to heighten genetic diversity and adaptability of CD44+/CD24− cancer cells

PubMed Central

Pal, Debjani; Pertot, Anja; Shirole, Nitin H; Yao, Zhan; Anaparthy, Naishitha; Garvin, Tyler; Cox, Hilary; Chang, Kenneth; Rollins, Fred; Kendall, Jude; Edwards, Leyla; Singh, Vijay A; Stone, Gary C; Schatz, Michael C; Hicks, James; Hannon, Gregory J; Sordella, Raffaella

2017-01-01

Many lines of evidence have indicated that both genetic and non-genetic determinants can contribute to intra-tumor heterogeneity and influence cancer outcomes. Among the best described sub-population of cancer cells generated by non-genetic mechanisms are cells characterized by a CD44+/CD24− cell surface marker profile. Here, we report that human CD44+/CD24− cancer cells are genetically highly unstable because of intrinsic defects in their DNA-repair capabilities. In fact, in CD44+/CD24− cells, constitutive activation of the TGF-beta axis was both necessary and sufficient to reduce the expression of genes that are crucial in coordinating DNA damage repair mechanisms. Consequently, we observed that cancer cells that reside in a CD44+/CD24− state are characterized by increased accumulation of DNA copy number alterations, greater genetic diversity and improved adaptability to drug treatment. Together, these data suggest that the transition into a CD44+/CD24− cell state can promote intra-tumor genetic heterogeneity, spur tumor evolution and increase tumor fitness. DOI: http://dx.doi.org/10.7554/eLife.21615.001 PMID:28092266

Novel and high-performance asymmetric micro-supercapacitors based on graphene quantum dots and polyaniline nanofibers

NASA Astrophysics Data System (ADS)

Liu, Wenwen; Yan, Xingbin; Chen, Jiangtao; Feng, Yaqiang; Xue, Qunji

2013-06-01

In comparison with graphene sheets, graphene quantum dots (GQDs) exhibit novel chemical/physical properties including nanometer-size, abundant edge defects, good electrical conductivity, high mobility, chemical inertia, stable photoluminescence and better surface grafting, making them promising for fabricating various novel devices. In the present work, an asymmetric micro-supercapacitor, using GQDs as negative active material and polyaniline (PANI) nanofibers as positive active material, is built for the first time by a simple and controllable two-step electro-deposition on interdigital finger gold electrodes. Electrochemical measurements reveal that the as-made GQDs//PANI asymmetric micro-supercapacitor has a more excellent rate capability (up to 1000 V s-1) than previously reported electrode materials, as well as faster power response capability (with a very short relaxation time constant of 115.9 μs) and better cycling stability after 1500 cycles in aqueous electrolyte. On this basis, an all-solid-state GQDs//PANI asymmetric micro-supercapacitor is fabricated using H3PO4-polyvinyl alcohol gel as electrolyte, which also exhibits desirable electrochemical capacitive performances. These encouraging results presented here may open up new insight into GQDs with highly promising applications in high-performance energy-storage devices, and further expand the potential applications of GQDs beyond the energy-oriented application of GQDs discussed above.In comparison with graphene sheets, graphene quantum dots (GQDs) exhibit novel chemical/physical properties including nanometer-size, abundant edge defects, good electrical conductivity, high mobility, chemical inertia, stable photoluminescence and better surface grafting, making them promising for fabricating various novel devices. In the present work, an asymmetric micro-supercapacitor, using GQDs as negative active material and polyaniline (PANI) nanofibers as positive active material, is built for the first time by a simple and controllable two-step electro-deposition on interdigital finger gold electrodes. Electrochemical measurements reveal that the as-made GQDs//PANI asymmetric micro-supercapacitor has a more excellent rate capability (up to 1000 V s-1) than previously reported electrode materials, as well as faster power response capability (with a very short relaxation time constant of 115.9 μs) and better cycling stability after 1500 cycles in aqueous electrolyte. On this basis, an all-solid-state GQDs//PANI asymmetric micro-supercapacitor is fabricated using H3PO4-polyvinyl alcohol gel as electrolyte, which also exhibits desirable electrochemical capacitive performances. These encouraging results presented here may open up new insight into GQDs with highly promising applications in high-performance energy-storage devices, and further expand the potential applications of GQDs beyond the energy-oriented application of GQDs discussed above. Electronic supplementary information (ESI) available. See DOI: 10.1039/c3nr01139a

Estimation of time resolution for DOI-PET detector using diameter 0.2 mm WLS fibers

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

Kobayashi, A.; Ito, H.; Han, S.

We are developing the whole-body PET detector with high position resolution (1 mm) and low cost (1 M dollars). Scintillator plates, Wave Length Sifting Fibers and SiPMs are used. In this work, time resolution of our PET detector is estimated. Our detector may also have good time resolution such as a few ps. (authors)

Non-coding cancer driver candidates identified with a sample- and position-specific model of the somatic mutation rate

PubMed Central

Juul, Malene; Bertl, Johanna; Guo, Qianyun; Nielsen, Morten Muhlig; Świtnicki, Michał; Hornshøj, Henrik; Madsen, Tobias; Hobolth, Asger; Pedersen, Jakob Skou

2017-01-01

Non-coding mutations may drive cancer development. Statistical detection of non-coding driver regions is challenged by a varying mutation rate and uncertainty of functional impact. Here, we develop a statistically founded non-coding driver-detection method, ncdDetect, which includes sample-specific mutational signatures, long-range mutation rate variation, and position-specific impact measures. Using ncdDetect, we screened non-coding regulatory regions of protein-coding genes across a pan-cancer set of whole-genomes (n = 505), which top-ranked known drivers and identified new candidates. For individual candidates, presence of non-coding mutations associates with altered expression or decreased patient survival across an independent pan-cancer sample set (n = 5454). This includes an antigen-presenting gene (CD1A), where 5’UTR mutations correlate significantly with decreased survival in melanoma. Additionally, mutations in a base-excision-repair gene (SMUG1) correlate with a C-to-T mutational-signature. Overall, we find that a rich model of mutational heterogeneity facilitates non-coding driver identification and integrative analysis points to candidates of potential clinical relevance. DOI: http://dx.doi.org/10.7554/eLife.21778.001 PMID:28362259

Phosphorylation acts positively and negatively to regulate MRTF-A subcellular localisation and activity

PubMed Central

Panayiotou, Richard; Miralles, Francesc; Pawlowski, Rafal; Diring, Jessica; Flynn, Helen R; Skehel, Mark; Treisman, Richard

2016-01-01

The myocardin-related transcription factors (MRTF-A and MRTF-B) regulate cytoskeletal genes through their partner transcription factor SRF. The MRTFs bind G-actin, and signal-regulated changes in cellular G-actin concentration control their nuclear accumulation. The MRTFs also undergo Rho- and ERK-dependent phosphorylation, but the function of MRTF phosphorylation, and the elements and signals involved in MRTF-A nuclear export are largely unexplored. We show that Rho-dependent MRTF-A phosphorylation reflects relief from an inhibitory function of nuclear actin. We map multiple sites of serum-induced phosphorylation, most of which are S/T-P motifs and show that S/T-P phosphorylation is required for transcriptional activation. ERK-mediated S98 phosphorylation inhibits assembly of G-actin complexes on the MRTF-A regulatory RPEL domain, promoting nuclear import. In contrast, S33 phosphorylation potentiates the activity of an autonomous Crm1-dependent N-terminal NES, which cooperates with five other NES elements to exclude MRTF-A from the nucleus. Phosphorylation thus plays positive and negative roles in the regulation of MRTF-A. DOI: http://dx.doi.org/10.7554/eLife.15460.001 PMID:27304076

Pak2 is required for actin cytoskeleton remodeling, TCR signaling, and normal thymocyte development and maturation

PubMed Central

Phee, Hyewon; Au-Yeung, Byron B; Pryshchep, Olga; O'Hagan, Kyle Leonard; Fairbairn, Stephanie Grace; Radu, Maria; Kosoff, Rachelle; Mollenauer, Marianne; Cheng, Debra; Chernoff, Jonathan; Weiss, Arthur

2014-01-01

The molecular mechanisms that govern thymocyte development and maturation are incompletely understood. The P21-activated kinase 2 (Pak2) is an effector for the Rho family GTPases Rac and Cdc42 that regulate actin cytoskeletal remodeling, but its role in the immune system remains poorly understood. In this study, we show that T-cell specific deletion of Pak2 gene in mice resulted in severe T cell lymphopenia accompanied by marked defects in development, maturation, and egress of thymocytes. Pak2 was required for pre-TCR β-selection and positive selection. Surprisingly, Pak2 deficiency in CD4 single positive thymocytes prevented functional maturation and reduced expression of S1P1 and KLF2. Mechanistically, Pak2 is required for actin cytoskeletal remodeling triggered by TCR. Failure to induce proper actin cytoskeletal remodeling impaired PLCγ1 and Erk1/2 signaling in the absence of Pak2, uncovering the critical function of Pak2 as an essential regulator that governs the actin cytoskeleton-dependent signaling to ensure normal thymocyte development and maturation. DOI: http://dx.doi.org/10.7554/eLife.02270.001 PMID:24843022

Study on common seasonal signals in GPS time series and environmental loadings using Multichannel Singular Spectrum Analysis

NASA Astrophysics Data System (ADS)

Gruszczynska, Marta; Rosat, Severine; Klos, Anna; Bogusz, Janusz

2017-04-01

Seasonal oscillations in the GPS position time series can arise from real geophysical effects and numerical artefacts. According to Dong et al. (2002) environmental loading effects can account for approximately 40% of the total variance of the annual signals in GPS time series, however using generally acknowledged methods (e.g. Least Squares Estimation, Wavelet Decomposition, Singular Spectrum Analysis) to model seasonal signals we are not able to separate real from spurious signals (effects of mismodelling aliased into annual period as well as draconitic). Therefore, we propose to use Multichannel Singular Spectrum Analysis (MSSA) to determine seasonal oscillations (with annual and semi-annual periods) from GPS position time series and environmental loading displacement models. The MSSA approach is an extension of the classical Karhunen-Loève method and it is a special case of SSA for multivariate time series. The main advantage of MSSA is the possibility to extract common seasonal signals for stations from selected area and to investigate the causality between a set of time series as well. In this research, we explored the ability of MSSA application to separate real geophysical effects from spurious effects in GPS time series. For this purpose, we used GPS position changes and environmental loading models. We analysed the topocentric time series from 250 selected stations located worldwide, delivered from Network Solution obtained by the International GNSS Service (IGS) as a contribution to the latest realization of the International Terrestrial Reference System (namely ITRF2014, Rebishung et al., 2016). We also researched atmospheric, hydrological and non-tidal oceanic loading models provided by the EOST/IPGS Loading Service in the Centre-of-Figure (CF) reference frame. The analysed displacements were estimated from ERA-Interim (surface pressure), MERRA-land (soil moisture and snow) as well as ECCO2 ocean bottom pressure. We used Multichannel Singular Spectrum Analysis to determine common seasonal signals in two case studies with adopted a 3-years lag-window as the optimal window size. We also inferred the statistical significance of oscillations through the Monte Carlo MSSA method (Allen and Robertson, 1996). In the first case study, we investigated the common spatio-temporal seasonal signals for all stations. For this purpose, we divided selected stations with respect to the continents. For instance, for stations located in Europe, seasonal oscillations accounts for approximately 45% of the GPS-derived data variance. Much higher variance of seasonal signals is explained by hydrological loadings of about 92%, while the non-tidal oceanic loading accounted for 31% of total variance. In the second case study, we analysed the capability of the MSSA method to establish a causality between several time series. Each of estimated Principal Component represents pattern of the common signal for all analysed data. For ZIMM station (Zimmerwald, Switzerland), the 1st, 2nd and 9th, 10th Principal Components, which accounts for 35% of the variance, corresponds to the annual and semi-annual signals. In this part, we applied the non-parametric MSSA approach to extract the common seasonal signals for GPS time series and environmental loadings for each of the 250 stations with clear statement, that some part of seasonal signal reflects the real geophysical effects. REFERENCES: 1. Allen, M. and Robertson, A.: 1996, Distinguishing modulated oscillations from coloured noise in multivariate datasets. Climate Dynamics, 12, No. 11, 775-784. DOI: 10.1007/s003820050142. 2. Dong, D., Fang, P., Bock, Y., Cheng, M.K. and Miyazaki, S.: 2002, Anatomy of apparent seasonal variations from GPS-derived site position time series. Journal of Geophysical Research, 107, No. B4, 2075. DOI: 10.1029/2001JB000573. 3. Rebischung, P., Altamimi, Z., Ray, J. and Garayt, B.: 2016, The IGS contribution to ITRF2014. Journal of Geodesy, 90, No. 7, 611-630. DOI:10.1007/s00190-016-0897-6.

Cherenkov radiation-based three-dimensional position-sensitive PET detector: A Monte Carlo study.

PubMed

Ota, Ryosuke; Yamada, Ryoko; Moriya, Takahiro; Hasegawa, Tomoyuki

2018-05-01

Cherenkov radiation has recently received attention due to its prompt emission phenomenon, which has the potential to improve the timing performance of radiation detectors dedicated to positron emission tomography (PET). In this study, a Cherenkov-based three-dimensional (3D) position-sensitive radiation detector was proposed, which is composed of a monolithic lead fluoride (PbF 2 ) crystal and a photodetector array of which the signals can be readout independently. Monte Carlo simulations were performed to estimate the performance of the proposed detector. The position- and time resolution were evaluated under various practical conditions. The radiator size and various properties of the photodetector, e.g., readout pitch and single photon timing resolution (SPTR), were parameterized. The single photon time response of the photodetector was assumed to be a single Gaussian for the simplification. The photo detection efficiency of the photodetector was ideally 100% for all wavelengths. Compton scattering was included in simulations, but partly analyzed. To estimate the position at which a γ-ray interacted in the Cherenkov radiator, the center-of-gravity (COG) method was employed. In addition, to estimate the depth-of-interaction (DOI) principal component analysis (PCA), which is a multivariate analysis method and has been used to identify the patterns in data, was employed. The time-space distribution of Cherenkov photons was quantified to perform PCA. To evaluate coincidence time resolution (CTR), the time difference of two independent γ-ray events was calculated. The detection time was defined as the first photon time after the SPTR of the photodetector was taken into account. The position resolution on the photodetector plane could be estimated with high accuracy, by using a small number of Cherenkov photons. Moreover, PCA showed an ability to estimate the DOI. The position resolution heavily depends on the pitch of the photodetector array and the radiator thickness. If the readout pitch were ideally 0 and practically 3 mm, a full-width at half-maximum (FWHM) of 0.348 and 1.92 mm was achievable with a 10-mm-thick PbF 2 crystal, respectively. Furthermore, first-order correlation could be observed between the primary principal component and the true DOI. To obtain a coincidence timing resolution better than 100-ps FWHM with a 20-mm-thick PbF 2 crystal, a photodetector with SPTR of better than σ = 30 ps was necessary. From these results, the improvement of SPTR allows us to achieve CTR better than 100-ps FWHM, even in the case where a 20-mm-thick radiator is used. Our proposed detector has the potential to estimate the 3D interaction position of γ-rays in the radiator, using only time and space information of Cherenkov photons. © 2018 American Association of Physicists in Medicine.

Readiness for the Patient-Centered Medical Home: Structural Capabilities of Massachusetts Primary Care Practices

PubMed Central

Friedberg, Mark W.; Safran, Dana G.; Coltin, Kathryn L.; Dresser, Marguerite

2008-01-01

Background The Patient-Centered Medical Home (PCMH), a popular model for primary care reorganization, includes several structural capabilities intended to enhance quality of care. The extent to which different types of primary care practices have adopted these capabilities has not been previously studied. Objective To measure the prevalence of recommended structural capabilities among primary care practices and to determine whether prevalence varies among practices of different size (number of physicians) and administrative affiliation with networks of practices. Design Cross-sectional analysis. Participants One physician chosen at random from each of 412 primary care practices in Massachusetts was surveyed about practice capabilities during 2007. Practice size and network affiliation were obtained from an existing database. Measurements Presence of 13 structural capabilities representing 4 domains relevant to quality: patient assistance and reminders, culture of quality, enhanced access, and electronic health records (EHRs). Main Results Three hundred eight (75%) physicians responded, representing practices with a median size of 4 physicians (range 2–74). Among these practices, 64% were affiliated with 1 of 9 networks. The prevalence of surveyed capabilities ranged from 24% to 88%. Larger practice size was associated with higher prevalence for 9 of the 13 capabilities spanning all 4 domains (P < 0.05). Network affiliation was associated with higher prevalence of 5 capabilities (P < 0.05) in 3 domains. Associations were not substantively altered by statistical adjustment for other practice characteristics. Conclusions Larger and network-affiliated primary care practices are more likely than smaller, non-affiliated practices to have adopted several recommended capabilities. In order to achieve PCMH designation, smaller non-affiliated practices may require the greatest investments. Electronic supplementary material The online version of this article (doi:10.1007/s11606-008-0856-x) contains supplementary material, which is available to authorized users. PMID:19050977

A Context-Aware Model to Provide Positioning in Disaster Relief Scenarios

PubMed Central

Moreno, Daniel; Ochoa, Sergio F.; Meseguer, Roc

2015-01-01

The effectiveness of the work performed during disaster relief efforts is highly dependent on the coordination of activities conducted by the first responders deployed in the affected area. Such coordination, in turn, depends on an appropriate management of geo-referenced information. Therefore, enabling first responders to count on positioning capabilities during these activities is vital to increase the effectiveness of the response process. The positioning methods used in this scenario must assume a lack of infrastructure-based communication and electrical energy, which usually characterizes affected areas. Although positioning systems such as the Global Positioning System (GPS) have been shown to be useful, we cannot assume that all devices deployed in the area (or most of them) will have positioning capabilities by themselves. Typically, many first responders carry devices that are not capable of performing positioning on their own, but that require such a service. In order to help increase the positioning capability of first responders in disaster-affected areas, this paper presents a context-aware positioning model that allows mobile devices to estimate their position based on information gathered from their surroundings. The performance of the proposed model was evaluated using simulations, and the obtained results show that mobile devices without positioning capabilities were able to use the model to estimate their position. Moreover, the accuracy of the positioning model has been shown to be suitable for conducting most first response activities. PMID:26437406

Nanoporous hard data: optical encoding of information within nanoporous anodic alumina photonic crystals

NASA Astrophysics Data System (ADS)

Santos, Abel; Law, Cheryl Suwen; Pereira, Taj; Losic, Dusan

2016-04-01

Herein, we present a method for storing binary data within the spectral signature of nanoporous anodic alumina photonic crystals. A rationally designed multi-sinusoidal anodisation approach makes it possible to engineer the photonic stop band of nanoporous anodic alumina with precision. As a result, the transmission spectrum of these photonic nanostructures can be engineered to feature well-resolved and selectively positioned characteristic peaks across the UV-visible spectrum. Using this property, we implement an 8-bit binary code and assess the versatility and capability of this system by a series of experiments aiming to encode different information within the nanoporous anodic alumina photonic crystals. The obtained results reveal that the proposed nanosized platform is robust, chemically stable, versatile and has a set of unique properties for data storage, opening new opportunities for developing advanced nanophotonic tools for a wide range of applications, including sensing, photonic tagging, self-reporting drug releasing systems and secure encoding of information.Herein, we present a method for storing binary data within the spectral signature of nanoporous anodic alumina photonic crystals. A rationally designed multi-sinusoidal anodisation approach makes it possible to engineer the photonic stop band of nanoporous anodic alumina with precision. As a result, the transmission spectrum of these photonic nanostructures can be engineered to feature well-resolved and selectively positioned characteristic peaks across the UV-visible spectrum. Using this property, we implement an 8-bit binary code and assess the versatility and capability of this system by a series of experiments aiming to encode different information within the nanoporous anodic alumina photonic crystals. The obtained results reveal that the proposed nanosized platform is robust, chemically stable, versatile and has a set of unique properties for data storage, opening new opportunities for developing advanced nanophotonic tools for a wide range of applications, including sensing, photonic tagging, self-reporting drug releasing systems and secure encoding of information. Electronic supplementary information (ESI) available: Further details about anodisation profiles, SEM cross-section images, digital pictures, transmission spectra, photonic barcodes and ASCII codes of the different NAA photonic crystals fabricated and analysed in our study. See DOI: 10.1039/c6nr01068g

Metabotropic Glutamate2 Receptors Play a Key Role in Modulating Head Twitches Induced by a Serotonergic Hallucinogen in Mice

PubMed Central

Benvenga, Mark J.; Chaney, Stephen F.; Baez, Melvyn; Britton, Thomas C.; Hornback, William J.; Monn, James A.; Marek, Gerard J.

2018-01-01

There is substantial evidence that glutamate can modulate the effects of 5-hydroxytryptamine2A (5-HT2A) receptor activation through stimulation of metabotropic glutamate2/3 (mGlu2/3) receptors in the prefrontal cortex. Here we show that constitutive deletion of the mGlu2 gene profoundly attenuates an effect of 5-HT2A receptor activation using the mouse head twitch response (HTR). MGlu2 and mGlu3 receptor knockout (KO) as well as age-matched ICR (CD-1) wild type (WT) mice were administered (±)1-(2,5-dimethoxy-4-iodophenyl)-2-aminopropane (DOI) and observed for head twitch activity. DOI failed to produce significant head twitches in mGlu2 receptor KO mice at a dose 10-fold higher than the peak effective dose in WT or mGlu3 receptor KO mice. In addition, the mGlu2/3 receptor agonist LY379268, and the mGlu2 receptor positive allosteric modulator (PAM) CBiPES, potently blocked the HTR to DOI in WT and mGlu3 receptor KO mice. Conversely, the mGlu2/3 receptor antagonist LY341495 (10 mg/kg) increased the HTR produced by DOI (3 mg/kg) in mGlu3 receptor KO mice. Finally, the mGlu2 receptor potentiator CBiPES was able to attenuate the increase in the HTR produced by LY341495 in mGlu3 receptor KO mice. Taken together, all of these results are consistent with the hypothesis that that DOI-induced head twitches are modulated by mGlu2 receptor activation. These results also are in keeping with a critical autoreceptor function for mGlu2 receptors in the prefrontal cortex with differential effects of acute vs. chronic perturbation (e.g., constitutive mGlu2 receptor KO mice). The robust attenuation of DOI-induced head twitches in the mGlu2 receptor KO mice appears to reflect the critical role of glutamate in ongoing regulation of 5-HT2A receptors in the prefrontal cortex. Future experiments with inducible knockouts for the mGlu2 receptor and/or selective mGlu3 receptor agonists/PAMs/antagonists could provide an important tools in understanding glutamatergic modulation of prefrontal cortical 5-HT2A receptor function. PMID:29599719

Landsat: Sustaining earth observations beyond Landsat 8

USGS Publications Warehouse

Kelly, Francis P.; Holm, Thomas M.

2014-01-01

The Landsat series of Earth-observing satellites began 41-years ago as a partnership between the U.S. Geological Survey (USGS) of the Department of the Interior (DOI) and The National Aeronautics and Space Administration (NASA). For the past 41 years, Landsat satellites and associated U.S. Government ground processing, distribution, and archiving systems have acquired and made available global, moderate-resolution, multispectral measurements of land and coastal regions, providing humankind’s longest record of our planet from space. Landsat information is truly a national asset, providing an important and unique capability that benefits abroad community, including Federal, state, and local governments; globalchange science; academia, and the private sector.

Improved image quality using monolithic scintillator detectors with dual-sided readout in a whole-body TOF-PET ring: a simulation study.

PubMed

Tabacchini, Valerio; Surti, Suleman; Borghi, Giacomo; Karp, Joel S; Schaart, Dennis R

2017-02-13

We have recently built and characterized the performance of a monolithic scintillator detector based on a 32 mm  ×  32 mm  ×  22 mm LYSO:Ce crystal read out by digital silicon photomultiplier (dSiPM) arrays coupled to the crystal front and back surfaces in a dual-sided readout (DSR) configuration. The detector spatial resolution appeared to be markedly better than that of a detector consisting of the same crystal with conventional back-sided readout (BSR). Here, we aim to evaluate the influence of this difference in the detector spatial response on the quality of reconstructed images, so as to quantify the potential benefit of the DSR approach for high-resolution, whole-body time-of-flight (TOF) positron emission tomography (PET) applications. We perform Monte Carlo simulations of clinical PET systems based on BSR and DSR detectors, using the results of our detector characterization experiments to model the detector spatial responses. We subsequently quantify the improvement in image quality obtained with DSR compared to BSR, using clinically relevant metrics such as the contrast recovery coefficient (CRC) and the area under the localized receiver operating characteristic curve (ALROC). Finally, we compare the results with simulated rings of pixelated detectors with DOI capability. Our results show that the DSR detector produces significantly higher CRC and increased ALROC values than the BSR detector. The comparison with pixelated systems indicates that one would need to choose a crystal size of 3.2 mm with three DOI layers to match the performance of the BSR detector, while a pixel size of 1.3 mm with three DOI layers would be required to get on par with the DSR detector.

Improved image quality using monolithic scintillator detectors with dual-sided readout in a whole-body TOF-PET ring: a simulation study

NASA Astrophysics Data System (ADS)

Tabacchini, Valerio; Surti, Suleman; Borghi, Giacomo; Karp, Joel S.; Schaart, Dennis R.

2017-03-01

We have recently built and characterized the performance of a monolithic scintillator detector based on a 32 mm  ×  32 mm  ×  22 mm LYSO:Ce crystal read out by digital silicon photomultiplier (dSiPM) arrays coupled to the crystal front and back surfaces in a dual-sided readout (DSR) configuration. The detector spatial resolution appeared to be markedly better than that of a detector consisting of the same crystal with conventional back-sided readout (BSR). Here, we aim to evaluate the influence of this difference in the detector spatial response on the quality of reconstructed images, so as to quantify the potential benefit of the DSR approach for high-resolution, whole-body time-of-flight (TOF) positron emission tomography (PET) applications. We perform Monte Carlo simulations of clinical PET systems based on BSR and DSR detectors, using the results of our detector characterization experiments to model the detector spatial responses. We subsequently quantify the improvement in image quality obtained with DSR compared to BSR, using clinically relevant metrics such as the contrast recovery coefficient (CRC) and the area under the localized receiver operating characteristic curve (ALROC). Finally, we compare the results with simulated rings of pixelated detectors with DOI capability. Our results show that the DSR detector produces significantly higher CRC and increased ALROC values than the BSR detector. The comparison with pixelated systems indicates that one would need to choose a crystal size of 3.2 mm with three DOI layers to match the performance of the BSR detector, while a pixel size of 1.3 mm with three DOI layers would be required to get on par with the DSR detector.

Estimating the economic impacts of ecosystem restoration—Methods and case studies

USGS Publications Warehouse

Cullinane Thomas, Catherine; Huber, Christopher; Skrabis, Kristin; Sidon, Joshua

2016-04-05

This analysis estimates the economic impacts of a wide variety of ecosystem restoration projects associated with U.S. Department of the Interior (DOI) lands and programs. Specifically, the report provides estimated economic impacts for 21 DOI restoration projects associated with Natural Resource Damage Assessment and Restoration cases and Bureau of Land Management lands. The study indicates that ecosystem restoration projects provide meaningful economic contributions to local economies and to broader regional and national economies, and, based on the case studies, we estimate that between 13 and 32 job-years4 and between $2.2 and $3.4 million in total economic output5 are contributed to the U.S. economy for every $1 million invested in ecosystem restoration. These results highlight the magnitude and variability in the economic impacts associated with ecosystem restoration projects and demonstrate how investments in ecosystem restoration support jobs and livelihoods, small businesses, and rural economies. In addition to providing improved information on the economic impacts of restoration, the case studies included with this report highlight DOI restoration efforts and tell personalized stories about each project and the communities that are positively affected by restoration activities. Individual case studies are provided in appendix 1 of this report and are available from an online database at https://www.fort.usgs.gov/economic-impacts-restoration.

Decoupling of the minority PhD talent pool and assistant professor hiring in medical school basic science departments in the US

PubMed Central

Gibbs, Kenneth D; Basson, Jacob; Xierali, Imam M; Broniatowski, David A

2016-01-01

Faculty diversity is a longstanding challenge in the US. However, we lack a quantitative and systemic understanding of how the career transitions into assistant professor positions of PhD scientists from underrepresented minority (URM) and well-represented (WR) racial/ethnic backgrounds compare. Between 1980 and 2013, the number of PhD graduates from URM backgrounds increased by a factor of 9.3, compared with a 2.6-fold increase in the number of PhD graduates from WR groups. However, the number of scientists from URM backgrounds hired as assistant professors in medical school basic science departments was not related to the number of potential candidates (R2=0.12, p>0.07), whereas there was a strong correlation between these two numbers for scientists from WR backgrounds (R2=0.48, p<0.0001). We built and validated a conceptual system dynamics model based on these data that explained 79% of the variance in the hiring of assistant professors and posited no hiring discrimination. Simulations show that, given current transition rates of scientists from URM backgrounds to faculty positions, faculty diversity would not increase significantly through the year 2080 even in the context of an exponential growth in the population of PhD graduates from URM backgrounds, or significant increases in the number of faculty positions. Instead, the simulations showed that diversity increased as more postdoctoral candidates from URM backgrounds transitioned onto the market and were hired. DOI: http://dx.doi.org/10.7554/eLife.21393.001 PMID:27852433

Erratum.

PubMed

2015-04-01

In issue 21.1 three of the DOIs were printed incorrectly, please see below for the correct information. Andrea Giorgianni, et al. Flow-diverter stenting of post-traumatic bilateral anterior cerebral artery pseudoaneurysm: A case report. Doi: 10.15274/INR-2014-10059 Correct: Doi: 10.1177/1591019915575441 Lee-Anne Slater, et al. Effect of flow diversion with silk on aneurysm size: A single center experience. Doi: 10.15274/INR-2014-10062 Correct DOI: 10.1177/1591019915576433 Robert J McDonald, et al. Periprocedural safety of Pipeline therapy for unruptured cerebral aneurysms: Analysis of 279 Patients in a multihospital database. Doi: 10.15274/INR-2014-10074 Correct DOI: 10.1177/1591019915576289. © The Author(s) 2015 Reprints and permissions: sagepub.co.uk/journalsPermissions.nav.

A micro-epidemiological analysis of febrile malaria in Coastal Kenya showing hotspots within hotspots

PubMed Central

Bejon, Philip; Williams, Thomas N; Nyundo, Christopher; Hay, Simon I; Benz, David; Gething, Peter W; Otiende, Mark; Peshu, Judy; Bashraheil, Mahfudh; Greenhouse, Bryan; Bousema, Teun; Bauni, Evasius; Marsh, Kevin; Smith, David L; Borrmann, Steffen

2014-01-01

Malaria transmission is spatially heterogeneous. This reduces the efficacy of control strategies, but focusing control strategies on clusters or ‘hotspots’ of transmission may be highly effective. Among 1500 homesteads in coastal Kenya we calculated (a) the fraction of febrile children with positive malaria smears per homestead, and (b) the mean age of children with malaria per homestead. These two measures were inversely correlated, indicating that children in homesteads at higher transmission acquire immunity more rapidly. This inverse correlation increased gradually with increasing spatial scale of analysis, and hotspots of febrile malaria were identified at every scale. We found hotspots within hotspots, down to the level of an individual homestead. Febrile malaria hotspots were temporally unstable, but 4 km radius hotspots could be targeted for 1 month following 1 month periods of surveillance. DOI: http://dx.doi.org/10.7554/eLife.02130.001 PMID:24843017

Evolution of the head-trunk interface in tetrapod vertebrates

PubMed Central

Sefton, Elizabeth M; Bhullar, Bhart-Anjan S; Mohaddes, Zahra; Hanken, James

2016-01-01

Vertebrate neck musculature spans the transition zone between head and trunk. The extent to which the cucullaris muscle is a cranial muscle allied with the gill levators of anamniotes or is instead a trunk muscle is an ongoing debate. Novel computed tomography datasets reveal broad conservation of the cucullaris in gnathostomes, including coelacanth and caecilian, two sarcopterygians previously thought to lack it. In chicken, lateral plate mesoderm (LPM) adjacent to occipital somites is a recently identified embryonic source of cervical musculature. We fate-map this mesoderm in the axolotl (Ambystoma mexicanum), which retains external gills, and demonstrate its contribution to posterior gill-levator muscles and the cucullaris. Accordingly, LPM adjacent to the occipital somites should be regarded as posterior cranial mesoderm. The axial position of the head-trunk border in axolotl is congruent between LPM and somitic mesoderm, unlike in chicken and possibly other amniotes. DOI: http://dx.doi.org/10.7554/eLife.09972.001 PMID:27090084

Experimentally guided models reveal replication principles that shape the mutation distribution of RNA viruses

PubMed Central

Schulte, Michael B; Draghi, Jeremy A; Plotkin, Joshua B; Andino, Raul

2015-01-01

Life history theory posits that the sequence and timing of events in an organism's lifespan are fine-tuned by evolution to maximize the production of viable offspring. In a virus, a life history strategy is largely manifested in its replication mode. Here, we develop a stochastic mathematical model to infer the replication mode shaping the structure and mutation distribution of a poliovirus population in an intact single infected cell. We measure production of RNA and poliovirus particles through the infection cycle, and use these data to infer the parameters of our model. We find that on average the viral progeny produced from each cell are approximately five generations removed from the infecting virus. Multiple generations within a single cell infection provide opportunities for significant accumulation of mutations per viral genome and for intracellular selection. DOI: http://dx.doi.org/10.7554/eLife.03753.001 PMID:25635405

Preservation of three-dimensional anatomy in phosphatized fossil arthropods enriches evolutionary inference

PubMed Central

Schwermann, Achim H; dos Santos Rolo, Tomy; Caterino, Michael S; Bechly, Günter; Schmied, Heiko; Baumbach, Tilo; van de Kamp, Thomas

2016-01-01

External and internal morphological characters of extant and fossil organisms are crucial to establishing their systematic position, ecological role and evolutionary trends. The lack of internal characters and soft-tissue preservation in many arthropod fossils, however, impedes comprehensive phylogenetic analyses and species descriptions according to taxonomic standards for Recent organisms. We found well-preserved three-dimensional anatomy in mineralized arthropods from Paleogene fissure fillings and demonstrate the value of these fossils by utilizing digitally reconstructed anatomical structure of a hister beetle. The new anatomical data facilitate a refinement of the species diagnosis and allowed us to reject a previous hypothesis of close phylogenetic relationship to an extant congeneric species. Our findings suggest that mineralized fossils, even those of macroscopically poor preservation, constitute a rich but yet largely unexploited source of anatomical data for fossil arthropods. DOI: http://dx.doi.org/10.7554/eLife.12129.001 PMID:26854367

Preliminary evaluation of a monolithic detector module for integrated PET/MRI scanner with high spatial resolution

NASA Astrophysics Data System (ADS)

Pani, R.; Gonzalez, A. J.; Bettiol, M.; Fabbri, A.; Cinti, M. N.; Preziosi, E.; Borrazzo, C.; Conde, P.; Pellegrini, R.; Di Castro, E.; Majewski, S.

2015-06-01

The proposal of Mindview European Project concerns with the development of a very high resolution and high efficiency brain dedicated PET scanner simultaneously working with a Magnetic Resonance scanner, that expects to visualize neurotransmitter pathways and their disruptions in the quest to better diagnose schizophrenia. On behalf of this project, we propose a low cost PET module for the first prototype, based on monolithic crystals, suitable to be integrated with a head Radio Frequency (RF) coil. The aim of the suggested module is to achieve high performances in terms of efficiency, planar spatial resolution (expected about 1 mm) and discrimination of gamma Depth Of Interaction (DOI) in order to reduce the parallax error. Our preliminary results are very promising: a DOI resolution of about 3 mm, a spatial resolution ranging from about 1 to 1.5 mm and a good position linearity.

A micro-epidemiological analysis of febrile malaria in Coastal Kenya showing hotspots within hotspots.

PubMed

Bejon, Philip; Williams, Thomas N; Nyundo, Christopher; Hay, Simon I; Benz, David; Gething, Peter W; Otiende, Mark; Peshu, Judy; Bashraheil, Mahfudh; Greenhouse, Bryan; Bousema, Teun; Bauni, Evasius; Marsh, Kevin; Smith, David L; Borrmann, Steffen

2014-04-24

Malaria transmission is spatially heterogeneous. This reduces the efficacy of control strategies, but focusing control strategies on clusters or 'hotspots' of transmission may be highly effective. Among 1500 homesteads in coastal Kenya we calculated (a) the fraction of febrile children with positive malaria smears per homestead, and (b) the mean age of children with malaria per homestead. These two measures were inversely correlated, indicating that children in homesteads at higher transmission acquire immunity more rapidly. This inverse correlation increased gradually with increasing spatial scale of analysis, and hotspots of febrile malaria were identified at every scale. We found hotspots within hotspots, down to the level of an individual homestead. Febrile malaria hotspots were temporally unstable, but 4 km radius hotspots could be targeted for 1 month following 1 month periods of surveillance.DOI: http://dx.doi.org/10.7554/eLife.02130.001. Copyright © 2014, Bejon et al.

STS-47 crew during fire fighting exercises at JSC's Fire Training Pit

NASA Technical Reports Server (NTRS)

1992-01-01

STS-47 Endeavour, Orbiter Vehicle (OV) 105, crewmembers line up along water hoses to extinguish a blaze in JSC's Fire Training Pit during fire fighting exercises. Manning the hose in the foreground are Payload Specialist Mamoru Mohri, holding the hose nozzle, backup Payload Specialist Takao Doi, Mission Specialist (MS) Jerome Apt, and Commander Robert L. Gibson, at rear. Lined up on the second hose are Pilot Curtis L. Brown, Jr, holding the hose nozzle, followed by MS N. Jan Davis, MS and Payload Commander (PLC) Mark C. Lee, and backup Payload Specialist Stan Koszelak. A veteran firefighter monitors the effort from a position between the two hoses. In the background, backup Payload Specialist Chiaki Naito-Mukai, donning gloves, and MS Mae C. Jemison look on. The Fire Training Pit is located across from the Gilruth Center Bldg 207. Mohri, Doi, and Mukai all represent Japan's National Space Development Agency (NASDA).

Reliability beyond Theory and into Practice

ERIC Educational Resources Information Center

Sijtsma, Klaas

2009-01-01

The critical reactions of Bentler (2009, doi: 10.1007/s11336-008-9100-1), Green and Yang (2009a, doi: 10.1007/s11336-008-9098-4 ; 2009b, doi: 10.1007/s11336-008-9099-3), and Revelle and Zinbarg (2009, doi: 10.1007/s11336-008-9102-z) to Sijtsma's (2009, doi: 10.1007/s11336-008-9101-0) paper on Cronbach's alpha are addressed. The dissemination of…

Link-Prediction Enhanced Consensus Clustering for Complex Networks (Open Access)

DTIC Science & Technology

2016-05-20

92:022816. Available from: http://link.aps.org/doi/10.1103/PhysRevE.92.022816. doi: 10. 1103 /PhysRevE.92.022816 16. Aldecoa R, Marín I. Exploring the...from: http://link.aps.org/doi/10.1103/PhysRevE.80.056117. doi: 10. 1103 /PhysRevE.80.056117 18. Dahlin J, Svenson P. Ensemble approaches for improving...046110. Available from: http://link.aps.org/doi/10.1103/PhysRevE.81.046110. doi: 10. 1103 /PhysRevE.81.046110 28. Gfeller D, Chappelier JC, De Los Rios P

Development of high resolution phoswich depth-of-interaction block detectors utilizing Mg co-doped new scintillators

NASA Astrophysics Data System (ADS)

Kobayashi, Takahiro; Yamamoto, Seiichi; Yeom, Jung-Yeol; Kamada, Kei; Yoshikawa, Akira

2017-12-01

To correct for parallax error in positron emission tomography (PET), phoswich depth-of-interaction (DOI) detector using multiple scintillators with different decay times is a practical approach. However not many scintillator combinations suitable for phoswich DOI detector have been reported. Ce doped Gd3Ga3Al2O12 (GFAG) is a newly developed promising scintillator for PET detector, which has high density, high light output, appropriate light emission wavelength for silicon-photomultiplier (Si-PM) and faster decay time than that of Ce doped Gd3Al2Ga3O12 (GAGG). In this study, we developed a Si-PM based phoswich DOI block detector of GFAG with GAGG crystal arrays and evaluated its performance. We assembled a GFAG block and a GAGG block and they were optically coupled in depth direction to form a phoswich detector block. The phoswich block was optically coupled to a Si-PM array with a 1 mm thick light guide. The sizes of the GFAG and GAGG pixels were 0.9 mm x 0.9 mm x 7.5 mm and they were arranged into 24 x 24 matrix with 0.1 mm thick BaSO4 as reflector. We conducted the performance evaluation for two types of configurations; GFAG block arranged in upper layer (GFAG/GAGG) and GAGG arranged in upper layer (GAGG/GFAG). The measured two dimensional position histograms of these block detectors showed good separation and pulse shape spectra produced two distinct peaks for both configurations although some difference in energy spectra were observed. These results indicate phoswich block detectors composed of GFAG and GAGG are promising for high resolution DOI PET systems.

Quantum generalized observables framework for psychological data: a case of preference reversals in US elections

NASA Astrophysics Data System (ADS)

Khrennikova, Polina; Haven, Emmanuel

2017-10-01

Politics is regarded as a vital area of public choice theory, and it is strongly relying on the assumptions of voters' rationality and as such, stability of preferences. However, recent opinion polls and real election outcomes in the USA have shown that voters often engage in `ticket splitting', by exhibiting contrasting party support in Congressional and Presidential elections (cf. Khrennikova 2014 Phys. Scripta T163, 014010 (doi:10.1088/0031-8949/2014/T163/014010); Khrennikova & Haven 2016 Phil. Trans. R. Soc. A 374, 20150106 (doi:10.1098/rsta.2015.0106); Smith et al. 1999 Am. J. Polit. Sci. 43, 737-764 (doi:10.2307/2991833)). Such types of preference reversals cannot be mathematically captured via the formula of total probability, thus showing that voters' decision making is at variance with the classical probabilistic information processing framework. In recent work, we have shown that quantum probability describes well the violation of Bayesian rationality in statistical data of voting in US elections, through the so-called interference effects of probability amplitudes. This paper is proposing a novel generalized observables framework of voting behaviour, by using the statistical data collected and analysed in previous studies by Khrennikova (Khrennikova 2015 Lect. Notes Comput. Sci. 8951, 196-209) and Khrennikova & Haven (Khrennikova & Haven 2016 Phil. Trans. R. Soc. A 374, 20150106 (doi:10.1098/rsta.2015.0106)). This framework aims to overcome the main problems associated with the quantum probabilistic representation of psychological data, namely the non-double stochasticity of transition probability matrices. We develop a simplified construction of generalized positive operator valued measures by formulating special non-orthonormal bases with respect to these operators. This article is part of the themed issue `Second quantum revolution: foundational questions'.

Capacitance enhancement of polyaniline coated curved-graphene supercapacitors in a redox-active electrolyte

NASA Astrophysics Data System (ADS)

Chen, Wei; Rakhi, R. B.; Alshareef, H. N.

2013-05-01

We show, for the first time, a redox-active electrolyte in combination with a polyaniline-coated curved graphene active material to achieve significant enhancement in the capacitance (36-92% increase) compared to supercapacitors that lack the redox-active contribution from the electrolyte. The supercapacitors based on the redox-active electrolyte also exhibit excellent rate capability and very long cycling performance (>50 000 cycles).We show, for the first time, a redox-active electrolyte in combination with a polyaniline-coated curved graphene active material to achieve significant enhancement in the capacitance (36-92% increase) compared to supercapacitors that lack the redox-active contribution from the electrolyte. The supercapacitors based on the redox-active electrolyte also exhibit excellent rate capability and very long cycling performance (>50 000 cycles). Electronic supplementary information (ESI) available: Experimental section, supporting figures including SEM, TEM, XPS, BET, CV and CD curves and a summary table of capacitance. See DOI: 10.1039/c3nr00773a

A modeling paradigm for interdisciplinary water resources modeling: Simple Script Wrappers (SSW)

NASA Astrophysics Data System (ADS)

Steward, David R.; Bulatewicz, Tom; Aistrup, Joseph A.; Andresen, Daniel; Bernard, Eric A.; Kulcsar, Laszlo; Peterson, Jeffrey M.; Staggenborg, Scott A.; Welch, Stephen M.

2014-05-01

Holistic understanding of a water resources system requires tools capable of model integration. This team has developed an adaptation of the OpenMI (Open Modelling Interface) that allows easy interactions across the data passed between models. Capabilities have been developed to allow programs written in common languages such as matlab, python and scilab to share their data with other programs and accept other program's data. We call this interface the Simple Script Wrapper (SSW). An implementation of SSW is shown that integrates groundwater, economic, and agricultural models in the High Plains region of Kansas. Output from these models illustrates the interdisciplinary discovery facilitated through use of SSW implemented models. Reference: Bulatewicz, T., A. Allen, J.M. Peterson, S. Staggenborg, S.M. Welch, and D.R. Steward, The Simple Script Wrapper for OpenMI: Enabling interdisciplinary modeling studies, Environmental Modelling & Software, 39, 283-294, 2013. http://dx.doi.org/10.1016/j.envsoft.2012.07.006 http://code.google.com/p/simple-script-wrapper/

Preparation of a porous Sn@C nanocomposite as a high-performance anode material for lithium-ion batteries

NASA Astrophysics Data System (ADS)

Zhang, Yanjun; Jiang, Li; Wang, Chunru

2015-07-01

A porous Sn@C nanocomposite was prepared via a facile hydrothermal method combined with a simple post-calcination process, using stannous octoate as the Sn source and glucose as the C source. The as-prepared Sn@C nanocomposite exhibited excellent electrochemical behavior with a high reversible capacity, long cycle life and good rate capability when used as an anode material for lithium ion batteries.A porous Sn@C nanocomposite was prepared via a facile hydrothermal method combined with a simple post-calcination process, using stannous octoate as the Sn source and glucose as the C source. The as-prepared Sn@C nanocomposite exhibited excellent electrochemical behavior with a high reversible capacity, long cycle life and good rate capability when used as an anode material for lithium ion batteries. Electronic supplementary information (ESI) available: Detailed experimental procedure and additional characterization, including a Raman spectrum, TGA curve, N2 adsorption-desorption isotherm, TEM images and SEM images. See DOI: 10.1039/c5nr03093e

Towards monolithic scintillator based TOF-PET systems: practical methods for detector calibration and operation.

PubMed

Borghi, Giacomo; Tabacchini, Valerio; Schaart, Dennis R

2016-07-07

Gamma-ray detectors based on thick monolithic scintillator crystals can achieve spatial resolutions  <2 mm full-width-at-half-maximum (FWHM) and coincidence resolving times (CRTs) better than 200 ps FWHM. Moreover, they provide high sensitivity and depth-of-interaction (DOI) information. While these are excellent characteristics for clinical time-of-flight (TOF) positron emission tomography (PET), the application of monolithic scintillators has so far been hampered by the lengthy and complex procedures needed for position- and time-of-interaction estimation. Here, the algorithms previously developed in our group are revised to make the calibration and operation of a large number of monolithic scintillator detectors in a TOF-PET system practical. In particular, the k-nearest neighbor (k-NN) classification method for x,y-position estimation is accelerated with an algorithm that quickly preselects only the most useful reference events, reducing the computation time for position estimation by a factor of ~200 compared to the previously published k-NN 1D method. Also, the procedures for estimating the DOI and time of interaction are revised to enable full detector calibration by means of fan-beam or flood irradiations only. Moreover, a new technique is presented to allow the use of events in which some of the photosensor pixel values and/or timestamps are missing (e.g. due to dead time), so as to further increase system sensitivity. The accelerated methods were tested on a monolithic scintillator detector specifically developed for clinical PET applications, consisting of a 32 mm  ×  32 mm  ×  22 mm LYSO : Ce crystal coupled to a digital photon counter (DPC) array. This resulted in a spatial resolution of 1.7 mm FWHM, an average DOI resolution of 3.7 mm FWHM, and a CRT of 214 ps. Moreover, the possibility of using events missing the information of up to 16 out of 64 photosensor pixels is shown. This results in only a small deterioration of the detector performance.

44 CFR 206.348 - Consultation.

Code of Federal Regulations, 2010 CFR

2010-10-01

... designated representative of the Department of the Interior (DOI) at the regional level before approving any.... (a) The consultation shall be by written memorandum to the DOI representative and shall contain the... understanding with DOI, the DOI representative will provide technical information and an opinion whether or not...

44 CFR 206.348 - Consultation.

Code of Federal Regulations, 2011 CFR

2011-10-01

... designated representative of the Department of the Interior (DOI) at the regional level before approving any.... (a) The consultation shall be by written memorandum to the DOI representative and shall contain the... understanding with DOI, the DOI representative will provide technical information and an opinion whether or not...

Implementing DOIs for Oceanographic Satellite Data at PO.DAAC

NASA Astrophysics Data System (ADS)

Hausman, J.; Tauer, E.; Chung, N.; Chen, C.; Moroni, D. F.

2013-12-01

The Physical Oceanographic Distributed Active Archive Center (PO.DAAC) is NASA's archive for physical oceanographic satellite data. It distributes over 500 datasets from gravity, ocean wind, sea surface topography, sea ice, ocean currents, salinity, and sea surface temperature satellite missions. A dataset is a collection of granules/files that share the same mission/project, versioning, processing level, spatial, and temporal characteristics. The large number of datasets is partially due to the number of satellite missions, but mostly because a single satellite mission typically has multiple versions or even temporal and spatial resolutions of data. As a result, a user might mistake one dataset for a different dataset from the same satellite mission. Due to the PO.DAAC'S vast variety and volume of data and growing requirements to report dataset usage, it has begun implementing DOIs for the datasets it archives and distributes. However, this was not as simple as registering a name for a DOI and providing a URL. Before implementing DOIs multiple questions needed to be answered. What are the sponsor and end-user expectations regarding DOIs? At what level does a DOI get assigned (dataset, file/granule)? Do all data get a DOI, or only selected data? How do we create a DOI? How do we create landing pages and manage them? What changes need to be made to the data archive, life cycle policy and web portal to accommodate DOIs? What if the data also exists at another archive and a DOI already exists? How is a DOI included if the data were obtained via a subsetting tool? How does a researcher or author provide a unique, definitive reference (standard citation) for a given dataset? This presentation will discuss how these questions were answered through changes in policy, process, and system design. Implementing DOIs is not a trivial undertaking, but as DOIs are rapidly becoming the de facto approach, it is worth the effort. Researchers have historically referenced the source satellite and data center (or archive), but scientific writings do not typically provide enough detail to point to a singular, uniquely identifiable dataset. DOIs provide the means to help researchers be precise in their data citations and provide needed clarity, standardization and permanence.

Wikipedia as a gateway to biomedical research: The relative distribution and use of citations in the English Wikipedia.

PubMed

Maggio, Lauren A; Willinsky, John M; Steinberg, Ryan M; Mietchen, Daniel; Wass, Joseph L; Dong, Ting

2017-01-01

Wikipedia is a gateway to knowledge. However, the extent to which this gateway ends at Wikipedia or continues via supporting citations is unknown. Wikipedia's gateway functionality has implications for information design and education, notably in medicine. This study aims to establish benchmarks for the relative distribution and referral (click) rate of citations-as indicated by presence of a Digital Object Identifier (DOI)-from Wikipedia, with a focus on medical citations. DOIs referred from the English Wikipedia in August 2016 were obtained from Crossref.org. Next, based on a DOI's presence on a WikiProject Medicine page, all DOIs in Wikipedia were categorized as medical (WP:MED) or non-medical (non-WP:MED). Using this categorization, referred DOIs were classified as WP:MED, non-WP:MED, or BOTH, meaning the DOI may have been referred from either category. Data were analyzed using descriptive and inferential statistics. Out of 5.2 million Wikipedia pages, 4.42% (n = 229,857) included at least one DOI. 68,870 were identified as WP:MED, with 22.14% (n = 15,250) featuring one or more DOIs. WP:MED pages featured on average 8.88 DOI citations per page, whereas non-WP:MED pages had on average 4.28 DOI citations. For DOIs only on WP:MED pages, a DOI was referred every 2,283 pageviews and for non-WP:MED pages every 2,467 pageviews. DOIs from BOTH pages accounted for 12% (n = 58,475). The referral of DOI citations found in BOTH could not be assigned to WP:MED or non-WP:MED, as the page from which the referral was made was not provided with the data. While these results cannot provide evidence of greater citation referral from WP:MED than non-WP:MED, they do provide benchmarks to assess strategies for changing referral patterns. These changes might include editors adopting new methods for designing and presenting citations or the introduction of teaching strategies that address the value of consulting citations as a tool for extending learning.

A 20-year record (1998-2017) of permafrost, active layer and meteorological conditions at a high Arctic permafrost research site (Bayelva, Spitsbergen)

NASA Astrophysics Data System (ADS)

Boike, Julia; Juszak, Inge; Lange, Stephan; Chadburn, Sarah; Burke, Eleanor; Overduin, Pier Paul; Roth, Kurt; Ippisch, Olaf; Bornemann, Niko; Stern, Lielle; Gouttevin, Isabelle; Hauber, Ernst; Westermann, Sebastian

2018-03-01

Most permafrost is located in the Arctic, where frozen organic carbon makes it an important component of the global climate system. Despite the fact that the Arctic climate changes more rapidly than the rest of the globe, observational data density in the region is low. Permafrost thaw and carbon release to the atmosphere are a positive feedback mechanism that can exacerbate global warming. This positive feedback functions via changing land-atmosphere energy and mass exchanges. There is thus a great need to understand links between the energy balance, which can vary rapidly over hourly to annual timescales, and permafrost, which changes slowly over long time periods. This understanding thus mandates long-term observational data sets. Such a data set is available from the Bayelva site at Ny-Ålesund, Svalbard, where meteorology, energy balance components and subsurface observations have been made for the last 20 years. Additional data include a high-resolution digital elevation model (DEM) that can be used together with the snow physical information for snowpack modeling and a panchromatic image. This paper presents the data set produced so far, explains instrumentation, calibration, processing and data quality control, as well as the sources for various resulting data sets. The resulting data set is unique in the Arctic and serves as a baseline for future studies. The mean permafrost temperature is -2.8 °C, with a zero-amplitude depth at 5.5 m (2009-2017). Since the data provide observations of temporally variable parameters that mitigate energy fluxes between permafrost and atmosphere, such as snow depth and soil moisture content, they are suitable for use in integrating, calibrating and testing permafrost as a component in earth system models.The presented data are available in the Supplement for this paper (time series) and through the PANGAEA and Zenodo data portals: time series (https://doi.org/10.1594/PANGAEA.880120, https://zenodo.org/record/1139714) and HRSC-AX data products (https://doi.org/10.1594/PANGAEA.884730, https://zenodo.org/record/1145373).

43 CFR 17.332 - Mediation.

Code of Federal Regulations, 2011 CFR

2011-10-01

..., and Enforcement Procedures § 17.332 Mediation. (a) Referral of complaints for mediation. DOI will... it. The FMCS shall send the agreement to DOI. DOI, however, retains the right to monitor the... process without prior approval of the head of the mediation agency. (e) DOI will use the mediation process...

43 CFR 17.314 - Age distinctions contained in DOI regulations.

Code of Federal Regulations, 2011 CFR

2011-10-01

... 43 Public Lands: Interior 1 2011-10-01 2011-10-01 false Age distinctions contained in DOI... Age Standards for Determining Age Discrimination § 17.314 Age distinctions contained in DOI regulations. Any age distinctions contained in a rule or regulation issued by DOI shall be presumed to be...

43 CFR 17.314 - Age distinctions contained in DOI regulations.

Code of Federal Regulations, 2013 CFR

2013-10-01

... 43 Public Lands: Interior 1 2013-10-01 2013-10-01 false Age distinctions contained in DOI... Age Standards for Determining Age Discrimination § 17.314 Age distinctions contained in DOI regulations. Any age distinctions contained in a rule or regulation issued by DOI shall be presumed to be...

43 CFR 17.314 - Age distinctions contained in DOI regulations.

Code of Federal Regulations, 2014 CFR

2014-10-01

... 43 Public Lands: Interior 1 2014-10-01 2014-10-01 false Age distinctions contained in DOI... Age Standards for Determining Age Discrimination § 17.314 Age distinctions contained in DOI regulations. Any age distinctions contained in a rule or regulation issued by DOI shall be presumed to be...

43 CFR 17.314 - Age distinctions contained in DOI regulations.

Code of Federal Regulations, 2012 CFR

2012-10-01

... 43 Public Lands: Interior 1 2012-10-01 2011-10-01 true Age distinctions contained in DOI... Age Standards for Determining Age Discrimination § 17.314 Age distinctions contained in DOI regulations. Any age distinctions contained in a rule or regulation issued by DOI shall be presumed to be...

43 CFR 17.320 - General responsibilities.

Code of Federal Regulations, 2010 CFR

2010-10-01

... ASSISTED PROGRAMS OF THE DEPARTMENT OF THE INTERIOR Nondiscrimination on the Basis of Age Duties of Doi Recipients § 17.320 General responsibilities. Each DOI recipient has primary responsibility to ensure that... information, and to afford DOI access to its records to the extent DOI finds necessary to determine whether...

30 CFR 250.1001 - Definitions.

Code of Federal Regulations, 2010 CFR

2010-07-01

... used in this subpart shall have the meanings given below: DOI pipelines include: (1) Producer-operated...) Transporter-operated pipelines that DOI and DOT have agreed are to be regulated as DOI pipelines; and (5) All..., maintenance, and operation; (2) Producer-operated pipelines that DOI and DOT have agreed are to be regulated...

43 CFR 17.314 - Age distinctions contained in DOI regulations.

Code of Federal Regulations, 2010 CFR

2010-10-01

... 43 Public Lands: Interior 1 2010-10-01 2010-10-01 false Age distinctions contained in DOI... Age Standards for Determining Age Discrimination § 17.314 Age distinctions contained in DOI regulations. Any age distinctions contained in a rule or regulation issued by DOI shall be presumed to be...

43 CFR 17.331 - Complaints.

Code of Federal Regulations, 2010 CFR

2010-10-01

... or on behalf of others, may file a complaint with DOI, alleging discrimination prohibited by the Act... good cause shown, however, DOI may extend this time limit. (b) DOI will consider the date a complaint... described in paragraphs (a) and (c)(1) of this section. (c) DOI will attempt to facilitate the filing of...

43 CFR 17.320 - General responsibilities.

Code of Federal Regulations, 2011 CFR

2011-10-01

... ASSISTED PROGRAMS OF THE DEPARTMENT OF THE INTERIOR Nondiscrimination on the Basis of Age Duties of Doi Recipients § 17.320 General responsibilities. Each DOI recipient has primary responsibility to ensure that... information, and to afford DOI access to its records to the extent DOI finds necessary to determine whether...

43 CFR 17.331 - Complaints.

Code of Federal Regulations, 2011 CFR

2011-10-01

... or on behalf of others, may file a complaint with DOI, alleging discrimination prohibited by the Act... good cause shown, however, DOI may extend this time limit. (b) DOI will consider the date a complaint... described in paragraphs (a) and (c)(1) of this section. (c) DOI will attempt to facilitate the filing of...

30 CFR 1220.033 - Audits.

Code of Federal Regulations, 2011 CFR

2011-07-01

... which are related to NPSL operations shall be subject to audit by DOI or its appointed agent. Where possible, the auditor for DOI shall coordinate audit efforts with other nonoperators, if any. DOI shall... the same manner as the operator is notified. DOI may elect to send an auditor with the audit team...

Effect of endorectal balloon positioning errors on target deformation and dosimetric quality during prostate SBRT

NASA Astrophysics Data System (ADS)

Jones, Bernard L.; Gan, Gregory; Kavanagh, Brian; Miften, Moyed

2013-11-01

An inflatable endorectal balloon (ERB) is often used during stereotactic body radiation therapy (SBRT) for treatment of prostate cancer in order to reduce both intrafraction motion of the target and risk of rectal toxicity. However, the ERB can exert significant force on the prostate, and this work assessed the impact of ERB position errors on deformation of the prostate and treatment dose metrics. Seventy-one cone-beam computed tomography (CBCT) image datasets of nine patients with clinical stage T1cN0M0 prostate cancer were studied. An ERB (Flexi-Cuff, EZ-EM, Westbury, NY) inflated with 60 cm3 of air was used during simulation and treatment, and daily kilovoltage (kV) CBCT imaging was performed to localize the prostate. The shape of the ERB in each CBCT was analyzed to determine errors in position, size, and shape. A deformable registration algorithm was used to track the dose received by (and deformation of) the prostate, and dosimetric values such as D95, PTV coverage, and Dice coefficient for the prostate were calculated. The average balloon position error was 0.5 cm in the inferior direction, with errors ranging from 2 cm inferiorly to 1 cm superiorly. The prostate was deformed primarily in the AP direction, and tilted primarily in the anterior-posterior/superior-inferior plane. A significant correlation was seen between errors in depth of ERB insertion (DOI) and mean voxel-wise deformation, prostate tilt, Dice coefficient, and planning-to-treatment prostate inter-surface distance (p < 0.001). Dosimetrically, DOI is negatively correlated with prostate D95 and PTV coverage (p < 0.001). For the model of ERB studied, error in ERB position can cause deformations in the prostate that negatively affect treatment, and this additional aspect of setup error should be considered when ERBs are used for prostate SBRT. Before treatment, the ERB position should be verified, and the ERB should be adjusted if the error is observed to exceed tolerable values.

The effect of plasma inhomogeneities on (i) radio emission generation by non-gyrotropic electron beams and (ii) particle acceleration by Langmuir waves

NASA Astrophysics Data System (ADS)

Tsiklauri, David

2015-04-01

Extensive particle-in-cell simulations of fast electron beams injected in a background magnetised plasma with a decreasing density profile were carried out. These simulations were intended to further shed light on a newly proposed mechanism for the generation of electromagnetic waves in type III solar radio bursts [1]. Here recent progress in an alternative to the plasma emission model using Particle-In-Cell, self-consistent electromagnetic wave emission simulations of solar type III radio bursts will be presented. In particular, (i) Fourier space drift (refraction) of non-gyrotropic electron beam-generated wave packets, caused by the density gradient [1,2], (ii) parameter space investigation of numerical runs [3], (iii) concurrent generation of whistler waves [4] and a separate problem of (iv) electron acceleration by Langmuir waves in a background magnetised plasma with an increasing density profile [5] will be discussed. In all considered cases the density inhomogeneity-induced wave refraction plays a crucial role. In the case of non-gyrotropic electron beam, the wave refraction transforms the generated wave packets from standing into freely escaping EM radiation. In the case of electron acceleration by Langmuir waves, a positive density gradient in the direction of wave propagation causes a decrease in the wavenumber, and hence a higher phase velocity vph = ω/k. The k-shifted wave is then subject to absorption by a faster electron by wave-particle interaction. The overall effect is an increased number of high energy electrons in the energy spectrum. [1] D. Tsiklauri, Phys. Plasmas 18, 052903 (2011); http://dx.doi.org/10.1063/1.3590928 [2] H. Schmitz, D. Tsiklauri, Phys. Plasmas 20, 062903 (2013); http://dx.doi.org/10.1063/1.4812453 [3] R. Pechhacker, D. Tsiklauri, Phys. Plasmas 19, 112903 (2012); http://dx.doi.org/10.1063/1.4768429 [4] M. Skender, D. Tsiklauri, Phys. Plasmas 21, 042904 (2014); http://dx.doi.org/10.1063/1.4871723 [5] R. Pechhacker, D. Tsiklauri, Phys. Plasmas 21, 012903 (2014); http://dx.doi.org/10.1063/1.4863494 This research is funded by the Leverhulme Trust Research Project Grant RPG-311

Research on Quantum Algorithms at the Institute for Quantum Information and Matter

DTIC Science & Technology

2016-05-29

local quantum computation with applications to position-based cryptography , New Journal of Physics, (09 2011): 0. doi: 10.1088/1367-2630/13/9/093036... cryptography , such as the ability to turn private-key encryption into public-key encryption. While ad hoc obfuscators exist, theoretical progress has mainly...to device-independent quantum cryptography , to quantifying entanglement, and to the classification of quantum phases of matter. Exact synthesis

Energy Efficient Signal Detection for Army Applications Based on Ordering

DTIC Science & Technology

2011-09-01

Systems, (07 2010): 0. doi: 10.1109/TAES.2010.5545189 2011/09/03 18:03:52 35 Qian He, Rick S. Blum, Alexander M. Haimovich. Noncoherent MIMO Radar for...Conference Proceeding publications (other than abstracts): PaperReceived . Noncoherent Versus Coherent MIMO Radar for Joint TargetPosition and Velocity... noncoherent signal detection for networked sensors using ordered transmissions, 2011 45th Annual Conference on Information Sciences and Systems (CISS

76 FR 77831 - 2012 Presidential Candidate Matching Fund Submission Dates and Post Date of Ineligibility Dates...

Federal Register 2010, 2011, 2012, 2013, 2014

2011-12-14

... statement'') after their dates of ineligibility (``DOI''). Candidates are required to submit a NOCO... notified of their DOI by the Commission. A Candidate who has net outstanding campaign obligations post-DOI... each matching fund request submitted after the candidate's DOI. These statements are due just before...

Time-Resolved Diffuse Optical Spectroscopy and Imaging Using Solid-State Detectors: Characteristics, Present Status, and Research Challenges.

PubMed

Alayed, Mrwan; Deen, M Jamal

2017-09-14

Diffuse optical spectroscopy (DOS) and diffuse optical imaging (DOI) are emerging non-invasive imaging modalities that have wide spread potential applications in many fields, particularly for structural and functional imaging in medicine. In this article, we review time-resolved diffuse optical imaging (TR-DOI) systems using solid-state detectors with a special focus on Single-Photon Avalanche Diodes (SPADs) and Silicon Photomultipliers (SiPMs). These TR-DOI systems can be categorized into two types based on the operation mode of the detector (free-running or time-gated). For the TR-DOI prototypes, the physical concepts, main components, figures-of-merit of detectors, and evaluation parameters are described. The performance of TR-DOI prototypes is evaluated according to the parameters used in common protocols to test DOI systems particularly basic instrumental performance (BIP). In addition, the potential features of SPADs and SiPMs to improve TR-DOI systems and expand their applications in the foreseeable future are discussed. Lastly, research challenges and future developments for TR-DOI are discussed for each component in the prototype separately and also for the entire system.

Ankyrin-B is a PI3P effector that promotes polarized α5β1-integrin recycling via recruiting RabGAP1L to early endosomes

PubMed Central

Qu, Fangfei; Lorenzo, Damaris N; King, Samantha J; Brooks, Rebecca; Bear, James E; Bennett, Vann

2016-01-01

Endosomal membrane trafficking requires coordination between phosphoinositide lipids, Rab GTPases, and microtubule-based motors to dynamically determine endosome identity and promote long-range organelle transport. Here we report that ankyrin-B (AnkB), through integrating all three systems, functions as a critical node in the protein circuitry underlying polarized recycling of α5β1-integrin in mouse embryonic fibroblasts, which enables persistent fibroblast migration along fibronectin gradients. AnkB associates with phosphatidylinositol 3-phosphate (PI3P)-positive organelles in fibroblasts and binds dynactin to promote their long-range motility. We demonstrate that AnkB binds to Rab GTPase Activating Protein 1-Like (RabGAP1L) and recruits it to PI3P-positive organelles, where RabGAP1L inactivates Rab22A, and promotes polarized trafficking to the leading edge of migrating fibroblasts. We further determine that α5β1-integrin depends on an AnkB/RabGAP1L complex for polarized recycling. Our results reveal AnkB as an unexpected key element in coordinating polarized transport of α5β1-integrin and likely of other specialized endocytic cargos. DOI: http://dx.doi.org/10.7554/eLife.20417.001 PMID:27718357

The hallucinogen DOI reduces low-frequency oscillations in rat prefrontal cortex: reversal by antipsychotic drugs.

PubMed

Celada, Pau; Puig, M Victoria; Díaz-Mataix, Llorenç; Artigas, Francesc

2008-09-01

Perceptual and psychic alterations and thought disorder are fundamental elements of schizophrenia symptoms, a pathology associated with an abnormal macro- and microcircuitry of several brain areas including the prefrontal cortex (PFC). Alterations in information processing in PFC may partly underlie schizophrenia symptoms. The 5-HT(2A/2C) agonist DOI and antipsychotic drugs were administered to anesthetized rats. Single unit and local field potential (LFP) extracellular recordings were made in medial PFC (mPFC). Electrolytic lesions were performed in the thalamic nuclei. DOI markedly disrupts cellular and network activity in rat PFC. DOI altered pyramidal discharge in mPFC (39% excited, 27% inhibited, 34% unaffected; n = 51). In all instances, DOI concurrently reduced low-frequency oscillations (.3-4 Hz; power spectrum: .25 +/- .02 and .14 +/- .01 microV(2) in basal conditions and after 50-300 microg/kg intravenous (i.v.) DOI, respectively; n = 51). Moreover, DOI disrupted the temporal association between the active phase of LFP and pyramidal discharge. Both effects were reversed by M100907 (5-HT(2A) receptor antagonist) and were not attenuated by thalamic lesions, supporting an intracortical origin of the effects of DOI. The reduction in low-frequency oscillations induced by DOI was significantly reversed by the antipsychotic drugs haloperidol (.1-.2 mg/kg i.v.) and clozapine (1 mg/kg i.v.). DOI disorganizes network activity in PFC, reducing low-frequency oscillations and desynchronizing pyramidal discharge from active phases of LFP. These effects may underlie DOI's psychotomimetic action. The reversal by clozapine and haloperidol indicates that antipsychotic drugs may reduce psychotic symptoms by normalizing an altered PFC function.

Ensuring Credit to Data Creators: A Case Study for Geodesy

NASA Astrophysics Data System (ADS)

Boler, F. M.; Gorman, A.

2011-12-01

UNAVCO, the NSF and NASA-funded facility that supports and promotes Earth science by advancing high-precision techniques for the measurement of crustal deformation, has operated a Global Navigation Satellite System (GNSS) Data Archive since 1992. For the GNSS domain, the UNAVCO Archive has established best practices for data and metadata preservation, and provides tools for openly tracking data provenance. The GNSS data collection at the UNAVCO Archive represents the efforts of over 400 principal investigators and uncounted years of effort by these individuals and their students in globally distributed field installations, sometimes in situations of significant danger, whether from geologic hazards or political/civil unrest. Our investigators also expend considerable effort in following best practices for data and metadata management. UNAVCO, with the support of its consortium membership, has committed to an open data policy for data in the Archive. Once the data and metadata are archived by UNAVCO, they are distributed by anonymous access to thousands of users who cannot be accurately identified. Consequently, the UNAVCO commitment to open data access was reached with a degree of trepidation on the part of a segment of the principal investigators who contribute their data with no guarantee that their colleagues (or competitors) will follow a code of ethics in their research and publications with respect to the data they have downloaded from the UNAVCO Archive. The UNAVCO community has recognized the need to develop, adopt, and follow a data citation policy among themselves and to advocate for data citation more generally within the science publication arena. The role of the UNAVCO Archive in this process has been to provide data citation guidance and to develop and implement mechanisms to assign digital object identifiers (DOIs) to data sets within the UNAVCO Archive. The UNAVCO community is interested in digital object identifiers primarily as a means to facilitate citation for the purpose of ensuring credit to the data creators. UNAVCO's archiving and metadata management systems are generally well-suited to assigning and maintaining DOIs for two styles of logical collections of data: campaigns, which are spatially and temporally well-defined; and stations, which represent ongoing collection at a single spatial position at the Earth's surface. These two styles form the basis for implementing approximately 3,000 DOIs that can encompass the current holdings in the UNAVCO Archive. In addition, aggregations of DOIs into a superset DOI is advantageous for numerous cases where groupings of stations are naturally used in research studies. There are about 100 such natural collections of stations. However, research using GNSS data can also utilize several hundred or more stations in unique combinations, where tallying the individual DOIs within a reference list is cumbersome. We are grappling with the complexities that inevitably crop up when assigning DOIs, including subsetting, versioning, and aggregating. We also foresee the need for mechanisms for users to go beyond our predefined collections and/or aggregations to define their own ad-hoc collections. Our goal is to create a system for DOI assignment and utilization that succeeds in facilitating data citation within our community of geodesy scientists.

A high resolution (1 km) groundwater model for Indonesia

NASA Astrophysics Data System (ADS)

Sutanudjaja, Edwin; Verkaik, Jarno; de Graaf, Inge; van Beek, Rens; Erkens, Gilles; Bierkens, Marc

2015-04-01

Groundwater is important in many parts of Indonesia. It serves as a primary source of drinking water and industrial activities. During times of drought, it sustains water flows in streams, rivers, lakes and wetlands, and thus support ecosystem habitat and biodiversity as well as preventing hazardous forest fire. Besides its importance, groundwater is known as a vulnerable resource as unsustainable groundwater exploitation and management occurs in many areas of the country. Therefore, in order to ensure sustainable management of groundwater resources, monitoring and predicting groundwater changes in Indonesia are imperative. However, large extent groundwater models to assess these changes on a regional scale are almost non-existent and are hampered by the strong topographical and lithological transitions that characterize Indonesia. In this study, we built an 1 km resolution groundwater model for the entire Indonesian archipelago (total inland area: about 2 million km2). We adopted the approaches of Sutanudjaja et al. (2011, 2014a) and de Graaf et al. (2014) in order to make a MODFLOW (Harbaugh et al., 2000) groundwater model by using only global datasets. Aquifer schematization and properties of the groundwater model were developed from available global lithological maps (e.g. Dürr et al., 2005; Gleeson et al., 2011; Hartmann & Moorsdorf, 2012; Gleeson et al., 2014). We forced the groundwater model with the recent output of global hydrological model PCR-GLOBWB version 2.0 (Sutanudjaja et al., 2014b; van Beek et al., 2011), specifically the long term average of groundwater recharge and average surface water levels derived from channel discharge. Simulation results were promising. The MODFLOW model converged with realistic aquifer properties (i.e. transmissivities) and produced reasonable groundwater head spatial distribution reflecting the positions of major groundwater bodies and surface water bodies in the country. In Vienna, we aim to show and demonstrate these results. Also we discuss fundamental challenges in high resolution groundwater modeling and address various issues that range from computational challenges - e.g. computational time, memory, and parallelization issues - to lack of sufficient detail/fine information for model validation and parameterization - including atmospheric forcing and emergent scaling problems. References: de Graaf et al., Hydrology & Earth System Sciences (2014), http://dx.doi.org/10.5194/hessd-11-5217-2014 Dürr et al., Global Biogeochemical Cycles (2005), http://dx.doi.org/10.1029/2005GB002515 Gleeson et al., Geophysical Research Letter (2011), http://dx.doi.org/10.1029/2010GL045565 Gleeson et al., Geophysical Research Letter (2014), http://dx.doi.org/10.1002/2014GL059856 Harbaugh et al., MODFLOW-2000 (2000), http://water.usgs.gov/nrp/gwsoftware/modflow2000/ofr00-92.pdf Hartmann & Moosdorf, Geochemistry Geophysics Geosystems (2012), http://dx.doi.org/10.1029/2012GC004370 Sutanudjaja et al., Hydrology & Earth System Sciences (2011), http://dx.doi.org/10.5194/hess-15-2913-2011 Sutanudjaja et al., Water Resources Research (2014a), http://dx.doi.org/10.1002/2013WR013807 Sutanudjaja et al., AGU Fall Meeting (2014b), see: http://globalhydrology.nl/models/pcr-globwb-2-0/ van Beek et al., Water Resources Research (2011), http://dx.doi.org/10.1029/2010WR009791

2015 Relaunch as Open Access Pediatric Neurology Briefs.

PubMed

Millichap, John J; Millichap, J Gordon

2015-01-01

Pediatric Neurology Briefs (PNB) has been published monthly since 1987 as a continuing education service designed to expedite and facilitate review of current medical literature concerning pediatric neurology. In 2015, PNB is relaunched as an open access, peer-reviewed, journal with an expanded editorial board. PNB has a new website and content management system capable of organizing peer-review and providing improved indexing, DOI assignment, and online full-text article view. Digitization of back issues, archiving, and inclusion in PubMed are future goals. The new online open access PNB aims to reach more physicians, researchers, and other healthcare providers with highlights of the latest advances in pediatric neurology and commentaries by specialists in the field.

Prototype pre-clinical PET scanner with depth-of-interaction measurements using single-layer crystal array and single-ended readout

NASA Astrophysics Data System (ADS)

Lee, Min Sun; Kim, Kyeong Yun; Ko, Guen Bae; Lee, Jae Sung

2017-05-01

In this study, we developed a proof-of-concept prototype PET system using a pair of depth-of-interaction (DOI) PET detectors based on the proposed DOI-encoding method and digital silicon photomultiplier (dSiPM). Our novel cost-effective DOI measurement method is based on a triangular-shaped reflector that requires only a single-layer pixelated crystal and single-ended signal readout. The DOI detector consisted of an 18  ×  18 array of unpolished LYSO crystal (1.47  ×  1.47  ×  15 mm3) wrapped with triangular-shaped reflectors. The DOI information was encoded by depth-dependent light distribution tailored by the reflector geometry and DOI correction was performed using four-step depth calibration data and maximum-likelihood (ML) estimation. The detector pair and the object were placed on two motorized rotation stages to demonstrate 12-block ring PET geometry with 11.15 cm diameter. Spatial resolution was measured and phantom and animal imaging studies were performed to investigate imaging performance. All images were reconstructed with and without the DOI correction to examine the impact of our DOI measurement. The pair of dSiPM-based DOI PET detectors showed good physical performances respectively: 2.82 and 3.09 peak-to-valley ratios, 14.30% and 18.95% energy resolution, and 4.28 and 4.24 mm DOI resolution averaged over all crystals and all depths. A sub-millimeter spatial resolution was achieved at the center of the field of view (FOV). After applying ML-based DOI correction, maximum 36.92% improvement was achieved in the radial spatial resolution and a uniform resolution was observed within 5 cm of transverse PET FOV. We successfully acquired phantom and animal images with improved spatial resolution and contrast by using the DOI measurement. The proposed DOI-encoding method was successfully demonstrated in the system level and exhibited good performance, showing its feasibility for animal PET applications with high spatial resolution and sensitivity.

Wikipedia as a gateway to biomedical research: The relative distribution and use of citations in the English Wikipedia

PubMed Central

Willinsky, John M.; Steinberg, Ryan M.; Mietchen, Daniel; Wass, Joseph L.; Dong, Ting

2017-01-01

Wikipedia is a gateway to knowledge. However, the extent to which this gateway ends at Wikipedia or continues via supporting citations is unknown. Wikipedia’s gateway functionality has implications for information design and education, notably in medicine. This study aims to establish benchmarks for the relative distribution and referral (click) rate of citations—as indicated by presence of a Digital Object Identifier (DOI)—from Wikipedia, with a focus on medical citations. DOIs referred from the English Wikipedia in August 2016 were obtained from Crossref.org. Next, based on a DOI’s presence on a WikiProject Medicine page, all DOIs in Wikipedia were categorized as medical (WP:MED) or non-medical (non-WP:MED). Using this categorization, referred DOIs were classified as WP:MED, non-WP:MED, or BOTH, meaning the DOI may have been referred from either category. Data were analyzed using descriptive and inferential statistics. Out of 5.2 million Wikipedia pages, 4.42% (n = 229,857) included at least one DOI. 68,870 were identified as WP:MED, with 22.14% (n = 15,250) featuring one or more DOIs. WP:MED pages featured on average 8.88 DOI citations per page, whereas non-WP:MED pages had on average 4.28 DOI citations. For DOIs only on WP:MED pages, a DOI was referred every 2,283 pageviews and for non-WP:MED pages every 2,467 pageviews. DOIs from BOTH pages accounted for 12% (n = 58,475). The referral of DOI citations found in BOTH could not be assigned to WP:MED or non-WP:MED, as the page from which the referral was made was not provided with the data. While these results cannot provide evidence of greater citation referral from WP:MED than non-WP:MED, they do provide benchmarks to assess strategies for changing referral patterns. These changes might include editors adopting new methods for designing and presenting citations or the introduction of teaching strategies that address the value of consulting citations as a tool for extending learning. PMID:29267345

Fast Positive Breakdown, NBEs, and Lightning Initiation

NASA Astrophysics Data System (ADS)

Krehbiel, P. R.; Rison, W.; Stock, M.; Edens, H. E.; Shao, X. M.; Thomas, R. J.; Stanley, M. A.; Zhang, Y.

2016-12-01

High power narrrow bipolar events (NBEs) have been found to be produced by arelatively unknown type of discharge, called fast positive breakdown (Rison etal., 2016). The breakdown occurs with a wide range of strengths, both in terms of its broadband sferic and its VHF radiation, and is found to be theinitiating event of many and likely all lightning discharges inside storms. Itdoes not produce a conducting channel but instead appears to be produced by avolumetric system of repeated, cascading positive streamers in virgin air.That positive corona and streamers would be responsible for initiatinglightning was proposed in the 1960s by Loeb, Dawson and Winn. In the 1970sPhelps and Griffiths showed that the streamers would be self-intensifying,leading to negative breakdown being initiated back at their starting points.Petersen et al. (2008) described experimental results showing that thestreamers could be initiated by ice crystals at cold temperatures, and thephysical processes leading to the breakdown being fast has been reported inrecent modeling studies by Shi et al. (2016). In this paper we summarize the observational data in support of the abovefindings, and report on additional observations of NBEs and lightninginitiation currently being obtained at Kennedy Space Center, Florida. References: Rison W., P.R. Krehbiel M.G.Stock, H.E. Edens, X-M. Shao, R.J. Thomas,M.A. Stanley, Y. Zhang, Observations of narrow bipolar events revealhow lightning is initiated in thunderstorms, Nature Comms. 7, 2016.doi:10.1038/ncomms10721. Petersen, D., Bailey, M., Beasley, W. & Hallett, J. A brief review ofthe problem of lightning initiation and a hypothesis of initiallightning leader formation. J. Geophys. Res. 113, D17205 (2008). Shi, F., N. Liu, and H. K. Rassoul (2016), Properties of relativelylong streamers initiated from an isolated hydrometeor, J. Geophys.Res. Atmos., 121, 7284-7295, doi:10.1002/2015JD024580.

43 CFR 17.339 - Exhaustion of administrative remedies.

Code of Federal Regulations, 2010 CFR

2010-10-01

... DOI has made no finding with regard to the complaint; or (2) DOI issues any finding in favor of the recipient. (b) If DOI fails to make a finding within 180 days or issues a finding in favor of the recipient, DOI will: (1) Promptly advise the complainant of this fact; (2) Advise the complainant of his or her...

41 CFR 102-75.635 - What information must the Department of the Interior (DOI) furnish eligible public agencies?

Code of Federal Regulations, 2010 CFR

2010-07-01

... 41 Public Contracts and Property Management 3 2010-07-01 2010-07-01 false What information must the Department of the Interior (DOI) furnish eligible public agencies? 102-75.635 Section 102-75.635... the Interior (DOI) furnish eligible public agencies? Upon request, DOI must furnish eligible public...

75 FR 55315 - Seminole Energy Services, LLC; Seminole Gas Company, LLC; Seminole High Plains, LLC; Lakeshore...

Federal Register 2010, 2011, 2012, 2013, 2014

2010-09-10

... Investigations (DOI) as non- decisional staff in deliberations by the Commission in this docket. By this order... of Enforcement, Larry Parkinson, Director, DOI, and Geof Hobday of DOI to the January 15, 2009 list of staff excepted from the DOI non-decisional staff designation. Kimberly D. Bose, Secretary. [FR Doc...

41 CFR 102-75.635 - What information must the Department of the Interior (DOI) furnish eligible public agencies?

Code of Federal Regulations, 2011 CFR

2011-01-01

... 41 Public Contracts and Property Management 3 2011-01-01 2011-01-01 false What information must the Department of the Interior (DOI) furnish eligible public agencies? 102-75.635 Section 102-75.635... the Interior (DOI) furnish eligible public agencies? Upon request, DOI must furnish eligible public...

30 CFR 250.1006 - How must I decommission and take out of service a DOI pipeline?

Code of Federal Regulations, 2011 CFR

2011-07-01

... a DOI pipeline? 250.1006 Section 250.1006 Mineral Resources BUREAU OF OCEAN ENERGY MANAGEMENT... out of service a DOI pipeline? (a) The requirements for decommissioning pipelines are listed in § 250.1750 through § 250.1754. (b) The table in this section lists the requirements if you take a DOI...

41 CFR 102-75.665 - What happens after the disposal agency receives the assignment recommendation from DOI?

Code of Federal Regulations, 2011 CFR

2011-01-01

... disposal agency receives the assignment recommendation from DOI? 102-75.665 Section 102-75.665 Public... assignment recommendation from DOI? If, after considering other uses for the property, the disposal agency approves the assignment recommendation from DOI, it must assign the property by letter or other document to...

Development of a novel depth of interaction PET detector using highly multiplexed G-APD cross-strip encoding

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

Kolb, A., E-mail: armin.kolb@med.uni-tuebingen.de; Parl, C.; Liu, C. C.

Purpose: The aim of this study was to develop a prototype PET detector module for a combined small animal positron emission tomography and magnetic resonance imaging (PET/MRI) system. The most important factor for small animal imaging applications is the detection sensitivity of the PET camera, which can be optimized by utilizing longer scintillation crystals. At the same time, small animal PET systems must yield a high spatial resolution. The measured object is very close to the PET detector because the bore diameter of a high field animal MR scanner is limited. When used in combination with long scintillation crystals, thesemore » small-bore PET systems generate parallax errors that ultimately lead to a decreased spatial resolution. Thus, we developed a depth of interaction (DoI) encoding PET detector module that has a uniform spatial resolution across the whole field of view (FOV), high detection sensitivity, compactness, and insensitivity to magnetic fields. Methods: The approach was based on Geiger mode avalanche photodiode (G-APD) detectors with cross-strip encoding. The number of readout channels was reduced by a factor of 36 for the chosen block elements. Two 12 × 2 G-APD strip arrays (25μm cells) were placed perpendicular on each face of a 12 × 12 lutetium oxyorthosilicate crystal block with a crystal size of 1.55 × 1.55 × 20 mm. The strip arrays were multiplexed into two channels and used to calculate the x, y coordinates for each array and the deposited energy. The DoI was measured in step sizes of 1.8 mm by a collimated {sup 18}F source. The coincident resolved time (CRT) was analyzed at all DoI positions by acquiring the waveform for each event and applying a digital leading edge discriminator. Results: All 144 crystals were well resolved in the crystal flood map. The average full width half maximum (FWHM) energy resolution of the detector was 12.8% ± 1.5% with a FWHM CRT of 1.14 ± 0.02 ns. The average FWHM DoI resolution over 12 crystals was 2.90 ± 0.15 mm. Conclusions: The novel DoI PET detector, which is based on strip G-APD arrays, yielded a DoI resolution of 2.9 mm and excellent timing and energy resolution. Its high multiplexing factor reduces the number of electronic channels. Thus, this cross-strip approach enables low-cost, high-performance PET detectors for dedicated small animal PET and PET/MRI and potentially clinical PET/MRI systems.« less

System design of a small OpenPET prototype with 4-layer DOI detectors.

PubMed

Yoshida, Eiji; Kinouchi, Shoko; Tashima, Hideaki; Nishikido, Fumihiko; Inadama, Naoko; Murayama, Hideo; Yamaya, Taiga

2012-01-01

We have proposed an OpenPET geometry which consists of two axially separated detector rings. The open gap is suitable for in-beam PET. We have developed the small prototype of the OpenPET especially for a proof of concept of in-beam imaging. This paper presents an overview of the main features implemented in this prototype. We also evaluated the detector performance. This prototype was designed with 2 detector rings having 8 depth-of-interaction detectors. Each detector consisted of 784 Lu(2x)Gd(2(1-x))SiO₅:Ce (LGSO) which were arranged in a 4-layer design, coupled to a position-sensitive photomultiplier tube (PS-PMT). The size of the LGSO array was smaller than the sensitive area of the PS-PMT, so that we could obtain sufficient LGSO identification. Peripheral LGSOs near the open gap directly detect the gamma rays on the side face in the OpenPET geometry. Output signals of two detectors stacked axially were projected onto one 2-dimensional position histogram for reduction of the scale of a coincidence processor. Front-end circuits were separated from the detector head by 1.2-m coaxial cables for the protection of electronic circuits from radiation damage. The detectors had sufficient crystal identification capability. Cross talk between the combined two detectors could be ignored. The timing and energy resolutions were 3.0 ns and 14%, respectively. The coincidence window was set 20 ns, because the timing histogram showed that not only the main peak, but also two small shifted peaks were caused by the coaxial cable. However, the detector offers the promise of sufficient performance, because random coincidences are at a nearly undetectable level for in-beam PET experiments.

Translation and rotation positioning motor

DOEpatents

Schmid, Andreas [Berkeley, CA; Schaff, Oliver [13355 Berlin, DE

2005-02-01

A positioning device provides the capability of moving an object in both a linear and a rotational direction. The positioning device includes a first piezo stack with plural piezo plates that are capable of movement in orthogonal directions with respect to each other. The positioning device further includes a second piezo stack with plural piezo plates that are capable of movement in orthogonal directions with respect to each other. The positioning device also includes a first bearing that is disposed against the first piezo stack. The positioning device further includes a second bearing that is disposed against the second piezo stack. The positioning device also includes a spring element and a fifth bearing that is disposed against the spring element. The first through fifth bearings are disposed around and against the object to be positioned, to provide for positioning of the object in at least one of a linear direction and a rotational direction.

Translation and rotation positioning motor

DOEpatents

Schmid, Andreas [Berkeley, CA; Schaff, Oliver [Berlin, DE

2006-07-04

A positioning device provides the capability of moving an object in both a linear and a rotational direction. The positioning device includes a first piezo stack with plural piezo plates that are capable of movement in orthogonal directions with respect to each other. The positioning device further includes a second piezo stack with plural piezo plates that are capable of movement in orthogonal directions with respect to each other. The positioning device also includes a first bearing that is disposed against the first piezo stack. The positioning device further includes a second bearing that is disposed against the second piezo stack. The positioning device also includes a spring element and a fifth bearing that is disposed against the spring element. The first through fifth bearings are disposed around and against the object to be positioned, to provide for positioning of the object in at least one of a linear direction and a rotational direction.

Operational air quality forecast guidance for the United States

NASA Astrophysics Data System (ADS)

Stajner, Ivanka; Lee, Pius; Tong, Daniel; Pan, Li; McQueen, Jeff; Huang, Jinaping; Djalalova, Irina; Wilczak, James; Huang, Ho-Chun; Wang, Jun; Stein, Ariel; Upadhayay, Sikchya

2016-04-01

NOAA provides operational air quality predictions for ozone and wildfire smoke over the United States (U.S.) and predictions of airborne dust over the contiguous 48 states at http://airquality.weather.gov. These predictions are produced using U.S. Environmental Protection Agency (EPA) Community Model for Air Quality (CMAQ) and NOAA's HYSPLIT model (Stein et al., 2015) with meteorological inputs from the North American Mesoscale Forecast System (NAM). The current efforts focus on improving test predictions of fine particulate matter (PM2.5) from CMAQ. Emission inputs for ozone and PM2.5 predictions include inventory information from the U.S. EPA and recently added contributions of particulate matter from intermittent wildfires and windblown dust that rely on near real-time information. Current testing includes refinement of the vertical grid structure in CMAQ and inclusion of contributions of dust transport from global sources into the U.S. domain using the NEMS Global Aerosol Capability (NGAC). The addition of wildfire smoke and dust contributions in CMAQ reduced model underestimation of PM2.5 in summertime. Wintertime overestimation of PM2.5 was reduced by suppressing emissions of soil particles when the terrain is covered by snow or ice. Nevertheless, seasonal biases and biases in the diurnal cycle of PM2.5 are still substantial. Therefore, a new bias correction procedure based on an analog ensemble approach was introduced (Djalalova et al., 2015). It virtually eliminates biases in monthly means or in the diurnal cycle, but it also reduces day-to-day variability in PM2.5 predictions. Refinements to the bias correction procedure are being developed. Upgrades for the representation of wildfire smoke emissions within the domain and from global sources are in testing. Another area of active development includes approaches to scale emission inventories for nitrogen oxides in order to reproduce recent changes observed by the AirNow surface monitoring network and by satellite instruments (Tong et al., 2015) and to use these updated emissions to improve ozone predictions (Pan et al., 2015). An overview of the impacts of these recent and ongoing efforts to improve predictions of ozone, smoke and PM2.5 will be presented. Djalalova, I. et al., 2015: PM2.5 analog forecast and Kalman filter post-processing for the Community Multiscale Air Quality (CMAQ) model. Atmospheric Environment, doi:10.1016/j.atmosenv.2015.05.057. Pan L. et al., 2014: Assessment of NOx and O3 forecasting performances in the U.S. National Air Quality Forecasting Capability before and after the 2012 major emissions updates. Atmospheric Environment, doi: 10.1016/j.atmosenv.2014.06.020. Stein, A. et al., 2015: NOAA's HYSPLIT atmospheric transport and dispersion modeling system. Bull. Amer. Meteor. Soc., doi:10.1175/BAMS-D-14-00110.1. Tong, D.Q. et al., 2015: Long-term NOx trends over large cities in the United States during the great recession: Comparison of satellite retrievals, ground observations, and emission inventories. Atmospheric Environment, doi:10.1016/j.atmosenv.2015.01.035.

The combined influence of the main European circulation patterns on carbon uptake by ecosystems

NASA Astrophysics Data System (ADS)

Bastos, Ana; Gouveia, Célia; Trigo, Ricardo

2014-05-01

Understanding how natural climate variability affects carbon uptake by land and ocean pools is particularly relevant to better characterize human impact on the carbon cycle. Recently, we have contributed to assess the major role played by the El-Niño/Southern Oscillation in driving inter-annual variability (IAV) of carbon uptake by land ecosystems and significantly influencing global CO2 air-borne fraction [1]. Despite the prominent role played by ENSO, other important teleconnections on the hemispheric scale have deserved less attention. On the European scale, the main mode of variability is the North-Atlantic Oscillation (NAO), which controls storm tracks position and drives changes in temperature and precipitation over the whole region, affecting vegetation dynamics [2]. Besides NAO, a few additional large scale circulation patterns the Scandinavian (SC) and East-Atlantic (EA) Patterns, are also known to influence significantly the European climate [3]. Different combinations of these teleconnection polarities have been recently shown to modulate the overall role of the NAO impact location and strength, thus affecting winter temperature and precipitation patterns over Europe [4]. This work aims to answer the following questions: (i) how do NAO, EA and SC affect vegetation carbon uptake IAV? (ii) do the interactions between these three modes have a significant impact on land CO2 IAV? (iii) what is the contribution of the different physical variables to ecosystems' response to these modes? (iv) how well do the state-of-the-art Earth System Models (ESMs) from CMIP5 represent these climate variability modes and the corresponding carbon fluxes? We first analyze observational data to assess the relationships between the different combinations of NAO, SC and EA polarities and IAV of gross and net primary production (GPP and NPP, respectively), as well as the most relevant driving factors of ecosystem's response to those variability patterns. Although the winter state of NAO has, as expected, the largest impact on European-wide carbon uptake patterns, the other modes appear to have a strong influence in particular regions, presenting overlapping effects with different signs which are due to differentiated responses to temperature and precipitation variability. We then rely on the historical experiment (CO2 concentration driven) of 12 ESMs from CMIP5 to assess the capability of those models to represent NAO, EA and SC patterns, the associated physical variables as well as the corresponding land carbon fluxes. Although all models simulate NAO reasonably well, and most represent EA and SC patterns satisfactorily, the response of the carbon cycle to these variability modes still needs further improvements. References [1] Bastos, A., Running, S. W., Gouveia, C.M., Trigo, R.M., (2013): J. Geophys. Res. Biogeosci.,118, 1247-1255, doi:10.1002/jgrg.20100. [2] Gouveia, C.M., Trigo, R. M., DaCamara, C. C., Libonati, R., Pereira, J. M. C. (2008): Int. J. Climatol., 28, 1835-1847, doi: 10.1002/joc.1682. [3] Trigo R.M., Valente M.A., Trigo I.F., Miranda P.M., Ramos A.M., Paredes D., García-Herrera R. (2008): Annals of the New York Academy of Sciences, 1146, 212-234, doi: 10.1196/annals.1446.014. [4] Comas-Bru, L., McDermott, F. (2013): Q.J.R. Meteorol. Soc., doi: 10.1002/qj.2158.

Domain Cell Theory supports the independent evolution of the Eukarya, Bacteria and Archaea and the Nuclear Compartment Commonality hypothesis.

PubMed

Staley, James T

2017-06-01

In 2015, the Royal Society of London held a meeting to discuss the various hypotheses regarding the origin of the Eukarya. Although not all participants supported a hypothesis, the proposals that did fit into two broad categories: one group favoured 'Prokaryotes First' hypotheses and another addressed 'Eukaryotes First' hypotheses. Those who proposed Prokaryotes First hypotheses advocated either a fusion event between a bacterium and an archaeon that produced the first eukaryote or the direct evolution of the Eukarya from the Archaea. The Eukaryotes First proponents posit that the eukaryotes evolved initially and then, by reductive evolution, produced the Bacteria and Archaea. No mention was made of another previously published hypothesis termed the Nuclear Compartment Commonality (NuCom) hypothesis, which proposed the evolution of the Eukarya and Bacteria from nucleated ancestors (Staley 2013 Astrobiol Outreach 1 , 105 (doi:10.4172/2332-2519.1000105)). Evidence from two studies indicates that the nucleated Planctomycetes-Verrucomicrobia-Chlamydia superphylum members are the most ancient Bacteria known (Brochier & Philippe 2002 Nature 417 , 244 (doi:10.1038/417244a); Jun et al. 2010 Proc. Natl Acad. Sci. USA 107 , 133-138 (doi:10.1073/pnas.0913033107)). This review summarizes the evidence for the NuCom hypothesis and discusses how simple the NuCom hypothesis is in explaining eukaryote evolution relative to the other hypotheses. The philosophical importance of simplicity and its relationship to truth in hypotheses such as NuCom and Domain Cell Theory is presented. Domain Cell Theory is also proposed herein, which contends that each of the three cellular lineages of life, the Archaea, Bacteria and Eukarya domains, evolved independently, in support of the NuCom hypothesis. All other proposed hypotheses violate Domain Cell Theory because they posit the evolution of different cellular descendants from ancestral cellular types. © 2017 The Authors.

Sub-millimetre DOI detector based on monolithic LYSO and digital SiPM for a dedicated small-animal PET system.

PubMed

Marcinkowski, Radosław; Mollet, Pieter; Van Holen, Roel; Vandenberghe, Stefaan

2016-03-07

The mouse model is widely used in a vast range of biomedical and preclinical studies. Thanks to the ability to detect and quantify biological processes at the molecular level in vivo, PET has become a well-established tool in these investigations. However, the need to visualize and quantify radiopharmaceuticals in anatomic structures of millimetre or less requires good spatial resolution and sensitivity from small-animal PET imaging systems.In previous work we have presented a proof-of-concept of a dedicated high-resolution small-animal PET scanner based on thin monolithic scintillator crystals and Digital Photon Counter photosensor. The combination of thin monolithic crystals and MLE positioning algorithm resulted in an excellent spatial resolution of 0.7 mm uniform in the entire field of view (FOV). However, the limitation of the scanner was its low sensitivity due to small thickness of the lutetium-yttrium oxyorthosilicate (LYSO) crystals (2 mm).Here we present an improved detector design for a small-animal PET system that simultaneously achieves higher sensitivity and sustains a sub-millimetre spatial resolution. The proposed detector consists of a 5 mm thick monolithic LYSO crystal optically coupled to a Digital Photon Counter. Mean nearest neighbour (MNN) positioning combined with depth of interaction (DOI) decoding was employed to achieve sub-millimetre spatial resolution. To evaluate detector performance the intrinsic spatial resolution, energy resolution and coincidence resolving time (CRT) were measured. The average intrinsic spatial resolution of the detector was 0.60 mm full-width-at-half-maximum (FWHM). A DOI resolution of 1.66 mm was achieved. The energy resolution was 23% FWHM at 511 keV and CRT of 529 ps were measured. The improved detector design overcomes the sensitivity limitation of the previous design by increasing the nominal sensitivity of the detector block and retains an excellent intrinsic spatial resolution.

Evolution of NASA's Earth Science Digital Object Identifier Registration System

NASA Technical Reports Server (NTRS)

Wanchoo, Lalit; James, Nathan

2017-01-01

NASA's Earth Science Data and Information System (ESDIS) Project has implemented a fully automated system for assigning Digital Object Identifiers (DOIs) to Earth Science data products being managed by its network of 12 distributed active archive centers (DAACs). A key factor in the successful evolution of the DOI registration system over last 7 years has been the incorporation of community input from three focus groups under the NASA's Earth Science Data System Working Group (ESDSWG). These groups were largely composed of DOI submitters and data curators from the 12 data centers serving the user communities of various science disciplines. The suggestions from these groups were formulated into recommendations for ESDIS consideration and implementation. The ESDIS DOI registration system has evolved to be fully functional with over 5,000 publicly accessible DOIs and over 200 DOIs being held in reserve status until the information required for registration is obtained. The goal is to assign DOIs to the entire 8000+ data collections under ESDIS management via its network of discipline-oriented data centers. DOIs make it easier for researchers to discover and use earth science data and they enable users to provide valid citations for the data they use in research. Also for the researcher wishing to reproduce the results presented in science publications, the DOI can be used to locate the exact data or data products being cited.

43 CFR 17.301 - What is the purpose of DOI's age discrimination regulations?

Code of Federal Regulations, 2010 CFR

2010-10-01

... 43 Public Lands: Interior 1 2010-10-01 2010-10-01 false What is the purpose of DOI's age... Age General § 17.301 What is the purpose of DOI's age discrimination regulations? The purpose of these regulations is to set out DOI's policies and procedures under the Age Discrimination Act of 1975 and the...

41 CFR 102-75.670 - What responsibilities does DOI have after receiving the disposal agency's assignment letter?

Code of Federal Regulations, 2010 CFR

2010-07-01

... does DOI have after receiving the disposal agency's assignment letter? 102-75.670 Section 102-75.670... Property for Use As Public Park Or Recreation Areas § 102-75.670 What responsibilities does DOI have after..., the Secretary may proceed with the transfer. DOI must take all necessary actions to accomplish the...

30 CFR 250.1006 - How must I decommission and take out of service a DOI pipeline?

Code of Federal Regulations, 2010 CFR

2010-07-01

... a DOI pipeline? 250.1006 Section 250.1006 Mineral Resources MINERALS MANAGEMENT SERVICE, DEPARTMENT... and Pipeline Rights-of-Way § 250.1006 How must I decommission and take out of service a DOI pipeline...) The table in this section lists the requirements if you take a DOI pipeline out of service: If you...

43 CFR 2.31 - How will DOI respond to my appeal?

Code of Federal Regulations, 2010 CFR

2010-10-01

... 43 Public Lands: Interior 1 2010-10-01 2010-10-01 false How will DOI respond to my appeal? 2.31... OF INFORMATION ACT FOIA Appeals § 2.31 How will DOI respond to my appeal? (a) Appeals will be decided... will state the basis for DOI's decision as follows: (1) Decision to release or withhold records. (i) If...

43 CFR 45.25 - What will DOI do with any hearing requests?

Code of Federal Regulations, 2010 CFR

2010-10-01

... 43 Public Lands: Interior 1 2010-10-01 2010-10-01 false What will DOI do with any hearing requests... PRESCRIPTIONS IN FERC HYDROPOWER LICENSES Hearing Process Initiation of Hearing Process § 45.25 What will DOI do... will refer the case for a hearing as follows: (1) If the hearing is to be conducted by DOI, OEPC will...

41 CFR 102-75.650 - When must DOI request assignment of the property?

Code of Federal Regulations, 2010 CFR

2010-07-01

... 41 Public Contracts and Property Management 3 2010-07-01 2010-07-01 false When must DOI request...-75.650 When must DOI request assignment of the property? Within 30 calendar days after the expiration of the 30-calendar day period specified in § 102-75.640, DOI must submit to the disposal agency an...

41 CFR 102-75.670 - What responsibilities does DOI have after receiving the disposal agency's assignment letter?

Code of Federal Regulations, 2011 CFR

2011-01-01

... does DOI have after receiving the disposal agency's assignment letter? 102-75.670 Section 102-75.670... Property for Use As Public Park Or Recreation Areas § 102-75.670 What responsibilities does DOI have after..., the Secretary may proceed with the transfer. DOI must take all necessary actions to accomplish the...

43 CFR 17.301 - What is the purpose of DOI's age discrimination regulations?

Code of Federal Regulations, 2011 CFR

2011-10-01

... 43 Public Lands: Interior 1 2011-10-01 2011-10-01 false What is the purpose of DOI's age... Age General § 17.301 What is the purpose of DOI's age discrimination regulations? The purpose of these regulations is to set out DOI's policies and procedures under the Age Discrimination Act of 1975 and the...

43 CFR 45.25 - What will DOI do with any hearing requests?

Code of Federal Regulations, 2011 CFR

2011-10-01

... 43 Public Lands: Interior 1 2011-10-01 2011-10-01 false What will DOI do with any hearing requests... PRESCRIPTIONS IN FERC HYDROPOWER LICENSES Hearing Process Initiation of Hearing Process § 45.25 What will DOI do... will refer the case for a hearing as follows: (1) If the hearing is to be conducted by DOI, OEPC will...

41 CFR 102-75.650 - When must DOI request assignment of the property?

Code of Federal Regulations, 2011 CFR

2011-01-01

... 41 Public Contracts and Property Management 3 2011-01-01 2011-01-01 false When must DOI request...-75.650 When must DOI request assignment of the property? Within 30 calendar days after the expiration of the 30-calendar day period specified in § 102-75.640, DOI must submit to the disposal agency an...

43 CFR 2.31 - How will DOI respond to my appeal?

Code of Federal Regulations, 2011 CFR

2011-10-01

... 43 Public Lands: Interior 1 2011-10-01 2011-10-01 false How will DOI respond to my appeal? 2.31... OF INFORMATION ACT FOIA Appeals § 2.31 How will DOI respond to my appeal? (a) Appeals will be decided... will state the basis for DOI's decision as follows: (1) Decision to release or withhold records. (i) If...

Time-Resolved Diffuse Optical Spectroscopy and Imaging Using Solid-State Detectors: Characteristics, Present Status, and Research Challenges

PubMed Central

Alayed, Mrwan

2017-01-01

Diffuse optical spectroscopy (DOS) and diffuse optical imaging (DOI) are emerging non-invasive imaging modalities that have wide spread potential applications in many fields, particularly for structural and functional imaging in medicine. In this article, we review time-resolved diffuse optical imaging (TR-DOI) systems using solid-state detectors with a special focus on Single-Photon Avalanche Diodes (SPADs) and Silicon Photomultipliers (SiPMs). These TR-DOI systems can be categorized into two types based on the operation mode of the detector (free-running or time-gated). For the TR-DOI prototypes, the physical concepts, main components, figures-of-merit of detectors, and evaluation parameters are described. The performance of TR-DOI prototypes is evaluated according to the parameters used in common protocols to test DOI systems particularly basic instrumental performance (BIP). In addition, the potential features of SPADs and SiPMs to improve TR-DOI systems and expand their applications in the foreseeable future are discussed. Lastly, research challenges and future developments for TR-DOI are discussed for each component in the prototype separately and also for the entire system. PMID:28906462

Gravity change from 2014 to 2015, Sierra Vista Subwatershed, Upper San Pedro Basin, Arizona

USGS Publications Warehouse

Kennedy, Jeffrey R.

2016-09-13

Relative-gravity data and absolute-gravity data were collected at 68 stations in the Sierra Vista Subwatershed, Upper San Pedro Basin, Arizona, in May–June 2015 for the purpose of estimating aquifer-storage change. Similar data from 2014 and a description of the survey network were published in U.S. Geological Survey Open-File Report 2015–1086. Data collection and network adjustment results are presented in this report, which is accompanied by a supporting Web Data Release (http://dx.doi.org/10.5066/F7SQ8XHX). Station positions are presented from a Global Positioning System campaign to determine station elevation.

Exact Test of Independence Using Mutual Information

DTIC Science & Technology

2014-05-23

1000 × 0.05 = 50. Entropy 2014, 16 2844 Importantly, the permutation test, which does not preserve Markov order, resulted in 489 Type I errors! Using...Block 13 ARO Report Number Block 13: Supplementary Note © 2014 . Published in Entropy , Vol. Ed. 0 16, (7) (2014), (, (7). DoD Components reserve a...official Department of the Army position, policy or decision, unless so designated by other documentation. ... Entropy 2014, 16, 2839-2849; doi:10.3390

Psychological Fitness and Resilience: A Review of Relevant Constructs, Measures, and Links to Well-Being

DTIC Science & Technology

2014-01-01

assessed using self -report instruments. The most widely used instrument is the Rosenberg Self - Esteem Scale ( Rosenberg , 1965), which consists of 10 items...Construct validation of a single-item measure and the Rosenberg self - esteem scale. Personality and Social Psychology Bulletin, 27(2), 151–161. doi...fitness from the scientific literature: self -regulation, positive affect, perceived control, self -efficacy, self - esteem , and optimism. This review

Quantum walks, deformed relativity and Hopf algebra symmetries

PubMed Central

2016-01-01

We show how the Weyl quantum walk derived from principles in D'Ariano & Perinotti (D'Ariano & Perinotti 2014 Phys. Rev. A 90, 062106. (doi:10.1103/PhysRevA.90.062106)), enjoying a nonlinear Lorentz symmetry of dynamics, allows one to introduce Hopf algebras for position and momentum of the emerging particle. We focus on two special models of Hopf algebras–the usual Poincaré and the κ-Poincaré algebras. PMID:27091171

Processing-microstructure relationships in thermotropic liquid crystalline polymers: Experimental and numerical modeling studies

NASA Astrophysics Data System (ADS)

Fang, Jun

Thermotropic liquid crystalline polymers (TLCPs) are a class of promising engineering materials for high-demanding structural applications. Their excellent mechanical properties are highly correlated to the underlying molecular orientation states, which may be affected by complex flow fields during melt processing. Thus, understanding and eventually predicting how processing flows impact molecular orientation is a critical step towards rational design work in order to achieve favorable, balanced physical properties in finished products. This thesis aims to develop deeper understanding of orientation development in commercial TLCPs during processing by coordinating extensive experimental measurements with numerical computations. In situ measurements of orientation development of LCPs during processing are a focal point of this thesis. An x-ray capable injection molding apparatus is enhanced and utilized for time-resolved measurements of orientation development in multiple commercial TLCPs during injection molding. Ex situ wide angle x-ray scattering is also employed for more thorough characterization of molecular orientation distributions in molded plaques. Incompletely injection molded plaques ("short shots") are studied to gain further insights into the intermediate orientation states during mold filling. Finally, two surface orientation characterization techniques, near edge x-ray absorption fine structure (NEXAFS) and infrared attenuated total reflectance (FTIR-ATR) are combined to investigate the surface orientation distribution of injection molded plaques. Surface orientation states are found to be vastly different from their bulk counterparts due to different kinematics involved in mold filling. In general, complex distributions of orientation in molded plaques reflect the spatially varying competition between shear and extension during mold filling. To complement these experimental measurements, numerical calculations based on the Larson-Doi polydomain model are performed. The implementation of the Larson-Doi in complex processing flows is performed using a commercial process modeling software suite (MOLDFLOWRTM), exploiting a nearly exact analogy between the Larson-Doi model and a fiber orientation model that has been widely used in composites processing simulations. The modeling scheme is first verified by predicting many qualitative and quantitative features of molecular orientation distributions in isothermal extrusion-fed channel flows. In coordination with experiments, the model predictions are found to capture many qualitative features observed in injection molded plaques (including short shots). The final, stringent test of Larson-Doi model performance is prediction of in situ transient orientation data collected during mold filling. The model yields satisfactory results, though certain numerical approximations limit performance near the mold front.

Spin-Orbit-Enhanced Functionality in LaAlO3/SrTiO3 Nanostructures

DTIC Science & Technology

2015-09-16

34 J. Vis. Exp. 89 , e51886 (2014). http://dx.doi.org/doi:10.3791/51886 J. A. Sulpizio, S. Ilani, P. Irvin, and J. Levy, "Nanoscale Phenomena in Oxide... 89 , e51886 (2014). http://dx.doi.org/doi:10.3791/51886 J. A. Sulpizio, S. Ilani, P. Irvin, and J. Levy, "Nanoscale Phenomena in Oxide

41 CFR 102-75.640 - When must DOI notify the disposal agency that an eligible applicant is interested in acquiring...

Code of Federal Regulations, 2010 CFR

2010-07-01

... 41 Public Contracts and Property Management 3 2010-07-01 2010-07-01 false When must DOI notify the... Disposal Property for Use As Public Park Or Recreation Areas § 102-75.640 When must DOI notify the disposal agency that an eligible applicant is interested in acquiring the property? DOI must notify the disposal...

Keeping it wild: an interagency strategy to monitor trends in wilderness character across the National Wilderness Preservation System

Treesearch

Peter Landres; Chris Barns; John G. Dennis; Tim Devine; Paul Geissler; Curtis S. McCasland; Linda Merigliano; Justin Seastrand; Ralph Swain

2008-01-01

The Interagency Wilderness Character Monitoring Team--representing the Department of the Interior (DOI) Bureau of Land Management, DOI Fish and Wildlife Service, DOI National Park Service, DOI U.S. Geological Survey, and the U.S. Forest Service-offers in this document an interagency strategy to monitor trends in wilderness character across the National Wilderness...

41 CFR 102-75.660 - What happens if DOI does not approve any applications or does not submit an assignment...

Code of Federal Regulations, 2011 CFR

2011-01-01

... 41 Public Contracts and Property Management 3 2011-01-01 2011-01-01 false What happens if DOI does... Disposal Property for Use As Public Park Or Recreation Areas § 102-75.660 What happens if DOI does not approve any applications or does not submit an assignment recommendation? If DOI does not approve any...

41 CFR 102-75.640 - When must DOI notify the disposal agency that an eligible applicant is interested in acquiring...

Code of Federal Regulations, 2011 CFR

2011-01-01

... 41 Public Contracts and Property Management 3 2011-01-01 2011-01-01 false When must DOI notify the... Disposal Property for Use As Public Park Or Recreation Areas § 102-75.640 When must DOI notify the disposal agency that an eligible applicant is interested in acquiring the property? DOI must notify the disposal...

Use of internal scintillator radioactivity to calibrate DOI function of a PET detector with a dual-ended-scintillator readout

PubMed Central

Bircher, Chad; Shao, Yiping

2012-01-01

Purpose: Positron emission tomography (PET) detectors that use a dual-ended-scintillator readout to measure depth-of-interaction (DOI) must have an accurate DOI function to provide the relationship between DOI and signal ratios to be used for detector calibration and recalibration. In a previous study, the authors used a novel and simple method to accurately and quickly measure DOI function by irradiating the detector with an external uniform flood source; however, as a practical concern, implementing external uniform flood sources in an assembled PET system is technically challenging and expensive. In the current study, therefore, the authors investigated whether the same method could be used to acquire DOI function from scintillator-generated (i.e., internal) radiation. The authors also developed a method for calibrating the energy scale necessary to select the events within the desired energy window. Methods: The authors measured the DOI function of a PET detector with lutetium yttrium orthosilicate (LYSO) scintillators. Radiation events originating from the scintillators’ internal Lu-176 beta decay were used to measure DOI functions which were then compared with those measured from both an external uniform flood source and an electronically collimated external point source. The authors conducted these studies with several scintillators of differing geometries (1.5 × 1.5 and 2.0 × 2.0 mm2 cross-section area and 20, 30, and 40 mm length) and various surface finishes (mirror-finishing, saw-cut rough, and other finishes in between), and in a prototype array. Results: All measured results using internal and external radiation sources showed excellent agreement in DOI function measurement. The mean difference among DOI values for all scintillators measured from internal and external radiation sources was less than 1.0 mm for different scintillator geometries and various surface finishes. Conclusions: The internal radioactivity of LYSO scintillators can be used to accurately measure DOI function in PET detectors, regardless of scintillator geometry or surface finish. Because an external radiation source is not needed, this method of DOI function measurement can be practically applied to individual PET detectors as well as assembled systems. PMID:22320787

Use of internal scintillator radioactivity to calibrate DOI function of a PET detector with a dual-ended-scintillator readout.

PubMed

Bircher, Chad; Shao, Yiping

2012-02-01

Positron emission tomography (PET) detectors that use a dual-ended-scintillator readout to measure depth-of-interaction (DOI) must have an accurate DOI function to provide the relationship between DOI and signal ratios to be used for detector calibration and recalibration. In a previous study, the authors used a novel and simple method to accurately and quickly measure DOI function by irradiating the detector with an external uniform flood source; however, as a practical concern, implementing external uniform flood sources in an assembled PET system is technically challenging and expensive. In the current study, therefore, the authors investigated whether the same method could be used to acquire DOI function from scintillator-generated (i.e., internal) radiation. The authors also developed a method for calibrating the energy scale necessary to select the events within the desired energy window. The authors measured the DOI function of a PET detector with lutetium yttrium orthosilicate (LYSO) scintillators. Radiation events originating from the scintillators' internal Lu-176 beta decay were used to measure DOI functions which were then compared with those measured from both an external uniform flood source and an electronically collimated external point source. The authors conducted these studies with several scintillators of differing geometries (1.5 × 1.5 and 2.0 × 2.0 mm(2) cross-section area and 20, 30, and 40 mm length) and various surface finishes (mirror-finishing, saw-cut rough, and other finishes in between), and in a prototype array. All measured results using internal and external radiation sources showed excellent agreement in DOI function measurement. The mean difference among DOI values for all scintillators measured from internal and external radiation sources was less than 1.0 mm for different scintillator geometries and various surface finishes. The internal radioactivity of LYSO scintillators can be used to accurately measure DOI function in PET detectors, regardless of scintillator geometry or surface finish. Because an external radiation source is not needed, this method of DOI function measurement can be practically applied to individual PET detectors as well as assembled systems.

Use of internal scintillator radioactivity to calibrate DOI function of a PET detector with a dual-ended-scintillator readout

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

Bircher, Chad; Shao Yiping

Purpose: Positron emission tomography (PET) detectors that use a dual-ended-scintillator readout to measure depth-of-interaction (DOI) must have an accurate DOI function to provide the relationship between DOI and signal ratios to be used for detector calibration and recalibration. In a previous study, the authors used a novel and simple method to accurately and quickly measure DOI function by irradiating the detector with an external uniform flood source; however, as a practical concern, implementing external uniform flood sources in an assembled PET system is technically challenging and expensive. In the current study, therefore, the authors investigated whether the same method couldmore » be used to acquire DOI function from scintillator-generated (i.e., internal) radiation. The authors also developed a method for calibrating the energy scale necessary to select the events within the desired energy window. Methods: The authors measured the DOI function of a PET detector with lutetium yttrium orthosilicate (LYSO) scintillators. Radiation events originating from the scintillators' internal Lu-176 beta decay were used to measure DOI functions which were then compared with those measured from both an external uniform flood source and an electronically collimated external point source. The authors conducted these studies with several scintillators of differing geometries (1.5 x 1.5 and 2.0 x 2.0 mm{sup 2} cross-section area and 20, 30, and 40 mm length) and various surface finishes (mirror-finishing, saw-cut rough, and other finishes in between), and in a prototype array. Results: All measured results using internal and external radiation sources showed excellent agreement in DOI function measurement. The mean difference among DOI values for all scintillators measured from internal and external radiation sources was less than 1.0 mm for different scintillator geometries and various surface finishes. Conclusions: The internal radioactivity of LYSO scintillators can be used to accurately measure DOI function in PET detectors, regardless of scintillator geometry or surface finish. Because an external radiation source is not needed, this method of DOI function measurement can be practically applied to individual PET detectors as well as assembled systems.« less

An inhibitory gate for state transition in cortex

PubMed Central

Zucca, Stefano; D’Urso, Giulia; Pasquale, Valentina; Vecchia, Dania; Pica, Giuseppe; Bovetti, Serena; Moretti, Claudio; Varani, Stefano; Molano-Mazón, Manuel; Chiappalone, Michela; Panzeri, Stefano; Fellin, Tommaso

2017-01-01

Large scale transitions between active (up) and silent (down) states during quiet wakefulness or NREM sleep regulate fundamental cortical functions and are known to involve both excitatory and inhibitory cells. However, if and how inhibition regulates these activity transitions is unclear. Using fluorescence-targeted electrophysiological recording and cell-specific optogenetic manipulation in both anesthetized and non-anesthetized mice, we found that two major classes of interneurons, the parvalbumin and the somatostatin positive cells, tightly control both up-to-down and down-to-up state transitions. Inhibitory regulation of state transition was observed under both natural and optogenetically-evoked conditions. Moreover, perturbative optogenetic experiments revealed that the inhibitory control of state transition was interneuron-type specific. Finally, local manipulation of small ensembles of interneurons affected cortical populations millimetres away from the modulated region. Together, these results demonstrate that inhibition potently gates transitions between cortical activity states, and reveal the cellular mechanisms by which local inhibitory microcircuits regulate state transitions at the mesoscale. DOI: http://dx.doi.org/10.7554/eLife.26177.001 PMID:28509666

Intracellular sphingosine releases calcium from lysosomes

PubMed Central

Höglinger, Doris; Haberkant, Per; Aguilera-Romero, Auxiliadora; Riezman, Howard; Porter, Forbes D; Platt, Frances M; Galione, Antony; Schultz, Carsten

2015-01-01

To elucidate new functions of sphingosine (Sph), we demonstrate that the spontaneous elevation of intracellular Sph levels via caged Sph leads to a significant and transient calcium release from acidic stores that is independent of sphingosine 1-phosphate, extracellular and ER calcium levels. This photo-induced Sph-driven calcium release requires the two-pore channel 1 (TPC1) residing on endosomes and lysosomes. Further, uncaging of Sph leads to the translocation of the autophagy-relevant transcription factor EB (TFEB) to the nucleus specifically after lysosomal calcium release. We confirm that Sph accumulates in late endosomes and lysosomes of cells derived from Niemann-Pick disease type C (NPC) patients and demonstrate a greatly reduced calcium release upon Sph uncaging. We conclude that sphingosine is a positive regulator of calcium release from acidic stores and that understanding the interplay between Sph homeostasis, calcium signaling and autophagy will be crucial in developing new therapies for lipid storage disorders such as NPC. DOI: http://dx.doi.org/10.7554/eLife.10616.001 PMID:26613410

General features of the retinal connectome determine the computation of motion anticipation

PubMed Central

Johnston, Jamie; Lagnado, Leon

2015-01-01

Motion anticipation allows the visual system to compensate for the slow speed of phototransduction so that a moving object can be accurately located. This correction is already present in the signal that ganglion cells send from the retina but the biophysical mechanisms underlying this computation are not known. Here we demonstrate that motion anticipation is computed autonomously within the dendritic tree of each ganglion cell and relies on feedforward inhibition. The passive and non-linear interaction of excitatory and inhibitory synapses enables the somatic voltage to encode the actual position of a moving object instead of its delayed representation. General rather than specific features of the retinal connectome govern this computation: an excess of inhibitory inputs over excitatory, with both being randomly distributed, allows tracking of all directions of motion, while the average distance between inputs determines the object velocities that can be compensated for. DOI: http://dx.doi.org/10.7554/eLife.06250.001 PMID:25786068

A bend, flip and trap mechanism for transposon integration

PubMed Central

Morris, Elizabeth R; Grey, Heather; McKenzie, Grant; Jones, Anita C; Richardson, Julia M

2016-01-01

Cut-and-paste DNA transposons of the mariner/Tc1 family are useful tools for genome engineering and are inserted specifically at TA target sites. A crystal structure of the mariner transposase Mos1 (derived from Drosophila mauritiana), in complex with transposon ends covalently joined to target DNA, portrays the transposition machinery after DNA integration. It reveals severe distortion of target DNA and flipping of the target adenines into extra-helical positions. Fluorescence experiments confirm dynamic base flipping in solution. Transposase residues W159, R186, F187 and K190 stabilise the target DNA distortions and are required for efficient transposon integration and transposition in vitro. Transposase recognises the flipped target adenines via base-specific interactions with backbone atoms, offering a molecular basis for TA target sequence selection. Our results will provide a template for re-designing mariner/Tc1 transposases with modified target specificities. DOI: http://dx.doi.org/10.7554/eLife.15537.001 PMID:27223327

Stapled Golgi cisternae remain in place as cargo passes through the stack

PubMed Central

Lavieu, Gregory; Zheng, Hong; Rothman, James E

2013-01-01

We have designed a membrane ‘staple’, which consists of membrane-anchored repeats of the trans-aggregating FM domain that face the lumen of the secretory pathway. In the presence of the disaggregating drug these proteins transit the secretory pathway. When the drug is removed these proteins form electron-dense plaques which we term staples. Unexpectedly, when initially positioned within the cis-Golgi, staples remained at the cis face of the Golgi even after many hours. By contrast, soluble FM-aggregates transited the Golgi. Staples and soluble aggregates placed in cis-Golgi cisternae therefore have different fates. Whereas the membrane staples are located in the flattened, stacked central regions of the cisternae, the soluble aggregates are in the dilated rims. This suggests that while the cisternae are static on the time scale of protein traffic, the dilated rims are mobile and progress in the cis → trans direction via a mechanism that we term ‘Rim Progression’. DOI: http://dx.doi.org/10.7554/eLife.00558.001 PMID:23755362

A molecular mechanism of mitotic centrosome assembly in Drosophila

PubMed Central

Conduit, Paul T; Richens, Jennifer H; Wainman, Alan; Holder, James; Vicente, Catarina C; Pratt, Metta B; Dix, Carly I; Novak, Zsofia A; Dobbie, Ian M; Schermelleh, Lothar; Raff, Jordan W

2014-01-01

Centrosomes comprise a pair of centrioles surrounded by pericentriolar material (PCM). The PCM expands dramatically as cells enter mitosis, but it is unclear how this occurs. In this study, we show that the centriole protein Asl initiates the recruitment of DSpd-2 and Cnn to mother centrioles; both proteins then assemble into co-dependent scaffold-like structures that spread outwards from the mother centriole and recruit most, if not all, other PCM components. In the absence of either DSpd-2 or Cnn, mitotic PCM assembly is diminished; in the absence of both proteins, it appears to be abolished. We show that DSpd-2 helps incorporate Cnn into the PCM and that Cnn then helps maintain DSpd-2 within the PCM, creating a positive feedback loop that promotes robust PCM expansion around the mother centriole during mitosis. These observations suggest a surprisingly simple mechanism of mitotic PCM assembly in flies. DOI: http://dx.doi.org/10.7554/eLife.03399.001 PMID:25149451

Probing the functional impact of sub-retinal prosthesis

PubMed Central

Roux, Sébastien; Matonti, Frédéric; Dupont, Florent; Hoffart, Louis; Takerkart, Sylvain; Picaud, Serge; Pham, Pascale; Chavane, Frédéric

2016-01-01

Retinal prostheses are promising tools for recovering visual functions in blind patients but, unfortunately, with still poor gains in visual acuity. Improving their resolution is thus a key challenge that warrants understanding its origin through appropriate animal models. Here, we provide a systematic comparison between visual and prosthetic activations of the rat primary visual cortex (V1). We established a precise V1 mapping as a functional benchmark to demonstrate that sub-retinal implants activate V1 at the appropriate position, scalable to a wide range of visual luminance, but with an aspect-ratio and an extent much larger than expected. Such distorted activation profile can be accounted for by the existence of two sources of diffusion, passive diffusion and activation of ganglion cells’ axons en passant. Reverse-engineered electrical pulses based on impedance spectroscopy is the only solution we tested that decreases the extent and aspect-ratio, providing a promising solution for clinical applications. DOI: http://dx.doi.org/10.7554/eLife.12687.001 PMID:27549126

Publication bias and the canonization of false facts

PubMed Central

Nissen, Silas Boye; Magidson, Tali; Gross, Kevin; Bergstrom, Carl T

2016-01-01

Science is facing a “replication crisis” in which many experimental findings cannot be replicated and are likely to be false. Does this imply that many scientific facts are false as well? To find out, we explore the process by which a claim becomes fact. We model the community’s confidence in a claim as a Markov process with successive published results shifting the degree of belief. Publication bias in favor of positive findings influences the distribution of published results. We find that unless a sufficient fraction of negative results are published, false claims frequently can become canonized as fact. Data-dredging, p-hacking, and similar behaviors exacerbate the problem. Should negative results become easier to publish as a claim approaches acceptance as a fact, however, true and false claims would be more readily distinguished. To the degree that the model reflects the real world, there may be serious concerns about the validity of purported facts in some disciplines. DOI: http://dx.doi.org/10.7554/eLife.21451.001 PMID:27995896

Activity patterns of serotonin neurons underlying cognitive flexibility

PubMed Central

Matias, Sara; Lottem, Eran; Dugué, Guillaume P; Mainen, Zachary F

2017-01-01

Serotonin is implicated in mood and affective disorders. However, growing evidence suggests that a core endogenous role is to promote flexible adaptation to changes in the causal structure of the environment, through behavioral inhibition and enhanced plasticity. We used long-term photometric recordings in mice to study a population of dorsal raphe serotonin neurons, whose activity we could link to normal reversal learning using pharmacogenetics. We found that these neurons are activated by both positive and negative prediction errors, and thus report signals similar to those proposed to promote learning in conditions of uncertainty. Furthermore, by comparing the cue responses of serotonin and dopamine neurons, we found differences in learning rates that could explain the importance of serotonin in inhibiting perseverative responding. Our findings show how the activity patterns of serotonin neurons support a role in cognitive flexibility, and suggest a revised model of dopamine–serotonin opponency with potential clinical implications. DOI: http://dx.doi.org/10.7554/eLife.20552.001 PMID:28322190

Dopamine neurons learn relative chosen value from probabilistic rewards

PubMed Central

Lak, Armin; Stauffer, William R; Schultz, Wolfram

2016-01-01

Economic theories posit reward probability as one of the factors defining reward value. Individuals learn the value of cues that predict probabilistic rewards from experienced reward frequencies. Building on the notion that responses of dopamine neurons increase with reward probability and expected value, we asked how dopamine neurons in monkeys acquire this value signal that may represent an economic decision variable. We found in a Pavlovian learning task that reward probability-dependent value signals arose from experienced reward frequencies. We then assessed neuronal response acquisition during choices among probabilistic rewards. Here, dopamine responses became sensitive to the value of both chosen and unchosen options. Both experiments showed also the novelty responses of dopamine neurones that decreased as learning advanced. These results show that dopamine neurons acquire predictive value signals from the frequency of experienced rewards. This flexible and fast signal reflects a specific decision variable and could update neuronal decision mechanisms. DOI: http://dx.doi.org/10.7554/eLife.18044.001 PMID:27787196

Paracrine communication maximizes cellular response fidelity in wound signaling

PubMed Central

Handly, L Naomi; Pilko, Anna; Wollman, Roy

2015-01-01

Population averaging due to paracrine communication can arbitrarily reduce cellular response variability. Yet, variability is ubiquitously observed, suggesting limits to paracrine averaging. It remains unclear whether and how biological systems may be affected by such limits of paracrine signaling. To address this question, we quantify the signal and noise of Ca2+ and ERK spatial gradients in response to an in vitro wound within a novel microfluidics-based device. We find that while paracrine communication reduces gradient noise, it also reduces the gradient magnitude. Accordingly we predict the existence of a maximum gradient signal to noise ratio. Direct in vitro measurement of paracrine communication verifies these predictions and reveals that cells utilize optimal levels of paracrine signaling to maximize the accuracy of gradient-based positional information. Our results demonstrate the limits of population averaging and show the inherent tradeoff in utilizing paracrine communication to regulate cellular response fidelity. DOI: http://dx.doi.org/10.7554/eLife.09652.001 PMID:26448485

Sex-specific processing of social cues in the medial amygdala

PubMed Central

Bergan, Joseph F; Ben-Shaul, Yoram; Dulac, Catherine

2014-01-01

Animal–animal recognition within, and across species, is essential for predator avoidance and social interactions. Despite its essential role in orchestrating responses to animal cues, basic principles of information processing by the vomeronasal system are still unknown. The medial amygdala (MeA) occupies a central position in the vomeronasal pathway, upstream of hypothalamic centers dedicated to defensive and social responses. We have characterized sensory responses in the mouse MeA and uncovered emergent properties that shed new light onto the transformation of vomeronasal information into sex- and species-specific responses. In particular, we show that the MeA displays a degree of stimulus selectivity and a striking sexually dimorphic sensory representation that are not observed in the upstream relay of the accessory olfactory bulb (AOB). Furthermore, our results demonstrate that the development of sexually dimorphic circuits in the MeA requires steroid signaling near the time of puberty to organize the functional representation of sensory stimuli. DOI: http://dx.doi.org/10.7554/eLife.02743.001 PMID:24894465

Optocontrol of glutamate receptor activity by single side-chain photoisomerization

PubMed Central

Klippenstein, Viktoria; Hoppmann, Christian; Ye, Shixin; Wang, Lei; Paoletti, Pierre

2017-01-01

Engineering light-sensitivity into proteins has wide ranging applications in molecular studies and neuroscience. Commonly used tethered photoswitchable ligands, however, require solvent-accessible protein labeling, face structural constrains, and are bulky. Here, we designed a set of optocontrollable NMDA receptors by directly incorporating single photoswitchable amino acids (PSAAs) providing genetic encodability, reversibility, and site tolerance. We identified several positions within the multi-domain receptor endowing robust photomodulation. PSAA photoisomerization at the GluN1 clamshell hinge is sufficient to control glycine sensitivity and activation efficacy. Strikingly, in the pore domain, flipping of a M3 residue within a conserved transmembrane cavity impacts both gating and permeation properties. Our study demonstrates the first detection of molecular rearrangements in real-time due to the reversible light-switching of single amino acid side-chains, adding a dynamic dimension to protein site-directed mutagenesis. This novel approach to interrogate neuronal protein function has general applicability in the fast expanding field of optopharmacology. DOI: http://dx.doi.org/10.7554/eLife.25808.001 PMID:28534738

Quantification of gait parameters in freely walking wild type and sensory deprived Drosophila melanogaster

PubMed Central

Mendes, César S; Bartos, Imre; Akay, Turgay; Márka, Szabolcs; Mann, Richard S

2013-01-01

Coordinated walking in vertebrates and multi-legged invertebrates such as Drosophila melanogaster requires a complex neural network coupled to sensory feedback. An understanding of this network will benefit from systems such as Drosophila that have the ability to genetically manipulate neural activities. However, the fly's small size makes it challenging to analyze walking in this system. In order to overcome this limitation, we developed an optical method coupled with high-speed imaging that allows the tracking and quantification of gait parameters in freely walking flies with high temporal and spatial resolution. Using this method, we present a comprehensive description of many locomotion parameters, such as gait, tarsal positioning, and intersegmental and left-right coordination for wild type fruit flies. Surprisingly, we find that inactivation of sensory neurons in the fly's legs, to block proprioceptive feedback, led to deficient step precision, but interleg coordination and the ability to execute a tripod gait were unaffected. DOI: http://dx.doi.org/10.7554/eLife.00231.001 PMID:23326642

Live imaging reveals the progenitors and cell dynamics of limb regeneration

PubMed Central

Alwes, Frederike; Enjolras, Camille; Averof, Michalis

2016-01-01

Regeneration is a complex and dynamic process, mobilizing diverse cell types and remodelling tissues over long time periods. Tracking cell fate and behaviour during regeneration in active adult animals is especially challenging. Here, we establish continuous live imaging of leg regeneration at single-cell resolution in the crustacean Parhyale hawaiensis. By live recordings encompassing the first 4-5 days after amputation, we capture the cellular events that contribute to wound closure and morphogenesis of regenerating legs with unprecedented resolution and temporal detail. Using these recordings we are able to track cell lineages, to generate fate maps of the blastema and to identify the progenitors of regenerated epidermis. We find that there are no specialized stem cells for the epidermis. Most epidermal cells in the distal part of the leg stump proliferate, acquire new positional values and contribute to new segments in the regenerating leg. DOI: http://dx.doi.org/10.7554/eLife.19766.001 PMID:27776632

Nucleosomes influence multiple steps during replication initiation

PubMed Central

Azmi, Ishara F; Watanabe, Shinya; Maloney, Michael F; Kang, Sukhyun; Belsky, Jason A; MacAlpine, David M; Peterson, Craig L; Bell, Stephen P

2017-01-01

Eukaryotic replication origin licensing, activation and timing are influenced by chromatin but a mechanistic understanding is lacking. Using reconstituted nucleosomal DNA replication assays, we assessed the impact of nucleosomes on replication initiation. To generate distinct nucleosomal landscapes, different chromatin-remodeling enzymes (CREs) were used to remodel nucleosomes on origin-DNA templates. Nucleosomal organization influenced two steps of replication initiation: origin licensing and helicase activation. Origin licensing assays showed that local nucleosome positioning enhanced origin specificity and modulated helicase loading by influencing ORC DNA binding. Interestingly, SWI/SNF- and RSC-remodeled nucleosomes were permissive for origin licensing but showed reduced helicase activation. Specific CREs rescued replication of these templates if added prior to helicase activation, indicating a permissive chromatin state must be established during origin licensing to allow efficient origin activation. Our studies show nucleosomes directly modulate origin licensing and activation through distinct mechanisms and provide insights into the regulation of replication initiation by chromatin. DOI: http://dx.doi.org/10.7554/eLife.22512.001 PMID:28322723

A nap to recap or how reward regulates hippocampal-prefrontal memory networks during daytime sleep in humans

PubMed Central

Igloi, Kinga; Gaggioni, Giulia; Sterpenich, Virginie; Schwartz, Sophie

2015-01-01

Sleep plays a crucial role in the consolidation of newly acquired memories. Yet, how our brain selects the noteworthy information that will be consolidated during sleep remains largely unknown. Here we show that post-learning sleep favors the selectivity of long-term consolidation: when tested three months after initial encoding, the most important (i.e., rewarded, strongly encoded) memories are better retained, and also remembered with higher subjective confidence. Our brain imaging data reveals that the functional interplay between dopaminergic reward regions, the prefrontal cortex and the hippocampus contributes to the integration of rewarded associative memories. We further show that sleep spindles strengthen memory representations based on reward values, suggesting a privileged replay of information yielding positive outcomes. These findings demonstrate that post-learning sleep determines the neural fate of motivationally-relevant memories and promotes a value-based stratification of long-term memory stores. DOI: http://dx.doi.org/10.7554/eLife.07903.001 PMID:26473618

Molecular insights into the origin of the Hox-TALE patterning system

PubMed Central

Hudry, Bruno; Thomas-Chollier, Morgane; Volovik, Yael; Duffraisse, Marilyne; Dard, Amélie; Frank, Dale; Technau, Ulrich; Merabet, Samir

2014-01-01

Despite tremendous body form diversity in nature, bilaterian animals share common sets of developmental genes that display conserved expression patterns in the embryo. Among them are the Hox genes, which define different identities along the anterior–posterior axis. Hox proteins exert their function by interaction with TALE transcription factors. Hox and TALE members are also present in some but not all non-bilaterian phyla, raising the question of how Hox–TALE interactions evolved to provide positional information. By using proteins from unicellular and multicellular lineages, we showed that these networks emerged from an ancestral generic motif present in Hox and other related protein families. Interestingly, Hox-TALE networks experienced additional and extensive molecular innovations that were likely crucial for differentiating Hox functions along body plans. Together our results highlight how homeobox gene families evolved during eukaryote evolution to eventually constitute a major patterning system in Eumetazoans. DOI: http://dx.doi.org/10.7554/eLife.01939.001 PMID:24642410

Molecular insights into the origin of the Hox-TALE patterning system.

PubMed

Hudry, Bruno; Thomas-Chollier, Morgane; Volovik, Yael; Duffraisse, Marilyne; Dard, Amélie; Frank, Dale; Technau, Ulrich; Merabet, Samir

2014-03-18

Despite tremendous body form diversity in nature, bilaterian animals share common sets of developmental genes that display conserved expression patterns in the embryo. Among them are the Hox genes, which define different identities along the anterior-posterior axis. Hox proteins exert their function by interaction with TALE transcription factors. Hox and TALE members are also present in some but not all non-bilaterian phyla, raising the question of how Hox-TALE interactions evolved to provide positional information. By using proteins from unicellular and multicellular lineages, we showed that these networks emerged from an ancestral generic motif present in Hox and other related protein families. Interestingly, Hox-TALE networks experienced additional and extensive molecular innovations that were likely crucial for differentiating Hox functions along body plans. Together our results highlight how homeobox gene families evolved during eukaryote evolution to eventually constitute a major patterning system in Eumetazoans. DOI: http://dx.doi.org/10.7554/eLife.01939.001.

Filopodial dynamics and growth cone stabilization in Drosophila visual circuit development

PubMed Central

Özel, Mehmet Neset; Langen, Marion; Hassan, Bassem A; Hiesinger, P Robin

2015-01-01

Filopodial dynamics are thought to control growth cone guidance, but the types and roles of growth cone dynamics underlying neural circuit assembly in a living brain are largely unknown. To address this issue, we have developed long-term, continuous, fast and high-resolution imaging of growth cone dynamics from axon growth to synapse formation in cultured Drosophila brains. Using R7 photoreceptor neurons as a model we show that >90% of the growth cone filopodia exhibit fast, stochastic dynamics that persist despite ongoing stepwise layer formation. Correspondingly, R7 growth cones stabilize early and change their final position by passive dislocation. N-Cadherin controls both fast filopodial dynamics and growth cone stabilization. Surprisingly, loss of N-Cadherin causes no primary targeting defects, but destabilizes R7 growth cones to jump between correct and incorrect layers. Hence, growth cone dynamics can influence wiring specificity without a direct role in target recognition and implement simple rules during circuit assembly. DOI: http://dx.doi.org/10.7554/eLife.10721.001 PMID:26512889

An internal thioester in a pathogen surface protein mediates covalent host binding

PubMed Central

Walden, Miriam; Edwards, John M; Dziewulska, Aleksandra M; Bergmann, Rene; Saalbach, Gerhard; Kan, Su-Yin; Miller, Ona K; Weckener, Miriam; Jackson, Rosemary J; Shirran, Sally L; Botting, Catherine H; Florence, Gordon J; Rohde, Manfred; Banfield, Mark J; Schwarz-Linek, Ulrich

2015-01-01

To cause disease and persist in a host, pathogenic and commensal microbes must adhere to tissues. Colonization and infection depend on specific molecular interactions at the host-microbe interface that involve microbial surface proteins, or adhesins. To date, adhesins are only known to bind to host receptors non-covalently. Here we show that the streptococcal surface protein SfbI mediates covalent interaction with the host protein fibrinogen using an unusual internal thioester bond as a ‘chemical harpoon’. This cross-linking reaction allows bacterial attachment to fibrin and SfbI binding to human cells in a model of inflammation. Thioester-containing domains are unexpectedly prevalent in Gram-positive bacteria, including many clinically relevant pathogens. Our findings support bacterial-encoded covalent binding as a new molecular principle in host-microbe interactions. This represents an as yet unexploited target to treat bacterial infection and may also offer novel opportunities for engineering beneficial interactions. DOI: http://dx.doi.org/10.7554/eLife.06638.001 PMID:26032562

Circular RNA biogenesis can proceed through an exon-containing lariat precursor

PubMed Central

Barrett, Steven P; Wang, Peter L; Salzman, Julia

2015-01-01

Pervasive expression of circular RNA is a recently discovered feature of eukaryotic gene expression programs, yet its function remains largely unknown. The presumed biogenesis of these RNAs involves a non-canonical ‘backsplicing’ event. Recent studies in mammalian cell culture posit that backsplicing is facilitated by inverted repeats flanking the circularized exon(s). Although such sequence elements are common in mammals, they are rare in lower eukaryotes, making current models insufficient to describe circularization. Through systematic splice site mutagenesis and the identification of splicing intermediates, we show that circular RNA in Schizosaccharomyces pombe is generated through an exon-containing lariat precursor. Furthermore, we have performed high-throughput and comprehensive mutagenesis of a circle-forming exon, which enabled us to discover a systematic effect of exon length on RNA circularization. Our results uncover a mechanism for circular RNA biogenesis that may account for circularization in genes that lack noticeable flanking intronic secondary structure. DOI: http://dx.doi.org/10.7554/eLife.07540.001 PMID:26057830

The quantitative architecture of centromeric chromatin

PubMed Central

Bodor, Dani L; Mata, João F; Sergeev, Mikhail; David, Ana Filipa; Salimian, Kevan J; Panchenko, Tanya; Cleveland, Don W; Black, Ben E; Shah, Jagesh V; Jansen, Lars ET

2014-01-01

The centromere, responsible for chromosome segregation during mitosis, is epigenetically defined by CENP-A containing chromatin. The amount of centromeric CENP-A has direct implications for both the architecture and epigenetic inheritance of centromeres. Using complementary strategies, we determined that typical human centromeres contain ∼400 molecules of CENP-A, which is controlled by a mass-action mechanism. This number, despite representing only ∼4% of all centromeric nucleosomes, forms a ∼50-fold enrichment to the overall genome. In addition, although pre-assembled CENP-A is randomly segregated during cell division, this amount of CENP-A is sufficient to prevent stochastic loss of centromere function and identity. Finally, we produced a statistical map of CENP-A occupancy at a human neocentromere and identified nucleosome positions that feature CENP-A in a majority of cells. In summary, we present a quantitative view of the centromere that provides a mechanistic framework for both robust epigenetic inheritance of centromeres and the paucity of neocentromere formation. DOI: http://dx.doi.org/10.7554/eLife.02137.001 PMID:25027692

A structure-based extracellular matrix expansion mechanism of fibrous tissue growth

PubMed Central

Kalson, Nicholas S; Lu, Yinhui; Taylor, Susan H; Starborg, Tobias; Holmes, David F; Kadler, Karl E

2015-01-01

Embryonic growth occurs predominately by an increase in cell number; little is known about growth mechanisms later in development when fibrous tissues account for the bulk of adult vertebrate mass. We present a model for fibrous tissue growth based on 3D-electron microscopy of mouse tendon. We show that the number of collagen fibrils increases during embryonic development and then remains constant during postnatal growth. Embryonic growth was explained predominately by increases in fibril number and length. Postnatal growth arose predominately from increases in fibril length and diameter. A helical crimp structure was established in embryogenesis, and persisted postnatally. The data support a model where the shape and size of tendon is determined by the number and position of embryonic fibroblasts. The collagen fibrils that these cells synthesise provide a template for postnatal growth by structure-based matrix expansion. The model has important implications for growth of other fibrous tissues and fibrosis. DOI: http://dx.doi.org/10.7554/eLife.05958.001 PMID:25992598

Sexual selection gradients change over time in a simultaneous hermaphrodite

PubMed Central

Hoffer, Jeroen NA; Mariën, Janine; Ellers, Jacintha; Koene, Joris M

2017-01-01

Sexual selection is generally predicted to act more strongly on males than on females. The Darwin-Bateman paradigm predicts that this should also hold for hermaphrodites. However, measuring this strength of selection is less straightforward when both sexual functions are performed throughout the organism’s lifetime. Besides, quantifications of sexual selection are usually done during a short time window, while many animals store sperm and are long-lived. To explore whether the chosen time frame affects estimated measures of sexual selection, we recorded mating success and reproductive success over time, using a simultaneous hermaphrodite. Our results show that male sexual selection gradients are consistently positive. However, an individual’s female mating success seems to negatively affect its own male reproductive success, an effect that only becomes visible several weeks into the experiment, highlighting that the time frame is crucial for the quantification and interpretation of sexual selection measures, an insight that applies to any iteroparous mating system. DOI: http://dx.doi.org/10.7554/eLife.25139.001 PMID:28613158

Functional mapping of yeast genomes by saturated transposition

PubMed Central

Michel, Agnès H; Hatakeyama, Riko; Kimmig, Philipp; Arter, Meret; Peter, Matthias; Matos, Joao; De Virgilio, Claudio; Kornmann, Benoît

2017-01-01

Yeast is a powerful model for systems genetics. We present a versatile, time- and labor-efficient method to functionally explore the Saccharomyces cerevisiae genome using saturated transposon mutagenesis coupled to high-throughput sequencing. SAturated Transposon Analysis in Yeast (SATAY) allows one-step mapping of all genetic loci in which transposons can insert without disrupting essential functions. SATAY is particularly suited to discover loci important for growth under various conditions. SATAY (1) reveals positive and negative genetic interactions in single and multiple mutant strains, (2) can identify drug targets, (3) detects not only essential genes, but also essential protein domains, (4) generates both null and other informative alleles. In a SATAY screen for rapamycin-resistant mutants, we identify Pib2 (PhosphoInositide-Binding 2) as a master regulator of TORC1. We describe two antagonistic TORC1-activating and -inhibiting activities located on opposite ends of Pib2. Thus, SATAY allows to easily explore the yeast genome at unprecedented resolution and throughput. DOI: http://dx.doi.org/10.7554/eLife.23570.001 PMID:28481201

43 CFR 17.336 - Hearings, decisions, post-termination proceedings.

Code of Federal Regulations, 2010 CFR

2010-10-01

...-termination proceedings. Certain DOI procedural provisions applicable to title VI of the Civil Rights Act of 1964 apply to DOI's enforcement of these regulations. The procedural provisions of DOI's Title VI...

43 CFR 17.336 - Hearings, decisions, post-termination proceedings.

Code of Federal Regulations, 2011 CFR

2011-10-01

...-termination proceedings. Certain DOI procedural provisions applicable to title VI of the Civil Rights Act of 1964 apply to DOI's enforcement of these regulations. The procedural provisions of DOI's Title VI...

43 CFR 2.34 - Where can I get a copy of DOI's FOIA annual report?

Code of Federal Regulations, 2010 CFR

2010-10-01

... 43 Public Lands: Interior 1 2010-10-01 2010-10-01 false Where can I get a copy of DOI's FOIA... AND TESTIMONY; FREEDOM OF INFORMATION ACT FOIA Annual Report § 2.34 Where can I get a copy of DOI's FOIA annual report? Under 5 U.S.C. 552(e), DOI is required to prepare an annual report regarding its...

2 CFR 1401.401 - Whom in the DOI does a recipient who is an individual notify about a criminal drug conviction?

Code of Federal Regulations, 2011 CFR

2011-01-01

... 2 Grants and Agreements 1 2011-01-01 2011-01-01 false Whom in the DOI does a recipient who is an individual notify about a criminal drug conviction? 1401.401 Section 1401.401 Grants and Agreements Federal... Whom in the DOI does a recipient who is an individual notify about a criminal drug conviction? The DOI...

16 CFR 1211.9 - Additional entrapment protection requirements.

Code of Federal Regulations, 2010 CFR

2010-01-01

... is capable of being moved open from any position other than the last (closing) 2 inches (50.8 mm) of travel, and (2) The door is capable of being moved to the 2-inch point from any position between closed... distinguishable from the rest of the operator. It shall be capable of being adjusted to a height of 6 feet (1.8 m...

Developing Data Citations from Digital Object Identifier Metadata

NASA Technical Reports Server (NTRS)

James, Nathan; Wanchoo, Lalit

2015-01-01

NASA's Earth Science Data and Information System (ESDIS) Project has been processing information for the registration of Digital Object Identifiers (DOI) for the last five years of which an automated system has been in operation for the last two years. The ESDIS DOI registration system has registered over 2000 DOIs with over 1000 DOIs held in reserve until all required information has been collected. By working towards the goal of assigning DOIs to the 8000+ data collections under its management, ESDIS has taken the first step towards facilitating the use of data citations with those products. Jeanne Behnke, ESDIS Deputy Project Manager has reviewed and approved the poster.

A Model for Data Citation in Astronomical Research Using Digital Object Identifiers (DOIs)

NASA Astrophysics Data System (ADS)

Novacescu, Jenny; Peek, Joshua E. G.; Weissman, Sarah; Fleming, Scott W.; Levay, Karen; Fraser, Elizabeth

2018-05-01

Standardizing and incentivizing the use of digital object identifiers (DOIs) to aggregate and identify both data analyzed and data generated by a research project will advance the field of astronomy to match best practices in other research fields like geoscience and medicine. An increase in the use of DOIs will prepare the discipline for changing expectations among funding agencies and publishers, who increasingly expect accurate and thorough data citation to accompany scientific outputs. The use of DOIs ensures a robust, sustainable, and interoperable approach to data citation in which due credit is given to the researchers and institutions who produce and maintain the primary data. We describe in this work the advantages of DOIs for data citation and best practices for integrating a DOI service in an astronomical archive. We report on a pilot project carried out in collaboration with AAS journals. During the course of the 1.5-year long pilot, over 75% of submitting authors opted to use the integrated DOI service to clearly identify data analyzed during their research project when prompted at the time of paper submission.

Data always getting bigger -- A scalable DOI architecture for big and expanding scientific data

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

Prakash, Giri; Shrestha, Biva; Younkin, Katarina

The Atmospheric Radiation Measurement (ARM) Data Archive established a data citation strategy based on Digital Object Identifiers (DOIs) for the ARM datasets in order to facilitate citing continuous and diverse ARM datasets in articles and other papers. This strategy eases the tracking of data provided as supplements to articles and papers. Additionally, it allows future data users and the ARM Climate Research Facility to easily locate the exact data used in various articles. Traditionally, DOIs are assigned to individual digital objects (a report or a data table), but for ARM datasets, these DOIs are assigned to an ARM data product.more » This eliminates the need for creating DOIs for numerous components of the ARM data product, in turn making it easier for users to manage and cite the ARM data with fewer DOIs. In addition, the ARM data infrastructure team, with input from scientific users, developed a citation format and an online data citation generation tool for continuous data streams. As a result, this citation format includes DOIs along with additional details such as spatial and temporal information.« less

Data always getting bigger -- A scalable DOI architecture for big and expanding scientific data

DOE PAGES

Prakash, Giri; Shrestha, Biva; Younkin, Katarina; ...

2016-08-31

The Atmospheric Radiation Measurement (ARM) Data Archive established a data citation strategy based on Digital Object Identifiers (DOIs) for the ARM datasets in order to facilitate citing continuous and diverse ARM datasets in articles and other papers. This strategy eases the tracking of data provided as supplements to articles and papers. Additionally, it allows future data users and the ARM Climate Research Facility to easily locate the exact data used in various articles. Traditionally, DOIs are assigned to individual digital objects (a report or a data table), but for ARM datasets, these DOIs are assigned to an ARM data product.more » This eliminates the need for creating DOIs for numerous components of the ARM data product, in turn making it easier for users to manage and cite the ARM data with fewer DOIs. In addition, the ARM data infrastructure team, with input from scientific users, developed a citation format and an online data citation generation tool for continuous data streams. As a result, this citation format includes DOIs along with additional details such as spatial and temporal information.« less

2 CFR 1401.335 - Whom in the DOI does a recipient other than an individual notify about a criminal drug conviction?

Code of Federal Regulations, 2011 CFR

2011-01-01

... 2 Grants and Agreements 1 2011-01-01 2011-01-01 false Whom in the DOI does a recipient other than... Individuals § 1401.335 Whom in the DOI does a recipient other than an individual notify about a criminal drug conviction? The DOI is not designating a central location for the receipt of these reports. Therefore you...

Tectonic Storytelling with Open Source and Digital Object Identifiers - a case study about Plate Tectonics and the Geopark Bergstraße-Odenwald

NASA Astrophysics Data System (ADS)

Löwe, Peter; Barmuta, Jan; Klump, Jens; Neumann, Janna; Plank, Margret

2014-05-01

The communication of advances in research to the common public for both education and decision making is an important aspect of scientific work. An even more crucial task is to gain recognition within the scientific community, which is judged by impact factor and citation counts. Recently, the latter concepts have been extended from textual publications to include data and software publications. This paper presents a case study for science communication and data citation. For this, tectonic models, Free and Open Source Software (FOSS), best practices for data citation and a multimedia online-portal for scientific content are combined. This approach creates mutual benefits for the stakeholders: Target audiences receive information on the latest research results, while the use of Digital Object Identifiers (DOI) increases the recognition and citation of underlying scientific data. This creates favourable conditions for every researcher as DOI names ensure citeability and long term availability of scientific research. In the developed application, the FOSS tool for tectonic modelling GPlates is used to visualise and manipulate plate-tectonic reconstructions and associated data through geological time. These capabilities are augmented by the Science on a Halfsphere project (SoaH) with a robust and intuitive visualisation hardware environment. The tectonic models used for science communication are provided by the AGH University of Science and Technology. They focus on the Silurian to Early Carboniferous evolution of Central Europe (Bohemian Massif) and were interpreted for the area of the Geopark Bergstraße Odenwald based on the GPlates/SoaH hardware- and software stack. As scientific story-telling is volatile by nature, recordings are a natural means of preservation for further use, reference and analysis. For this, the upcoming portal for audiovisual media of the German National Library of Science and Technology TIB is expected to become a critical service infrastructure. It allows complex search queries, including metadata such as DOI and media fragment identifiers (MFI), thereby linking data citation and science communication.

JIRAM-Juno: Overview of Preliminary Results in the Study of Jupiter "Infrared-Bright" Areas

NASA Astrophysics Data System (ADS)

Grassi, Davide; Adriani, Alberto; Bolton, Scott J.

2017-04-01

The JIRAM instrument on board the Juno spacecraft includes a spectrometer channel that operates in the range 2-5 microns with a spectral resolution of about 15 nm. Data from this channel are particularly valuable in the study of bright IR regions, where the upper cloud decks are relatively thin and the thermal radiation emitted at pressures down to 3-5 bars can be measured by infrared remote-sensing instruments. Previous studies using NIMS-Galileo [1] and VIMS-Cassini [2] data, as well as a specific assessment for the JIRAM instrument [3], have demonstrated the possibility of constraining the water, ammonia and phosphine content using moderate-resolution spectra spanning the methane transparency window at 5 microns. While considerable efforts have been devoted to the study of brightest features - the so-called "Hot-Spots", located between the Equatorial zone and the North equatorial Belt - other prominent bright areas over the disk of Jupiter remain largely uninvestigated. This talk reviews preliminary results of the JIRAM observations acquired around the first Juno "perijove" (closest approach of Jupiter) after orbit insertion. In general terms, the retrieved contents of the gaseous species mentioned above agree with the global latitudinal trends presented in [3] and [4]. Nonetheless, in several instances, the spatial capabilities of JIRAM allow one to detect specific spatial trends, likely to be associated to dynamic regimes at regional scale. This work was supported by the Italian Space Agency through ASI-INAF contract I/010/10/0 and 2014-050-R.0. JIL acknowledges support from NASA through the Juno Project. GSO acknowledges support from NASA through funds that were distributed to the Jet Propulsion Laboratory, California Institute of Technology. [1] Irwin et al., 1998, doi:10.1029/98JE00948 [2] Giles et al., 2015, doi:10.1016/j.icarus.2015.05.030 [3] Grassi et al., 2010, doi:10.1016/j.pss.2010.05.003 [4] Giles et al., 2016, arXiv:1610.09073

Sensitivity booster for DOI-PET scanner by utilizing Compton scattering events between detector blocks

NASA Astrophysics Data System (ADS)

Yoshida, Eiji; Tashima, Hideaki; Yamaya, Taiga

2014-11-01

In a conventional PET scanner, coincidence events are measured with a limited energy window for detection of photoelectric events in order to reject Compton scatter events that occur in a patient, but Compton scatter events caused in detector crystals are also rejected. Scatter events within the patient causes scatter coincidences, but inter crystal scattering (ICS) events have useful information for determining an activity distribution. Some researchers have reported the feasibility of PET scanners based on a Compton camera for tracing ICS into the detector. However, these scanners require expensive semiconductor detectors for high-energy resolution. In the Anger-type block detector, single photons interacting with multiple detectors can be obtained for each interacting position and complete information can be gotten just as for photoelectric events in the single detector. ICS events in the single detector have been used to get coincidence, but single photons interacting with multiple detectors have not been used to get coincidence. In this work, we evaluated effect of sensitivity improvement using Compton kinetics in several types of DOI-PET scanners. The proposed method promises to improve the sensitivity using coincidence events of single photons interacting with multiple detectors, which are identified as the first interaction (FI). FI estimation accuracy can be improved to determine FI validity from the correlation between Compton scatter angles calculated on the coincidence line-of-response. We simulated an animal PET scanner consisting of 42 detectors. Each detector block consists of three types of scintillator crystals (LSO, GSO and GAGG). After the simulation, coincidence events are added as information for several depth-of-interaction (DOI) resolutions. From the simulation results, we concluded the proposed method promises to improve the sensitivity considerably when effective atomic number of a scintillator is low. Also, we showed that FI estimate accuracy is improved, as DOI resolution is high.

Science for Managing Riverine Ecosystems: Actions for the USGS Identified in the Workshop "Analysis of Flow and Habitat for Instream Aquatic Communities"

USGS Publications Warehouse

Bencala, Kenneth E.; Hamilton, David B.; Petersen, James H.

2006-01-01

Federal and state agencies need improved scientific analysis to support riverine ecosystem management. The ability of the USGS to integrate geologic, hydrologic, chemical, geographic, and biological data into new tools and models provides unparalleled opportunities to translate the best riverine science into useful approaches and usable information to address issues faced by river managers. In addition to this capability to provide integrated science, the USGS has a long history of providing long-term and nationwide information about natural resources. The USGS is now in a position to advance its ability to provide the scientific support for the management of riverine ecosystems. To address this need, the USGS held a listening session in Fort Collins, Colorado in April 2006. Goals of the workshop were to: 1) learn about the key resource issues facing DOI, other Federal, and state resource management agencies; 2) discuss new approaches and information needs for addressing these issues; and 3) outline a strategy for the USGS role in supporting riverine ecosystem management. Workshop discussions focused on key components of a USGS strategy: Communications, Synthesis, and Research. The workshop identified 3 priority actions the USGS can initiate now to advance its capabilities to support integrated science for resource managers in partner government agencies and non-governmental organizations: 1) Synthesize the existing science of riverine ecosystem processes to produce broadly applicable conceptual models, 2) Enhance selected ongoing instream flow projects with complementary interdisciplinary studies, and 3) Design a long-term, watershed-scale research program that will substantively reinvent riverine ecosystem science. In addition, topical discussion groups on hydrology, geomorphology, aquatic habitat and populations, and socio-economic analysis and negotiation identified eleven important complementary actions required to advance the state of the science and to develop the tools for supporting decisions on riverine ecosystem management. These eleven actions lie within the continuum of Communications, Synthesis, and Research.

FOXP2

PubMed Central

Nudel, Ron; Newbury, Dianne F

2013-01-01

The forkhead box P2 gene, designated FOXP2, is the first gene implicated in a speech and language disorder. Since its discovery, many studies have been carried out in an attempt to explain the mechanism by which it influences these characteristically human traits. This review presents the story of the discovery of the FOXP2 gene, including early studies of the phenotypic implications of a disruption in the gene. We then discuss recent investigations into the molecular function of the FOXP2 gene, including functional and gene expression studies. We conclude this review by presenting the fascinating results of recent studies of the FOXP2 ortholog in other species that are capable of vocal communication. WIREs Cogn Sci 2013, 4:547–560. doi: 10.1002/wcs.1247 PMID:24765219

Proceedings of the U.S. Geological Survey 2004 Mercury Workshop - Mercury research and its relation to Department of the Interior resource management

USGS Publications Warehouse

Colman, John A.

2007-01-01

IntroductionAs part of the Department of the Interior (DOI) program Science on the DOI Landscape Initiative, the U.S. Geological Survey (USGS), Eastern Region, held a workshop during August 17–18, 2004, in Reston, VA, on mercury in the environment as it relates to DOI resource management. DOI bureaus manage millions of acres of land and offshore resources subject to mercury deposition and to the effects of mercury on ecosystems and human health. The goals of the workshop were to (1) summarize information on mercury sources and cycling on DOI lands in the eastern United States, (2) learn the perspectives of the DOI bureaus regarding mercury on DOI lands, (3) provide information to DOI land managers about monitoring mercury and minimizing mercury accumulation in wildlife and humans, and (4) consider future directions for mercury monitoring and research on DOI lands. The workshop focused on mercury research as it relates to DOI resource-management issues primarily in the eastern part of the United States (east of the Mississippi River). Topics included the influence of ecosystem setting on mercury biogeochemical transformation, land- and air-management practices as they affect mercury in the environment, mercury source issues, and effects of mercury on humans and wildlife. Mercury research topics were addressed by 24 invited oral presentations and 30 contributed posters. The perspectives of the DOI bureaus and land managers were addressed through a panel of scientists from the DOI resource-management bureaus and a Chippewa Indian Tribe of Minnesota. Discussion at the conclusion of the workshop was directed toward goals and long-term strategies for mercury research that will benefit DOI resource management. The panel, presentations, and discussions were videotaped and are available at the following URL, along with the slides presented: http://www.usgs.gov/mercury/2004workshop/ Abstracts from the presentations and posters are included in this report, together with summaries of each presentation session. The abstracts in this volume that were written by U.S. Geological Survey authors were reviewed and approved for publication by the Survey. Abstracts submitted by researchers from academia and from state and other federal agencies are published as part of these proceedings, but do not necessarily reflect the Survey’s policies and views. The use of trade, product, or firm names is for descriptive purposes only and does not imply endorsement by the U.S. Government.

Ecological landscape elements: long-term monitoring in Great Britain, the Countryside Survey 1978-2007 and beyond

NASA Astrophysics Data System (ADS)

Wood, Claire M.; Bunce, Robert G. H.; Norton, Lisa R.; Maskell, Lindsay C.; Smart, Simon M.; Scott, W. Andrew; Henrys, Peter A.; Howard, David C.; Wright, Simon M.; Brown, Michael J.; Scott, Rod J.; Stuart, Rick C.; Watkins, John W.

2018-04-01

The Countryside Survey (CS) of Great Britain (GB) provides a unique and statistically robust series of datasets, consisting of an extensive set of repeated ecological measurements at a national scale, covering a time span of 29 years. CS was first undertaken in 1978 to provide a baseline for ecological and land use change monitoring in the rural environment of GB, following a stratified random design, based on 1 km squares. Originally, eight random 1 km squares were drawn from each of 32 environmental classes, thus comprising 256 sample squares in the 1978 survey. The number of these sites increased to 382 in 1984, 506 in 1990, 569 in 1998 and 591 in 2007. Detailed information regarding vegetation types and land use was mapped in all five surveys, allowing reporting by defined standard habitat classifications. Additionally, point and linear landscape features (such as trees and hedgerows) are available from all surveys after 1978. From these stratified, randomly located sample squares, information can be converted into national estimates, with associated error terms. Other data, relating to soils, freshwater and vegetation, were also sampled on analogous dates. However, the present paper describes only the surveys of landscape features and habitats. The resulting datasets provide a unique, comprehensive, quantitative ecological coverage of extent and change in these features in GB. Basic results are presented and their implications discussed. However, much opportunity for further analyses remains. Data from each of the survey years are available via the following DOIs: Landscape area data 1978: https://doi.org/10.5285/86c017ba-dc62-46f0-ad13-c862bf31740e, 1984: https://doi.org/10.5285/b656bb43-448d-4b2c-aade-7993aa243ea3, 1990: https://doi.org/10.5285/94f664e5-10f2-4655-bfe6-44d745f5dca7, 1998: https://doi.org/10.5285/1e050028-5c55-42f4-a0ea-c895d827b824, and 2007: https://doi.org/10.5285/bf189c57-61eb-4339-a7b3-d2e81fdde28d; Landscape linear feature data 1984: https://doi.org/10.5285/a3f5665c-94b2-4c46-909e-a98be97857e5, 1990: https://doi.org/10.5285/311daad4-bc8c-485a-bc8a-e0d054889219, 1998: https://doi.org/10.5285/8aaf6f8c-c245-46bb-8a2a-f0db012b2643 and 2007: https://doi.org/10.5285/e1d31245-4c0a-4dee-b36c-b23f1a697f88, Landscape point feature data 1984: https://doi.org/10.5285/124b872e-036e-4dd3-8316-476b5f42c16e, 1990: https://doi.org/10.5285/1481bc63-80d7-4d18-bcba-8804aa0a9e1b, 1998: https://doi.org/10.5285/ed10944f-40c8-4913-b3f5-13c8e844e153 and 2007: https://doi.org/10.5285/55dc5fd7-d3f7-4440-b8a7-7187f8b0550b.

Peierls Stress of Dislocations in Molecular Crystal Cyclotrimethylene Trinitramine

DTIC Science & Technology

2013-06-04

S0567740872007046. (20) Plimpton , S . J. Fast Parallel Algorithms for Short-Range Molecular Dynamics. J. Comput. Phys. 1995, 117, 1−19, DOI: 10.1006/jcph...and/or findings contained in this report are those of the author( s ) and should not contrued as an official Department of the Army position, policy or...UU 9. SPONSORING/MONITORING AGENCY NAME( S ) AND ADDRESS(ES) 6. AUTHORS 7. PERFORMING ORGANIZATION NAMES AND ADDRESSES U.S. Army Research Office

Quantum walks, deformed relativity and Hopf algebra symmetries.

PubMed

Bisio, Alessandro; D'Ariano, Giacomo Mauro; Perinotti, Paolo

2016-05-28

We show how the Weyl quantum walk derived from principles in D'Ariano & Perinotti (D'Ariano & Perinotti 2014Phys. Rev. A90, 062106. (doi:10.1103/PhysRevA.90.062106)), enjoying a nonlinear Lorentz symmetry of dynamics, allows one to introduce Hopf algebras for position and momentum of the emerging particle. We focus on two special models of Hopf algebras-the usual Poincaré and theκ-Poincaré algebras. © 2016 The Author(s).

How strange was the Strangelove Ocean? New insights from Boron Isotopes.

NASA Astrophysics Data System (ADS)

Henehan, M. J.; Ridgwell, A.; Thomas, E.; Zhang, S.; Planavsky, N.; Alegret, L.; Schmidt, D. N.; Rae, J. W. B.; Foster, G. L.; Huber, B. T.; Hull, P. M.

2016-12-01

The idea of the `Strangelove Ocean'1 has captured the imagination of palaeoceanographers (and the public) since it was posited to explain the collapse or reverse in surface-deep ocean δ13C gradients after the Cretaceous-Palaeogene (K-Pg) boundary1. It describes a post-extinction ocean where primary productivity was drastically reduced, eliminating the surface-to-deep carbon isotope gradient produced by the biological pump. Survival of benthic foraminifera across the K-Pg (suggesting a persistent supply of organic matter to the deep) is difficult to reconcile with this ideae.g. 2. Geochemical proxies also suggest that severe export productivity reductions were at most regional3. This mismatch between patterns in δ13C and other indicators has thus been interpreted as a signal of changing vital effects in post-extinction pelagic calcifiers, toward lighter δ13C e.g. 2. However, it may be that vital effects in earliest Palaeocene foraminiferal survivors can account for only part of the convergence in δ13C between surface and deep ocean.4 In addition, analysis of carbonate preservation after the K-Pg boundary indicates large-scale carbonate system/ocean pH shifts at this time5, which could have produced secular changes in carbon isotope signals. Here we present new paired benthic and planktic boron isotope measurements that allow us to examine surface to deep ocean pH gradients (which in today's ocean are driven largely by biological activity) across the K-Pg boundary interval and into the early Palaeocene. We then couple these to model simulations to untangle the carbon cycle drivers, both physical and biological, that could have caused these changes in ocean pH gradients. We discuss implications for our understanding of this important interval in Earth history, with reference to the mechanisms of Earth system recovery following mass extinction. References:1. Hsü, K. J. & McKenzie, J. A., 1985. AGU Geophysical Monograph Series 32. doi:10.1029/GM032p0487 2. Alegret, L., et al., 2012. PNAS 109, 728-732. doi:10.1073/pnas.1110601109 3. Hull, P.M. & Norris, R.D., 2011. Paleoceanography 26, PA3205. doi:10.1029/2010PA002082 4. Birch, H.S., et al., 2016. Geology 44, 287-290. doi:10.1130/G37581.1 5. Henehan et al., 2016. Phil. Trans. Roy. Soc. B. 371, 20150510. doi:10.1098/rstb.2015.0510

Migraines Are Correlated with Higher Levels of Nitrate-, Nitrite-, and Nitric Oxide-Reducing Oral Microbes in the American Gut Project Cohort

PubMed Central

Gonzalez, Antonio; Hyde, Embriette; Sangwan, Naseer; Gilbert, Jack A.; Viirre, Erik

2016-01-01

ABSTRACT Nitrates, such as cardiac therapeutics and food additives, are common headache triggers, with nitric oxide playing an important role. Facultative anaerobic bacteria in the oral cavity may contribute migraine-triggering levels of nitric oxide through the salivary nitrate-nitrite-nitric oxide pathway. Using high-throughput sequencing technologies, we detected observable and significantly higher abundances of nitrate, nitrite, and nitric oxide reductase genes in migraineurs versus nonmigraineurs in samples collected from the oral cavity and a slight but significant difference in fecal samples. IMPORTANCE Recent work has demonstrated a potentially symbiotic relationship between oral commensal bacteria and humans through the salivary nitrate-nitrite-nitric oxide pathway (C. Duncan et al., Nat Med 1:546–551, 1995, http://dx.doi.org/10.1038/nm0695-546). Oral nitrate-reducing bacteria contribute physiologically relevant levels of nitrite and nitric oxide to the human host that may have positive downstream effects on cardiovascular health (V. Kapil et al., Free Radic Biol Med 55:93–100, 2013, http://dx.doi.org/10.1016/j.freeradbiomed.2012.11.013). In the work presented here, we used 16S rRNA Illumina sequencing to determine whether a connection exists between oral nitrate-reducing bacteria, nitrates for cardiovascular disease, and migraines, which are a common side effect of nitrate medications (U. Thadani and T. Rodgers, Expert Opin Drug Saf 5:667–674, 2006, http://dx.doi.org/10.1517/14740338.5.5.667). PMID:27822557

Happiness and Satisfaction with Work Commute.

PubMed

Olsson, Lars E; Gärling, Tommy; Ettema, Dick; Friman, Margareta; Fujii, Satoshi

2013-03-01

Research suggests that for many people happiness is being able to make the routines of everyday life work, such that positive feelings dominate over negative feelings resulting from daily hassles. In line with this, a survey of work commuters in the three largest urban areas of Sweden show that satisfaction with the work commute contributes to overall happiness. It is also found that feelings during the commutes are predominantly positive or neutral. Possible explanatory factors include desirable physical exercise from walking and biking, as well as that short commutes provide a buffer between the work and private spheres. For longer work commutes, social and entertainment activities either increase positive affects or counteract stress and boredom. Satisfaction with being employed in a recession may also spill over to positive experiences of work commutes. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1007/s11205-012-0003-2) contains supplementary material, which is available to authorized users.

43 CFR 2.34 - Where can I get a copy of DOI's FOIA annual report?

Code of Federal Regulations, 2011 CFR

2011-10-01

... 43 Public Lands: Interior 1 2011-10-01 2011-10-01 false Where can I get a copy of DOI's FOIA annual report? 2.34 Section 2.34 Public Lands: Interior Office of the Secretary of the Interior RECORDS AND TESTIMONY; FREEDOM OF INFORMATION ACT FOIA Annual Report § 2.34 Where can I get a copy of DOI's FOIA annual report? Under 5 U.S.C. 552(e), DOI is...

Evolving a NASA Digital Object Identifiers System with Community Engagement

NASA Astrophysics Data System (ADS)

Wanchoo, L.; James, N.

2016-12-01

In 2010, NASA's Earth Science Data and Information System (ESDIS) Project began investigating the assignment of unique identifiers to its suite of data products being stewarded at data centers distributed across the country. This process led to the use of Digital Object Identifiers (DOIs) and the development of an automated system for the registration of these DOIs. Since that time, the ESDIS DOI registration system has evolved to be fully functional with over 3000 publicly accessible DOIs and over 1000 being held in reserve status until the information required for registration is obtained. The goal is to assign DOIs to the entire 7000+ data collections under ESDIS management via its network of discipline-oriented data centers. A key factor in the successful evolution of the DOI registration system has been the incorporation of community input. Over the last 3 years, ESDIS has solicited community input for making the DOI registration process more efficient through three focus groups under NASA's Earth Science Data System Working Group (ESDSWG). These groups were largely composed of DOI submitters and data curators from the 12 data centers serving user communities of various science disciplines. The suggestions from these groups were formulated into recommendations for ESDIS consideration and implementation. This poster will describe the process and the activities of each focus group, their recommendations, and how these recommendations were implemented.

Detection of Heater Generated Super Small Scale Striations Using GPS Signal Diagnostics

NASA Astrophysics Data System (ADS)

Najmi, A. C.; Milikh, G. M.; Chiang, K.; Psiaki, M.; Secan, J. A.; Bernhardt, P. A.; Briczinski, S. J.; Siefring, C. L.; Papadopoulos, K.

2013-12-01

Recent theoretical models predict that super small striations (SSS) of the electron density, on the order of ten centimeters, can be excited by HF waves with frequency close to multiples of the electron gyro frequency [Gurevich et al., 2006]. The first experimental verification of SSS was made at HAARP [Milikh et al., 2008]. We present results of HAARP experiments that include simultaneous observations of GPS carrier phase and SEE observations of ionospheric turbulence. These observations show that SSS excited by HF frequencies near the fourth harmonic of the gyro frequency scatter GPS signals, and in three out of six experiments indicate the presence of strong turbulence, similar to that observed in descending artificial ionized layer experiments [Pedersen et al., 2010]. This turbulence is capable of generating suprathermal electrons, and in one of the experiments, the presence of fast electrons was confirmed by the HAARP incoherent scattering radar. Estimates on the SSS shows that they correspond to 3-10% electron density depletions. Such irregularities affect UHF signals including GPS, and thus can be important in applications. Gurevich, A.V. and K.P. Zybin (2006), Phys. Lett. A, 358, 159. Milikh, G., et al. (2008), Geophys. Res. Let., 35, L22102, doi:10.1029/2008GL035527. Pedersen, T. et al. (2010), Geophys. Res. Let., 37, L02106, doi:10.1029/2009GL041895.

FormTracer. A mathematica tracing package using FORM

NASA Astrophysics Data System (ADS)

Cyrol, Anton K.; Mitter, Mario; Strodthoff, Nils

2017-10-01

We present FormTracer, a high-performance, general purpose, easy-to-use Mathematica tracing package which uses FORM. It supports arbitrary space and spinor dimensions as well as an arbitrary number of simple compact Lie groups. While keeping the usability of the Mathematica interface, it relies on the efficiency of FORM. An additional performance gain is achieved by a decomposition algorithm that avoids redundant traces in the product tensors spaces. FormTracer supports a wide range of syntaxes which endows it with a high flexibility. Mathematica notebooks that automatically install the package and guide the user through performing standard traces in space-time, spinor and gauge-group spaces are provided. Program Files doi:http://dx.doi.org/10.17632/7rd29h4p3m.1 Licensing provisions: GPLv3 Programming language: Mathematica and FORM Nature of problem: Efficiently compute traces of large expressions Solution method: The expression to be traced is decomposed into its subspaces by a recursive Mathematica expansion algorithm. The result is subsequently translated to a FORM script that takes the traces. After FORM is executed, the final result is either imported into Mathematica or exported as optimized C/C++/Fortran code. Unusual features: The outstanding features of FormTracer are the simple interface, the capability to efficiently handle an arbitrary number of Lie groups in addition to Dirac and Lorentz tensors, and a customizable input-syntax.

DoD Permanently Discontinues Procurement of Global Positioning System Selective Availability

DOT National Transportation Integrated Search

2007-09-18

The Department of Defense announced today that it intends to stop procuring Global Positioning System : (GPS) satellites with the capability to intentionally degrade the accuracy of civil signals. : This capability, known as Selective Availability (S...

Digital Object Identifiers for NASA's Earth Observing System Products

NASA Astrophysics Data System (ADS)

Moses, J. F.; James, N.

2012-12-01

The science community has long recognized the importance of citing data in published literature to encourage replication of experiments and verification of results. Authors that try to cite their data often find that publishers will not accept Internet addresses because they are viewed as transient references, frequently changed by the data provider after the paper is published. Digital Object Identifiers (DOIs) and the DOI® System were created to avoid this problem by providing a unique and persistent identifier scheme and an online resolution service. DOIs and the Internet service provided by the DOI System have emerged as the most acceptable scheme for publishers. NASA's Earth Science Data and Information System (ESDIS) Project, in cooperation with several Earth Observing System (EOS) instrument teams and data providers, has developed methods for assigning DOIs to EOS products. By assigning DOIs we are enabling authors and publishers to find it easier and more compelling to cite EOS data products. DOIs are unique alphanumeric strings that consist of a prefix and suffix. The prefix is assigned by a registration agency for the DOI System. The suffix must be unique, but is otherwise free to be constructed by the publisher, in this case NASA ESDIS Project. A strategy was needed for constructing DOI suffix names that corresponds to each EOS product. Since the onset of the DOI System, publishers have developed conventions to suit their own purposes. These range from random generation to complex, formally controlled vocabularies. An overarching ESDIS goal has been for the DOI names to be attractive for researchers to use in publication applications. Keeping them short and simple is paramount. When adding meaning to the string, it is also important that the name only refer to the data and not to the publisher, so that the DOI can be accepted as persistent even if the data is moved to a new publisher. Most users download EOS product files to their local facilities when they want to use the data for analysis or applications. By imbedding DOIs in the file metadata, users have access to the DOI value long after the product has left the source data center. This enables users to find documentation about the product in the future - long after it has left the contextual environment of the data provider. Existing HDF and netCDF metadata structures have been adapted to accommodate the addition of DOIs. In addition, associated EOSDIS core metadata will also contain a product specific attribute for DOIs. Advances in computer science and Internet brought about a host of data identification schemes designed to solve problems inherent in developing advanced provenance models. Lessons from trying to use early satellite observations in climate studies today point to the importance of providing links in data archives to documentation and publications about the data. Data system engineers link data records to standard product documentation prepared at the time of the mission and archive with the data, but will need to add links to the whole range of information needed to support future research and long-term climate studies. DOIs can serve this need if referenced by developers when preparing technical data and reports, as well as when publishing research results.

Determining the Depth of Injury in Bioengineered Tissue Models of Cornea and Conjunctiva for the Prediction of All Three Ocular GHS Categories

PubMed Central

Zorn-Kruppa, Michaela; Houdek, Pia; Wladykowski, Ewa; Engelke, Maria; Bartok, Melinda; Mewes, Karsten R.; Moll, Ingrid; Brandner, Johanna M.

2014-01-01

The depth of injury (DOI) is a mechanistic correlate to the ocular irritation response. Attempts to quantitatively determine the DOI in alternative tests have been limited to ex vivo animal eyes by fluorescent staining for biomarkers of cell death and viability in histological cross sections. It was the purpose of this study to assess whether DOI could also be measured by means of cell viability detected by the MTT assay using 3-dimensional (3D) reconstructed models of cornea and conjunctiva. The formazan-free area of metabolically inactive cells in the tissue after topical substance application is used as the visible correlate of the DOI. Areas of metabolically active or inactive cells are quantitatively analyzed on cryosection images with ImageJ software analysis tools. By incorporating the total tissue thickness, the relative MTT-DOI (rMTT-DOI) was calculated. Using the rMTT-DOI and human reconstructed cornea equivalents, we developed a prediction model based on suitable viability cut-off values. We tested 25 chemicals that cover the whole range of eye irritation potential based on the globally harmonized system of classification and labelling of chemicals (GHS). Principally, the MTT-DOI test method allows distinguishing between the cytotoxic effects of the different chemicals in accordance with all 3 GHS categories for eye irritation. Although the prediction model is slightly over-predictive with respect to non-irritants, it promises to be highly valuable to discriminate between severe irritants (Cat. 1), and mild to moderate irritants (Cat. 2). We also tested 3D conjunctiva models with the aim to specifically address conjunctiva-damaging substances. Using the MTT-DOI method in this model delivers comparable results as the cornea model, but does not add additional information. However, the MTT-DOI method using reconstructed cornea models already provided good predictability that was superior to the already existing established in vitro/ex vivo methods. PMID:25494045

A Data Model and Task Space for Data of Interest (DOI) Eye-Tracking Analyses.

PubMed

Jianu, Radu; Alam, Sayeed Safayet

2018-03-01

Eye-tracking data is traditionally analyzed by looking at where on a visual stimulus subjects fixate, or, to facilitate more advanced analyses, by using area-of-interests (AOI) defined onto visual stimuli. Recently, there is increasing interest in methods that capture what users are looking at rather than where they are looking. By instrumenting visualization code that transforms a data model into visual content, gaze coordinates reported by an eye-tracker can be mapped directly to granular data shown on the screen, producing temporal sequences of data objects that subjects viewed in an experiment. Such data collection, which is called gaze to object mapping (GTOM) or data-of-interest analysis (DOI), can be done reliably with limited overhead and can facilitate research workflows not previously possible. Our paper contributes to establishing a foundation of DOI analyses by defining a DOI data model and highlighting its differences to AOI data in structure and scale; by defining and exemplifying a space of DOI enabled tasks; by describing three concrete examples of DOI experimentation in three different domains; and by discussing immediate research challenges in creating a framework of visual support for DOI experimentation and analysis.

Tidal asymmetry in a funnel-shaped estuary with mixed semidiurnal tides

NASA Astrophysics Data System (ADS)

Gong, Wenping; Schuttelaars, Henk; Zhang, Heng

2016-05-01

Different types of tidal asymmetry (see review of de Swart and Zimmerman Annu Rev Fluid Mech 41: 203-229, 2009) are examined in this study. We distinguish three types of tidal asymmetry: duration and magnitude differences between flood and ebb tidal flow, duration difference between the rising and falling tides. For waterborne substance transport, the first two asymmetries are important while the last one is not. In this study, we take the Huangmaohai Estuary (HE), Pearl River Delta, China as an example to examine the spatio-temporal variations of the tidal asymmetry in a mixed semidiurnal tidal regime and to explain them by investigating the associated mechanisms. The methodology defining the tidal duration asymmetry and velocity skewness, proposed by Nidzieko (J Geophys Res 115: C08006. doi: 10.1029/2009JC005864 , 2010) and synthesized by Song et al. (J Geophys Res 116: C12007. doi: 10.1029/2011JC007270 , 2011), is utilized here and referred to as tidal duration asymmetry (TDA) and flow velocity asymmetry (FVA), respectively. The methodology is further used to quantify the flow duration asymmetry (FDA). A positive asymmetry means a shorter duration of low water slack for FDA, a shorter duration of the rising tide for TDA, and a flood dominance for FVA and vice versa. The Regional Ocean Modeling System (ROMS) model is used to provide relatively long-term water elevation and velocity data and to conduct diagnostic experiments. In the HE, the main tidal constituents are diurnal tides K 1, O 1 and semidiurnal tides M 2 and S 2. The interaction among the diurnal and semidiurnal tides generates a negative tidal asymmetry, while the interactions among semidiurnal tides and their overtides or compound tides result in a positive tidal asymmetry. The competition among the above interactions determines the FDA and TDA, whereas for the FVA, aside from the interaction among different tidal constituents, an extra component, the residual flow, plays an important role. The results show that the FDA exhibits a predominant tendency of shorter duration of low water slack, favoring the landward transport of fine sediment. The FVA demonstrates prevailing ebb dominance in the study period, favoring the seaward transport of coarse sediment. This ebb dominance is primarily induced by the interaction among the residual flow and the tidal constituents. The external TDA in the ocean experiences distinct cyclic variations with positive asymmetry when semidiurnal tides dominate and negative asymmetry during the periods when diurnal tides dominate. The funnel shape of the HE is advantageous for the development of positive tidal asymmetry as the semidiurnal tides are more amplified than the diurnal tides. The effect of river flow can enhance the ebb dominance, while the baroclinic effect is more complex. The existence of channel and shoals favors the development of residual pattern with seaward flow (ebb dominance) in the channel and landward flow (flood dominance) at the shoal when the tides are strong (semidiurnal tides dominate) and the residual pattern with landward flow (flood dominance) in the channel and seaward flow (ebb dominance) at the shoal when the baroclinic effect is dominant (diurnal tides dominate).

Depth-of-interaction estimates in pixelated scintillator sensors using Monte Carlo techniques

NASA Astrophysics Data System (ADS)

Sharma, Diksha; Sze, Christina; Bhandari, Harish; Nagarkar, Vivek; Badano, Aldo

2017-01-01

Image quality in thick scintillator detectors can be improved by minimizing parallax errors through depth-of-interaction (DOI) estimation. A novel sensor for low-energy single photon imaging having a thick, transparent, crystalline pixelated micro-columnar CsI:Tl scintillator structure has been described, with possible future application in small-animal single photon emission computed tomography (SPECT) imaging when using thicker structures under development. In order to understand the fundamental limits of this new structure, we introduce cartesianDETECT2, an open-source optical transport package that uses Monte Carlo methods to obtain estimates of DOI for improving spatial resolution of nuclear imaging applications. Optical photon paths are calculated as a function of varying simulation parameters such as columnar surface roughness, bulk, and top-surface absorption. We use scanning electron microscope images to estimate appropriate surface roughness coefficients. Simulation results are analyzed to model and establish patterns between DOI and photon scattering. The effect of varying starting locations of optical photons on the spatial response is studied. Bulk and top-surface absorption fractions were varied to investigate their effect on spatial response as a function of DOI. We investigated the accuracy of our DOI estimation model for a particular screen with various training and testing sets, and for all cases the percent error between the estimated and actual DOI over the majority of the detector thickness was ±5% with a maximum error of up to ±10% at deeper DOIs. In addition, we found that cartesianDETECT2 is computationally five times more efficient than MANTIS. Findings indicate that DOI estimates can be extracted from a double-Gaussian model of the detector response. We observed that our model predicts DOI in pixelated scintillator detectors reasonably well.

National Unmanned Aircraft Systems Project Office

USGS Publications Warehouse

Goplen, Susan E.; Sloan, Jeff L.

2015-01-01

The U.S. Geological Survey (USGS) National Unmanned Aircraft Systems (UAS) Project Office leads the implementation of UAS technology in the Department of the Interior (DOI). Our mission is to support the transition of UAS into DOI as a new cost-effective tool for collecting remote-sensing data to monitor environmental conditions, respond to natural hazards, recognize the consequences and benefits of land and climate change and conduct wildlife inventories. The USGS is teaming with all DOI agencies and academia as well as local, State, and Tribal governments with guidance from the Federal Aviation Administration and the DOI Office of Aviation Services (OAS) to lead the safe, efficient, costeffective and leading-edge adoption of UAS technology into the scientific research and operational activities of the DOI.

Settlement with the Department of the Interior (DOI) to Resolve Violations at Schools in Indian Country

EPA Pesticide Factsheets

Consent Agreement with the DOI, BIA and Bureau of Indian Education (BIE) on alleged violations at schools and public water systems owned, operated or the responsibility of DOI. Violations occurred under the CAA, CWA, SDWA, TSCA, ADHERA.

43 CFR 17.323 - Information collection requirements.

Code of Federal Regulations, 2010 CFR

2010-10-01

... of Doi Recipients § 17.323 Information collection requirements. Each recipient shall: (a) Keep records in a form and containing information which DOI determines may be necessary to ascertain whether the recipient is complying with the Act and these regulations. (b) Provide to DOI, upon request...

43 CFR 17.337 - Remedial action by recipients.

Code of Federal Regulations, 2010 CFR

2010-10-01

... Investigation, Conciliation, and Enforcement Procedures § 17.337 Remedial action by recipients. Where DOI finds... DOI may require to overcome the effects of the discrimination. If another recipient exercises control over the recipient that has discriminated, DOI may require both recipients to take remedial action. ...

43 CFR 17.333 - Investigation.

Code of Federal Regulations, 2010 CFR

2010-10-01

..., Conciliation, and Enforcement Procedures § 17.333 Investigation. (a) Informal investigation. (1) DOI will... mediation agreement. (2) As part of the initial investigation, DOI will use informal fact finding methods... possible, settle the complaint on terms that are mutually agreeable to the parties. DOI may seek the...

30 CFR 229.109 - Reimbursement for costs incurred by a State under the delegation of authority.

Code of Federal Regulations, 2010 CFR

2010-07-01

... authority. (a) The Department of the Interior (DOI) shall reimburse the State for 100 percent of the direct... maintain books and records in accordance with the standards established by the DOI and will provide the DOI...

30 CFR 1229.109 - Reimbursement for costs incurred by a State under the delegation of authority.

Code of Federal Regulations, 2011 CFR

2011-07-01

... under the delegation of authority. (a) The Department of the Interior (DOI) shall reimburse the State... DOI and will provide the DOI, on a quarterly basis, a summary of costs incurred for which the State is...

43 CFR 17.333 - Investigation.

Code of Federal Regulations, 2011 CFR

2011-10-01

..., Conciliation, and Enforcement Procedures § 17.333 Investigation. (a) Informal investigation. (1) DOI will... mediation agreement. (2) As part of the initial investigation, DOI will use informal fact finding methods... possible, settle the complaint on terms that are mutually agreeable to the parties. DOI may seek the...

43 CFR 17.323 - Information collection requirements.

Code of Federal Regulations, 2011 CFR

2011-10-01

... of Doi Recipients § 17.323 Information collection requirements. Each recipient shall: (a) Keep records in a form and containing information which DOI determines may be necessary to ascertain whether the recipient is complying with the Act and these regulations. (b) Provide to DOI, upon request...

43 CFR 17.337 - Remedial action by recipients.

Code of Federal Regulations, 2011 CFR

2011-10-01

... Investigation, Conciliation, and Enforcement Procedures § 17.337 Remedial action by recipients. Where DOI finds... DOI may require to overcome the effects of the discrimination. If another recipient exercises control over the recipient that has discriminated, DOI may require both recipients to take remedial action. ...

Biogeography of key mesozooplankton species in the North Atlantic, by manual counting methods, and egg production of Calanus finmarchicus

NASA Astrophysics Data System (ADS)

Melle, W.; Runge, J. A.; Head, E.; Plourde, S.; Castellani, C.; Licandro, P.; Pierson, J.; Jonasdottir, S. H.; Johnson, C.; Broms, C.; Debes, H.; Falkenhaug, T.; Gaard, E.; Gislason, A.; Heath, M. R.; Niehoff, B.; Nielsen, T. G.; Pepin, P.; Stenevik, E. K.; Chust, G.

2014-04-01

Here we present a new, pan-Atlantic compilation of data on key mesozooplankton species, including the possibly most important copepod, Calanus finmarchicus. Distributional data of ten representative zooplankton taxa, from recent (2000-2009) Continuous Plankton Recorder data, are presented, along with basin-scale data of the phytoplankton colour index. Then we present a compilation of data on C. finmarchicus including observations of abundance, demography, egg production and female size with accompanying data on temperature and chlorophyll. This is a contribution by Canadian, European and US scientists and their institutions. http://doi.pangaea.de/10.1594/PANGAEA.820732, http://doi.pangaea.de/10.1594/PANGAEA.824423, http://doi.pangaea.de/10.1594/PANGAEA.828393.

Towards a Global Hub and a Network for Collaborative Advancing of Space Weather Predictive Capabilities.

NASA Astrophysics Data System (ADS)

Kuznetsova, M. M.; Heynderickz, D.; Grande, M.; Opgenoorth, H. J.

2017-12-01

The COSPAR/ILWS roadmap on space weather published in 2015 (Advances in Space Research, 2015: DOI: 10.1016/j.asr.2015.03.023) prioritizes steps to be taken to advance understanding of space environment phenomena and to improve space weather forecasting capabilities. General recommendations include development of a comprehensive space environment specification, assessment of the state of the field on a 5-yr basis, standardization of meta-data and product metrics. To facilitate progress towards roadmap goals there is a need for a global hub for collaborative space weather capabilities assessment and development that brings together research, engineering, operational, educational, and end-user communities. The COSPAR Panel on Space Weather is aiming to build upon past progress and to facilitate coordination of established and new international space weather research and development initiatives. Keys to the success include creating flexible, collaborative, inclusive environment and engaging motivated groups and individuals committed to active participation in international multi-disciplinary teams focused on topics addressing emerging needs and challenges in the rapidly growing field of space weather. Near term focus includes comprehensive assessment of the state of the field and establishing an internationally recognized process to quantify and track progress over time, development of a global network of distributed web-based resources and interconnected interactive services required for space weather research, analysis, forecasting and education.

Characterizing SHP2 as a Novel Therapeutic Target in Breast Cancer

DTIC Science & Technology

2012-02-01

50(12), 2339-56. doi:10.1021/bi1014453 Zhang, X., He, Y., Liu, S., Yu, Z., Jiang, Z. X., Yang, Z., Dong, Y., et al. (2010). Salicylic Acid Based...Overall, what we have found so far has been surprising, with the data suggesting that the presence of a -2 acidic residue in the substrate peptide...helped to refine the initial docking poses, with the initial hypothesis being that the pY -1 and -4 position acidic amino acids will bind a pair of

30 CFR 250.1005 - Inspection requirements for DOI pipelines.

Code of Federal Regulations, 2010 CFR

2010-07-01

... 30 Mineral Resources 2 2010-07-01 2010-07-01 false Inspection requirements for DOI pipelines. 250.1005 Section 250.1005 Mineral Resources MINERALS MANAGEMENT SERVICE, DEPARTMENT OF THE INTERIOR...-Way § 250.1005 Inspection requirements for DOI pipelines. (a) Pipeline routes shall be inspected at...

43 CFR 17.330 - Compliance reviews.

Code of Federal Regulations, 2011 CFR

2011-10-01

..., Conciliation, and Enforcement Procedures § 17.330 Compliance reviews. (a) DOI may conduct compliance reviews... and correct violations of the Act and these regulations. DOI may conduct these reviews even in the... review indicates a violation of the Act or these regulations, DOI will attempt to secure voluntary...

David Mooney | NREL

Science.gov Websites

: Institute of Electrical and Electronics Engineers (IEEE). NREL/CP-5500-54165. doi:10.1109/EnergyTech 2011. Piscataway, NJ: Institute of Electrical and Electronics Engineers (IEEE). NREL/CP-5500-53565. doi Electrical and Electronics Engineers (IEEE). NREL/CP-550-47061. doi:10.1109/pes.2009.5275358 Mooney, D., M

43 CFR 17.335 - Compliance procedure.

Code of Federal Regulations, 2010 CFR

2010-10-01

..., Conciliation, and Enforcement Procedures § 17.335 Compliance procedure. (a) DOI may enforce the Act and these regulations through: (1) Termination of a recipient's Federal financial assistance from DOI under the program... correcting a violation of the Act or these regulations. (b) DOI will limit any termination under § 17.335(a...

41 CFR 102-75.665 - What happens after the disposal agency receives the assignment recommendation from DOI?

Code of Federal Regulations, 2010 CFR

2010-07-01

... disposal agency receives the assignment recommendation from DOI? 102-75.665 Section 102-75.665 Public Contracts and Property Management Federal Property Management Regulations System (Continued) FEDERAL... assignment recommendation from DOI? If, after considering other uses for the property, the disposal agency...

76 FR 77244 - Renewal of Information Collection; OMB Control Number 1040-0001, DOI Programmatic Clearance for...

Federal Register 2010, 2011, 2012, 2013, 2014

2011-12-12

... Number 1040-0001, DOI Programmatic Clearance for Customer Satisfaction Surveys AGENCY: Department of [email protected] . Reference ``DOI Programmatic Clearance for Customer Satisfaction Surveys'' in your email... public accountability by promoting a new focus on results, service quality, and customer satisfaction...

43 CFR 17.335 - Compliance procedure.

Code of Federal Regulations, 2011 CFR

2011-10-01

..., Conciliation, and Enforcement Procedures § 17.335 Compliance procedure. (a) DOI may enforce the Act and these regulations through: (1) Termination of a recipient's Federal financial assistance from DOI under the program... correcting a violation of the Act or these regulations. (b) DOI will limit any termination under § 17.335(a...

30 CFR 250.1001 - Definitions.

Code of Federal Regulations, 2011 CFR

2011-07-01

...-Way § 250.1001 Definitions. Terms used in this subpart shall have the meanings given below: DOI... connecting production facilities on the OCS; (4) Transporter-operated pipelines that DOI and DOT have agreed are to be regulated as DOI pipelines; and (5) All OCS pipelines not subject to regulation under 49 CFR...

30 CFR 250.1005 - Inspection requirements for DOI pipelines.

Code of Federal Regulations, 2011 CFR

2011-07-01

... 30 Mineral Resources 2 2011-07-01 2011-07-01 false Inspection requirements for DOI pipelines. 250.1005 Section 250.1005 Mineral Resources BUREAU OF OCEAN ENERGY MANAGEMENT, REGULATION, AND ENFORCEMENT... Pipelines and Pipeline Rights-of-Way § 250.1005 Inspection requirements for DOI pipelines. (a) Pipeline...

DOI Use of AVIRIS Data in Natural Resources Management: A Technology Transfer Project Status Report

NASA Technical Reports Server (NTRS)

Getter, James R.; Wickland, Diane

1998-01-01

A meeting was held in December 1996, attended by representatives from Department of the Interior (DOI) and National Aeronautical and Space Administration (NASA) at the request of Department of the Interior Secretary, Bruce Babbitt and NASA, Administrator Director Dan Goldin, to discuss the use of hyperspectral systems and related remote sensing technologies in addressing environmental issues of environmental importance to the (DOI). It was determined that NASA/DOI Coordination be established, comprised of representatives from each agency, designated to address the environmental issues and resulting technologies. A steering committee was formed consisting of representatives from NASA Headquarters, NASA PI's from University California-Davis, University of Colorado-Boulder, University of New Hampshire and DOI Bureaus (Indian Affairs, Land Management, Reclamation, National Park Service, and US Geological Survey).

U.S. Geological Survey Emerging Applications of Unmanned Aircraft Systems

NASA Astrophysics Data System (ADS)

Hutt, M. E.

2012-12-01

In anticipation of transforming the research methods and resource management techniques employed across the Department of the Interior, the U.S. Geological Survey (USGS) Unmanned Aircraft Systems (UAS) Project Office is conducting missions using small UAS- sUAS platforms (<20 lbs.). The USGS is dedicated to expanding the use of sUAS technology in support of scientific, resource and land management missions. UAS technology is currently being used by USGS and our partners to monitor environmental conditions, analyze the impacts of climate change, respond to natural hazards, understand landscape change rates and consequences, conduct wildlife inventories and support related land management and law enforcement missions. Our ultimate goal is to support informed decision making by creating the opportunity, via UAS technology, to gain access to an increased level of persistent monitoring of earth surface processes (forest health conditions, wildfires, earthquake zones, invasive species, etc.) in areas that have been logistically difficult, cost prohibitive or technically impossible to obtain consistent, reliable, timely information. USGS is teaming with the Department of the Interior Aviation Management Directorate to ensure the safe and cost effective adoption of UAS technology. While the USGS is concentrating on operating sUAS, the immense value of increased flight time and more robust sensor capabilities available on larger platforms cannot be ignored. We are partnering with several groups including the Department of Homeland Security, National Aeronautics and Space Administration, Department of Defense, and National Oceanic and Atmospheric Administration for access to data collected from their fleet of high altitude, long endurance (HALE) UAS. The HALE systems include state of the art sensors including Electro-Optical, Thermal Infrared and Synthetic Aperture Radar (SAR). The data being collected by High Altitude, Long Endurance (HALE) systems is can be routinely shared in near real time at several DOI- USGS locations. Analysis tools are becoming available that can produce a robust set of products including a geo-referenced base for value added investigations. Much like the use of global positioning systems, unmanned aircraft systems have the potential of enabling us to be better stewards of the land. We are actively working to develop applications of the traditional full motion video capabilities and are engaged in developing additional sensor capabilities for sUAS including- magnetometers, temperature, radio telemetry, chemical and biological gas detection, and gimbal mounted "photogrammetric" cameras.

A DOI Detector With Crystal Scatter Identification Capability for High Sensitivity and High Spatial Resolution PET Imaging.

PubMed

Gu, Z; Prout, D L; Silverman, R W; Herman, H; Dooraghi, A; Chatziioannou, A F

2015-06-01

A new phoswich detector is being developed at the Crump Institute, aiming to provide improvements in sensitivity, and spatial resolution for PET. The detector configuration is comprised of two layers of pixelated scintillator crystal arrays, a glass light guide and a light detector. The annihilation photon entrance (top) layer is a 48 × 48 array of 1.01 × 1.01 × 7 mm 3 LYSO crystals. The bottom layer is a 32 × 32 array of 1.55 × 1.55 × 9 mm 3 BGO crystals. A tapered, multiple-element glass lightguide is used to couple the exit end of the BGO crystal array (52 × 52 mm 2 ) to the photosensitive area of the Position Sensitive Photomultiplier Tube (46 × 46 mm 2 ), allowing the creation of flat panel detectors without gaps between the detector modules. Both simulations and measurements were performed to evaluate the characteristics and benefits of the proposed design. The GATE Monte Carlo simulation indicated that the total fraction of the cross layer crystal scatter (CLCS) events in singles detection mode for this detector geometry is 13.2%. The large majority of these CLCS events (10.1% out of 13.2%) deposit most of their energy in a scintillator layer other than the layer of first interaction. Identification of those CLCS events for rejection or correction may lead to improvements in data quality and imaging performance. Physical measurements with the prototype detector showed that the LYSO, BGO and CLCS events were successfully identified using the delayed charge integration (DCI) technique, with more than 95% of the LYSO and BGO crystal elements clearly resolved. The measured peak-to-valley ratios (PVR) in the flood histograms were 3.5 for LYSO and 2.0 for BGO. For LYSO, the energy resolution ranged from 9.7% to 37.0% full width at half maximum (FWHM), with a mean of 13.4 ± 4.8%. For BGO the energy resolution ranged from 16.0% to 33.9% FWHM, with a mean of 18.6 ± 3.2%. In conclusion, these results demonstrate that the proposed detector is feasible and can potentially lead to a high spatial resolution, high sensitivity and DOI PET system.

A DOI Detector With Crystal Scatter Identification Capability for High Sensitivity and High Spatial Resolution PET Imaging

PubMed Central

Gu, Z.; Prout, D. L.; Silverman, R. W.; Herman, H.; Dooraghi, A.; Chatziioannou, A. F.

2015-01-01

A new phoswich detector is being developed at the Crump Institute, aiming to provide improvements in sensitivity, and spatial resolution for PET. The detector configuration is comprised of two layers of pixelated scintillator crystal arrays, a glass light guide and a light detector. The annihilation photon entrance (top) layer is a 48 × 48 array of 1.01 × 1.01 × 7 mm3 LYSO crystals. The bottom layer is a 32 × 32 array of 1.55 × 1.55 × 9 mm3 BGO crystals. A tapered, multiple-element glass lightguide is used to couple the exit end of the BGO crystal array (52 × 52 mm2) to the photosensitive area of the Position Sensitive Photomultiplier Tube (46 × 46 mm2), allowing the creation of flat panel detectors without gaps between the detector modules. Both simulations and measurements were performed to evaluate the characteristics and benefits of the proposed design. The GATE Monte Carlo simulation indicated that the total fraction of the cross layer crystal scatter (CLCS) events in singles detection mode for this detector geometry is 13.2%. The large majority of these CLCS events (10.1% out of 13.2%) deposit most of their energy in a scintillator layer other than the layer of first interaction. Identification of those CLCS events for rejection or correction may lead to improvements in data quality and imaging performance. Physical measurements with the prototype detector showed that the LYSO, BGO and CLCS events were successfully identified using the delayed charge integration (DCI) technique, with more than 95% of the LYSO and BGO crystal elements clearly resolved. The measured peak-to-valley ratios (PVR) in the flood histograms were 3.5 for LYSO and 2.0 for BGO. For LYSO, the energy resolution ranged from 9.7% to 37.0% full width at half maximum (FWHM), with a mean of 13.4 ± 4.8%. For BGO the energy resolution ranged from 16.0% to 33.9% FWHM, with a mean of 18.6 ± 3.2%. In conclusion, these results demonstrate that the proposed detector is feasible and can potentially lead to a high spatial resolution, high sensitivity and DOI PET system. PMID:26478600

A DOI Detector With Crystal Scatter Identification Capability for High Sensitivity and High Spatial Resolution PET Imaging

NASA Astrophysics Data System (ADS)

Gu, Z.; Prout, D. L.; Silverman, R. W.; Herman, H.; Dooraghi, A.; Chatziioannou, A. F.

2015-06-01

A new phoswich detector is being developed at the Crump Institute, aiming to provide improvements in sensitivity, and spatial resolution for PET. The detector configuration is comprised of two layers of pixelated scintillator crystal arrays, a glass lightguide and a light detector. The annihilation photon entrance (top) layer is a 48×48 array of 1.01 × 1.01 × 7 mm3 LYSO crystals. The bottom layer is a 32 × 32 array of 1.55 × 1.55 × 9 mm3 BGO crystals. A tapered, multiple-element glass lightguide is used to couple the exit end of the BGO crystal array (52 × 52 mm2) to the photosensitive area of the Position Sensitive Photomultiplier Tube (46 × 46 mm2), allowing the creation of flat panel detectors without gaps between the detector modules. Both simulations and measurements were performed to evaluate the characteristics and benefits of the proposed design. The GATE Monte Carlo simulation indicated that the total fraction of the cross layer crystal scatter (CLCS) events in singles detection mode for this detector geometry is 13.2%. The large majority of these CLCS events (10.1% out of 13.2%) deposit most of their energy in a scintillator layer other than the layer of first interaction. Identification of those CLCS events for rejection or correction may lead to improvements in data quality and imaging performance. Physical measurements with the prototype detector showed that the LYSO, BGO and CLCS events were successfully identified using the delayed charge integration (DCI) technique, with more than 95% of the LYSO and BGO crystal elements clearly resolved. The measured peak-to-valley ratios (PVR) in the flood histograms were 3.5 for LYSO and 2.0 for BGO. For LYSO, the energy resolution ranged from 9.7% to 37.0% full width at half maximum (FWHM), with a mean of 13.4 ± 4.8%. For BGO the energy resolution ranged from 16.0% to 33.9% FWHM, with a mean of 18.6 ± 3.2%. In conclusion, these results demonstrate that the proposed detector is feasible and can potentially lead to a high spatial resolution, high sensitivity and DOI PET system.

Double quick, double click reversible peptide “stapling”† †Electronic supplementary information (ESI) available: Synthesis and characterization, additional biophysical and biochemical analyses. See DOI: 10.1039/c7sc01342f Click here for additional data file. Click here for additional data file. Click here for additional data file.

PubMed Central

Grison, Claire M.; Burslem, George M.; Miles, Jennifer A.; Pilsl, Ludwig K. A.; Yeo, David J.; Imani, Zeynab; Warriner, Stuart L.; Webb, Michael E.

2017-01-01

The development of constrained peptides for inhibition of protein–protein interactions is an emerging strategy in chemical biology and drug discovery. This manuscript introduces a versatile, rapid and reversible approach to constrain peptides in a bioactive helical conformation using BID and RNase S peptides as models. Dibromomaleimide is used to constrain BID and RNase S peptide sequence variants bearing cysteine (Cys) or homocysteine (hCys) amino acids spaced at i and i + 4 positions by double substitution. The constraint can be readily removed by displacement of the maleimide using excess thiol. This new constraining methodology results in enhanced α-helical conformation (BID and RNase S peptide) as demonstrated by circular dichroism and molecular dynamics simulations, resistance to proteolysis (BID) as demonstrated by trypsin proteolysis experiments and retained or enhanced potency of inhibition for Bcl-2 family protein–protein interactions (BID), or greater capability to restore the hydrolytic activity of the RNAse S protein (RNase S peptide). Finally, use of a dibromomaleimide functionalized with an alkyne permits further divergent functionalization through alkyne–azide cycloaddition chemistry on the constrained peptide with fluorescein, oligoethylene glycol or biotin groups to facilitate biophysical and cellular analyses. Hence this methodology may extend the scope and accessibility of peptide stapling. PMID:28970902

One-step synthesis of graphene nanoribbon-MnO2 hybrids and their all-solid-state asymmetric supercapacitors

NASA Astrophysics Data System (ADS)

Liu, Mingkai; Tjiu, Weng Weei; Pan, Jisheng; Zhang, Chao; Gao, Wei; Liu, Tianxi

2014-03-01

Three-dimensional (3D) hierarchical hybrid nanomaterials (GNR-MnO2) of graphene nanoribbons (GNR) and MnO2 nanoparticles have been prepared via a one-step method. GNR, with unique features such as high aspect ratio and plane integrity, has been obtained by longitudinal unzipping of multi-walled carbon nanotubes (CNTs). By tuning the amount of oxidant used, different mass loadings of MnO2 nanoparticles have been uniformly deposited on the surface of GNRs. Asymmetric supercapacitors have been fabricated with the GNR-MnO2 hybrid as the positive electrode and GNR sheets as the negative electrode. Due to the desirable porous structure, excellent electrical conductivity, as well as high rate capability and specific capacitances of both the GNR and GNR-MnO2 hybrid, the optimized GNR//GNR-MnO2 asymmetric supercapacitor can be cycled reversibly in an enlarged potential window of 0-2.0 V. In addition, the fabricated GNR//GNR-MnO2 asymmetric supercapacitor exhibits a significantly enhanced maximum energy density of 29.4 W h kg-1 (at a power density of 12.1 kW kg-1), compared with that of the symmetric cells based on GNR-MnO2 hybrids or GNR sheets. This greatly enhanced energy storage ability and high rate capability can be attributed to the homogeneous dispersion and excellent pseudocapacitive performance of MnO2 nanoparticles and the high electrical conductivity of the GNRs.Three-dimensional (3D) hierarchical hybrid nanomaterials (GNR-MnO2) of graphene nanoribbons (GNR) and MnO2 nanoparticles have been prepared via a one-step method. GNR, with unique features such as high aspect ratio and plane integrity, has been obtained by longitudinal unzipping of multi-walled carbon nanotubes (CNTs). By tuning the amount of oxidant used, different mass loadings of MnO2 nanoparticles have been uniformly deposited on the surface of GNRs. Asymmetric supercapacitors have been fabricated with the GNR-MnO2 hybrid as the positive electrode and GNR sheets as the negative electrode. Due to the desirable porous structure, excellent electrical conductivity, as well as high rate capability and specific capacitances of both the GNR and GNR-MnO2 hybrid, the optimized GNR//GNR-MnO2 asymmetric supercapacitor can be cycled reversibly in an enlarged potential window of 0-2.0 V. In addition, the fabricated GNR//GNR-MnO2 asymmetric supercapacitor exhibits a significantly enhanced maximum energy density of 29.4 W h kg-1 (at a power density of 12.1 kW kg-1), compared with that of the symmetric cells based on GNR-MnO2 hybrids or GNR sheets. This greatly enhanced energy storage ability and high rate capability can be attributed to the homogeneous dispersion and excellent pseudocapacitive performance of MnO2 nanoparticles and the high electrical conductivity of the GNRs. Electronic supplementary information (ESI) available. See DOI: 10.1039/c3nr06650a

Cell cycle entry triggers a switch between two modes of Cdc42 activation during yeast polarization

PubMed Central

Witte, Kristen; Strickland, Devin; Glotzer, Michael

2017-01-01

Cell polarization underlies many cellular and organismal functions. The GTPase Cdc42 orchestrates polarization in many contexts. In budding yeast, polarization is associated with a focus of Cdc42•GTP which is thought to self sustain by recruiting a complex containing Cla4, a Cdc42-binding effector, Bem1, a scaffold, and Cdc24, a Cdc42 GEF. Using optogenetics, we probe yeast polarization and find that local recruitment of Cdc24 or Bem1 is sufficient to induce polarization by triggering self-sustaining Cdc42 activity. However, the response to these perturbations depends on the recruited molecule, the cell cycle stage, and existing polarization sites. Before cell cycle entry, recruitment of Cdc24, but not Bem1, induces a metastable pool of Cdc42 that is sustained by positive feedback. Upon Cdk1 activation, recruitment of either Cdc24 or Bem1 creates a stable site of polarization that induces budding and inhibits formation of competing sites. Local perturbations have therefore revealed unexpected features of polarity establishment. DOI: http://dx.doi.org/10.7554/eLife.26722.001 PMID:28682236

NG2 glia are required for vessel network formation during embryonic development

PubMed Central

Minocha, Shilpi; Valloton, Delphine; Brunet, Isabelle; Eichmann, Anne

2015-01-01

The NG2+ glia, also known as polydendrocytes or oligodendrocyte precursor cells, represent a new entity among glial cell populations in the central nervous system. However, the complete repertoire of their roles is not yet identified. The embryonic NG2+ glia originate from the Nkx2.1+ progenitors of the ventral telencephalon. Our analysis unravels that, beginning from E12.5 until E16.5, the NG2+ glia populate the entire dorsal telencephalon. Interestingly, their appearance temporally coincides with the establishment of blood vessel network in the embryonic brain. NG2+ glia are closely apposed to developing cerebral vessels by being either positioned at the sprouting tip cells or tethered along the vessel walls. Absence of NG2+ glia drastically affects the vascular development leading to severe reduction of ramifications and connections by E18.5. By revealing a novel and fundamental role for NG2+ glia, our study brings new perspectives to mechanisms underlying proper vessels network formation in embryonic brains. DOI: http://dx.doi.org/10.7554/eLife.09102.001 PMID:26651999

Endocrine remodelling of the adult intestine sustains reproduction in Drosophila

PubMed Central

Reiff, Tobias; Jacobson, Jake; Cognigni, Paola; Antonello, Zeus; Ballesta, Esther; Tan, Kah Junn; Yew, Joanne Y; Dominguez, Maria; Miguel-Aliaga, Irene

2015-01-01

The production of offspring is energetically costly and relies on incompletely understood mechanisms that generate a positive energy balance. In mothers of many species, changes in key energy-associated internal organs are common yet poorly characterised functionally and mechanistically. In this study, we show that, in adult Drosophila females, the midgut is dramatically remodelled to enhance reproductive output. In contrast to extant models, organ remodelling does not occur in response to increased nutrient intake and/or offspring demands, but rather precedes them. With spatially and temporally directed manipulations, we identify juvenile hormone (JH) as an anticipatory endocrine signal released after mating. Acting through intestinal bHLH-PAS domain proteins Methoprene-tolerant (Met) and Germ cell-expressed (Gce), JH signals directly to intestinal progenitors to yield a larger organ, and adjusts gene expression and sterol regulatory element-binding protein (SREBP) activity in enterocytes to support increased lipid metabolism. Our findings identify a metabolically significant paradigm of adult somatic organ remodelling linking hormonal signals, epithelial plasticity, and reproductive output. DOI: http://dx.doi.org/10.7554/eLife.06930.001 PMID:26216039

Cyclophilin A-regulated ubiquitination is critical for RIG-I-mediated antiviral immune responses

PubMed Central

Liu, Wei; Li, Jing; Zheng, Weinan; Shang, Yingli; Zhao, Zhendong; Wang, Shanshan; Bi, Yuhai; Zhang, Shuang; Xu, Chongfeng; Duan, Ziyuan; Zhang, Lianfeng; Wang, Yue L; Jiang, Zhengfan; Liu, Wenjun; Sun, Lei

2017-01-01

RIG-I is a key cytosolic pattern recognition receptor that interacts with MAVS to induce type I interferons (IFNs) against RNA virus infection. In this study, we found that cyclophilin A (CypA), a peptidyl-prolyl cis/trans isomerase, functioned as a critical positive regulator of RIG-I-mediated antiviral immune responses. Deficiency of CypA impaired RIG-I-mediated type I IFN production and promoted viral replication in human cells and mice. Upon Sendai virus infection, CypA increased the interaction between RIG-I and its E3 ubiquitin ligase TRIM25, leading to enhanced TRIM25-mediated K63-linked ubiquitination of RIG-I that facilitated recruitment of RIG-I to MAVS. In addition, CypA and TRIM25 competitively interacted with MAVS, thereby inhibiting TRIM25-induced K48-linked ubiquitination of MAVS. Taken together, our findings reveal an essential role of CypA in boosting RIG-I-mediated antiviral immune responses by controlling the ubiquitination of RIG-I and MAVS. DOI: http://dx.doi.org/10.7554/eLife.24425.001 PMID:28594325

Food odors trigger Drosophila males to deposit a pheromone that guides aggregation and female oviposition decisions

PubMed Central

Lin, Chun-Chieh; Prokop-Prigge, Katharine A; Preti, George; Potter, Christopher J

2015-01-01

Animals use olfactory cues for navigating complex environments. Food odors in particular provide crucial information regarding potential foraging sites. Many behaviors occur at food sites, yet how food odors regulate such behaviors at these sites is unclear. Using Drosophila melanogaster as an animal model, we found that males deposit the pheromone 9-tricosene upon stimulation with the food-odor apple cider vinegar. This pheromone acts as a potent aggregation pheromone and as an oviposition guidance cue for females. We use genetic, molecular, electrophysiological, and behavioral approaches to show that 9-tricosene activates antennal basiconic Or7a receptors, a receptor activated by many alcohols and aldehydes such as the green leaf volatile E2-hexenal. We demonstrate that loss of Or7a positive neurons or the Or7a receptor abolishes aggregation behavior and oviposition site-selection towards 9-tricosene and E2-hexenal. 9-Tricosene thus functions via Or7a to link food-odor perception with aggregation and egg-laying decisions. DOI: http://dx.doi.org/10.7554/eLife.08688.001 PMID:26422512

Comparative analysis of viral RNA signatures on different RIG-I-like receptors

PubMed Central

Sanchez David, Raul Y; Combredet, Chantal; Sismeiro, Odile; Dillies, Marie-Agnès; Jagla, Bernd; Coppée, Jean-Yves; Mura, Marie; Guerbois Galla, Mathilde; Despres, Philippe; Tangy, Frédéric; Komarova, Anastassia V

2016-01-01

The RIG-I-like receptors (RLRs) play a major role in sensing RNA virus infection to initiate and modulate antiviral immunity. They interact with particular viral RNAs, most of them being still unknown. To decipher the viral RNA signature on RLRs during viral infection, we tagged RLRs (RIG-I, MDA5, LGP2) and applied tagged protein affinity purification followed by next-generation sequencing (NGS) of associated RNA molecules. Two viruses with negative- and positive-sense RNA genome were used: measles (MV) and chikungunya (CHIKV). NGS analysis revealed that distinct regions of MV genome were specifically recognized by distinct RLRs: RIG-I recognized defective interfering genomes, whereas MDA5 and LGP2 specifically bound MV nucleoprotein-coding region. During CHIKV infection, RIG-I associated specifically to the 3’ untranslated region of viral genome. This study provides the first comparative view of the viral RNA ligands for RIG-I, MDA5 and LGP2 in the presence of infection. DOI: http://dx.doi.org/10.7554/eLife.11275.001 PMID:27011352

Eph and Ephrin function in dispersal and epithelial insertion of pigmented immunocytes in sea urchin embryos

PubMed Central

Krupke, Oliver A; Zysk, Ivona; Mellott, Dan O; Burke, Robert D

2016-01-01

The mechanisms that underlie directional cell migration are incompletely understood. Eph receptors usually guide migrations of cells by exclusion from regions expressing Ephrin. In sea urchin embryos, pigmented immunocytes are specified in vegetal epithelium, transition to mesenchyme, migrate, and re-enter ectoderm, distributing in dorsal ectoderm and ciliary band, but not ventral ectoderm. Immunocytes express Sp-Eph and Sp-Efn is expressed throughout dorsal and ciliary band ectoderm. Interfering with expression or function of Sp-Eph results in rounded immunocytes entering ectoderm but not adopting a dendritic form. Expressing Sp-Efn throughout embryos permits immunocyte insertion in ventral ectoderm. In mosaic embryos, immunocytes insert preferentially in ectoderm expressing Sp-Efn. We conclude that Sp-Eph signaling is necessary and sufficient for epithelial insertion. As well, we propose that immunocytes disperse when Sp-Eph enhances adhesion, causing haptotactic movement to regions of higher ligand abundance. This is a distinctive example of Eph/Ephrin signaling acting positively to pattern migrating cells. DOI: http://dx.doi.org/10.7554/eLife.16000.001 PMID:27474796

Electrical and Ca2+ signaling in dendritic spines of substantia nigra dopaminergic neurons

PubMed Central

Hage, Travis A; Sun, Yujie; Khaliq, Zayd M

2016-01-01

Little is known about the density and function of dendritic spines on midbrain dopamine neurons, or the relative contribution of spine and shaft synapses to excitability. Using Ca2+ imaging, glutamate uncaging, fluorescence recovery after photobleaching and transgenic mice expressing labeled PSD-95, we comparatively analyzed electrical and Ca2+ signaling in spines and shaft synapses of dopamine neurons. Dendritic spines were present on dopaminergic neurons at low densities in live and fixed tissue. Uncaging-evoked potential amplitudes correlated inversely with spine length but positively with the presence of PSD-95. Spine Ca2+ signals were less sensitive to hyperpolarization than shaft synapses, suggesting amplification of spine head voltages. Lastly, activating spines during pacemaking, we observed an unexpected enhancement of spine Ca2+ midway throughout the spike cycle, likely involving recruitment of NMDA receptors and voltage-gated conductances. These results demonstrate functionality of spines in dopamine neurons and reveal a novel modulation of spine Ca2+ signaling during pacemaking. DOI: http://dx.doi.org/10.7554/eLife.13905.001 PMID:27163179

Evolution of histone 2A for chromatin compaction in eukaryotes

PubMed Central

Macadangdang, Benjamin R; Oberai, Amit; Spektor, Tanya; Campos, Oscar A; Sheng, Fang; Carey, Michael F; Vogelauer, Maria; Kurdistani, Siavash K

2014-01-01

During eukaryotic evolution, genome size has increased disproportionately to nuclear volume, necessitating greater degrees of chromatin compaction in higher eukaryotes, which have evolved several mechanisms for genome compaction. However, it is unknown whether histones themselves have evolved to regulate chromatin compaction. Analysis of histone sequences from 160 eukaryotes revealed that the H2A N-terminus has systematically acquired arginines as genomes expanded. Insertion of arginines into their evolutionarily conserved position in H2A of a small-genome organism increased linear compaction by as much as 40%, while their absence markedly diminished compaction in cells with large genomes. This effect was recapitulated in vitro with nucleosomal arrays using unmodified histones, indicating that the H2A N-terminus directly modulates the chromatin fiber likely through intra- and inter-nucleosomal arginine–DNA contacts to enable tighter nucleosomal packing. Our findings reveal a novel evolutionary mechanism for regulation of chromatin compaction and may explain the frequent mutations of the H2A N-terminus in cancer. DOI: http://dx.doi.org/10.7554/eLife.02792.001 PMID:24939988

A multi-scale model for hair follicles reveals heterogeneous domains driving rapid spatiotemporal hair growth patterning

PubMed Central

Wang, Qixuan; Oh, Ji Won; Lee, Hye-Lim; Dhar, Anukriti; Peng, Tao; Ramos, Raul; Guerrero-Juarez, Christian Fernando; Wang, Xiaojie; Zhao, Ran; Cao, Xiaoling; Le, Jonathan; Fuentes, Melisa A; Jocoy, Shelby C; Rossi, Antoni R; Vu, Brian; Pham, Kim; Wang, Xiaoyang; Mali, Nanda Maya; Park, Jung Min; Choi, June-Hyug; Lee, Hyunsu; Legrand, Julien M D; Kandyba, Eve; Kim, Jung Chul; Kim, Moonkyu; Foley, John; Yu, Zhengquan; Kobielak, Krzysztof; Andersen, Bogi; Khosrotehrani, Kiarash; Nie, Qing; Plikus, Maksim V

2017-01-01

The control principles behind robust cyclic regeneration of hair follicles (HFs) remain unclear. Using multi-scale modeling, we show that coupling inhibitors and activators with physical growth of HFs is sufficient to drive periodicity and excitability of hair regeneration. Model simulations and experimental data reveal that mouse skin behaves as a heterogeneous regenerative field, composed of anatomical domains where HFs have distinct cycling dynamics. Interactions between fast-cycling chin and ventral HFs and slow-cycling dorsal HFs produce bilaterally symmetric patterns. Ear skin behaves as a hyper-refractory domain with HFs in extended rest phase. Such hyper-refractivity relates to high levels of BMP ligands and WNT antagonists, in part expressed by ear-specific cartilage and muscle. Hair growth stops at the boundaries with hyper-refractory ears and anatomically discontinuous eyelids, generating wave-breaking effects. We posit that similar mechanisms for coupled regeneration with dominant activator, hyper-refractory, and wave-breaker regions can operate in other actively renewing organs. DOI: http://dx.doi.org/10.7554/eLife.22772.001 PMID:28695824

APOL1 renal risk variants have contrasting resistance and susceptibility associations with African trypanosomiasis

PubMed Central

Cooper, Anneli; Ilboudo, Hamidou; Alibu, V Pius; Ravel, Sophie; Enyaru, John; Weir, William; Noyes, Harry; Capewell, Paul; Camara, Mamadou; Milet, Jacqueline; Jamonneau, Vincent; Camara, Oumou; Matovu, Enock; Bucheton, Bruno; MacLeod, Annette

2017-01-01

Reduced susceptibility to infectious disease can increase the frequency of otherwise deleterious alleles. In populations of African ancestry, two apolipoprotein-L1 (APOL1) variants with a recessive kidney disease risk, named G1 and G2, occur at high frequency. APOL1 is a trypanolytic protein that confers innate resistance to most African trypanosomes, but not Trypanosoma brucei rhodesiense or T.b. gambiense, which cause human African trypanosomiasis. In this case-control study, we test the prevailing hypothesis that these APOL1 variants reduce trypanosomiasis susceptibility, resulting in their positive selection in sub-Saharan Africa. We demonstrate a five-fold dominant protective association for G2 against T.b. rhodesiense infection. Furthermore, we report unpredicted strong opposing associations with T.b. gambiense disease outcome. G2 associates with faster progression of T.b. gambiense trypanosomiasis, while G1 associates with asymptomatic carriage and undetectable parasitemia. These results implicate both forms of human African trypanosomiasis in the selection and persistence of otherwise detrimental APOL1 kidney disease variants. DOI: http://dx.doi.org/10.7554/eLife.25461.001 PMID:28537557

Filovirus receptor NPC1 contributes to species-specific patterns of ebolavirus susceptibility in bats

PubMed Central

Ng, Melinda; Ndungo, Esther; Kaczmarek, Maria E; Herbert, Andrew S; Binger, Tabea; Kuehne, Ana I; Jangra, Rohit K; Hawkins, John A; Gifford, Robert J; Biswas, Rohan; Demogines, Ann; James, Rebekah M; Yu, Meng; Brummelkamp, Thijn R; Drosten, Christian; Wang, Lin-Fa; Kuhn, Jens H; Müller, Marcel A; Dye, John M; Sawyer, Sara L; Chandran, Kartik

2015-01-01

Biological factors that influence the host range and spillover of Ebola virus (EBOV) and other filoviruses remain enigmatic. While filoviruses infect diverse mammalian cell lines, we report that cells from African straw-colored fruit bats (Eidolon helvum) are refractory to EBOV infection. This could be explained by a single amino acid change in the filovirus receptor, NPC1, which greatly reduces the affinity of EBOV-NPC1 interaction. We found signatures of positive selection in bat NPC1 concentrated at the virus-receptor interface, with the strongest signal at the same residue that controls EBOV infection in Eidolon helvum cells. Our work identifies NPC1 as a genetic determinant of filovirus susceptibility in bats, and suggests that some NPC1 variations reflect host adaptations to reduce filovirus replication and virulence. A single viral mutation afforded escape from receptor control, revealing a pathway for compensatory viral evolution and a potential avenue for expansion of filovirus host range in nature. DOI: http://dx.doi.org/10.7554/eLife.11785.001 PMID:26698106

An electrostatic selection mechanism controls sequential kinase signaling downstream of the T cell receptor

PubMed Central

Shah, Neel H; Wang, Qi; Yan, Qingrong; Karandur, Deepti; Kadlecek, Theresa A; Fallahee, Ian R; Russ, William P; Ranganathan, Rama; Weiss, Arthur; Kuriyan, John

2016-01-01

The sequence of events that initiates T cell signaling is dictated by the specificities and order of activation of the tyrosine kinases that signal downstream of the T cell receptor. Using a platform that combines exhaustive point-mutagenesis of peptide substrates, bacterial surface-display, cell sorting, and deep sequencing, we have defined the specificities of the first two kinases in this pathway, Lck and ZAP-70, for the T cell receptor ζ chain and the scaffold proteins LAT and SLP-76. We find that ZAP-70 selects its substrates by utilizing an electrostatic mechanism that excludes substrates with positively-charged residues and favors LAT and SLP-76 phosphosites that are surrounded by negatively-charged residues. This mechanism prevents ZAP-70 from phosphorylating its own activation loop, thereby enforcing its strict dependence on Lck for activation. The sequence features in ZAP-70, LAT, and SLP-76 that underlie electrostatic selectivity likely contribute to the specific response of T cells to foreign antigens. DOI: http://dx.doi.org/10.7554/eLife.20105.001 PMID:27700984

Spatiotemporal coupling and decoupling of gene transcription with DNA replication origins during embryogenesis in C. elegans

PubMed Central

Pourkarimi, Ehsan; Bellush, James M; Whitehouse, Iestyn

2016-01-01

The primary task of developing embryos is genome replication, yet how DNA replication is integrated with the profound cellular changes that occur through development is largely unknown. Using an approach to map DNA replication at high resolution in C. elegans, we show that replication origins are marked with specific histone modifications that define gene enhancers. We demonstrate that the level of enhancer associated modifications scale with the efficiency at which the origin is utilized. By mapping replication origins at different developmental stages, we show that the positions and activity of origins is largely invariant through embryogenesis. Contrary to expectation, we find that replication origins are specified prior to the broad onset of zygotic transcription, yet when transcription initiates it does so in close proximity to the pre-defined replication origins. Transcription and DNA replication origins are correlated, but the association breaks down when embryonic cell division ceases. Collectively, our data indicate that replication origins are fundamental organizers and regulators of gene activity through embryonic development. DOI: http://dx.doi.org/10.7554/eLife.21728.001 PMID:28009254

Ring-like oligomers of Synaptotagmins and related C2 domain proteins

PubMed Central

Zanetti, Maria N; Bello, Oscar D; Wang, Jing; Coleman, Jeff; Cai, Yiying; Sindelar, Charles V; Rothman, James E; Krishnakumar, Shyam S

2016-01-01

We recently reported that the C2AB portion of Synaptotagmin 1 (Syt1) could self-assemble into Ca2+-sensitive ring-like oligomers on membranes, which could potentially regulate neurotransmitter release. Here we report that analogous ring-like oligomers assemble from the C2AB domains of other Syt isoforms (Syt2, Syt7, Syt9) as well as related C2 domain containing protein, Doc2B and extended Synaptotagmins (E-Syts). Evidently, circular oligomerization is a general and conserved structural aspect of many C2 domain proteins, including Synaptotagmins. Further, using electron microscopy combined with targeted mutations, we show that under physiologically relevant conditions, both the Syt1 ring assembly and its rapid disruption by Ca2+ involve the well-established functional surfaces on the C2B domain that are important for synaptic transmission. Our data suggests that ring formation may be triggered at an early step in synaptic vesicle docking and positions Syt1 to synchronize neurotransmitter release to Ca2+ influx. DOI: http://dx.doi.org/10.7554/eLife.17262.001 PMID:27434670

Prioritizing plant defence over growth through WRKY regulation facilitates infestation by non-target herbivores

PubMed Central

Li, Ran; Zhang, Jin; Li, Jiancai; Zhou, Guoxin; Wang, Qi; Bian, Wenbo; Erb, Matthias; Lou, Yonggen

2015-01-01

Plants generally respond to herbivore attack by increasing resistance and decreasing growth. This prioritization is achieved through the regulation of phytohormonal signaling networks. However, it remains unknown how this prioritization affects resistance against non-target herbivores. In this study, we identify WRKY70 as a specific herbivore-induced, mitogen-activated protein kinase-regulated rice transcription factor that physically interacts with W-box motifs and prioritizes defence over growth by positively regulating jasmonic acid (JA) and negatively regulating gibberellin (GA) biosynthesis upon attack by the chewing herbivore Chilo suppressalis. WRKY70-dependent JA biosynthesis is required for proteinase inhibitor activation and resistance against C. suppressalis. In contrast, WRKY70 induction increases plant susceptibility against the rice brown planthopper Nilaparvata lugens. Experiments with GA-deficient rice lines identify WRKY70-dependent GA signaling as the causal factor in N. lugens susceptibility. Our study shows that prioritizing defence over growth leads to a significant resistance trade-off with important implications for the evolution and agricultural exploitation of plant immunity. DOI: http://dx.doi.org/10.7554/eLife.04805.001 PMID:26083713

A user-friendly, open-source tool to project impact and cost of diagnostic tests for tuberculosis

PubMed Central

Dowdy, David W; Andrews, Jason R; Dodd, Peter J; Gilman, Robert H

2014-01-01

Most models of infectious diseases, including tuberculosis (TB), do not provide results customized to local conditions. We created a dynamic transmission model to project TB incidence, TB mortality, multidrug-resistant (MDR) TB prevalence, and incremental costs over 5 years after scale-up of nine alternative diagnostic strategies. A corresponding web-based interface allows users to specify local costs and epidemiology. In settings with little capacity for up-front investment, same-day microscopy had the greatest impact on TB incidence and became cost-saving within 5 years if delivered at $10/test. With greater initial investment, population-level scale-up of Xpert MTB/RIF or microcolony-based culture often averted 10 times more TB cases than narrowly-targeted strategies, at minimal incremental long-term cost. Xpert for smear-positive TB had reasonable impact on MDR-TB incidence, but at substantial price and little impact on overall TB incidence and mortality. This user-friendly modeling framework improves decision-makers' ability to evaluate the local impact of TB diagnostic strategies. DOI: http://dx.doi.org/10.7554/eLife.02565.001 PMID:24898755

Ventromedial prefrontal cortex stimulation enhances memory and hippocampal neurogenesis in the middle-aged rats

PubMed Central

Liu, Albert; Jain, Neeraj; Vyas, Ajai; Lim, Lee Wei

2015-01-01

Memory dysfunction is a key symptom of age-related dementia. Although recent studies have suggested positive effects of electrical stimulation for memory enhancement, its potential targets remain largely unknown. In this study, we hypothesized that spatially targeted deep brain stimulation of ventromedial prefrontal cortex enhanced memory functions in a middle-aged rat model. Our results show that acute stimulation enhanced the short-, but not the long-term memory in the novel-object recognition task. Interestingly, after chronic high-frequency stimulation, both the short- and long-term memories were robustly improved in the novel-object recognition test and Morris water-maze spatial task compared to sham. Our results also demonstrated that chronic ventromedial prefrontal cortex high-frequency stimulation upregulated neurogenesis-associated genes along with enhanced hippocampal cell proliferation. Importantly, these memory behaviors were strongly correlated with the hippocampal neurogenesis. Overall, these findings suggest that chronic ventromedial prefrontal cortex high-frequency stimulation may serve as a novel effective therapeutic target for dementia-related disorders. DOI: http://dx.doi.org/10.7554/eLife.04803.001 PMID:25768425

Introduction of a male-harming mitochondrial haplotype via ‘Trojan Females’ achieves population suppression in fruit flies

PubMed Central

Wolff, Jonci Nikolai; Gemmell, Neil J; Tompkins, Daniel M; Dowling, Damian K

2017-01-01

Pests are a global threat to biodiversity, ecosystem function, and human health. Pest control approaches are thus numerous, but their implementation costly, damaging to non-target species, and ineffective at low population densities. The Trojan Female Technique (TFT) is a prospective self-perpetuating control technique that is species-specific and predicted to be effective at low densities. The goal of the TFT is to harness naturally occurring mutations in the mitochondrial genome that impair male fertility while having no effect on females. Here, we provide proof-of-concept for the TFT, by showing that introduction of a male fertility-impairing mtDNA haplotype into replicated populations of Drosophila melanogaster causes numerical population suppression, with the magnitude of effect positively correlated with its frequency at trial inception. Further development of the TFT could lead to establishing a control strategy that overcomes limitations of conventional approaches, with broad applicability to invertebrate and vertebrate species, to control environmental and economic pests. DOI: http://dx.doi.org/10.7554/eLife.23551.001 PMID:28467301

Chromosome-wide mechanisms to decouple gene expression from gene dose during sex-chromosome evolution

PubMed Central

Wheeler, Bayly S; Anderson, Erika; Frøkjær-Jensen, Christian; Bian, Qian; Jorgensen, Erik; Meyer, Barbara J

2016-01-01

Changes in chromosome number impair fitness by disrupting the balance of gene expression. Here we analyze mechanisms to compensate for changes in gene dose that accompanied the evolution of sex chromosomes from autosomes. Using single-copy transgenes integrated throughout the Caenorhabditis elegans genome, we show that expression of all X-linked transgenes is balanced between XX hermaphrodites and XO males. However, proximity of a dosage compensation complex (DCC) binding site (rex site) is neither necessary to repress X-linked transgenes nor sufficient to repress transgenes on autosomes. Thus, X is broadly permissive for dosage compensation, and the DCC acts via a chromosome-wide mechanism to balance transcription between sexes. In contrast, no analogous X-chromosome-wide mechanism balances transcription between X and autosomes: expression of compensated hermaphrodite X-linked transgenes is half that of autosomal transgenes. Furthermore, our results argue against an X-chromosome dosage compensation model contingent upon rex-directed positioning of X relative to the nuclear periphery. DOI: http://dx.doi.org/10.7554/eLife.17365.001 PMID:27572259

A mitotic kinase scaffold depleted in testicular seminomas impacts spindle orientation in germ line stem cells

PubMed Central

Hehnly, Heidi; Canton, David; Bucko, Paula; Langeberg, Lorene K; Ogier, Leah; Gelman, Irwin; Santana, L Fernando; Wordeman, Linda; Scott, John D

2015-01-01

Correct orientation of the mitotic spindle in stem cells underlies organogenesis. Spindle abnormalities correlate with cancer progression in germ line-derived tumors. We discover a macromolecular complex between the scaffolding protein Gravin/AKAP12 and the mitotic kinases, Aurora A and Plk1, that is down regulated in human seminoma. Depletion of Gravin correlates with an increased mitotic index and disorganization of seminiferous tubules. Biochemical, super-resolution imaging, and enzymology approaches establish that this Gravin scaffold accumulates at the mother spindle pole during metaphase. Manipulating elements of the Gravin-Aurora A-Plk1 axis prompts mitotic delay and prevents appropriate assembly of astral microtubules to promote spindle misorientation. These pathological responses are conserved in seminiferous tubules from Gravin−/− mice where an overabundance of Oct3/4 positive germ line stem cells displays randomized orientation of mitotic spindles. Thus, we propose that Gravin-mediated recruitment of Aurora A and Plk1 to the mother (oldest) spindle pole contributes to the fidelity of symmetric cell division. DOI: http://dx.doi.org/10.7554/eLife.09384.001 PMID:26406118

Dynamic control of Hsf1 during heat shock by a chaperone switch and phosphorylation

PubMed Central

Zheng, Xu; Krakowiak, Joanna; Patel, Nikit; Beyzavi, Ali; Ezike, Jideofor; Khalil, Ahmad S; Pincus, David

2016-01-01

Heat shock factor (Hsf1) regulates the expression of molecular chaperones to maintain protein homeostasis. Despite its central role in stress resistance, disease and aging, the mechanisms that control Hsf1 activity remain unresolved. Here we show that in budding yeast, Hsf1 basally associates with the chaperone Hsp70 and this association is transiently disrupted by heat shock, providing the first evidence that a chaperone repressor directly regulates Hsf1 activity. We develop and experimentally validate a mathematical model of Hsf1 activation by heat shock in which unfolded proteins compete with Hsf1 for binding to Hsp70. Surprisingly, we find that Hsf1 phosphorylation, previously thought to be required for activation, in fact only positively tunes Hsf1 and does so without affecting Hsp70 binding. Our work reveals two uncoupled forms of regulation - an ON/OFF chaperone switch and a tunable phosphorylation gain - that allow Hsf1 to flexibly integrate signals from the proteostasis network and cell signaling pathways. DOI: http://dx.doi.org/10.7554/eLife.18638.001 PMID:27831465

Waves of actin and microtubule polymerization drive microtubule-based transport and neurite growth before single axon formation

PubMed Central

Winans, Amy M; Collins, Sean R; Meyer, Tobias

2016-01-01

Many developing neurons transition through a multi-polar state with many competing neurites before assuming a unipolar state with one axon and multiple dendrites. Hallmarks of the multi-polar state are large fluctuations in microtubule-based transport into and outgrowth of different neurites, although what drives these fluctuations remains elusive. We show that actin waves, which stochastically migrate from the cell body towards neurite tips, direct microtubule-based transport during the multi-polar state. Our data argue for a mechanical control system whereby actin waves transiently widen the neurite shaft to allow increased microtubule polymerization to direct Kinesin-based transport and create bursts of neurite extension. Actin waves also require microtubule polymerization, arguing that positive feedback links these two components. We propose that actin waves create large stochastic fluctuations in microtubule-based transport and neurite outgrowth, promoting competition between neurites as they explore the environment until sufficient external cues can direct one to become the axon. DOI: http://dx.doi.org/10.7554/eLife.12387.001 PMID:26836307

Dynamics of mTORC1 activation in response to amino acids

PubMed Central

Manifava, Maria; Smith, Matthew; Rotondo, Sergio; Walker, Simon; Niewczas, Izabella; Zoncu, Roberto; Clark, Jonathan; Ktistakis, Nicholas T

2016-01-01

Amino acids are essential activators of mTORC1 via a complex containing RAG GTPases, RAGULATOR and the vacuolar ATPase. Sensing of amino acids causes translocation of mTORC1 to lysosomes, an obligate step for activation. To examine the spatial and temporal dynamics of this translocation, we used live imaging of the mTORC1 component RAPTOR and a cell permeant fluorescent analogue of di-leucine methyl ester. Translocation to lysosomes is a transient event, occurring within 2 min of aa addition and peaking within 5 min. It is temporally coupled with fluorescent leucine appearance in lysosomes and is sustained in comparison to aa stimulation. Sestrin2 and the vacuolar ATPase are negative and positive regulators of mTORC1 activity in our experimental system. Of note, phosphorylation of canonical mTORC1 targets is delayed compared to lysosomal translocation suggesting a dynamic and transient passage of mTORC1 from the lysosomal surface before targetting its substrates elsewhere. DOI: http://dx.doi.org/10.7554/eLife.19960.001 PMID:27725083

Multimodal Diffuse Optical Imaging

NASA Astrophysics Data System (ADS)

Intes, Xavier; Venugopal, Vivek; Chen, Jin; Azar, Fred S.

Diffuse optical imaging, particularly diffuse optical tomography (DOT), is an emerging clinical modality capable of providing unique functional information, at a relatively low cost, and with nonionizing radiation. Multimodal diffuse optical imaging has enabled a synergistic combination of functional and anatomical information: the quality of DOT reconstructions has been significantly improved by incorporating the structural information derived by the combined anatomical modality. In this chapter, we will review the basic principles of diffuse optical imaging, including instrumentation and reconstruction algorithm design. We will also discuss the approaches for multimodal imaging strategies that integrate DOI with clinically established modalities. The merit of the multimodal imaging approaches is demonstrated in the context of optical mammography, but the techniques described herein can be translated to other clinical scenarios such as brain functional imaging or muscle functional imaging.

BioJS DAGViewer: A reusable JavaScript component for displaying directed graphs

PubMed Central

Micklem, Gos

2014-01-01

Summary: The DAGViewer BioJS component is a reusable JavaScript component made available as part of the BioJS project and intended to be used to display graphs of structured data, with a particular emphasis on Directed Acyclic Graphs (DAGs). It enables users to embed representations of graphs of data, such as ontologies or phylogenetic trees, in hyper-text documents (HTML). This component is generic, since it is capable (given the appropriate configuration) of displaying any kind of data that is organised as a graph. The features of this component which are useful for examining and filtering large and complex graphs are described. Availability: http://github.com/alexkalderimis/dag-viewer-biojs; http://github.com/biojs/biojs; http://dx.doi.org/10.5281/zenodo.8303. PMID:24627804

Direct writing of metal nanostructures: lithographic tools for nanoplasmonics research.

PubMed

Leggett, Graham J

2011-03-22

Continued progress in the fast-growing field of nanoplasmonics will require the development of new methods for the fabrication of metal nanostructures. Optical lithography provides a continually expanding tool box. Two-photon processes, as demonstrated by Shukla et al. (doi: 10.1021/nn103015g), enable the fabrication of gold nanostructures encapsulated in dielectric material in a simple, direct process and offer the prospect of three-dimensional fabrication. At higher resolution, scanning probe techniques enable nanoparticle particle placement by localized oxidation, and near-field sintering of nanoparticulate films enables direct writing of nanowires. Direct laser "printing" of single gold nanoparticles offers a remarkable capability for the controlled fabrication of model structures for fundamental studies, particle-by-particle. Optical methods continue to provide a powerful support for research into metamaterials.

A multi-stimuli responsive switch as a fluorescent molecular analogue of transistors† †Electronic supplementary information (ESI) available: Detailed experimental procedures and additional data on the characterization of 1. See DOI: 10.1039/c5sc03395k Click here for additional data file.

PubMed Central

Gallardo, Iluminada; Morais, Sandy; Prats, Gemma

2016-01-01

Although the quantum nature of molecules makes them specially suitable for mimicking the operation of digital electronic elements, molecular compounds can also be envisioned to emulate the behavior of analog devices. In this work we report a novel fluorescent three-state switch capable of reproducing the analog response of transistors, an ubiquitous device in modern electronics. Exploiting the redox and thermal sensitivity of this compound, the amplitude of its fluorescence emission can be continuously modulated, in a similar way as the output current in a transistor is amplified by the gate-to-source voltage. PMID:28959394

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

Virador, Patrick R.G.

The author performs image reconstruction for a novel Positron Emission Tomography camera that is optimized for breast cancer imaging. This work addresses for the first time, the problem of fully-3D, tomographic reconstruction using a septa-less, stationary, (i.e. no rotation or linear motion), and rectangular camera whose Field of View (FOV) encompasses the entire volume enclosed by detector modules capable of measuring Depth of Interaction (DOI) information. The camera is rectangular in shape in order to accommodate breasts of varying sizes while allowing for soft compression of the breast during the scan. This non-standard geometry of the camera exacerbates two problems:more » (a) radial elongation due to crystal penetration and (b) reconstructing images from irregularly sampled data. Packing considerations also give rise to regions in projection space that are not sampled which lead to missing information. The author presents new Fourier Methods based image reconstruction algorithms that incorporate DOI information and accommodate the irregular sampling of the camera in a consistent manner by defining lines of responses (LORs) between the measured interaction points instead of rebinning the events into predefined crystal face LORs which is the only other method to handle DOI information proposed thus far. The new procedures maximize the use of the increased sampling provided by the DOI while minimizing interpolation in the data. The new algorithms use fixed-width evenly spaced radial bins in order to take advantage of the speed of the Fast Fourier Transform (FFT), which necessitates the use of irregular angular sampling in order to minimize the number of unnormalizable Zero-Efficiency Bins (ZEBs). In order to address the persisting ZEBs and the issue of missing information originating from packing considerations, the algorithms (a) perform nearest neighbor smoothing in 2D in the radial bins (b) employ a semi-iterative procedure in order to estimate the unsampled data and (c) mash the in plane projections, i.e. 2D data, with the projection data from the first oblique angles, which are then used to reconstruct the preliminary image in the 3D Reprojection Projection algorithm. The author presents reconstructed images of point sources and extended sources in both 2D and 3D. The images show that the camera is anticipated to eliminate radial elongation and produce artifact free and essentially spatially isotropic images throughout the entire FOV. It has a resolution of 1.50 ± 0.75 mm FWHM near the center, 2.25 ±0.75 mm FWHM in the bulk of the FOV, and 3.00 ± 0.75 mm FWHM near the edge and corners of the FOV.« less

The PHITS code for space applications: status and recent developments

NASA Astrophysics Data System (ADS)

Sihver, Lembit; Ploc, Ondrej; Sato, Tatsuhiko; Niita, Koji; Hashimoto, Shintaro; El-Jaby, Samy

Since COSPAR 2012, the Particle and Heavy Ion Transport code System, PHITS, has been upgraded and released to the public [1]. The code has been improved and so has the contents of its package, such as the attached data libraries. In the new version, the intra-nuclear cascade models INCL4.6 and INC-ELF have been implemented as well as the Kurotama model for the total reaction cross sections. The accuracies of the new reaction models for transporting the galactic cosmic-rays were investigated by comparing with experimental data. The incorporation of these models has improved the capabilities of PHITS to perform particle transport simulations for different space applications. A methodology for assessing the pre-mission exposure of space crew aboard the ISS has been developed in terms of an effective dose equivalent [2]. PHITS was used to calculate the particle transport of the GCR and trapped radiation through the hull of the ISS. By using the predicted spectra, and fluence-to-dose conversion factors, the semi-empirical ISSCREM [3,4,5] code was then scaled to predict the effective dose equivalent. This methodology provides an opportunity for pre-flight predictions of the effective dose equivalent, which can be compared to post-flight estimates, and therefore offers a means to assess the impact of radiation exposure on ISS flight crew. We have also simulated [6] the protective curtain experiment, which was performed to test the efficiency of water-soaked hygienic tissue wipes and towels as a simple and cost-effective additional spacecraft shielding. The dose from the trapped particles and low energetic GCR, was significantly reduced, which shows that the protective curtains are efficient when they are applied on spacecraft at LEO. The results of these benchmark calculations, as well as the mentioned applications of PHITS to space dosimetry, will be presented. [1] T. Sato et al. J. Nucl. Sci. Technol. 50, 913-923 (2013). [2] S. El-Jaby, et al. Adv. Space Res. doi: http://dx.doi.org/10.1016/j.asr.2013.12.022 (2013). [3] S. El-Jaby, et al. Adv. Space Res. doi: http://dx.doi.org/10.1016/j.asr.2013.10.006 (2013). [4] S. El-Jaby, et al. In proc. to the IEEE Aerospace Conference, Big Sky, MN, USA (2013). [5] S. El-Jaby, PhD Thesis, Royal Military College of Canada (2012). [6] O. Ploc, et al., Adv. Space Res. 52, 1911-1918 (2013).

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2010-10-01

... 43 Public Lands: Interior 1 2010-10-01 2010-10-01 false What is DOI's policy regarding release of... RECORDS AND TESTIMONY; FREEDOM OF INFORMATION ACT General Information § 2.2 What is DOI's policy regarding... public consistent with the spirit of the FOIA and the Privacy Act. ...

25 CFR 900.2 - Purpose and scope.

Code of Federal Regulations, 2010 CFR

2010-04-01

... contracts by the Department of Health and Human Services (DHHS) and the Department of the Interior (DOI) in... interagency agreement) by the DHHS and the DOI for the benefit of Indians for which appropriations are made to... the record keeping systems of the DHHS or the DOI, or both, records of the contractors (including...

77 FR 22799 - Tribal Consultation Sessions-Administrative Organizational Assessment Draft Report...

Federal Register 2010, 2011, 2012, 2013, 2014

2012-04-17

...) and the Department of the Interior (DOI) to improve American Indian and Alaska Native education. The... proposed MOU between DOI and ED received by close of business on June 15, 2012. ADDRESSES: See the..., Washington, DC 20240. FOR FURTHER INFORMATION CONTACT: For the proposed MOU between ED and DOI, contact...

25 CFR 1001.10 - Selection criteria for other planning and negotiating financial assistance.

Code of Federal Regulations, 2011 CFR

2011-04-01

... for other financial assistance for planning and negotiating of a DOI non-BIA program, service... that may be available to self-governance tribes/consortia for planning and negotiating with DOI non-BIA... are available for the purpose of planning and negotiating with DOI non-BIA bureaus under this section...

2 CFR 1401.500 - What are my responsibilities as a DOI awarding official?

Code of Federal Regulations, 2011 CFR

2011-01-01

... 2 Grants and Agreements 1 2011-01-01 2011-01-01 false What are my responsibilities as a DOI awarding official? 1401.500 Section 1401.500 Grants and Agreements Federal Agency Regulations for Grants... responsibilities as a DOI awarding official? To obtain a recipient's agreement to comply with applicable...

2 CFR 1401.330 - How and when must I identify workplaces?

Code of Federal Regulations, 2011 CFR

2011-01-01

... must identify all known workplaces under each DOI award. A failure to do so is a violation of your drug-free workplace requirements. You may identify the workplaces— (1) To the DOI official that is making... available for inspection upon request by DOI officials or their designated representatives. (b) Your...

Pharmacological modulation of abnormal involuntary DOI-induced head twitch response in male DBA/2J mice: I. Effects of D2/D3 and D2 dopamine receptor selective compounds.

PubMed

Rangel-Barajas, Claudia; Malik, Maninder; Vangveravong, Suwanna; Mach, Robert H; Luedtke, Robert R

2014-08-01

Because of the complexity and heterogeneity of human neuropsychiatric disorders, it has been difficult to identify animal models that mimic the symptoms of these neuropathologies and can be used to screen for antipsychotic agents. For this study we selected the murine 5HT2A/2C receptor agonist-induced head twitch response (HTR) induced by the administration of 1-(2,5-dimethoxy-4-iodophenyl)-2-aminopropane (DOI), which has been proposed as an animal model of symptoms associated with a variety of behavioral and psychiatric conditions. We investigated the DOI-induced HTR in male DBA/2J mice using a panel of D2-like (D2, D3 and D4) and D2 dopamine receptor selective compounds. When DBA/2J mice were administered a daily dose of DOI (5 mg/kg), tolerance to the DOI occurs. However, administrations of the same dose of DOI every other day (48 h) or on a weekly basis did not lead to tolerance and the ability to induce tolerance after daily administration of DOI remains intact after repeated weekly administration of DOI. Subsequently, a panel of D2-like dopamine receptor antagonists was found to effectively inhibit the DOI-induced HTR in DBA/2J mice. However, the benzamide eticlopride, which is a high affinity D2-like antagonist, was a notable exception. SV 293, SV-III-130s and N-methylbenperidol, which exhibit a high affinity for D2 versus the D3 dopamine receptor subtypes (60- to 100-fold binding selectivity), were also found to inhibit the HTR in DBA/2J mice. This observation suggests a functional interaction between dopaminergic and serotonergic systems through D2 dopamine receptors and the 5-HT2A serotonin receptors in vivo. Copyright © 2014 Elsevier Ltd. All rights reserved.

Early Career Teachers' Resilience and Positive Adaptive Change Capabilities

ERIC Educational Resources Information Center

Bowles, Terry; Arnup, Jessica L.

2016-01-01

This research is an investigation of the link between adaptive functioning and resilience in early career teachers (ECT). Resilience is considered an important capability of teachers and research has shown that teachers who are resourceful, demonstrate agency and develop positive management strategies overcome adversity. In this research, we aim…

STS-87 Mission Specialist Doi in white room

NASA Technical Reports Server (NTRS)

1997-01-01

STS-87 Mission Specialist Takao Doi, Ph.D., of the National Space Development Agency of Japan, is assisted with his ascent and re- entry flight suit by Dave Law, USA mechanical technician, in the white room at Launch Pad 39B as Dr. Doi prepares to enter the Space Shuttle orbiter Columbia on launch day. At right wearing glasses is Danny Wyatt, NASA quality assurance specialist. STS-87 is the fourth flight of the United States Microgravity Payload and Spartan-201. The 16-day mission will include a spacewalk by Dr. Doi and Mission Specialist Winston Scott.

Further Comment on "AGU Statement Regarding the Conviction of Italian Seismologists"

NASA Astrophysics Data System (ADS)

Amato, Alessandro; Cocco, Massimo; Cultrera, Giovanna; Galadini, Fabrizio; Margheriti, Lucia; Nostro, Concetta; Pantosti, Daniela

2013-07-01

In the opinion of the undersigned, AGU's position statement regarding the conviction of Italian seismologists, issued following the 22 October 2012 conviction of six Italian scientists and one government official related to the 2009 L'Aquila earthquake (see Eos, 93(44), 444, 10.1029/2012EO440013), is absolutely right and correct. We believe that Franco Marenco's opinion disagreeing with AGU's position (Eos, 94(6), 63, doi:10.1002/2013EO060006) is misleading because it is based only on biased information gathered from the media. We invite Marenco and anyone who is interested in better understanding the L'Aquila trial and related issues to retrieve and read original documents and information from http://processoaquila.wordpress.com/.

Innovation Diffusion Model in Higher Education: Case Study of E-Learning Diffusion

ERIC Educational Resources Information Center

Buc, Sanjana; Divjak, Blaženka

2015-01-01

The diffusion of innovation (DOI) is critical for any organization and especially nowadays for higher education institutions (HEIs) in the light of vast pressure of emerging educational technologies as well as of the demand of economy and society. DOI takes into account the initial and the implementation phase. The conceptual model of DOI in…

75 FR 8786 - Notice of Final Federal Agency Actions on Proposed Highway in Indiana

Federal Register 2010, 2011, 2012, 2013, 2014

2010-02-25

... (USFWS), DOI. SUMMARY: This notice announces actions taken by the FHWA and the USFWS that are final... (USFWS), DOI, was published in the Federal Register on April 17, 2007. A claim seeking judicial review of... Claims for Judicial Review of these actions and decisions by the USFWS, DOI, was published in the Federal...

76 FR 60583 - Notice of Final Federal Agency Actions on Proposed Highway in Indiana

Federal Register 2010, 2011, 2012, 2013, 2014

2011-09-29

... (USFWS), DOI. SUMMARY: This notice announces actions taken by the FHWA and the USFWS that are final... (USFWS), DOI, was published in the Federal Register on April 17, 2007. A claim seeking judicial review of... Claims for Judicial Review of these actions and decisions by the USFWS, DOI, was published in the Federal...

43 CFR 17.322 - Assurance of compliance and recipient assessment of age distinctions.

Code of Federal Regulations, 2010 CFR

2010-10-01

... Nondiscrimination on the Basis of Age Duties of Doi Recipients § 17.322 Assurance of compliance and recipient assessment of age distinctions. (a) Each recipient of Federal financial assistance from DOI shall sign a written assurance as specified by DOI that it will comply with the Act and these regulations. (b...

25 CFR 1000.232 - When must DOI respond to a request for reconsideration?

Code of Federal Regulations, 2011 CFR

2011-04-01

... 25 Indians 2 2011-04-01 2011-04-01 false When must DOI respond to a request for reconsideration? 1000.232 Section 1000.232 Indians OFFICE OF THE ASSISTANT SECRETARY, INDIAN AFFAIRS, DEPARTMENT OF THE...-DETERMINATION AND EDUCATION ACT Waiver of Regulations § 1000.232 When must DOI respond to a request for...

43 CFR 17.322 - Assurance of compliance and recipient assessment of age distinctions.

Code of Federal Regulations, 2011 CFR

2011-10-01

... Nondiscrimination on the Basis of Age Duties of Doi Recipients § 17.322 Assurance of compliance and recipient assessment of age distinctions. (a) Each recipient of Federal financial assistance from DOI shall sign a written assurance as specified by DOI that it will comply with the Act and these regulations. (b...

Serotonergic and dopaminergic distinctions in the behavioral pharmacology of (±)-1-(2,5-dimethoxy-4-iodophenyl)-2-aminopropane (DOI) and lysergic acid diethylamide (LSD).

PubMed

Schindler, Emmanuelle A D; Dave, Kuldip D; Smolock, Elaine M; Aloyo, Vincent J; Harvey, John A

2012-03-01

After decades of social stigma, hallucinogens have reappeared in the clinical literature demonstrating unique benefits in medicine. The precise behavioral pharmacology of these compounds remains unclear, however. Two commonly studied hallucinogens, (±)-1-(2,5-dimethoxy-4-iodophenyl)-2-aminopropane (DOI) and lysergic acid diethylamide (LSD), were investigated both in vivo and in vitro to determine the pharmacology of their behavioral effects in an animal model. Rabbits were administered DOI or LSD and observed for head bob behavior after chronic drug treatment or after pretreatment with antagonist ligands. The receptor binding characteristics of DOI and LSD were studied in vitro in frontocortical homogenates from naïve rabbits or ex vivo in animals receiving an acute drug injection. Both DOI- and LSD-elicited head bobs required serotonin(2A) (5-HT(2A)) and dopamine(1) (D(1)) receptor activation. Serotonin(2B/2C) receptors were not implicated in these behaviors. In vitro studies demonstrated that LSD and the 5-HT(2A/2C) receptor antagonist, ritanserin, bound frontocortical 5-HT(2A) receptors in a pseudo-irreversible manner. In contrast, DOI and the 5-HT(2A/2C) receptor antagonist, ketanserin, bound reversibly. These binding properties were reflected in ex vivo binding studies. The two hallucinogens also differed in that LSD showed modest D(1) receptor binding affinity whereas DOI had negligible binding affinity at this receptor. Although DOI and LSD differed in their receptor binding properties, activation of 5-HT(2A) and D(1) receptors was a common mechanism for eliciting head bob behavior. These findings implicate these two receptors in the mechanism of action of hallucinogens. Copyright © 2011 Elsevier Inc. All rights reserved.

Radar measurements of surface deformation in the sub mm-range

NASA Astrophysics Data System (ADS)

Peters, Gerhard; Hort, Matthias; Gerst, Alexander; Scharff, Lea

2016-04-01

A portable low power Doppler radar at 24 GHz is used for volcano eruption observations since more than a decade (e.g. Hort and Seyfried, 1998, doi: 10.1029/97GL03482; Seyfried and Hort, 1999, doi: 10.1007/s004450050256; Vöge et al., 2005, doi: 10.1029/2005 EO510001, Vöge and Hort, 2009, doi: 10.1109/TGRS. 2008.2002693, Gerst et al., 2013, doi: 10.1002/jgrb.50234; Scharff et al, 2015, doi: 10.1130/G36705.1) The typical radar products are range resolved Doppler spectra containing information on the reflectivity, radial velocity and its distribution of ejected particles. Here we present the analysis of the phase of radar signals for the detection of comparably slow and small deformations of the solid surface which may occur for example prior to an eruption [Hort et al., 2010, AGU Fall meeting, Abstract V32B-03]. While the phase analysis of weather radar echoes from ground targets is established for estimating the atmospheric refractivity [Besson and du Châtelet, 2013, http://dx.doi.org/ 10.1175/ JTECH-D-12-00167.1], we consider here the variability of the atmosphere as a source of uncertainty. We describe the implementation of this technique in a dedicated compact low power FMCW system. Observations at Stromboli suggest an expansion of the vent prior to the eruption on the order of millimeter which is on the same oder as reported by [Noferini et al., 2009, doi: 10.1109/IGARSS. 2009. 5416901] and in case of Santiaguito volcano we were able to observe the post eruptive subsidence of the volcanic dome. We suggest further to resolve the range/refractivity ambiguity by using a dual frequency radar with sufficient frequency separation for utilizing the frequency dependence of refractivity.

Early Citability of Data vs Peer-Review like Data Publishing Procedures

NASA Astrophysics Data System (ADS)

Stockhause, Martina; Höck, Heinke; Toussaint, Frank; Lautenschlager, Michael

2014-05-01

The World Data Center for Climate (WDCC) hosted at the German Climate Computing Center (DKRZ) was one of the first data centers, which established a peer-review like data publication procedure resulting in DataCite DOIs. Data in the long-term archive (LTA) is diligently reviewed by data managers and data authors to grant high quality and widely reusability of the published data. This traditional data publication procedure for LTA data bearing DOIs is very time consuming especially for WDCC's high data volumes of climate model data in the order of multiple TBytes. Data is shared with project members and selected scientists months before the data is long-term archived. The scientific community analyses and thus reviews the data leading to data quality improvements. Scientists wish to cite these unstable data in scientific publications before the long-term archiving and the thorough data review process are finalized. A concept for early preprint DOIs for shared but not yet long-term archived data is presented. Requirements on data documentation, persistence and quality and use cases for preprint DOIs within the data life-cycle are discussed as well as questions of how to document the differences of the two DOI types and how to relate them to each other with the recommendation to use LTA DOIs in citations. WDCC wants to offer an additional user service for early citations of data of basic quality without compromising the LTA DOIs, i.e. WDCC's standard DOIs, as trustworthy indicator for high quality data. Referencing Links: World Data Center for Climate (WDCC): http://www.wdc-climate.de German Climate Computing Center (DKRZ): http://www.dkrz.de DataCite: http://datacite.org

Modulating ectopic gene expression levels by using retroviral vectors equipped with synthetic promoters.

PubMed

Ferreira, Joshua P; Peacock, Ryan W S; Lawhorn, Ingrid E B; Wang, Clifford L

2011-12-01

The human cytomegalovirus and elongation factor 1α promoters are constitutive promoters commonly employed by mammalian expression vectors. These promoters generally produce high levels of expression in many types of cells and tissues. To generate a library of synthetic promoters capable of generating a range of low, intermediate, and high expression levels, the TATA and CAAT box elements of these promoters were mutated. Other promoter variants were also generated by random mutagenesis. Evaluation using plasmid vectors integrated at a single site in the genome revealed that these various synthetic promoters were capable of expression levels spanning a 40-fold range. Retroviral vectors were equipped with the synthetic promoters and evaluated for their ability to reproduce the graded expression demonstrated by plasmid integration. A vector with a self-inactivating long terminal repeat could neither reproduce the full range of expression levels nor produce stable expression. Using a second vector design, the different synthetic promoters enabled stable expression over a broad range of expression levels in different cell lines. The online version of this article (doi:10.1007/s11693-011-9089-0) contains supplementary material, which is available to authorized users.

1-Dimensional AgVO3 nanowires hybrid with 2-dimensional graphene nanosheets to create 3-dimensional composite aerogels and their improved electrochemical properties

NASA Astrophysics Data System (ADS)

Liang, Liying; Xu, Yimeng; Lei, Yong; Liu, Haimei

2014-03-01

Three-dimensional (3D) porous composite aerogels have been synthesized via an innovative in situ hydrothermal method assisted by a freeze-drying process. In this hybrid structure, one-dimensional (1D) AgVO3 nanowires are uniformly dispersed on two-dimensional (2D) graphene nanosheet surfaces and/or are penetrated through the graphene sheets, forming 3D porous composite aerogels. As cathode materials for lithium-ion batteries, the composite aerogels exhibit high discharge capacity, excellent rate capability, and good cycling stability.Three-dimensional (3D) porous composite aerogels have been synthesized via an innovative in situ hydrothermal method assisted by a freeze-drying process. In this hybrid structure, one-dimensional (1D) AgVO3 nanowires are uniformly dispersed on two-dimensional (2D) graphene nanosheet surfaces and/or are penetrated through the graphene sheets, forming 3D porous composite aerogels. As cathode materials for lithium-ion batteries, the composite aerogels exhibit high discharge capacity, excellent rate capability, and good cycling stability. Electronic supplementary information (ESI) available: Preparation, characterization, SEM images, XRD patterns, and XPS of AgVO3/GAs. See DOI: 10.1039/c3nr06899d

Simulation of hydrothermal recoveries by adopting symbiotic urban scenario in the Japanese megalopolis

NASA Astrophysics Data System (ADS)

Nakayama, T.; Fujita, T.; Hashimoto, S.; Hamano, H.

2008-05-01

The heat island phenomenon in summer has become a serious environmental problem with the expansion of cities and industrial areas in Japan. The present research evaluated the positive cooling effect of new material pavement (water-holding blocks) in comparison with the passive cooling effect of lawn. We coupled the process- based NIES Integrated Catchment-based Eco-hydrology (NICE) model (Nakayama, 2008; Nakayama and Watanabe, 2004, 2006, 2007; Nakayama et al., 2006, 2007) to an urban canopy model (Nakayama and Fujita, 2008) and the Regional Atmospheric Modeling System (RAMS) in order to simulate the effect of this newly symbiotic pavement on the hydrologic budget and the regional climate at the Kawasaki eco-town in Japan, with a grid spacing of 200 m. The model simulated the water and heat budgets in various types of natural and artificial pavements (covered by lawn, concrete, steel plate, synthetic rubber sheet, infiltration and water-holding blocks), and to evaluate the role of water-holding blocks in promoting evaporation and cooling to counter the heat island phenomenon (2 degrees lower than that at the lawn), by comparing with the simplified empirical model. The heat budget analysis of observation data showed that the latent heat flux at the water-holding pavement has a strong impact on the cooling temperature, which could be reproduced well by the simulation. Because the water temperature in an aquifer is almost constant throughout the year, it is estimated that the use of groundwater as a heat sink would be very effective for tackling the urban heat island phenomenon, particularly during the summer (Ministry of Environment, 2003). We evaluated the relationship between the effect of groundwater use to ameliorate the heat island phenomenon and the effect of infiltration on the water cycle in the catchment. The procedure to integrate the model simulation with political scenario for the effective selection and use of ecosystem service sites in this study would be a very powerful approach to create thermally-pleasing environments in the megalopolis. References; Ministry of Environment, http://www.env.go.jp/air/report/h15-02/, 2003. Nakayama, ECOMOD, doi: 10.1016/j.ecolmodel.2008.02.017, 2008. Nakayama and Fujita, LUP, 2008 (submitted). Nakayama and Watanabe, WRR, doi: 10.1029/2004WR003174, 2004. Nakayama and Watanabe, HESSD, 3, 2101-2144, 2006. Nakayama and Watanabe, HP, doi: 10.1002/hyp.6684, 2007. Nakayama, et al., HP, doi: 10.1002/hyp.6142, 2006. Nakayama, et al., STOTEN, doi: 10.1016/j.scitotenv.2006.11.033, 2007.

Fort Collins Science Center: science accomplishments for fiscal years 2012 and 2013

USGS Publications Warehouse

Wilson, Juliette T.; Hamilton, David B.

2014-01-01

The Fort Collins Science Center (FORT) is a multi-disciplinary research and development center of the U.S. Geological Survey (USGS) located in Fort Collins, Colorado. Organizationally, FORT is within the USGS Southwest Region, although our work extends across the Nation and into several other countries. FORT research focuses on needs of the land- and water-management bureaus within the U.S. Department of the Interior (DOI), other Federal agencies, and those of State and non-government organizations. As a Science Center, we emphasize a multi-disciplinary science approach to provide information for resource-management decisionmaking. FORT’s vision is to maintain and continuously improve the integrated, collaborative, world-class research needed to inform effective, science-based land and resource management. Our science and technological development activities and unique capabilities support all USGS scientific Mission Areas and contribute to successful, collaborative science efforts across the USGS and DOI. We organized our report into an Executive Summary, a cross-reference table, and an appendix. The executive summary provides brief highlights of some key FORT accomplishments for each Mission Area. The table cross-references all major FY2012 and FY2013 science accomplishments with the various Mission Areas that each supports. The one-page accomplishment descriptions in the appendix are organized by USGS Mission Area and describe the many and diverse ways in which our science is applied to resource issues. As in prior years, lists of all FY2012 and FY2013 publications and other product types also are appended.

gPhoton: The GALEX Photon Data Archive

NASA Astrophysics Data System (ADS)

Million, Chase; Fleming, Scott W.; Shiao, Bernie; Seibert, Mark; Loyd, Parke; Tucker, Michael; Smith, Myron; Thompson, Randy; White, Richard L.

2016-12-01

gPhoton is a new database product and software package that enables analysis of GALEX ultraviolet data at the photon level. The project’s stand-alone, pure-Python calibration pipeline reproduces the functionality of the original mission pipeline to reduce raw spacecraft data to lists of time-tagged, sky-projected photons, which are then hosted in a publicly available database by the Mikulski Archive at Space Telescope. This database contains approximately 130 terabytes of data describing approximately 1.1 trillion sky-projected events with a timestamp resolution of five milliseconds. A handful of Python and command-line modules serve as a front end to interact with the database and to generate calibrated light curves and images from the photon-level data at user-defined temporal and spatial scales. The gPhoton software and source code are in active development and publicly available under a permissive license. We describe the motivation, design, and implementation of the calibration pipeline, database, and tools, with emphasis on divergence from prior work, as well as challenges created by the large data volume. We summarize the astrometric and photometric performance of gPhoton relative to the original mission pipeline. For a brief example of short time-domain science capabilities enabled by gPhoton, we show new flares from the known M-dwarf flare star CR Draconis. The gPhoton software has permanent object identifiers with the ASCL (ascl:1603.004) and DOI (doi:10.17909/T9CC7G). This paper describes the software as of version v1.27.2.

Numerical demonstration of surfactant concentration-dependent capillarity and viscosity effects on infiltration from a constant flux line source

NASA Astrophysics Data System (ADS)

Henry, Eric J.; Smith, James E.

2006-09-01

SummarySurface infiltration line sources can deliver surfactant solutions for agricultural purposes or for use in subsurface remediation. Though the prediction of water distribution below a line source has received considerable attention in the scientific literature, little has been has been reported on how infiltration of surfactant solution from a line source differs from water infiltration. Few numerical models are capable of simulating surfactant-induced changes in moisture characteristic and hydraulic conductivity properties of unsaturated soil, so it is difficult to assess the importance of these effects when designing surfactant application schemes. We investigated surfactant infiltration behavior by using the variably-saturated flow and transport model HYDRUS-2D [Simunek, J., Sejna, M., van Genuchten, M.Th., 1999. The HYDRUS-2D software package for simulating the two-dimensional movement of water, heat, and multiple solutes in variably-saturated media, Version 2.0. IGWMC-TPS-53C. International Ground Water Modeling Center, Colorado School of Mines, Golden, CO] which was modified by [Henry, E.J., Smith, J.E., Warrick, A.W., 2002. Two-dimensional modeling of flow and transport in the vadose zone with surfactant-induced flow. Water Resour. Res. 38. DOI: doi:10.1029/2001WR000674] to incorporate surfactant effects on unsaturated flow. Significant differences were found between pure water and surfactant solution infiltration into a fine sand that was initially at residual moisture content. The surfactant solution wetted a larger area, both horizontally and vertically, relative to water, while the distribution of water within the wetted zone was more uniform than in the surfactant system. The surfactant system exhibited transient localized drainage and rewetting caused by surfactant-induced capillary pressure gradients within the wetting front. A standard unsaturated flow model (i.e., one that does not include surfactant effects on flow) is not capable of capturing the transient flow behavior. However, our results show that by using an effective scaled media (ESM) approach a standard model can be used to simulate later-time hydraulic conditions in a surfactant system.

Influence of detector pixel size, TOF resolution and DOI on image quality in MR-compatible whole-body PET.

PubMed

Thoen, Hendrik; Keereman, Vincent; Mollet, Pieter; Van Holen, Roel; Vandenberghe, Stefaan

2013-09-21

The optimization of a whole-body PET system remains a challenging task, as the imaging performance is influenced by a complex interaction of different design parameters. However, it is not always clear which parameters have the largest impact on image quality and are most eligible for optimization. To determine this, we need to be able to assess their influence on image quality. We performed Monte-Carlo simulations of a whole-body PET scanner to predict the influence on image quality of three detector parameters: the TOF resolution, the transverse pixel size and depth-of-interaction (DOI)-correction. The inner diameter of the PET scanner was 65 cm, small enough to allow physical integration into a simultaneous PET-MR system. Point sources were used to evaluate the influence of transverse pixel size and DOI-correction on spatial resolution as function of radial distance. To evaluate the influence on contrast recovery and pixel noise a cylindrical phantom of 35 cm diameter was used, representing a large patient. The phantom contained multiple hot lesions with 5 mm diameter. These lesions were placed at radial distances of 50, 100 and 150 mm from the center of the field-of-view, to be able to study the effects at different radial positions. The non-prewhitening (NPW) observer was used for objective analysis of the detectability of the hot lesions in the cylindrical phantom. Based on this analysis the NPW-SNR was used to quantify the relative improvements in image quality due to changes of the variable detector parameters. The image quality of a whole-body PET scanner can be improved significantly by reducing the transverse pixel size from 4 to 2.6 mm and improving the TOF resolution from 600 to 400 ps and further from 400 to 200 ps. Compared to pixel size, the TOF resolution has the larger potential to increase image quality for the simulated phantom. The introduction of two layer DOI-correction only leads to a modest improvement for the spheres at radial distance of 150 mm from the center of the transaxial FOV.

Dehumidification of Iberia by enhanced summer upwelling

NASA Astrophysics Data System (ADS)

Miranda, P. M.; Costa, V.; Nogueira, M.; Semedo, A.

2015-12-01

Dehumidification of Iberia by enhanced summer upwelling Miranda PMA, Costa V, Semedo AIDL, Faculdade de Ciências, University of LisbonA 24-year simulation of the recent Iberian climate, using the WRF model at 9km resolution forced by ERA-Interim reanalysis (1989-2012), is analysed for the decadal evolution of the upwelling forcing coastal wind and for column integrated Precipitable water vapour (PWV). Results indicate that, unlike what was found by Bakun et al. (2009) for the Peruvian region, a statistically significant trend in the upwelling favourable (northerly) wind has been accompanied by a corresponding decrease in PWV, not only inland but also over the coastal waters. Such increase is consistent with a reinforced northerly coastal jet in the maritime boundary layer contributing to atmospheric Ekman pumping of dry continental air into the coastal region. Diagnostics of the prevalence of the Iberian thermal low following Hoinka and Castro (2003) also show a positive trend in its frequency during an extended summer period (April to September). These results are consistent with recent studies indicating an upward trend in the frequency of upwelling in SW Iberia (Alves and Miranda 2013), and may be relevant for climate change applications as an increase in coastal upwelling (Miranda et al 2013) may lead to substantial regional impacts in the subtropics. Aknowledgements: Study supported by FCT Grant RECI/GEO-MET/0380/2012Alves JMR, Miranda PMA (2013) Variability of Iberian upwelling implied by ERA-40 and ERA-Interim reanalyses, Tellus A 2013, http://dx.doi.org/10.3402/tellusa.v65i0.19245.Bakun et al (2010) Greenhouse gas, upwelling-favorable winds, and the future of coastal ocean upwelling ecosystems, Global Change Biology, doi: 10.1111/j.1365-2486.2009.02094.xHoinka KP, Castro M (2003) The Iberian Peninsula thermal low. QJRMS, 129, 1491- 1511, doi: 10.1256/qj.01.189.Miranda et al (2013) Climate change and upwelling: response of Iberian upwelling to atmospheric forcing in a regional climate scenario. Climate Dynamics, doi: 10.1007/s00382-012-1442-9.

Mechanisms for the cooling of the central eastern Pacific

NASA Astrophysics Data System (ADS)

Liu, Chunlei; Allan, Richard

2017-04-01

The sea surface temperature variation over the Central Eastern Pacific (CEP) controls the global mean surface temperature variation (Kosaka and Xie, 2013). The regional cooling over CEP is directly linked to the surface warming slowdown in last twenty years. It is important to understand the mechanisms of the CEP cooling in the warming climate in order to have a robust prediction of the future climate change. Previous studies showed the CEP cooling is related to the pronounced strengthening in Pacific trade winds over the past two decades, which is sufficient to account for the cooling of the CEP and a substantial slowdown in surface warming through increased subsurface ocean heat uptake in the Pacific shallow overturning cells and equatorial upwelling in the CEP (England et al., 2014). By analysing the cloud data, Zhou et al. (2016) showed the increase of the lower cloud cover (LCC) over the CEP area contributed to the cooling, resulting in positive local feedback and negative global feedback. Using the data from observations, ERA-Interim reanalysis and atmospheric climate simulations, our study shows that the increasing Latent Heat (LH) also plays an important role in the CEP cooling (Liu et al., 2015). After the sensitivity test using the bulk formula, it showed that both wind and total column water vapour content contribute to the cooling trends of the SST in CEP. The observed trends of the wind and LH in CEP also confirmed this. England et al. (2014) Recent intensification of wind-driven circulation in the Pacific and the ongoing warming hiatus, Nat. Clim. Change, 4, 222-227, doi:10.1038/nclimate2106. Kosaka, Y., and S. P. Xie (2013), Recent global-warming hiatus tied to equatorial Pacific surface cooling, Nature, 501, 403-407, doi:10.1038/nature12534. Liu et al. (2015) Combining satellite observations and reanalysis energy transports to estimate global net surface energy fluxes 1985-2012. J. Geophys. Res. , Atmospheres. ISSN 2169-8996 doi: 10.1002/2015JD023264. Zhou et al. (2016) Impact of decadal cloud variations on the Earth's energy budget, Nature Geoscience 9, 871-874 (2016) doi:10.1038/ngeo2828.

43 CFR 2.2 - What is DOI's policy regarding release of records under the FOIA?

Code of Federal Regulations, 2012 CFR

2012-10-01

... 43 Public Lands: Interior 1 2012-10-01 2011-10-01 true What is DOI's policy regarding release of records under the FOIA? 2.2 Section 2.2 Public Lands: Interior Office of the Secretary of the Interior RECORDS AND TESTIMONY; FREEDOM OF INFORMATION ACT General Information § 2.2 What is DOI's policy regarding...

43 CFR 2.2 - What is DOI's policy regarding release of records under the FOIA?

Code of Federal Regulations, 2011 CFR

2011-10-01

... 43 Public Lands: Interior 1 2011-10-01 2011-10-01 false What is DOI's policy regarding release of records under the FOIA? 2.2 Section 2.2 Public Lands: Interior Office of the Secretary of the Interior RECORDS AND TESTIMONY; FREEDOM OF INFORMATION ACT General Information § 2.2 What is DOI's policy regarding...

Systems Engineering Publications | Wind | NREL

Science.gov Websites

Different Turbine Heights. AIAA SciTech Forum: 35th Wind Energy Symposium, Grapevine, Texas, doi:10.2514 Tool for Variable-Speed Wind Turbine Generators. NREL/TP-5000-66462, doi:10.2514/6.2017-1619. Seturaman Turbine using GeneratorSE. AIAA SciTech Forum: 35th Wind Energy Symposium, Grapevine, Texas, doi:10.2172

43 CFR 2.5 - Does DOI maintain an index of its reading room materials?

Code of Federal Regulations, 2010 CFR

2010-10-01

... 43 Public Lands: Interior 1 2010-10-01 2010-10-01 false Does DOI maintain an index of its reading room materials? 2.5 Section 2.5 Public Lands: Interior Office of the Secretary of the Interior RECORDS... a FOIA Request § 2.5 Does DOI maintain an index of its reading room materials? Each bureau will...

75 FR 82061 - Notice To Amend an Existing System of Records; Privacy Act of 1974; as Amended

Federal Register 2010, 2011, 2012, 2013, 2014

2010-12-29

... amended, the Department of the Interior (DOI) is issuing public notice of its intent to amend the Bureau... would require a contrary determination. The DOI will publish a revised notice if changes are made based... primary uses of the records are: (1) To provide the BLM, the DOI or state, local and tribal governments...

75 FR 8731 - Privacy Act of 1974, as Amended; Revisions to the Existing System of Records

Federal Register 2010, 2011, 2012, 2013, 2014

2010-02-25

... existing system of records. SUMMARY: The Department of the Interior (DOI) is issuing public notice of its... systems subject to the Privacy Act of 1974 (5 U.S.C. 552a). DOI-71, ``Electronic FOIA Tracking System and... Solicitor network in the Department of the Interior (DOI), Washington, DC 20240. SYSTEM MANAGER AND ADDRESS...

75 FR 10810 - Notice of Proposed Renewal of Information Collection: OMB Control Number 1035-0004, Trust Funds...

Federal Register 2010, 2011, 2012, 2013, 2014

2010-03-09

..., the Office of the Special Trustee for American Indians, Department of the Interior (DOI), announces... Street, NE., Albuquerque, New Mexico 87109, or via e-mail to [email protected]doi.gov . Individuals... also e-mail requests for further information to him at [email protected]doi.gov or call (505) 816-1096...

Japan Link Center (JaLC): link management and DOI assignment for Japanese electronic scholarly contents

NASA Astrophysics Data System (ADS)

Kato, Takafumi; Tsuchiya, Eri; Kubota, Soichi; Miyagawa, Yoshiyuki

JST, cooperated with several national institutes, is currently developing “Japan Link Center”, which manages Japanese electronic scholarly contents (journal articles, books, dissertations etc.) in an integrated fashion using Digital Object Identifier (DOI). Japan Link Center will manage metadata and whereabouts information of the contents in the digital environment and provide domestic and international linking information, cite/cited information to activate dissemination of S&T information, furthermore, to strengthen transmission of S&T information from Japan. Japan Link Center is expected to be appointed as the 9th DOI registration agency (RA) in the world by the International DOI Foundation (IDF) this spring.

Reply to Comment by W. R. Peltier, D. F. Argus, and R. Drummond on "An Assessment of the ICE6G_C (VM5a) Glacial Isostatic Adjustment Model"

NASA Astrophysics Data System (ADS)

Purcell, A.; Tregoning, P.; Dehecq, A.

2018-02-01

The empirical approximation of Purcell et al. (2011, https://doi.org/10.1029/2011GL048624) has been validated by Peltier et al. (2018, https://doi.org/10.1002/2016JB013844). In their Comment they introduced new results derived from the same ice/rheology models of ICE6G_C (VM5a) but using a different model for Antarctic bathymetry. This has greatly reduced the differences in predicted Antarctic uplift rates relative to those of Purcell et al. (2016, https://doi.org/10.1002/2015JB012742). In fact, with a ˜50% reduction in uplift rate in the Weddell Sea, the results of Peltier et al. (2018, https://doi.org/10.1002/2016JB013844) now agree more closely with the predictions of Purcell et al. (2016, https://doi.org/10.1002/2015JB012742) than with the original ICE6G_C values. Peltier et al. (2018, https://doi.org/10.1002/2016JB013844) state that the high power in their high-frequency spherical harmonic coefficients remains in their new calculations. They also claim that Purcell et al. (2016, https://doi.org/10.1002/2015JB012742) used an inaccurate loading history in deriving their velocity field. In fact, the ice load history was unchanged; to remove any ambiguity, the ice and water load histories used in the CALSEA calculations are provided in the supporting information.

5-HT2A serotonin receptor agonist DOI alleviates cytotoxicity in neuroblastoma cells: role of the ERK pathway.

PubMed

Marinova, Zoya; Walitza, Susanne; Grünblatt, Edna

2013-07-01

Disturbances of serotonergic signaling, including the serotonin 2A (5-HT2A) receptor, have been implicated in neuropsychiatric and neurodegenerative disorders. The aim of the present study was to characterize the effect of a 5-HT2A receptor agonist on cytotoxicity in a neuronal cell line and address the involved mechanism. HTR2A mRNA and protein expression in human neuroblastoma SK-N-SH cells was confirmed. Cells were subjected to serum deprivation and cell viability was monitored continuously with xCELLigence. In a dose-response study the 5-HT2A agonist (±)-2,5-dimethoxy-4-iodoamphetamine hydrochloride (DOI) (25 nM to 5 μM) protected against serum deprivation cytotoxicity. The selective 5-HT2A receptor antagonist MDL 11,939, the general protein tyrosine kinase inhibitor genistein, and the extracellular signal-regulated kinase (ERK) pathway MEK inhibitor U0126, all attenuated DOI's protective effect. An antibody array suggested that 1 μM DOI affected phosphorylation of several tyrosine kinases. Western blot further confirmed that DOI transiently increased ERK phosphorylation, indicating its activation. Finally, protective concentrations of DOI increased cellular mitochondrial mass, an effect prevented by pretreatment with U0126. In conclusion, our results suggest that DOI protects SK-N-SH cells against serum deprivation through ERK pathway activation. They imply 5-HT2A receptor modulation as a potential target for neuroprotection. Copyright © 2013 Elsevier Inc. All rights reserved.

Dysregulated corticostriatal activity in open-field behavior and the head-twitch response induced by the hallucinogen 2,5-dimethoxy-4-iodoamphetamine.

PubMed

Rangel-Barajas, Claudia; Estrada-Sánchez, Ana María; Barton, Scott J; Luedtke, Robert R; Rebec, George V

2017-02-01

The substituted amphetamine, 2,5-dimethoxy-4-iodoamphetamine (DOI), is a hallucinogen that has been used to model a variety of psychiatric conditions. Here, we studied the effect of DOI on neural activity recorded simultaneously in the primary motor cortex (M1) and dorsal striatum of freely behaving FvB/N mice. DOI significantly decreased the firing rate of individually isolated neurons in M1 and dorsal striatum relative to pre-drug baseline. It also induced a bursting pattern of activity by increasing both the number of spikes within a burst and burst duration. In addition, DOI increased coincident firing between simultaneously recorded neuron pairs within the striatum and between M1 and dorsal striatum. Local field potential (LFP) activity also increased in coherence between M1 and dorsal striatum after DOI in the low frequency gamma band (30-50 Hz), while corticostriatal coherence in delta, theta, alpha, and beta activity decreased. We also assessed corticostriatal LFP activity in relation to the DOI-induced head-twitch response (HTR), a readily identifiable behavior used to assess potential treatments for the conditions it models. The HTR was associated with increased delta and decreased theta power in both M1 and dorsal striatum. Together, our results suggest that DOI dysregulates corticostriatal communication and that the HTR is associated with this dysregulation. Copyright © 2016 Elsevier Ltd. All rights reserved.

Application of Digital Object Identifiers to data sets at the NASA Goddard Earth Sciences Data and Information Services Center (GES DISC)

NASA Astrophysics Data System (ADS)

Vollmer, B.; Ostrenga, D.; Johnson, J. E.; Savtchenko, A. K.; Shen, S.; Teng, W. L.; Wei, J. C.

2013-12-01

Digital Object Identifiers (DOIs) are applied to selected data sets at the NASA Goddard Earth Sciences Data and Information Services Center (GES DISC). The DOI system provides an Internet resolution service for unique and persistent identifiers of digital objects. Products assigned DOIs include data from the NASA MEaSUREs Program, the Earth Observing System (EOS) Aqua Atmospheric Infrared Sounder (AIRS) and EOS Aura High Resolution Dynamics Limb Sounder (HIRDLS). DOIs are acquired and registered through EZID, California Digital Library and DataCite. GES DISC hosts a data set landing page associated with each DOI containing information on and access to the data including a recommended data citation when using the product in research or applications. This work includes participation with the earth science community (e.g., Earth Science Information Partners (ESIP) Federation) and the NASA Earth Science Data and Information System (ESDIS) Project to identify, establish and implement best practices for assigning DOIs and managing supporting information, including metadata, for earth science data sets. Future work includes (1) coordination with NASA mission Science Teams and other data providers on the assignment of DOIs for other GES DISC data holdings, particularly for future missions such as Orbiting Carbon Observatory -2 and -3 (OCO-2, OCO-3) and projects (MEaSUREs 2012), (2) construction of landing pages that are both human and machine readable, and (3) pursuing the linking of data and publications with tools such as the Thomson Reuters Data Citation Index.

Comment on "AGU Statement Regarding the Conviction of Italian Seismologists"

NASA Astrophysics Data System (ADS)

Marenco, Franco

2013-02-01

I disagree with AGU's position on the conviction of Italian seismologists, which is, I believe, based on an inaccurate reading of the news (Eos 93(44), 444, doi:10.1029/2012EO440013). As a matter of fact, the L'Aquila ruling is based on the finding that the defendant scientists lacked both independence and good faith and that they gave unscientific (ideological, a priori, and, in the end, lethal) advice to the population. The defendants are, moreover, given the opportunity to appeal if they believe the tribunals have incorrectly assessed the evidence.

Staff - Karri R. Sicard | Alaska Division of Geological & Geophysical

Science.gov Websites

Raw Data File 2017-5, 26 p. http://doi.org/10.14509/29727 Todd, Erin, Kylander-Clark, Andrew, Wypych Geological & Geophysical Surveys Raw Data File 2017-2, 7 p. http://doi.org/10.14509/29717 Wypych, Alicja ; Geophysical Surveys Raw Data File 2016-9, 3 p. http://doi.org/10.14509/29685 Twelker, Evan, Freeman, L.K

25 CFR 900.208 - How are non-medical related tort claims and lawsuits filed for DOI?

Code of Federal Regulations, 2010 CFR

2010-04-01

... 25 Indians 2 2010-04-01 2010-04-01 false How are non-medical related tort claims and lawsuits filed for DOI? 900.208 Section 900.208 Indians BUREAU OF INDIAN AFFAIRS, DEPARTMENT OF THE INTERIOR, AND... Related Claims § 900.208 How are non-medical related tort claims and lawsuits filed for DOI? Non-medical...

43 CFR 2.32 - How long does DOI have to respond to my appeal?

Code of Federal Regulations, 2010 CFR

2010-10-01

... 43 Public Lands: Interior 1 2010-10-01 2010-10-01 false How long does DOI have to respond to my appeal? 2.32 Section 2.32 Public Lands: Interior Office of the Secretary of the Interior RECORDS AND TESTIMONY; FREEDOM OF INFORMATION ACT FOIA Appeals § 2.32 How long does DOI have to respond to my appeal? (a...

41 CFR 102-75.690 - What happens if property that was transferred for use as a public park or recreation area is...

Code of Federal Regulations, 2010 CFR

2010-07-01

... noncompliance with the terms or conditions of disposal, or for other cause? DOI must notify the appropriate GSA... disposal or for other cause. The notification must cite the legal and administrative actions that DOI must... schedules. After receiving notice from DOI that title to the property is proposed for revesting, GSA will...

41 CFR 102-75.485 - What happens if property that was conveyed for use as a historic monument is revested in the...

Code of Federal Regulations, 2010 CFR

2010-07-01

... use as a historic monument is revested in the United States? In such a case, DOI must notify the... disposal or for other cause. The notification must cite the legal and administrative actions that DOI must... grantee. After receiving a statement from DOI that title to the property is proposed for revesting, GSA...

43 CFR 45.1 - What is the purpose of this part, and to what license proceedings does it apply?

Code of Federal Regulations, 2010 CFR

2010-10-01

... prescriptions that the Department of the Interior (DOI) may develop for inclusion in a hydropower license issued... apply to recommendations that DOI may submit to FERC under FPA section 10(a) or (j), 16 U.S.C. 803(a... a hydropower license. Where DOI and either or both of these other Departments develop conditions or...

41 CFR 102-75.485 - What happens if property that was conveyed for use as a historic monument is revested in the...

Code of Federal Regulations, 2011 CFR

2011-01-01

... use as a historic monument is revested in the United States? In such a case, DOI must notify the... disposal or for other cause. The notification must cite the legal and administrative actions that DOI must... grantee. After receiving a statement from DOI that title to the property is proposed for revesting, GSA...

25 CFR 900.208 - How are non-medical related tort claims and lawsuits filed for DOI?

Code of Federal Regulations, 2011 CFR

2011-04-01

... 25 Indians 2 2011-04-01 2011-04-01 false How are non-medical related tort claims and lawsuits filed for DOI? 900.208 Section 900.208 Indians BUREAU OF INDIAN AFFAIRS, DEPARTMENT OF THE INTERIOR, AND... Related Claims § 900.208 How are non-medical related tort claims and lawsuits filed for DOI? Non-medical...

41 CFR 102-75.690 - What happens if property that was transferred for use as a public park or recreation area is...

Code of Federal Regulations, 2011 CFR

2011-01-01

... noncompliance with the terms or conditions of disposal, or for other cause? DOI must notify the appropriate GSA... disposal or for other cause. The notification must cite the legal and administrative actions that DOI must... schedules. After receiving notice from DOI that title to the property is proposed for revesting, GSA will...

43 CFR 45.1 - What is the purpose of this part, and to what license proceedings does it apply?

Code of Federal Regulations, 2011 CFR

2011-10-01

... prescriptions that the Department of the Interior (DOI) may develop for inclusion in a hydropower license issued... apply to recommendations that DOI may submit to FERC under FPA section 10(a) or (j), 16 U.S.C. 803(a... a hydropower license. Where DOI and either or both of these other Departments develop conditions or...

43 CFR 2.32 - How long does DOI have to respond to my appeal?

Code of Federal Regulations, 2011 CFR

2011-10-01

... 43 Public Lands: Interior 1 2011-10-01 2011-10-01 false How long does DOI have to respond to my appeal? 2.32 Section 2.32 Public Lands: Interior Office of the Secretary of the Interior RECORDS AND TESTIMONY; FREEDOM OF INFORMATION ACT FOIA Appeals § 2.32 How long does DOI have to respond to my appeal? (a...

Effect of Mars Atmospheric Loss on Snow Melt Potential in a 3.5 Gyr Mars Climate Evolution Model

NASA Astrophysics Data System (ADS)

Mansfield, Megan; Kite, Edwin S.; Mischna, Michael A.

2018-04-01

Post-Noachian Martian paleochannels indicate the existence of liquid water on the surface of Mars after about 3.5 Gya (Irwin et al., 2015, https://doi.org/10.1016/j.geomorph.2014.10.012; Palucis et al., 2016, https://doi.org/10.1002/2015JE004905). In order to explore the effects of variations in CO2 partial pressure and obliquity on the possibility of surface water, we created a zero-dimensional surface energy balance model. We combine this model with physically consistent orbital histories to track conditions over the last 3.5 Gyr of Martian history. We find that melting is allowed for atmospheric pressures corresponding to exponential loss rates of dP/dt∝t-3.73 or faster, but this rate is within 0.5σ of the rate calculated from initial measurements made by the Mars Atmosphere and Volatile EvolutioN (MAVEN) mission, if we assume all the escaping oxygen measured by MAVEN comes from atmospheric CO2 (Lillis et al., 2017, https://doi.org/10.1002/2016JA023525; Tu et al., 2015, https://doi.org/10.1051/0004-6361/201526146). Melting at this loss rate matches selected key geologic constraints on the formation of Hesperian river networks, assuming optimal melt conditions during the warmest part of each Mars year (Irwin et al., 2015, https://doi.org/10.1016/j.geomorph.2014.10.012; Kite, Gao, et al., 2017, https://doi.org/10.1038/ngeo3033; Kite, Sneed et al., 2017, https://doi.org/10.1002/2017GL072660; Stopar et al., 2006, https://doi.org/10.1016/j.gca.2006.07.039). The atmospheric pressure has a larger effect on the surface energy than changes in Mars's mean obliquity. These results show that initial measurements of atmosphere loss by MAVEN are consistent with atmospheric loss being the dominant process that switched Mars from a melt-permitting to a melt-absent climate (Jakosky et al., 2017, https://doi.org/10.1126/science.aai7721), but non-CO2 warming will be required if <2 Gya paleochannels are confirmed or if most of the escaping oxygen measured by MAVEN comes from H2O.

Did Oligocene crustal thickening precede basin development in northern Thailand? A geochronological reassessment of Doi Inthanon and Doi Suthep

NASA Astrophysics Data System (ADS)

Gardiner, Nicholas J.; Roberts, Nick M. W.; Morley, Christopher K.; Searle, Michael P.; Whitehouse, Martin J.

2016-01-01

The Doi Inthanon and Doi Suthep metamorphic core complexes in northern Thailand are comprised of amphibolite-grade migmatitic gneisses mantled by lower-grade mylonites and metasedimentary sequences, thought to represent Cordilleran-style core complexes exhumed through the mobilization of a low-angle detachment fault. Previous studies have interpreted two metamorphic events (Late Triassic and Late Cretaceous), followed by ductile extension between the late Eocene and late Oligocene, a model which infers movement on the detachment at ca. 40 Ma, and which culminates in a rapid unroofing of the complexes in the early Miocene. The Chiang Mai Basin, the largest such Cenozoic Basin in the region, lies immediately to the east. Its development is related to the extension observed at Doi Inthanon and Doi Suthep, however it is not definitively dated, and models for its development have difficulty reconciling Miocene cooling ages with Eocene detachment movement. Here we present new in-situ LA-ICP-MS and SIMS U-Pb age data of zircon and monazite grains from gneiss and leucogranite samples taken from Doi Inthanon and Doi Suthep. Our new zircon data exhibit an older age range of 221-210 Ma, with younger ages of ca. 72 Ma, and 32-26 Ma. Our monazite data imply an older age cluster at 83-67 Ma, and a younger age cluster of 34-24 Ma. While our data support the view of Indosinian basement being reworked in the Cretaceous, they also indicate a late Eocene-Oligocene tectonothermal event, resulting in prograde metamorphism and anatexis. We suggest that this later event is related to localized transpressional thickening associated with sinistral movement on the Mae Ping Fault, coupled with thickening at the restraining bend of the Mae Yuan Fault to the immediate west of Doi Inthanon. Further, this upper Oligocene age limit from our zircon and monazite data would imply a younger Miocene constraint on movement of the detachment, which, when combined with the previously recorded Miocene cooling ages, has implications for a model for the onset of extension and subsequent development of the Chiang Mai Basin in the early mid-Miocene.

Practices in NASA's EOSDIS to Promote Open Data and Research Integrity

NASA Astrophysics Data System (ADS)

Behnke, J.; Ramapriyan, H.

2017-12-01

The purpose of this paper is to highlight the key practices adopted by NASA in its Earth Observing System Data and Information System (EOSDIS) to promote and facilitate open data and research integrity. EOSDIS is the system that manages most of NASA's Earth science data from various sources - satellites, aircraft, field campaigns and some research projects. Since its inception in 1990 as a part of the Earth Observing System (EOS) Program, EOSDIS has been following NASA's free and open data and information policy, whereby data are shared with all users on a non-discriminatory basis and are provided at no cost. To ensure that the data are discoverable and accessible to the user community, NASA follows an evolutionary development approach, whereby the latest technologies that can be practically adopted are infused into EOSDIS. This results in continuous improvements in system capabilities such that technologies that users are accustomed to in other environments are brought to bear in their access to NASA's Earth observation data. Mechanisms have existed for ensuring that the data products offered by EOSDIS are vetted by the community before they are released. Information about data products such as Algorithm Theoretical Basis Documents and quality assessments are openly available with the products. The EOSDIS Distributed Active Archive Centers (DAACs) work with the science teams responsible for product generation to assist with proper use of metadata. The DAACs have knowledgeable staff to answer users' questions and have access to scientific experts as needed. Citation of data products in scientific papers are facilitated by assignment of Digital Object Identifiers (DOIs) - at present, over 50% of data products in EOSDIS have been assigned DOIs. NASA gathers and publishes citation metrics for the datasets offered by the DAACs. Through its Software and Services Citations Working Group, NASA is currently investigating broadening DOI assignments to promote greater provenance traceability. NASA has developed Preservation Content Specifications for Earth science data to ensure that provenance and context are captured and preserved for the future and is applying them to data and information from its missions. All these actions promote availability of information to promote integrity in scientific research.

Use of local pastoral species to increase fodder production of the saline rangelands in southern Tunisia

NASA Astrophysics Data System (ADS)

Tlili, Abderrazak; Tarhouni, Mohamed; Cardà, Artemi; Neffati, Mohamed

2017-04-01

Climate changes associated with multiple destructive human activities accelerate the degradation process of the natural rangelands around the world and especially the vulnerable areas such as the dryland ecosystems (Anaya-Romero et al., 2015; Eskandari et al., 2016; Muños Rojas et al., 2016; Vicente-Serrano et al., 2016). The vegetation cover and the biomass production of these ecosystems are decreasing and this is resulting in land degradation due to the soil erosion and changes in soil quality due to the abuse and misuse of the soil resources (Cerdà et al., 2016; Prosdocimi et al., 2016; Keesstra et al., 2016). To cope with such threats, it is necessary to develop some management techniques (restoration, plantation…) to enhance the biomass production and the carbon sequestration of the degraded rangelands (Muñoz-Rojas et al., 2016; Tarhouni et al., 2016). The valorization of saline water by planting pastoral halophyte species in salt-affected soils as well as the marginal areas are considered among the valuable tools to increase the rangeland production in dry areas. In this work, the ability of four plants (Atriplex halimus L. (Amaranthaceae), Atriplex mollis Desf. (Amaranthaceae), Lotus creticus L. (Fabaceae) and Cenchrus ciliaris L. (Poaceae)) to grow and to produce are tested under a field saline conditions (water and soil). Non-destructive method (Vegmeasure) is used to estimate the biomass production of these species. Chemical (crude protein, moisture and ash contents) and biochemical analyses (sugars, tannins and polyphenols contents) are also undertaken. Two years after plantation, the obtained results showed the ability of the four species to survive and to grow under high salinity degree. A strong positive correlation was obtained between the canopy cover and the dry biomass of the four studied species. Hence, the restoration of saline soils can be ensured by planting local halophytes. Acknowledgements. The research leading to these results has received funding from the European Union Seventh Framework Programme (FP7/2007-2013) under grant agreement n° 603498 (RECARE project) References Anaya-Romero, M., S. K. Abd-Elmabod, M. Muñoz-Rojas, G. Castellano, C. J. Ceacero, S. Alvarez, M. Méndez, and D. De la Rosa. 2015. Evaluating Soil Threats Under Climate Change Scenarios in the Andalusia Region, Southern Spain. Land Degradation and Development 26 (5): 441-449. doi:10.1002/ldr.2363. Cerdà, A., González-Pelayo, O., Giménez-Morera, A., Jordán, A., Pereira, P., Novara, A., Brevik, E.C., Prosdocimi, M., Mahmoodabadi, M., Keesstra, S., García Orenes, F., Ritsema, C., 2016. The use of barley straw residues to avoid high erosion and runoff rates on persimmon plantations in Eastern Spain under low frequency - high magnitude simulated rainfall events. Soil Res, 54, 2, 154-165 DOI: 10.1071/SR15092 Eskandari, H., Borji, M., Khosravi, H., Mesbahzadeh, T. Desertification of forest, range and desert in Tehran province, affected by climate change. (2016) Solid Earth, 7 (3), pp. 905-915. DOI: http://dx.doi.org/10.5194/se-7-905-2016 Keesstra, S., P. Pereira, A. Novara, E. C. Brevik, C. Azorin-Molina, L. Parras-Alcántara, A. Jordán, and A. Cerdà. 2016. Effects of Soil Management Techniques on Soil Water Erosion in Apricot Orchards. Science of the Total Environment 551-552: 357-366. doi:10.1016/j.scitotenv.2016.01.182. Mengistu, D., W. Bewket, and R. Lal. 2016. Conservation Effects on Soil Quality and Climate Change Adaptability of Ethiopian Watersheds. Land Degradation and Development 27 (6): 1603-1621. doi:10.1002/ldr.2376. Muñoz-Rojas, M., Erickson, T.E., Martini, D., Dixon, K.D., Merritt, D.J (2016) Climate and soil factors influencing seedling recruitment of plant species used for dryland restoration. SOIL 2:1-11, DOI: 10.5194/soil-2016-25 Prosdocimi, M., A. Jordán, P. Tarolli, S. Keesstra, A. Novara, and A. Cerdà. 2016. The Immediate Effectiveness of Barley Straw Mulch in Reducing Soil Erodibility and Surface Runoff Generation in Mediterranean Vineyards. Science of the Total Environment 547: 323-330. doi:10.1016/j.scitotenv.2015.12.076. Tarhouni, M., W. Ben Hmida, and M. Neffati. 2015. Long-Term Changes in Plant Life Forms as a Consequence of Grazing Exclusion Under Arid Climatic Conditions. Land Degradation and Development. doi:10.1002/ldr.2407. Vicente-Serrano, S. M. 2016. Foreword: Drought Complexity and Assessment Under Climate Change Conditions. Cuadernos De Investigacion Geografica 42 (1): 7-11. doi:10.18172/cig.2961.

Active control stabilization of pelvic position in the transverse plane: an evaluation of soccer players' performance.

PubMed

Santos, Thiago Ribeiro Teles; Andrade, Juliana Alves de; Silva, Bárbara Lopes da; Garcia, Alysson Francisco Alves; Persichini Filho, José Gaspar Wild; Ocarino, Juliana de Melo; Silva, Paula Lanna

2014-08-01

To describe the capability of soccer players to stabilize pelvic position actively in the transverse plane; and, to evaluate the influence of lower limb dominance, length of exposure to soccer practice, and field position on pelvic stabilization capability. Cross-sectional. Sixty-eight soccer players from under-15 (U-15) and professional categories. Magnitude and asymmetry of pelvic tilt in the transverse plane, evaluated using the bridge test with unilateral knee extension. The magnitude of pelvic tilt did not differ between dominant and non-dominant sides, suggesting absence of relative asymmetry. However, there was difference between the sides of greater and lesser magnitude of pelvic tilt, indicating presence of absolute asymmetry. Players with shorter length of exposure to soccer practice (U-15 group) had greater pelvic tilt than players with longer length of exposure (professional group). There was no association of field position with the magnitude and asymmetry of pelvic tilt. Soccer players showed asymmetry in pelvic stabilization capability that was unrelated to lower limb dominance or field position. Athletes with longer length of exposure to soccer practice present better capability to stabilize the pelvis in the transverse plane than those with shorter length of exposure to soccer practice. Copyright © 2013 Elsevier Ltd. All rights reserved.

STS-87 Mission Specialist Takao Doi during CEIT

NASA Technical Reports Server (NTRS)

1997-01-01

STS-87 Mission Specialist Takao Doi , Ph.D., of the National Space Development Agency of Japan, participates in the Crew Equipment Integration Test (CEIT) in Kennedy Space Centers (KSC's) Vertical Processing Facility. Glenda Laws, the extravehicular activity (EVA) coordinator, Johnson Space Center, stands behind Dr. Doi. The CEIT gives astronauts an opportunity to get a hands-on look at the payloads with which they will be working on-orbit. STS-87 will be the fourth United States Microgravity Payload and flight of the Spartan-201 deployable satellite. During the mission, Dr. Doi will be the first Japanese astronaut to perform a spacewalk. STS-87 is scheduled for a Nov. 19 liftoff from KSC.

STS-87 Mission Specialist Doi with EVA coordinator Laws participates in the CEIT for his mission

NASA Technical Reports Server (NTRS)

1997-01-01

STS-87 Mission Specialist Takao Doi , Ph.D., of the National Space Development Agency of Japan, participates in the Crew Equipment Integration Test (CEIT) at Kennedy Space Center (KSC). Glenda Laws, the extravehicular activity (EVA) coordinator, Johnson Space Center, stands behind Dr. Doi. The CEIT gives astronauts an opportunity to get a hands-on look at the payloads with which they will be working on-orbit. STS-87 will be the fourth United States Microgravity Payload and flight of the Spartan-201 deployable satellite. During the mission, Dr. Doi will be the first Japanese astronaut to perform a spacewalk. STS- 87 is scheduled for a Nov. 19 liftoff from KSC.

Open-field mouse brain PET: design optimisation and detector characterisation.

PubMed

Kyme, Andre Z; Judenhofer, Martin S; Gong, Kuang; Bec, Julien; Selfridge, Aaron; Du, Junwei; Qi, Jinyi; Cherry, Simon R; Meikle, Steven R

2017-07-13

'Open-field' PET, in which an animal is free to move within an enclosed space during imaging, is a very promising advance for neuroscientific research. It provides a key advantage over conventional imaging under anesthesia by enabling functional changes in the brain to be correlated with an animal's behavioural response to environmental or pharmacologic stimuli. Previously we have demonstrated the feasibility of open-field imaging of rats using motion compensation techniques applied to a commercially available PET scanner. However, this approach of 'retro-fitting' motion compensation techniques to an existing system is limited by the inherent geometric and performance constraints of the system. The goal of this project is to develop a purpose-built PET scanner with geometry, motion tracking and imaging performance tailored and optimised for open-field imaging of the mouse brain. The design concept is a rail-based sliding tomograph which moves according to the animal's motion. Our specific aim in this work was to evaluate candidate scanner designs and characterise the performance of a depth-of-interaction detector module for the open-field system. We performed Monte Carlo simulations to estimate and compare the sensitivity and spatial resolution performance of four scanner geometries: a ring, parallel plate, and two box variants. Each system was based on a detector block consisting of a 23  ×  23 array of 0.785  ×  0.785  ×  20 mm 3 LSO crystals (overall dim. 19.6  ×  19.6  ×  20 mm). We found that a DoI resolution capability of 3 mm was necessary to achieve approximately uniform sub-millimetre spatial resolution throughout the FoV for all scanners except the parallel-plate geometry. With this DoI performance, the sensitivity advantage afforded by the box geometry with overlapping panels (16% peak absolute sensitivity, a 36% improvement over the ring design) suggests this unconventional design is best suited for imaging the mouse brain. We also built and characterised the block detector modelled in the simulations, including a dual-ended readout based on 6  ×  6 arrays of through-silicon-via silicon photomultipliers (active area 84%) for DoI estimation. Identification of individual crystals in the flood map was excellent, energy resolution varied from 12.4%  ±  0.6% near the centre to 24.4%  ±  3.4% at the ends of the crystal, and the average DoI resolution was 2.8 mm  ±  0.35 mm near the central depth (10 mm) and 3.5 mm  ±  1.0 mm near the ends. Timing resolution was 1.4  ±  0.14 ns. Therefore, the DoI detector module meets the target specifications for the application and will be used as the basis for a prototype open-field mouse PET scanner.

Open-field mouse brain PET: design optimisation and detector characterisation

NASA Astrophysics Data System (ADS)

Kyme, Andre Z.; Judenhofer, Martin S.; Gong, Kuang; Bec, Julien; Selfridge, Aaron; Du, Junwei; Qi, Jinyi; Cherry, Simon R.; Meikle, Steven R.

2017-08-01

‘Open-field’ PET, in which an animal is free to move within an enclosed space during imaging, is a very promising advance for neuroscientific research. It provides a key advantage over conventional imaging under anesthesia by enabling functional changes in the brain to be correlated with an animal’s behavioural response to environmental or pharmacologic stimuli. Previously we have demonstrated the feasibility of open-field imaging of rats using motion compensation techniques applied to a commercially available PET scanner. However, this approach of ‘retro-fitting’ motion compensation techniques to an existing system is limited by the inherent geometric and performance constraints of the system. The goal of this project is to develop a purpose-built PET scanner with geometry, motion tracking and imaging performance tailored and optimised for open-field imaging of the mouse brain. The design concept is a rail-based sliding tomograph which moves according to the animal’s motion. Our specific aim in this work was to evaluate candidate scanner designs and characterise the performance of a depth-of-interaction detector module for the open-field system. We performed Monte Carlo simulations to estimate and compare the sensitivity and spatial resolution performance of four scanner geometries: a ring, parallel plate, and two box variants. Each system was based on a detector block consisting of a 23  ×  23 array of 0.785  ×  0.785  ×  20 mm3 LSO crystals (overall dim. 19.6  ×  19.6  ×  20 mm). We found that a DoI resolution capability of 3 mm was necessary to achieve approximately uniform sub-millimetre spatial resolution throughout the FoV for all scanners except the parallel-plate geometry. With this DoI performance, the sensitivity advantage afforded by the box geometry with overlapping panels (16% peak absolute sensitivity, a 36% improvement over the ring design) suggests this unconventional design is best suited for imaging the mouse brain. We also built and characterised the block detector modelled in the simulations, including a dual-ended readout based on 6  ×  6 arrays of through-silicon-via silicon photomultipliers (active area 84%) for DoI estimation. Identification of individual crystals in the flood map was excellent, energy resolution varied from 12.4%  ±  0.6% near the centre to 24.4%  ±  3.4% at the ends of the crystal, and the average DoI resolution was 2.8 mm  ±  0.35 mm near the central depth (10 mm) and 3.5 mm  ±  1.0 mm near the ends. Timing resolution was 1.4  ±  0.14 ns. Therefore, the DoI detector module meets the target specifications for the application and will be used as the basis for a prototype open-field mouse PET scanner.

The positive impact of European subsidies on soil erosion rates in orange plantations

NASA Astrophysics Data System (ADS)

Keesstra, Saskia; Jordán, Antonio; Novara, Agata; Taguas, Tani; Pereira, Paulo; Brevik, Eric C.; Cerdà, Artemi

2017-04-01

Soil erosion in orchards and vineyards has been found non-sustainable due to bare soils due to the use of herbicides and tillage (Novara et al., 2011; Taguas et al., 2015; Ochoa et al., 2016; Rodrigo Comino et al., 2016a; 2016b; 2016c). Citrus plantations in sloping terrains are also non-sustainable from the soil erosion point of view due high erosion rates and the damage caused on infra-structures (Cerdà et al., 2009; 2009b; Cerdà et al., 2011; Pereira et al., 2015). This is not uncommon in Mediterranean type Ecosystems (Cerdà et al., 2010) but there is a need to reduce the soil and water losses to achieve sustainability (Brevik et al., 2015; Keesstra et al., 2016). The use of mulches, geotextiles, catch crops, and vegetation was found to be very successful as a sustainable strategy to reduce the soil losses (Giménez Morera et al., 2010; Mwango et al., 2016; Nawaz et al., 2016; Nishigaki et al., 2016; Prosdocimi et al., 2016). Nowadays, chipped branches are applied in orchards and vineyards because of European subsidies; however little scientific data is available on the impact of the chipped branches mulch on soil erosion. In an orange plantation in Eastern Valencia, at the L'Alcoleja experimental station the impact of these chipped branches was tested under 45 mm h-1 rainfall simulations on laboratory plots of 0.5 m2 under with different covers of chipped branches. The results show that with a cover of 20 % with chipped branches soil erosion reduces by 78 %. Acknowledgements The research leading to these results has received funding from the European Union Seventh Framework Programme (FP7/2007-2013) under grant agreement 603498 (RECARE project) and the CGL2013- 47862-C2-1-R and CGL2016-75178-C2-2-R national research projects. References Brevik, E. C., Cerdà, A., Mataix-Solera, J., Pereg, L., Quinton, J. N., Six, J., and Van Oost, K. 2015. The interdisciplinary nature of SOIL, SOIL, 1, 117-129, doi:10.5194/soil-1-117-2015, Cerdà, A. and M. F. Jurgensen. 2011. Ant Mounds as a Source of Sediment on Citrus Orchard Plantations in Eastern Spain. A Three-Scale Rainfall Simulation Approach. Catena 85 (3): 231-236. doi:10.1016/j.catena.2011.01.008. Cerdà, A., A. G. Morera, and M. B. Bodí. 2009a. Soil and Water Losses from New Citrus Orchards Growing on Sloped Soils in the Western Mediterranean Basin. Earth Surface Processes and Landforms 34 (13): 1822-1830. doi:10.1002/esp.1889. Cerdà, A., H. Lavee, A. Romero-Díaz, J. Hooke, and L. Montanarella. 2010. Preface: Soil Erosion and Degradation in Mediterranean Type Ecosystems. Land Degradation and Development 21 (2): 71-74. doi:10.1002/ldr.968. Cerdà, A., M. F. Jurgensen, and M. B. Bodi. 2009b. Effects of Ants on Water and Soil Losses from Organically-Managed Orchards in Eastern Spain. Biologia 64 (3): 527-531. doi:10.2478/s11756-009-0114-7. Giménez-Morera, A., J. D. Ruiz Sinoga, and A. Cerdà. 2010. The Impact of Cotton Geotextiles on Soil and Water Losses from Mediterranean Rainfed Agricultural Land. Land Degradation and Development 21 (2): 210-217. doi:10.1002/ldr.971. Keesstra, S. D., Bouma, J., Wallinga, J., Tittonell, P., Smith, P., Cerdà, A., Montanarella, L., Quinton, J. N., Pachepsky, Y., van der Putten, W. H., Bardgett, R. D., Moolenaar, S., Mol, G., Jansen, B., and Fresco, L. O.: The significance of soils and soil science towards realization of the United Nations Sustainable Development Goals, SOIL, 2, 111-128, doi:10.5194/soil-2-111-2016, 2016. Mwango, S. B., B. M. Msanya, P. W. Mtakwa, D. N. Kimaro, J. Deckers, and J. Poesen. 2016. Effectiveness OF Mulching Under Miraba in Controlling Soil Erosion, Fertility Restoration and Crop Yield in the Usambara Mountains, Tanzania. Land Degradation and Development 27 (4): 1266-1275. doi:10.1002/ldr.2332. Nawaz, A., R. Lal, R. K. Shrestha, and M. Farooq. 2016. Mulching Affects Soil Properties and Greenhouse Gas Emissions Under Long-Term no-Till and Plough-Till Systems in Alfisol of Central Ohio. Land Degradation and Development. doi:10.1002/ldr.2553. Nishigaki, T., M. Shibata, S. Sugihara, A. D. Mvondo-Ze, S. Araki, and S. Funakawa. 2016. Effect of Mulching with Vegetative Residues on Soil Water Erosion and Water Balance in an Oxisol Cropped by Cassava in East Cameroon. Land Degradation and Development. doi:10.1002/ldr.2568. Novara, A., L. Gristina, S. S. Saladino, A. Santoro, and A. Cerdà. 2011. Soil Erosion Assessment on Tillage and Alternative Soil Managements in a Sicilian Vineyard. Soil and Tillage Research 117: 140-147. doi:10.1016/j.still.2011.09.007. Ochoa, P. A., A. Fries, D. Mejía, J. I. Burneo, J. D. Ruíz-Sinoga, and A. Cerdà. 2016. Effects of Climate, Land Cover and Topography on Soil Erosion Risk in a Semiarid Basin of the Andes. Catena 140: 31-42. doi:10.1016/j.catena.2016.01.011. Pereira, P., Giménez-Morera, A., Novara, A., Keesstra, S., Jordán, A., Masto, R.E., Brevik, E., Azorin-Molina, C., Cerdà A., 2015. The impact of road and railway embankments on runoff and soil erosion in eastern Spain. Hydrol. Earth Syst. Sci. Discuss., 12, 12947-12985, doi:10.5194/hessd-12-12947-2015, 2015 Prosdocimi, M., A. Jordán, P. Tarolli, S. Keesstra, A. Novara, and A. Cerdà. 2016. The Immediate Effectiveness of Barley Straw Mulch in Reducing Soil Erodibility and Surface Runoff Generation in Mediterranean Vineyards. Science of the Total Environment 547: 323-330. doi:10.1016/j.scitotenv.2015.12.076. Rodrigo Comino J, Iserloh T, Morvan X, Malam Issa O, Naisse C, Keesstra SD, Cerdà A, Prosdocimi M, Arnáez J, Lasanta T, Ramos MC, Marqués MJ, Ruiz Colmenero M, Bienes R, Ruiz Sinoga JD, Seeger M, Ries JB (2016). Soil Erosion Processes in European Vineyards: A Qualitative Comparison of Rainfall Simulation Measurements in Germany, Spain and France. Hydrology, 3 (1), 6; doi:10.3390/hydrology3010006 Rodrigo Comino, J., Iserloh, T., Lassu, T., Cerdà, A., Keesstra, S.D., Prosdocimi, M., Brings, C., Marzen, M., Ramos, M.C., Senciales, J.M., Ruiz Sinoga, J.D., Seeger, M., Ries, J.B., 2016. Quantitative comparison of initial soil erosion processes and runoff generation in Spanish and German vineyards. Sci. Total Environ. 565, 1165-1174. DOI:10.1016/j.scitotenv.2016.05.163 Rodrigo-Comino, J., M. Seeger, J. M. Senciales, J. D. Ruiz-Sinoga, and J. B. Ries. 2016. Spatial and Temporal Variation of Soil Hydrological Processes on Steep Slope Vineyards (Ruwel-Mosel Valley, Gemany). Cuadernos De Investigacion Geografica 42 (1): 281-306. doi:10.18172/cig.2934. Taguas, E. V., E. Guzmán, G. Guzmán, T. Vanwalleghem, and J. A. Gómez. 2015. Characteristics and Importance of Rill and Gully Erosion: A Case Study in a Small Catchment of a Marginal Olive Grove. Cuadernos De Investigacion Geografica 41 (1): 107-126. doi:10.18172/cig.2644.

Some considerations for various positioning systems and their science capabilities

NASA Technical Reports Server (NTRS)

Rey, Charles A.; Merkley, D. R.; Danley, T. J.

1990-01-01

Containerless processing of materials at elevated temperatures is discussed with emphasis on high temperature chemistry, thermophysical properties, materials science, and materials processing. Acoustic and electromagnetic positioning of high temperature melts are discussed. Results from recent ground based experiments, including KC-135 testing of an acoustic levitator, are presented. Some current positioning technologies and the potential for enhancing them are considered. Further, a summary of these technologies and their science capabilities for the development of future experiments is given.

The central action of the 5-HT2 receptor agonist 1-(2,5-dimethoxy-4-iodophenyl)-2-aminopropane (DOI) on cardiac inotropy and vascular resistance in the anaesthetized cat

PubMed Central

Ramage, Andrew G; de Burgh Daly, M

1998-01-01

Experiments were carried out to determine the effects of the application of the selective 5-HT2 receptor agonist DOI intravenously (in the presence of the peripherally acting 5-HT2 receptor antagonist, BW501C67, 1 mg kg−1, i.v.) or to the `glycine sensitive area' of the ventral surface (30 μg each side) on the left ventricular inotropic (left ventricular dP/dt max) and vascularly isolated hindlimb responses in anaesthetized cats. For the ventral surface experiments, NMDA (10 μg each side) was applied to act as a positive control. In all experiments heart rate and mean arterial blood pressure were held constant to exclude any secondary effects caused by changes in these variables.DOI (n=6) i.v or on the ventral surface had no effect on left ventricular dP/dt max but caused a significant increase in hindlimb perfusion pressure of 40±9 and 50±14 mmHg, respectively. Respiration was unaffected. NMDA (n=6), applied to the ventral surface, caused significant increases in both left ventricular dP/dt max and hindlimb perfusion pressure of 1950±349 mmHg s−1 and 69±17 mmHg respectively, with no associated change in left ventricular end-diastolic pressure. The amplitude of respiratory movements increased.It is concluded that activation of 5-HT2 receptors at the level of the rostral ventrolateral medulla (RVLM) excites sympathetic premotor neurons and/or their antecedents controlling hindlimb vascular resistance but not those controlling the inotropic effects on the left ventricle. PMID:9863644

Euler-Vector Clustering of GPS Velocities Defines Microplate Geometry in Southwest Japan

NASA Astrophysics Data System (ADS)

Savage, J. C.

2018-02-01

I have used Euler-vector clustering to assign 469 GEONET stations in southwest Japan to k clusters (k = 2, 3,..., 9) so that, for any k, the velocities of stations within each cluster are most consistent with rigid-block motion on a sphere. That is, I attempt to explain the raw (i.e., uncorrected for strain accumulation), 1996-2006 velocities of those 469 Global Positioning System stations by rigid motion of k clusters on the surface of a spherical Earth. Because block geometry is maintained as strain accumulates, Euler-vector clustering may better approximate the block geometry than the values of the associated Euler vectors. The microplate solution for each k is constructed by merging contiguous clusters that have closely similar Euler vectors. The best solution consists of three microplates arranged along the Nankaido Trough-Ryukyu Trench between the Amurian and Philippine Sea Plates. One of these microplates, the South Kyushu Microplate (an extension of the Ryukyu forearc into the southeast corner of Kyushu), had previously been identified from paleomagnetic rotations. Relative to ITRF2000 the three microplates rotate at different rates about neighboring poles located close to the northwest corner of Shikoku. The microplate model is identical to that proposed in the block model of Wallace et al. (2009, https://doi.org/10.1130/G2522A.1) except in southernmost Kyushu. On Shikoku and Honshu, but not Kyushu, the microplate model is consistent with that proposed in the block models of Nishimura and Hashimoto (2006, https://doi.org/10.1016/j.tecto.2006.04.017) and Loveless and Meade (2010, https://doi.org/10.1029/2008JB006248) without the low-slip-rate boundaries proposed in the latter.

43 CFR 2.5 - Does DOI maintain an index of its reading room materials?

Code of Federal Regulations, 2011 CFR

2011-10-01

... 43 Public Lands: Interior 1 2011-10-01 2011-10-01 false Does DOI maintain an index of its reading room materials? 2.5 Section 2.5 Public Lands: Interior Office of the Secretary of the Interior RECORDS AND TESTIMONY; FREEDOM OF INFORMATION ACT Information Routinely Available to the Public without Filing a FOIA Request § 2.5 Does DOI maintain an...

43 CFR 2.5 - Does DOI maintain an index of its reading room materials?

Code of Federal Regulations, 2012 CFR

2012-10-01

... 43 Public Lands: Interior 1 2012-10-01 2011-10-01 true Does DOI maintain an index of its reading room materials? 2.5 Section 2.5 Public Lands: Interior Office of the Secretary of the Interior RECORDS AND TESTIMONY; FREEDOM OF INFORMATION ACT Information Routinely Available to the Public without Filing a FOIA Request § 2.5 Does DOI maintain an...

25 CFR 1000.55 - Can a Tribe/Consortium appeal within DOI the Director's decision not to award a grant under this...

Code of Federal Regulations, 2010 CFR

2010-04-01

... 25 Indians 2 2010-04-01 2010-04-01 false Can a Tribe/Consortium appeal within DOI the Director's decision not to award a grant under this subpart? 1000.55 Section 1000.55 Indians OFFICE OF THE ASSISTANT... Negotiation Grants Advance Planning Grant Funding § 1000.55 Can a Tribe/Consortium appeal within DOI the...

43 CFR 2.22 - What happens if a bureau receives a request for records it does not have or did not create?

Code of Federal Regulations, 2010 CFR

2010-10-01

... not create? (a) Consultations/referrals within DOI. If a bureau (other than the Office of Inspector... outside DOI. (1) If a bureau receives a request for records not in its possession, but which the bureau... you to submit it directly to the other agency. If you still believe that the records exist within DOI...

Stochastic Control of Multi-Scale Networks: Modeling, Analysis and Algorithms

DTIC Science & Technology

2014-10-20

Theory, (02 2012): 0. doi: B. T. Swapna, Atilla Eryilmaz, Ness B. Shroff. Throughput-Delay Analysis of Random Linear Network Coding for Wireless ... Wireless Sensor Networks and Effects of Long-Range Dependent Data, Sequential Analysis , (10 2012): 0. doi: 10.1080/07474946.2012.719435 Stefano...Sequential Analysis , (10 2012): 0. doi: John S. Baras, Shanshan Zheng. Sequential Anomaly Detection in Wireless Sensor Networks andEffects of Long

Emergent Phenomena at Mott Interfaces

DTIC Science & Technology

2016-11-03

from a two-dimensional electron gas at a Mott/band insulator interface, Applied Physics Letters, (10 2012): 151604. doi: 10.1063/1.4758989...coefficient of a quantum confined, high-electron-density electron gas in SrTiO3, Applied Physics Letters, (04 2012): 161601. doi: 10.1063...Jalan, Susanne Stemmer, Shawn Mack, S. James Allen. Two-dimensional electron gas in delta- doped SrTiO3, Physical Review B, (08 2010): . doi: A

25 CFR 1000.55 - Can a Tribe/Consortium appeal within DOI the Director's decision not to award a grant under this...

Code of Federal Regulations, 2011 CFR

2011-04-01

... 25 Indians 2 2011-04-01 2011-04-01 false Can a Tribe/Consortium appeal within DOI the Director's decision not to award a grant under this subpart? 1000.55 Section 1000.55 Indians OFFICE OF THE ASSISTANT... Negotiation Grants Advance Planning Grant Funding § 1000.55 Can a Tribe/Consortium appeal within DOI the...

43 CFR 2.22 - What happens if a bureau receives a request for records it does not have or did not create?

Code of Federal Regulations, 2011 CFR

2011-10-01

... not create? (a) Consultations/referrals within DOI. If a bureau (other than the Office of Inspector... outside DOI. (1) If a bureau receives a request for records not in its possession, but which the bureau... you to submit it directly to the other agency. If you still believe that the records exist within DOI...

Non invasive sensing technologies for cultural heritage management and fruition

NASA Astrophysics Data System (ADS)

Soldovieri, Francesco; Masini, Nicola

2016-04-01

The relevance of the information produced by science and technology for the knowledge of the cultural heritage depends on the quality of the feedback and, consequently, on the "cultural" distance between scientists and end-users. In particular, the solution to this problem mainly resides in the capability of end-users' capability to assess and transform the knowledge produced by diagnostics with regard to: information on both cultural objects and sites (decay patterns, vulnerability, presence of buried archaeological remains); decision making (management plan, conservation project, and excavation plan). From our experience in the field of the cultural heritage and namely the conservation, of monuments, there is a significant gap of information between technologists (geophysicists/physicists/engineers) and end-users (conservators/historians/architects). This cultural gap is due to the difficulty to interpret "indirect data" produced by non invasive diagnostics (i.e. radargrams/thermal images/seismic tomography etc..) in order to provide information useful to improve the historical knowledge (e.g. the chronology of the different phases of a building), to characterise the state of conservation (e.g. detection of cracks in the masonry) and to monitor in time cultural heritage artifacts and sites. The possible answer to this difficulty is in the set-up of a knowledge chain regarding the following steps: - Integrated application of novel and robust data processing methods; - Augmented reality as a tool for making easier the interpretation of non invasive - investigations for the analysis of decay pathologies of masonry and architectural surfaces; - The comparison between direct data (carrots, visual inspection) and results from non-invasive tests, including geophysics, aims to improve the interpretation and the rendering of the monuments and even of the archaeological landscapes; - The use of specimens or test beds for the detection of archaeological features and monitoring of monuments and sites. In this way, we will be able to improve the appreciation of diagnostics and remote sensing technologies by the end-users. At the conference, we will show and discuss several study cases depicting the deployment of this knowledge chain in realistic conditions regarding the CH management. References Leucci G., Masini N., Persico R., Soldovieri F. 2011. GPR and sonic tomography for structural restoration: the case of the cathedral of Tricarico, Journal of Geophysics and Engineering, 8 (3), 76-92, doi:10.1088/1742-2132/8/3/S08 Masini N., Soldovieri F. 2011. Editorial: Integrated non-invasive sensing techniques and geophysical methods for the study and conservation of architectural, archaeological and artistic heritage, Journal of Geophysics and Engineering, 8 (3), 1-2, doi:10.1088/1742-2132/8/3/E01 Masini N., Persico R., Rizzo E., Calia A., Giannotta M.T., Quarta G., Pagliuca A. 2010, Integrated Techniques for Analysis and Monitoring of Historical Monuments: the case of S.Giovanni al Sepolcro in Brindisi (Southern Italy), Near Surface Geophysics, 8(5), 423-432, doi:10.3997/1873-0604.2010012

The research pendulum: multiple roles and responsibilities as a researcher.

PubMed

Shang Tang, Denise Tse

2006-01-01

Qualitative research on sexual identities has highlighted the use of oral narratives to understand the lives of lesbians and gay men. Feminist ethnographers, sociologists and queer theorists have further posed methodological inquiries to the issues of insider/outsider, the possibilities of an erotic subject and the matter of representation. Using interview data with Hong Kong lesbians, this paper discusses a researcher's multiple positionalities and its effects on both the researched and the researcher. Being self-reflexive requires a researcher to test her or his own boundaries and to take up social responsibilities as the interpreter of texts. This paper calls for further dialogue between a researcher's subject positions, research processes and the final presentation of findings. doi:10.1300/J155v10n03_02.

Current directions in behavioral medicine research on genetic testing for disease susceptibility: introduction to the special section.

PubMed

Sherman, Kerry A; Cameron, Linda D

2015-10-01

The aim of this special section is to showcase research contributing to our understanding of factors influencing decisions to undergo genetic testing and the impact of the genetic testing process on health-related behaviors of tested individuals. The first two articles report studies investigating factors associated with interest in genetic testing and acceptance of test results (Sherman et al. in J Behav Med doi: 10.1007/s10865-015-9630-9 , 2015; Taber et al. in J Behav Med doi: 10.1007/s10865-015-9642-5 , 2015b). The next two papers address the unique contribution of genetic risk information to understanding risk beyond genetic counseling alone (Heiniger et al. in J Behav Med doi 10.1007/s10865-015-9632-7 , 2015; Taber et al. in J Behav Med doi: 10.1007/s10865-015-9648-z , 2015a). The final three articles investigate the effects of genetic risk information on beliefs about disease control and prevention (Aspinwall et al. in J Behav Med doi: 10.1007/s10865-015-9631-8 , 2015; Kelly et al. in J Behav Med doi 10.1007/s10865-014-9613-2 , 2014; Myers et al. in J Behav Med doi: 10.1007/s10865-015-9626-5 , 2015). Collectively, the special section of papers highlights the diverse ways in which behavioural medicine contributes to our understanding of genetic testing for disease risk, and points to the value of further research to better understand ways in which individuals perceive, interpret and respond to genetic risk information.

Hallucinogen-like effects of 2-([2-(4-cyano-2,5-dimethoxyphenyl) ethylamino]methyl)phenol (25CN-NBOH), a novel N-benzylphenethylamine with 100-fold selectivity for 5-HT2A receptors, in mice

PubMed Central

Gray, Bradley W.; Bailey, Jessica M.; Smith, Douglas; Hansen, Martin; Kristensen, Jesper L.

2014-01-01

Rationale 2-([2-(4-cyano-2,5-dimethoxyphenyl)ethylamino]methyl)phenol (25CN-NBOH) is structurally similar to N-benzyl substituted phenethylamine hallucinogens currently emerging as drugs of abuse. 25CN-NBOH exhibits dramatic selectivity for 5-HT2A receptors in vitro, but has not been behaviorally characterized. Objective 25CN-NBOH was compared to the traditional phenethylamine hallucinogen R(−)-2,5-dimethoxy-4-iodoamphetamine (DOI) using mouse models of drug-elicited head twitch behavior and drug discrimination. Methods Drug-elicited head twitches were quantified for 10 min following administration of various doses of either DOI or 25CN-NBOH, with and without pretreatments of 0.01 mg/kg 5-HT2A antagonist M100907 or 3.0 mg/kg 5-HT2C antagonist RS102221. The capacity of 25CN-NBOH to attenuate DOI-elicited head twitch was also investigated. Mice were trained to discriminate DOI or M100907 from saline, and 25CN-NBOH was tested for generalization. Results 25CN-NBOH induced a head twitch response in the mouse that was lower in magnitude than that of DOI, blocked by M100907, but not altered by RS102221. DOI-elicited head twitch was dose-dependently attenuated by 25CN-NBOH pretreatment. 25CN-NBOH produced an intermediate degree of generalization (55%) for the DOI training dose, and these interoceptive effects were attenuated by M100907. Finally, 25CN-NBOH did not generalize to M100907 at any dose, but ketanserin fully substituted in these animals. Conclusions 25CN-NBOH was behaviorally active, but less effective than DOI in two mouse models of hallucinogenic effects. The effectiveness with which M100907 antagonized the behavioral actions of 25CN-NBOH strongly suggests that the 5-HT2A receptor is an important site of agonist action for this compound in vivo. PMID:25224567

Phospholipase C mediates (±)-1-(2,5-dimethoxy-4-iodophenyl)-2-aminopropane (DOI)-, but not lysergic acid diethylamide (LSD)-elicited head bobs in rabbit medial prefrontal cortex.

PubMed

Schindler, Emmanuelle A D; Harvey, John A; Aloyo, Vincent J

2013-01-23

The phenethylamine and indoleamine classes of hallucinogens demonstrate distinct pharmacological properties, although they share a serotonin(2A) (5-HT(2A)) receptor mechanism of action (MOA). The 5-HT(2A) receptor signals through phosphatidylinositol (PI) hydrolysis, which is initiated upon activation of phospholipase C (PLC). The role of PI hydrolysis in the effects of hallucinogens remains unclear. In order to better understand the role of PI hydrolysis in the MOA of hallucinogens, the PLC inhibitor, 1-[6-((17β-3-methoxyestra-1,3,5(10)-trien-17-yl)amino)hexyl]-1H-pyrrole-2,5-dione (U73122), was used to study the effects of two hallucinogens, the phenethylamine, (±)-1-(2,5-dimethoxy-4-iodophenyl)-2-aminopropane (DOI), and the indoleamine, lysergic acid diethylamide (LSD). PI hydrolysis was quantified through release of [3H]inositol-4-phosphate from living rabbit frontocortical tissue prisms. Head bobs were counted after hallucinogens were infused into the medial prefrontal cortex (mPFC) of rabbits. Both DOI and LSD stimulated PI hydrolysis in frontocortical tissue through activation of PLC. DOI-stimulated PI hydrolysis was blocked by 5-HT(2A/2C) receptor antagonist, ketanserin, whereas the LSD signal was blocked by 5-HT(2B/2C) receptor antagonist, SB206553. When infused into the mPFC, both DOI- and LSD-elicited head bobs. Pretreatment with U73122 blocked DOI-, but not LSD-elicited head bobs. The two hallucinogens investigated were distinct in their activation of the PI hydrolysis signaling pathway. The serotonergic receptors involved with DOI and LSD signals in frontocortical tissue were different. Furthermore, PLC activation in mPFC was necessary for DOI-elicited head bobs, whereas LSD-elicited head bobs were independent of this pathway. These novel findings urge closer investigation into the intracellular mechanism of action of these unique compounds. Published by Elsevier B.V.

3D MnO2-graphene composites with large areal capacitance for high-performance asymmetric supercapacitors

NASA Astrophysics Data System (ADS)

Zhai, Teng; Wang, Fuxin; Yu, Minghao; Xie, Shilei; Liang, Chaolun; Li, Cheng; Xiao, Fangming; Tang, Renheng; Wu, Qixiu; Lu, Xihong; Tong, Yexiang

2013-07-01

In this paper, we reported an effective and simple strategy to prepare large areal mass loading of MnO2 on porous graphene gel/Ni foam (denoted as MnO2/G-gel/NF) for supercapacitors (SCs). The MnO2/G-gel/NF (MnO2 mass: 13.6 mg cm-2) delivered a large areal capacitance of 3.18 F cm-2 (234.2 F g-1) and good rate capability. The prominent electrochemical properties of MnO2/G-gel/NF are attributed to the enhanced conductivities and improved accessible area for ions in electrolytes. Moreover, an asymmetric supercapacitor (ASC) based on MnO2/G-gel/NF (MnO2 mass: 6.1 mg cm-2) as the positive electrode and G-gel/NF as the negative electrode achieved a remarkable energy density of 0.72 mW h cm-3. Additionally, the fabricated ASC device also exhibited excellent cycling stability, with less than 1.5% decay after 10 000 cycles. The ability to effectively develop SC electrodes with high mass loading should open up new opportunities for SCs with high areal capacitance and high energy density.In this paper, we reported an effective and simple strategy to prepare large areal mass loading of MnO2 on porous graphene gel/Ni foam (denoted as MnO2/G-gel/NF) for supercapacitors (SCs). The MnO2/G-gel/NF (MnO2 mass: 13.6 mg cm-2) delivered a large areal capacitance of 3.18 F cm-2 (234.2 F g-1) and good rate capability. The prominent electrochemical properties of MnO2/G-gel/NF are attributed to the enhanced conductivities and improved accessible area for ions in electrolytes. Moreover, an asymmetric supercapacitor (ASC) based on MnO2/G-gel/NF (MnO2 mass: 6.1 mg cm-2) as the positive electrode and G-gel/NF as the negative electrode achieved a remarkable energy density of 0.72 mW h cm-3. Additionally, the fabricated ASC device also exhibited excellent cycling stability, with less than 1.5% decay after 10 000 cycles. The ability to effectively develop SC electrodes with high mass loading should open up new opportunities for SCs with high areal capacitance and high energy density. Electronic supplementary information (ESI) available. See DOI: 10.1039/c3nr01589k

I(CES)-cubes: a modular self-reconfigurable bipartite robotic system

NASA Astrophysics Data System (ADS)

Unsal, Cem; Kiliccote, Han; Khosla, Pradeep K.

1999-08-01

In this manuscript, we introduce I(CES)-Cubes, a class of 3D modular robotic system that is capable of reconfiguring itself in order to adapt to its environment. This is a bipartite system, i.e. a collection of (i) active elements capable of actuation, and (ii) passive elements acting as connectors between actuated elements. Active elements, called links, are 3-DOF manipulators that are capable of attaching/detaching themselves to/from the passive elements. The cubes can then be positioned and oriented using links, which are independent mechatronic elements. Self- reconfiguration property enables the system to performed locomotion tasks over difficult terrain. For example, the system would be capable of moving over obstacles and climbing stairs. These task are performed by positing and orienting cubes and links to form a 3D network with required shape and position. This paper describes the design of the passive and active elements, the attachment mechanics, and several reconfiguration scenarios. Specifics of the hardware implementation and result of experiments with current prototypes are also given.

Data DOIs - virtues and weak points from the perspective of the data journal ESSD

NASA Astrophysics Data System (ADS)

Pfeiffenberger, Hans; Carlson, David

2016-04-01

Fundamentally, data publication seeks to provide improved access, trust and utility for data users accompanied by improved recognition for data providers. The features of persistent identifier schemes used in this context and the policies of providers of their resolver systems can greatly contribute towards these aims! Unfortunately, we also recognize situations where identifier systems undermine some of our lofty data publication aims. From our 7 years of successful experience with the data journal ESSD, we will present our practical observations as well as future requirements on the DOI-system in particular, such as: * Most scientists contributing to or drawing benefit from ESSD seem to understand the notion of published data in the sense of a static, citable entity to build on, relying on its long term availability and integrity (as is the case with journal articles), secured by DOIs. * It is still true that many data providers - individuals or projects - can not find a repository for their (type of) data which would provide a DOI (or other persistent identifier) and that many data centers and databases holding valuable data have a hard time adding DOIs as a feature of their systems for conceptual, legacy or funding reasons. * The typical evolution of many important data collections or data products - such as the Global Carbon Budget - can adequately be tracked with yearly (or less frequent) issues of dataset and data article, each having a new DOI. However, issuing a new DOI for a dataset extended in time clashes with many producers' wish to amass all references to the developing dataset under one citation (and one DOI). * Current practises with DOIs and metadata associated with DOIs need to be clarified and amended so the identifier systems can and do express and track the relationships between versions of data, addressing extensions, corrections, modifications, revisions and retractions in an unambiguous (and machine readable) manner, while also removing extraneous information (dates, page numbers) from the identifier itself. * Similarly, we recognize a clear need to hold one or more copies of important data in different locations (continents), under different governance and technologies but to still be able to identify these copies as intellectually identical. Today, however, we observe identical datasets held in separate repositories with different metadata and DOIs without a process to easily identify the duplicates. * The dataset and data article - coupled with a research article citing both and drawing conclusions and perhaps with an additional article describing and publishing the software - offer a valid and vivid example of linking objects reliably across many players' (publishers') systems. Too often, however, establishing such linkages requires substantial human intervention to initiate and synchronize the necessary processes, in particular to ensure high-fidelity mutual citation among the individual items. As editors of a data journal we firmly embrace the notion of persistence and persistent identifiers, in particular DOIs. We see the need and applaud all efforts to enhance its features to serve the important needs of published and linked data.

Decoherence and Determinism in a One-Dimensional Cloud-Chamber Model

NASA Astrophysics Data System (ADS)

Sparenberg, Jean-Marc; Gaspard, David

2018-03-01

The hypothesis (Sparenberg et al. in EPJ Web Conf 58:01016, [1]. https://doi.org/10.1051/epjconf/20135801016) that the particular linear tracks appearing in the measurement of a spherically-emitting radioactive source in a cloud chamber are determined by the (random) positions of atoms or molecules inside the chamber is further explored in the framework of a recently established one-dimensional model (Carlone et al. Comm Comput Phys 18:247, [2]. https://doi.org/10.4208/cicp.270814.311214a). In this model, meshes of localized spins 1/2 play the role of the cloud-chamber atoms and the spherical wave is replaced by a linear superposition of two wave packets moving from the origin to the left and to the right, evolving deterministically according to the Schrödinger equation. We first revisit these results using a time-dependent approach, where the wave packets impinge on a symmetric two-sided detector. We discuss the evolution of the wave function in the configuration space and stress the interest of a non-symmetric detector in a quantum-measurement perspective. Next we use a time-independent approach to study the scattering of a plane wave on a single-sided detector. Preliminary results are obtained, analytically for the single-spin case and numerically for up to 8 spins. They show that the spin-excitation probabilities are sometimes very sensitive to the parameters of the model, which corroborates the idea that the measurement result could be determined by the atom positions. The possible origin of decoherence and entropy increase in future models is finally discussed.

Mapping the functional versatility and fragility of Ras GTPase signaling circuits through in vitro network reconstitution

PubMed Central

Coyle, Scott M; Lim, Wendell A

2016-01-01

The Ras-superfamily GTPases are central controllers of cell proliferation and morphology. Ras signaling is mediated by a system of interacting molecules: upstream enzymes (GEF/GAP) regulate Ras’s ability to recruit multiple competing downstream effectors. We developed a multiplexed, multi-turnover assay for measuring the dynamic signaling behavior of in vitro reconstituted H-Ras signaling systems. By including both upstream regulators and downstream effectors, we can systematically map how different network configurations shape the dynamic system response. The concentration and identity of both upstream and downstream signaling components strongly impacted the timing, duration, shape, and amplitude of effector outputs. The distorted output of oncogenic alleles of Ras was highly dependent on the balance of positive (GAP) and negative (GEF) regulators in the system. We found that different effectors interpreted the same inputs with distinct output dynamics, enabling a Ras system to encode multiple unique temporal outputs in response to a single input. We also found that different Ras-to-GEF positive feedback mechanisms could reshape output dynamics in distinct ways, such as signal amplification or overshoot minimization. Mapping of the space of output behaviors accessible to Ras provides a design manual for programming Ras circuits, and reveals how these systems are readily adapted to produce an array of dynamic signaling behaviors. Nonetheless, this versatility comes with a trade-off of fragility, as there exist numerous paths to altered signaling behaviors that could cause disease. DOI: http://dx.doi.org/10.7554/eLife.12435.001 PMID:26765565

Comparative genetic screens in human cells reveal new regulatory mechanisms in WNT signaling

PubMed Central

Lebensohn, Andres M; Dubey, Ramin; Neitzel, Leif R; Tacchelly-Benites, Ofelia; Yang, Eungi; Marceau, Caleb D; Davis, Eric M; Patel, Bhaven B; Bahrami-Nejad, Zahra; Travaglini, Kyle J; Ahmed, Yashi; Lee, Ethan; Carette, Jan E; Rohatgi, Rajat

2016-01-01

The comprehensive understanding of cellular signaling pathways remains a challenge due to multiple layers of regulation that may become evident only when the pathway is probed at different levels or critical nodes are eliminated. To discover regulatory mechanisms in canonical WNT signaling, we conducted a systematic forward genetic analysis through reporter-based screens in haploid human cells. Comparison of screens for negative, attenuating and positive regulators of WNT signaling, mediators of R-spondin-dependent signaling and suppressors of constitutive signaling induced by loss of the tumor suppressor adenomatous polyposis coli or casein kinase 1α uncovered new regulatory features at most levels of the pathway. These include a requirement for the transcription factor AP-4, a role for the DAX domain of AXIN2 in controlling β-catenin transcriptional activity, a contribution of glycophosphatidylinositol anchor biosynthesis and glypicans to R-spondin-potentiated WNT signaling, and two different mechanisms that regulate signaling when distinct components of the β-catenin destruction complex are lost. The conceptual and methodological framework we describe should enable the comprehensive understanding of other signaling systems. DOI: http://dx.doi.org/10.7554/eLife.21459.001 PMID:27996937

Centriolar satellites assemble centrosomal microcephaly proteins to recruit CDK2 and promote centriole duplication

PubMed Central

Kodani, Andrew; Yu, Timothy W; Johnson, Jeffrey R; Jayaraman, Divya; Johnson, Tasha L; Al-Gazali, Lihadh; Sztriha, Lāszló; Partlow, Jennifer N; Kim, Hanjun; Krup, Alexis L; Dammermann, Alexander; Krogan, Nevan J; Walsh, Christopher A; Reiter, Jeremy F

2015-01-01

Primary microcephaly (MCPH) associated proteins CDK5RAP2, CEP152, WDR62 and CEP63 colocalize at the centrosome. We found that they interact to promote centriole duplication and form a hierarchy in which each is required to localize another to the centrosome, with CDK5RAP2 at the apex, and CEP152, WDR62 and CEP63 at sequentially lower positions. MCPH proteins interact with distinct centriolar satellite proteins; CDK5RAP2 interacts with SPAG5 and CEP72, CEP152 with CEP131, WDR62 with MOONRAKER, and CEP63 with CEP90 and CCDC14. These satellite proteins localize their cognate MCPH interactors to centrosomes and also promote centriole duplication. Consistent with a role for satellites in microcephaly, homozygous mutations in one satellite gene, CEP90, may cause MCPH. The satellite proteins, with the exception of CCDC14, and MCPH proteins promote centriole duplication by recruiting CDK2 to the centrosome. Thus, centriolar satellites build a MCPH complex critical for human neurodevelopment that promotes CDK2 centrosomal localization and centriole duplication. DOI: http://dx.doi.org/10.7554/eLife.07519.001 PMID:26297806

Structural basis for interdomain communication in SHIP2 providing high phosphatase activity

PubMed Central

Le Coq, Johanne; Camacho-Artacho, Marta; Velázquez, José Vicente; Santiveri, Clara M; Gallego, Luis Heredia; Campos-Olivas, Ramón; Dölker, Nicole; Lietha, Daniel

2017-01-01

SH2-containing-inositol-5-phosphatases (SHIPs) dephosphorylate the 5-phosphate of phosphatidylinositol-3,4,5-trisphosphate (PI(3,4,5)P3) and play important roles in regulating the PI3K/Akt pathway in physiology and disease. Aiming to uncover interdomain regulatory mechanisms in SHIP2, we determined crystal structures containing the 5-phosphatase and a proximal region adopting a C2 fold. This reveals an extensive interface between the two domains, which results in significant structural changes in the phosphatase domain. Both the phosphatase and C2 domains bind phosphatidylserine lipids, which likely helps to position the active site towards its substrate. Although located distant to the active site, the C2 domain greatly enhances catalytic turnover. Employing molecular dynamics, mutagenesis and cell biology, we identify two distinct allosteric signaling pathways, emanating from hydrophobic or polar interdomain interactions, differentially affecting lipid chain or headgroup moieties of PI(3,4,5)P3. Together, this study reveals details of multilayered C2-mediated effects important for SHIP2 activity and points towards interesting new possibilities for therapeutic interventions. DOI: http://dx.doi.org/10.7554/eLife.26640.001 PMID:28792888

Ecology and evolution of viruses infecting uncultivated SUP05 bacteria as revealed by single-cell- and meta-genomics

PubMed Central

Roux, Simon; Hawley, Alyse K; Torres Beltran, Monica; Scofield, Melanie; Schwientek, Patrick; Stepanauskas, Ramunas; Woyke, Tanja; Hallam, Steven J; Sullivan, Matthew B

2014-01-01

Viruses modulate microbial communities and alter ecosystem functions. However, due to cultivation bottlenecks, specific virus–host interaction dynamics remain cryptic. In this study, we examined 127 single-cell amplified genomes (SAGs) from uncultivated SUP05 bacteria isolated from a model marine oxygen minimum zone (OMZ) to identify 69 viral contigs representing five new genera within dsDNA Caudovirales and ssDNA Microviridae. Infection frequencies suggest that ∼1/3 of SUP05 bacteria is viral-infected, with higher infection frequency where oxygen-deficiency was most severe. Observed Microviridae clonality suggests recovery of bloom-terminating viruses, while systematic co-infection between dsDNA and ssDNA viruses posits previously unrecognized cooperation modes. Analyses of 186 microbial and viral metagenomes revealed that SUP05 viruses persisted for years, but remained endemic to the OMZ. Finally, identification of virus-encoded dissimilatory sulfite reductase suggests SUP05 viruses reprogram their host's energy metabolism. Together, these results demonstrate closely coupled SUP05 virus–host co-evolutionary dynamics with the potential to modulate biogeochemical cycling in climate-critical and expanding OMZs. DOI: http://dx.doi.org/10.7554/eLife.03125.001 PMID:25171894

A new family of StART domain proteins at membrane contact sites has a role in ER-PM sterol transport

PubMed Central

Gatta, Alberto T; Wong, Louise H; Sere, Yves Y; Calderón-Noreña, Diana M; Cockcroft, Shamshad; Menon, Anant K; Levine, Tim P

2015-01-01

Sterol traffic between the endoplasmic reticulum (ER) and plasma membrane (PM) is a fundamental cellular process that occurs by a poorly understood non-vesicular mechanism. We identified a novel, evolutionarily diverse family of ER membrane proteins with StART-like lipid transfer domains and studied them in yeast. StART-like domains from Ysp2p and its paralog Lam4p specifically bind sterols, and Ysp2p, Lam4p and their homologs Ysp1p and Sip3p target punctate ER-PM contact sites distinct from those occupied by known ER-PM tethers. The activity of Ysp2p, reflected in amphotericin-sensitivity assays, requires its second StART-like domain to be positioned so that it can reach across ER-PM contacts. Absence of Ysp2p, Ysp1p or Sip3p reduces the rate at which exogenously supplied sterols traffic from the PM to the ER. Our data suggest that these StART-like proteins act in trans to mediate a step in sterol exchange between the PM and ER. DOI: http://dx.doi.org/10.7554/eLife.07253.001 PMID:26001273

Nanobodies: site-specific labeling for super-resolution imaging, rapid epitope-mapping and native protein complex isolation

PubMed Central

Pleiner, Tino; Bates, Mark; Trakhanov, Sergei; Lee, Chung-Tien; Schliep, Jan Erik; Chug, Hema; Böhning, Marc; Stark, Holger; Urlaub, Henning; Görlich, Dirk

2015-01-01

Nanobodies are single-domain antibodies of camelid origin. We generated nanobodies against the vertebrate nuclear pore complex (NPC) and used them in STORM imaging to locate individual NPC proteins with <2 nm epitope-label displacement. For this, we introduced cysteines at specific positions in the nanobody sequence and labeled the resulting proteins with fluorophore-maleimides. As nanobodies are normally stabilized by disulfide-bonded cysteines, this appears counterintuitive. Yet, our analysis showed that this caused no folding problems. Compared to traditional NHS ester-labeling of lysines, the cysteine-maleimide strategy resulted in far less background in fluorescence imaging, it better preserved epitope recognition and it is site-specific. We also devised a rapid epitope-mapping strategy, which relies on crosslinking mass spectrometry and the introduced ectopic cysteines. Finally, we used different anti-nucleoporin nanobodies to purify the major NPC building blocks – each in a single step, with native elution and, as demonstrated, in excellent quality for structural analysis by electron microscopy. The presented strategies are applicable to any nanobody and nanobody-target. DOI: http://dx.doi.org/10.7554/eLife.11349.001 PMID:26633879

Immediate perception of a reward is distinct from the reward’s long-term salience

PubMed Central

McGinnis, John P; Jiang, Huoqing; Agha, Moutaz Ali; Sanchez, Consuelo Perez; Lange, Jeff; Yu, Zulin; Marion-Poll, Frederic; Si, Kausik

2016-01-01

Reward perception guides all aspects of animal behavior. However, the relationship between the perceived value of a reward, the latent value of a reward, and the behavioral response remains unclear. Here we report that, given a choice between two sweet and chemically similar sugars—L- and D-arabinose—Drosophila melanogaster prefers D- over L- arabinose, but forms long-term memories of L-arabinose more reliably. Behavioral assays indicate that L-arabinose-generated memories require sugar receptor Gr43a, and calcium imaging and electrophysiological recordings indicate that L- and D-arabinose differentially activate Gr43a-expressing neurons. We posit that the immediate valence of a reward is not always predictive of the long-term reinforcement value of that reward, and that a subset of sugar-sensing neurons may generate distinct representations of similar sugars, allowing for rapid assessment of the salient features of various sugar rewards and generation of reward-specific behaviors. However, how sensory neurons communicate information about L-arabinose quality and concentration—features relevant for long-term memory—remains unknown. DOI: http://dx.doi.org/10.7554/eLife.22283.001 PMID:28005005

A new topology of the HK97-like fold revealed in Bordetella bacteriophage by cryoEM at 3.5 Å resolution

PubMed Central

Zhang, Xing; Guo, Huatao; Jin, Lei; Czornyj, Elizabeth; Hodes, Asher; Hui, Wong H; Nieh, Angela W; Miller, Jeff F; Zhou, Z Hong

2013-01-01

Bacteriophage BPP-1 infects and kills Bordetella species that cause whooping cough. Its diversity-generating retroelement (DGR) provides a naturally occurring phage-display system, but engineering efforts are hampered without atomic structures. Here, we report a cryo electron microscopy structure of the BPP-1 head at 3.5 Å resolution. Our atomic model shows two of the three protein folds representing major viral lineages: jellyroll for its cement protein (CP) and HK97-like (‘Johnson’) for its major capsid protein (MCP). Strikingly, the fold topology of MCP is permuted non-circularly from the Johnson fold topology previously seen in viral and cellular proteins. We illustrate that the new topology is likely the only feasible alternative of the old topology. β-sheet augmentation and electrostatic interactions contribute to the formation of non-covalent chainmail in BPP-1, unlike covalent inter-protein linkages of the HK97 chainmail. Despite these complex interactions, the termini of both CP and MCP are ideally positioned for DGR-based phage-display engineering. DOI: http://dx.doi.org/10.7554/eLife.01299.001 PMID:24347545

Consistent global structures of complex RNA states through multidimensional chemical mapping

PubMed Central

Cheng, Clarence Yu; Chou, Fang-Chieh; Kladwang, Wipapat; Tian, Siqi; Cordero, Pablo; Das, Rhiju

2015-01-01

Accelerating discoveries of non-coding RNA (ncRNA) in myriad biological processes pose major challenges to structural and functional analysis. Despite progress in secondary structure modeling, high-throughput methods have generally failed to determine ncRNA tertiary structures, even at the 1-nm resolution that enables visualization of how helices and functional motifs are positioned in three dimensions. We report that integrating a new method called MOHCA-seq (Multiplexed •OH Cleavage Analysis with paired-end sequencing) with mutate-and-map secondary structure inference guides Rosetta 3D modeling to consistent 1-nm accuracy for intricately folded ncRNAs with lengths up to 188 nucleotides, including a blind RNA-puzzle challenge, the lariat-capping ribozyme. This multidimensional chemical mapping (MCM) pipeline resolves unexpected tertiary proximities for cyclic-di-GMP, glycine, and adenosylcobalamin riboswitch aptamers without their ligands and a loose structure for the recently discovered human HoxA9D internal ribosome entry site regulon. MCM offers a sequencing-based route to uncovering ncRNA 3D structure, applicable to functionally important but potentially heterogeneous states. DOI: http://dx.doi.org/10.7554/eLife.07600.001 PMID:26035425

A mitochondria-anchored isoform of the actin-nucleating spire protein regulates mitochondrial division

PubMed Central

Manor, Uri; Bartholomew, Sadie; Golani, Gonen; Christenson, Eric; Kozlov, Michael; Higgs, Henry; Spudich, James; Lippincott-Schwartz, Jennifer

2015-01-01

Mitochondrial division, essential for survival in mammals, is enhanced by an inter-organellar process involving ER tubules encircling and constricting mitochondria. The force for constriction is thought to involve actin polymerization by the ER-anchored isoform of the formin protein inverted formin 2 (INF2). Unknown is the mechanism triggering INF2-mediated actin polymerization at ER-mitochondria intersections. We show that a novel isoform of the formin-binding, actin-nucleating protein Spire, Spire1C, localizes to mitochondria and directly links mitochondria to the actin cytoskeleton and the ER. Spire1C binds INF2 and promotes actin assembly on mitochondrial surfaces. Disrupting either Spire1C actin- or formin-binding activities reduces mitochondrial constriction and division. We propose Spire1C cooperates with INF2 to regulate actin assembly at ER-mitochondrial contacts. Simulations support this model's feasibility and demonstrate polymerizing actin filaments can induce mitochondrial constriction. Thus, Spire1C is optimally positioned to serve as a molecular hub that links mitochondria to actin and the ER for regulation of mitochondrial division. DOI: http://dx.doi.org/10.7554/eLife.08828.001 PMID:26305500

The DEG/ENaC cation channel protein UNC-8 drives activity-dependent synapse removal in remodeling GABAergic neurons

PubMed Central

Miller-Fleming, Tyne W; Petersen, Sarah C; Manning, Laura; Matthewman, Cristina; Gornet, Megan; Beers, Allison; Hori, Sayaka; Mitani, Shohei; Bianchi, Laura; Richmond, Janet; Miller, David M

2016-01-01

Genetic programming and neural activity drive synaptic remodeling in developing neural circuits, but the molecular components that link these pathways are poorly understood. Here we show that the C. elegans Degenerin/Epithelial Sodium Channel (DEG/ENaC) protein, UNC-8, is transcriptionally controlled to function as a trigger in an activity-dependent mechanism that removes synapses in remodeling GABAergic neurons. UNC-8 cation channel activity promotes disassembly of presynaptic domains in DD type GABA neurons, but not in VD class GABA neurons where unc-8 expression is blocked by the COUP/TF transcription factor, UNC-55. We propose that the depolarizing effect of UNC-8-dependent sodium import elevates intracellular calcium in a positive feedback loop involving the voltage-gated calcium channel UNC-2 and the calcium-activated phosphatase TAX-6/calcineurin to initiate a caspase-dependent mechanism that disassembles the presynaptic apparatus. Thus, UNC-8 serves as a link between genetic and activity-dependent pathways that function together to promote the elimination of GABA synapses in remodeling neurons. DOI: http://dx.doi.org/10.7554/eLife.14599.001 PMID:27403890

TAPBPR bridges UDP-glucose:glycoprotein glucosyltransferase 1 onto MHC class I to provide quality control in the antigen presentation pathway

PubMed Central

Neerincx, Andreas; Hermann, Clemens; Antrobus, Robin; van Hateren, Andy; Cao, Huan; Trautwein, Nico; Stevanović, Stefan; Elliott, Tim; Deane, Janet E; Boyle, Louise H

2017-01-01

Recently, we revealed that TAPBPR is a peptide exchange catalyst that is important for optimal peptide selection by MHC class I molecules. Here, we asked whether any other co-factors associate with TAPBPR, which would explain its effect on peptide selection. We identify an interaction between TAPBPR and UDP-glucose:glycoprotein glucosyltransferase 1 (UGT1), a folding sensor in the calnexin/calreticulin quality control cycle that is known to regenerate the Glc1Man9GlcNAc2 moiety on glycoproteins. Our results suggest the formation of a multimeric complex, dependent on a conserved cysteine at position 94 in TAPBPR, in which TAPBPR promotes the association of UGT1 with peptide-receptive MHC class I molecules. We reveal that the interaction between TAPBPR and UGT1 facilities the reglucosylation of the glycan on MHC class I molecules, promoting their recognition by calreticulin. Our results suggest that in addition to being a peptide editor, TAPBPR improves peptide optimisation by promoting peptide-receptive MHC class I molecules to associate with the peptide-loading complex. DOI: http://dx.doi.org/10.7554/eLife.23049.001 PMID:28425917

Impact of orbit, clock and EOP errors in GNSS Precise Point Positioning

NASA Astrophysics Data System (ADS)

Hackman, C.

2012-12-01

Precise point positioning (PPP; [1]) has gained ever-increasing usage in GNSS carrier-phase positioning, navigation and timing (PNT) since its inception in the late 1990s. In this technique, high-precision satellite clocks, satellite ephemerides and earth-orientation parameters (EOPs) are applied as fixed input by the user in order to estimate receiver/location-specific quantities such as antenna coordinates, troposphere delay and receiver-clock corrections. This is in contrast to "network" solutions, in which (typically) less-precise satellite clocks, satellite ephemerides and EOPs are used as input, and in which these parameters are estimated simultaneously with the receiver/location-specific parameters. The primary reason for increased PPP application is that it offers most of the benefits of a network solution with a smaller computing cost. In addition, the software required to do PPP positioning can be simpler than that required for network solutions. Finally, PPP permits high-precision positioning of single or sparsely spaced receivers that may have few or no GNSS satellites in common view. A drawback of PPP is that the accuracy of the results depend directly on the accuracy of the supplied orbits, clocks and EOPs, since these parameters are not adjusted during the processing. In this study, we will examine the impact of orbit, EOP and satellite clock estimates on PPP solutions. Our primary focus will be the impact of these errors on station coordinates; however the study may be extended to error propagation into receiver-clock corrections and/or troposphere estimates if time permits. Study motivation: the United States Naval Observatory (USNO) began testing PPP processing using its own predicted orbits, clocks and EOPs in Summer 2012 [2]. The results of such processing could be useful for real- or near-real-time applications should they meet accuracy/precision requirements. Understanding how errors in satellite clocks, satellite orbits and EOPs propagate into PPP positioning and timing results allows researchers to focus their improvement efforts in areas most in need of attention. The initial study will be conducted using the simulation capabilities of Bernese GPS Software and extended to using real data if time permits. [1] J.F. Zumberge, M.B. Heflin, D.C. Jefferson, M.M. Watkins and F.H. Webb, Precise point positioning for the efficient and robust analysis of GPS data from large networks, J. Geophys. Res., 102(B3), 5005-5017, doi:10.1029/96JB03860, 1997. [2] C. Hackman, S.M. Byram, V.J. Slabinski and J.C. Tracey, Near-real-time and other high-precision GNSS-based orbit/clock/earth-orientation/troposphere parameters available from USNO, Proc. 2012 ION Joint Navigation Conference, 15 pp., in press, 2012.

Terahertz and Microwave Devices Based on the Photo-Excited Low Dimensional Electronic System

DTIC Science & Technology

2015-03-11

Morphology of Thermally Annealed Copper Foils for Graphene Growth, Chemistry of Materials , (05 2013): 1643. doi : 10.1021/cm400032h R. G. Mani, J...connected specimens, IEEE Transactions on Nanotechnology, (01 2011): 179. doi : Jesús Iñarrea, R. Mani, W. Wegscheider. Sublinear radiation power...dependence of photoexcited resistance oscillations in two-dimensional electron systems, Physical Review B, (11 2010): 0. doi : 10.1103/PhysRevB

Understanding and Controlling the Electronic Properties of Graphene Using Scanning Probe Microscopy

DTIC Science & Technology

2014-07-21

Dirac point in gated bilayer graphene, Applied Physics Letters, (12 2009): 243502. doi : 10.1063/1.3275755 Brian J. LeRoy, Adam T. Roberts, Rolf...of soliton motion and stacking in trilayer graphene, Nature Materials , (04 2014): 0. doi : 10.1038/nmat3965 Matthew Yankowitz, Joel I-Jan Wang...of bilayer graphene via quasiparticle scattering, APL Materials , (09 2014): 92503. doi : Matthew Yankowitz, Fenglin Wang, Chun Ning Lau, Brian J

Multiple hearth furnace for reducing iron oxide

DOEpatents

Brandon, Mark M [Charlotte, NC; True, Bradford G [Charlotte, NC

2012-03-13

A multiple moving hearth furnace (10) having a furnace housing (11) with at least two moving hearths (20) positioned laterally within the furnace housing, the hearths moving in opposite directions and each moving hearth (20) capable of being charged with at least one layer of iron oxide and carbon bearing material at one end, and being capable of discharging reduced material at the other end. A heat insulating partition (92) is positioned between adjacent moving hearths of at least portions of the conversion zones (13), and is capable of communicating gases between the atmospheres of the conversion zones of adjacent moving hearths. A drying/preheat zone (12), a conversion zone (13), and optionally a cooling zone (15) are sequentially positioned along each moving hearth (30) in the furnace housing (11).

48 CFR 1404.7001 - General.

Code of Federal Regulations, 2010 CFR

2010-10-01

... MATTERS Deposit of Contract Publications 1404.7001 General. The DOI Departmental Library is responsible... “Departmental publication” means any publication or report produced under a DOI contract or Interagency...

48 CFR 1404.7001 - General.

Code of Federal Regulations, 2011 CFR

2011-10-01

... MATTERS Deposit of Contract Publications 1404.7001 General. The DOI Departmental Library is responsible... “Departmental publication” means any publication or report produced under a DOI contract or Interagency...

Long-term trends in the total electron content (TEC)

NASA Astrophysics Data System (ADS)

Laštovička, Jan

2017-04-01

The long-term trends in the total electron content (TEC) have very little been studied. Lean et al. (2011; J. Geophys. Res., 116, A00H04, doi:10.1029/2010JA016378) studied trends in TEC globally based on JPL maps for 1995-2010. However, their trends appear to be too positive, which is not plausible taking into account the trends in other ionospheric parameters. Therefore they prefer the less positive trends calculated under the assumption of the same level of solar activity in solar cycle minima 22/23 and 23/24. However, as it is now clear, this is not a correct assumption. Lastovicka (2013; J. Geophys. Res. Space Phys., 118, 3831-3835, doi:10.1002/jgra.50261) selected a region around Florence, Italy, as a region with available historical TEC data based on Faraday rotation measurements and remarkably larger than average trends in TEC by Lean et al. (2011). Historical data from Florence provide no trend in TEC. However, foF2 from Juliusruh provide slight negative trends for 1976-1996 but no trends for 1995-2010. Thus the question of reality of trends by Lean et al. (2011) remained open. Here we use TEC from GIM and JPL data for two European regions with high Lean's trends, regions around Florence and around Prague, using 10-14 LT medians, 1998-2015, yearly average values. A classical approach is applied. First a model of solar activity dependence of TEC is constructed separately for each region from all data. Then model data are subtracted from experimental data and analysis is made with residuals. This analysis shows that early data (1998-2001) are by several TECU lower than they should be according to solar activity, the year 2002 is intermediate and in 2003-2015 the data fit well a weak or rather no trend of TEC. The change in TEC data does not seem to be jump-like, it lasted at least a year, if not longer. Thus the positive TEC trends reported by Lean et al. (2011) appear to be affected by data problem; real trends are evidently less positive if any.

Amae as metalanguage: a critique of Doi's theory of amae.

PubMed

Taketomo, Y

1986-10-01

For many years Doi's ideas on the links between amae and the satisfaction of dependency needs have influenced discussions of the so-called Japanese character. In reviewing Doi's theory, however, major problems emerge. Beginning with the very definition of amae, one finds that Doi has chosen to stress only one aspect of amae. When one returns to his lexical sources, one discovers that the common denominator in the various definitions of amae does not lie in a single, monolithic motivation, as Doi proposes. Instead, it is suggested, amae should be viewed as a metalanguage. To understand the metacommunicational significance of amae, one must consider the rules that govern the behavior of the interactants in amae. Three different situations of amae are delineated. In the childhood interaction, the child playfully mimicks the infant's attachment behavior. With the adult coquetry situation, one observes the female playfully behaving as if she were the child mimicking the infant-mother prototype. Finally, in the third context subset of amae, there is a "trespassing on" or "taking advantage of" another person, with the beneficent approval of the second interactant. The common factor thus appears to be a mutually agreed-upon suspension of certain ordinary restraints on behavior. A metalanguage theory of amae, as an alternative to Doi's proposal, places emphasis on the culture-specific message of the interaction itself rather than on a single, monolithic motivation or an object-language interpretation. Indeed, various motivations are suggested, depending on the specific context of amae as well as the individual case. In this way, it is hoped, a metacommunicational approach to the understanding of amae may broaden the consideration of motivational issues, extending far beyond Doi's insistence on dependency and the search for passive love.

Manganese-enhanced magnetic resonance imaging reveals increased DOI-induced brain activity in a mouse model of schizophrenia

PubMed Central

Malkova, Natalia V.; Gallagher, Joseph J.; Yu, Collin Z.; Jacobs, Russell E.; Patterson, Paul H.

2014-01-01

Maternal infection during pregnancy increases the risk for schizophrenia in offspring. In rodent models, maternal immune activation (MIA) yields offspring with schizophrenia-like behaviors. None of these behaviors are, however, specific to schizophrenia. The presence of hallucinations is a key diagnostic symptom of schizophrenia. In mice, this symptom can be defined as brain activation in the absence of external stimuli, which can be mimicked by administration of hallucinogens. We find that, compared with controls, adult MIA offspring display an increased stereotypical behavioral response to the hallucinogen 2,5-dimethoxy-4-iodoamphetamine (DOI), an agonist for serotonin receptor 2A (5-HT2AR). This may be explained by increased levels of 5-HT2AR and downstream signaling molecules in unstimulated MIA prefrontal cortex (PFC). Using manganese-enhanced magnetic resonance imaging to identify neuronal activation elicited by DOI administration, we find that, compared with controls, MIA offspring exhibit a greater manganese (Mn2+) accumulation in several brain areas, including the PFC, thalamus, and striatum. The parafascicular thalamic nucleus, which plays the role in the pathogenesis of hallucinations, is activated by DOI in MIA offspring only. Additionally, compared with controls, MIA offspring demonstrate higher DOI-induced expression of early growth response protein 1, cyclooxygenase-2, and brain-derived neurotrophic factor in the PFC. Chronic treatment with the 5-HT2AR antagonist ketanserin reduces DOI-induced head twitching in MIA offspring. Thus, the MIA mouse model can be successfully used to investigate activity induced by DOI in awake, behaving mice. Moreover, manganese-enhanced magnetic resonance imaging is a useful, noninvasive method for accurately measuring this type of activity. PMID:24889602

Manganese-enhanced magnetic resonance imaging reveals increased DOI-induced brain activity in a mouse model of schizophrenia.

PubMed

Malkova, Natalia V; Gallagher, Joseph J; Yu, Collin Z; Jacobs, Russell E; Patterson, Paul H

2014-06-17

Maternal infection during pregnancy increases the risk for schizophrenia in offspring. In rodent models, maternal immune activation (MIA) yields offspring with schizophrenia-like behaviors. None of these behaviors are, however, specific to schizophrenia. The presence of hallucinations is a key diagnostic symptom of schizophrenia. In mice, this symptom can be defined as brain activation in the absence of external stimuli, which can be mimicked by administration of hallucinogens. We find that, compared with controls, adult MIA offspring display an increased stereotypical behavioral response to the hallucinogen 2,5-dimethoxy-4-iodoamphetamine (DOI), an agonist for serotonin receptor 2A (5-HT2AR). This may be explained by increased levels of 5-HT2AR and downstream signaling molecules in unstimulated MIA prefrontal cortex (PFC). Using manganese-enhanced magnetic resonance imaging to identify neuronal activation elicited by DOI administration, we find that, compared with controls, MIA offspring exhibit a greater manganese (Mn(2+)) accumulation in several brain areas, including the PFC, thalamus, and striatum. The parafascicular thalamic nucleus, which plays the role in the pathogenesis of hallucinations, is activated by DOI in MIA offspring only. Additionally, compared with controls, MIA offspring demonstrate higher DOI-induced expression of early growth response protein 1, cyclooxygenase-2, and brain-derived neurotrophic factor in the PFC. Chronic treatment with the 5-HT2AR antagonist ketanserin reduces DOI-induced head twitching in MIA offspring. Thus, the MIA mouse model can be successfully used to investigate activity induced by DOI in awake, behaving mice. Moreover, manganese-enhanced magnetic resonance imaging is a useful, noninvasive method for accurately measuring this type of activity.

Impulsive behaviour in rats induced by intracortical DOI infusions is antagonized by co-administration of an mGlu2/3 receptor agonist.

PubMed

Wischhof, Lena; Hollensteiner, Karl J; Koch, Michael

2011-12-01

The orbitofrontal cortex (OFC) and the medial prefrontal cortex (mPFC) modulate impulsive behaviours. Serotonin [5-hydroxytryptamine (5-HT)] 2A receptors have also been implicated in impulsivity and govern antagonistic interactions with metabotropic glutamate (mGlu)2/3 receptors. This study examined the interactions between 5-HT2A and mGlu2/3 receptors in the OFC and mPFC with relevance to impulsive choice and impulsive action. Impulsive choice was assessed in Lister Hooded rats, trained in a delay-discounting T-maze task, after bilateral intra-OFC infusions of the 5-HT2A/C receptor agonist DOI [(+/-)-1-(2,5-dimethoxy-4-iodophenyl)-2-aminopropan hydrochloride; 5 μg/0.5 μl] and the mGlu2/3 receptor agonist LY379268 (1 μg/0.5 μl). Impulsive action was assessed in a second group of rats trained in a five-choice serial reaction time task (5-CSRTT) and receiving bilateral intra-mPFC infusions of DOI (5 μg/0.5 μl) and LY379268 (1 μg/0.5 μl). Intra-OFC DOI increased impulsive choice, which was not seen when DOI was co-administered with LY379268. LY379268 itself had no effect on choice behaviour. Intra-mPFC DOI caused impulsive over-responding in the 5-CSRTT that was attenuated when DOI and LY379268 were co-injected. Local mPFC-infusions of LY379268 had no effect on 5-CSRTT performance. This study suggests a differential involvement of OFC and mPFC 5-HT2A receptors in impulsive choice and impulsive action. Moreover, compounds acting at mGlu2/3 receptors might have the potential to improve impulsivity-related impairments.

The nodal count {0,1,2,3,…} implies the graph is a tree

PubMed Central

Band, Ram

2014-01-01

Sturm's oscillation theorem states that the nth eigenfunction of a Sturm–Liouville operator on the interval has n−1 zeros (nodes) (Sturm 1836 J. Math. Pures Appl. 1, 106–186; 373–444). This result was generalized for all metric tree graphs (Pokornyĭ et al. 1996 Mat. Zametki 60, 468–470 (doi:10.1007/BF02320380); Schapotschnikow 2006 Waves Random Complex Media 16, 167–178 (doi:10.1080/1745530600702535)) and an analogous theorem was proved for discrete tree graphs (Berkolaiko 2007 Commun. Math. Phys. 278, 803–819 (doi:10.1007/S00220-007-0391-3); Dhar & Ramaswamy 1985 Phys. Rev. Lett. 54, 1346–1349 (doi:10.1103/PhysRevLett.54.1346); Fiedler 1975 Czechoslovak Math. J. 25, 607–618). We prove the converse theorems for both discrete and metric graphs. Namely if for all n, the nth eigenfunction of the graph has n−1 zeros, then the graph is a tree. Our proofs use a recently obtained connection between the graph's nodal count and the magnetic stability of its eigenvalues (Berkolaiko 2013 Anal. PDE 6, 1213–1233 (doi:10.2140/apde.2013.6.1213); Berkolaiko & Weyand 2014 Phil. Trans. R. Soc. A 372, 20120522 (doi:10.1098/rsta.2012.0522); Colin de Verdière 2013 Anal. PDE 6, 1235–1242 (doi:10.2140/apde.2013.6.1235)). In the course of the proof, we show that it is not possible for all (or even almost all, in the metric case) the eigenvalues to exhibit a diamagnetic behaviour. In addition, we develop a notion of ‘discretized’ versions of a metric graph and prove that their nodal counts are related to those of the metric graph. PMID:24344337