NEMO-SMO acoustic array: A deep-sea test of a novel acoustic positioning system for a km3-scale underwater neutrino telescope

NASA Astrophysics Data System (ADS)

Viola, S.; Ardid, M.; Bertin, V.; Enzenhöfer, A.; Keller, P.; Lahmann, R.; Larosa, G.; Llorens, C. D.; NEMO Collaboration; SMO Collaboration

2013-10-01

Within the activities of the NEMO project, the installation of a 8-floors tower (NEMO-Phase II) at a depth of 3500 m is foreseen in 2012. The tower will be installed about 80 km off-shore Capo Passero, in Sicily. On board the NEMO tower, an array of 18 acoustic sensors will be installed, permitting acoustic detection of biological sources, studies for acoustic neutrino detection and primarily acoustic positioning of the underwater structures. For the latter purpose, the sensors register acoustic signals emitted by five acoustic beacons anchored on the sea-floor. The data acquisition system of the acoustic sensors is fully integrated with the detector data transport system and is based on an “all data to shore” philosophy. Signals coming from hydrophones are continuously sampled underwater at 192 kHz/24 bit and transmitted to shore through an electro-optical cable for real-time analysis. A novel technology for underwater GPS time-stamping of data has been implemented and tested. The operation of the acoustic array will permit long-term test of sensors and electronics technologies that are proposed for the acoustic positioning system of KM3NeT.

Aerosol Monitoring Mission using an Advanced Nanosatellite

NASA Astrophysics Data System (ADS)

Pranajaya, Freddy; Zee, Robert E.

The Space Flight Laboratory (SFL) at the University of Toronto Institute for Aerospace Studies (UTIAS) is currently developing a nanosatellite for the purpose of monitoring aerosol content in the atmosphere. The NEMO-AM (Nanosatellite for Earth Monitoring and Observation -Aerosol Monitoring) spacecraft is designed to perform multi-angle, dual-polarization observa-tions in three visible bands. The satellite is designed to detect aerosol content in the atmosphere over a specific region with a nominal ground resolution of up to 200 m and a minimum swath of 120 km. NEMO-AM is being built under a collaborative agreement between SFL and the Indian Space Research Organization (ISRO). SFL is responsible for the design, manufacturing and qualification of the spacecraft and the optical instrument. The NEMO-AM is based on the NEMO bus, which is the next evolution to the SFL Generic Nanosatellite Bus (GNB) technology. The NEMO bus has a primary structure measuring 20 cm by 20 cm by 40 cm and is capable of peak power generation up to 80W. A minimum of 30W is available to the payload. The high peak power generation enables the NEMO bus to support a dedicated state-of-the-art high speed transmitter. The NEMO bus is designed with a total mass of 15 kg, 9 kg of which is dedicated to the payload. It can be configured for full three-axis control with up to 1 arcmin pointing stability. NEMO spacecraft will be secured to launch vehicles using the XPOD Duo separation system. This paper will summarize the NEMO-AM mission and the innovative aspects of the NEMO bus.

Radon emanation based material measurement and selection for the SuperNEMO double beta experiment

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

Cerna, Cédric, E-mail: cerna@cenbg.in2p3.fr; Soulé, Benjamin; Perrot, Frédéric

The SuperNEMO Demonstrator experiment aims to study the neutrinoless double beta decay of 7 kg of {sup 82}Se in order to reach a limit on the light Majorana neutrino mass mechanism T{sub 1/2} (ββ0ν) > 6.5 10{sup 24} years (90%CL) equivalent to a mass sensitivity mβ{sub β} < 0.20 - 0.40 eV (90%CL) in two years of data taking. The detector construction started in 2014 and its installation in the Laboratoire Souterrain de Modane (LSM) is expected during the course of 2015. The remaining level of {sup 226}Ra ({sup 238}U chain) in the detector components can lead to the emanationmore » of {sup 222}Rn gas. This isotope should be controlled and reduced down to the level of a 150 µBq/m{sup 3} in the tracker chamber of the detector to achieve the physics goals. Besides the HPGe selection of the detector materials for their radiopurity, the most critical materials have been tested and selected in a dedicated setup facility able to measure their {sup 222}Rn emanation level. The operating principle relies on a large emanation tank (0.7m{sup 3}) that allows measuring large material surfaces or large number of construction pieces. The emanation tank is coupled to an electrostatic detector equipped with a silicon diode to perform the alpha spectroscopy of the gas it contains and extract the {sup 222}Rn daughters. The transfer efficiency and the detector efficiency have been carefully calibrated through different methods. The intrinsic background of the system allows one to measure 222Rn activities down to 3 mBq, leading to a typical emanation sensitivity of 20 µBq/m{sup 2}/day for a 30 m{sup 2} surface sample. Several construction materials have been measured and selected, such as nylon and aluminized Mylar films, photomultipliers and tracking of the SuperNEMO Demonstrator.« less

The km 3 Mediterranean neutrino observatory - the NEMO.RD project

NASA Astrophysics Data System (ADS)

De Marzo, C. N.

2001-05-01

The NEMO.RD Project is a feasibility study of a km 3 underwater telescope for high energy astrophysical neutrinos to be located in the Mediterranean Sea. Results on various issues of this project are presented on: i) Monte Carlo simulation study of the capabilities of various arrays of phototubes in order to determine the detector geometry that can optimize performance and cost; ii) oceanographic survey of various sites in search of the optimal one; iii) feasibility study of mechanics, deployment, connections and maintenance of such a detector. Parameters of a site near Capo Passero, Sicily, where depth, transparency and other water parameters seem optimal are shown.

Recognition Memory for Realistic Synthetic Faces

PubMed Central

Yotsumoto, Yuko; Kahana, Michael J.; Wilson, Hugh R.; Sekuler, Robert

2006-01-01

A series of experiments examined short-term recognition memory for trios of briefly-presented, synthetic human faces derived from three real human faces. The stimuli were graded series of faces, which differed by varying known amounts from the face of the average female. Faces based on each of the three real faces were transformed so as to lie along orthogonal axes in a 3-D face space. Experiment 1 showed that the synthetic faces' perceptual similarity stucture strongly influenced recognition memory. Results were fit by NEMo, a noisy exemplar model of perceptual recognition memory. The fits revealed that recognition memory was influenced both by the similarity of the probe to series items, and by the similarities among the series items themselves. Non-metric multi-dimensional scaling (MDS) showed that faces' perceptual representations largely preserved the 3-D space in which the face stimuli were arrayed. NEMo gave a better account of the results when similarity was defined as perceptual, MDS similarity rather than physical proximity of one face to another. Experiment 2 confirmed the importance of within-list homogeneity directly, without mediation of a model. We discuss the affinities and differences between visual memory for synthetic faces and memory for simpler stimuli. PMID:17948069

Computational nanoelectronics towards: design, analysis, synthesis, and fundamental limits

NASA Technical Reports Server (NTRS)

Klimeck, G.

2003-01-01

This seminar will review the development of a comprehensive nanoelectronic modeling tool (NEMO 1-D and NEMO 3-D) and its application to high-speed electronics (resonant tunneling diodes) and IR detectors and lasers (quantum dots and 1-D heterostructures).

Two-sided Ubiquitin Binding of NF-κB Essential Modulator (NEMO) Zinc Finger Unveiled by a Mutation Associated with Anhidrotic Ectodermal Dysplasia with Immunodeficiency Syndrome*

PubMed Central

Ngadjeua, Flora; Chiaravalli, Jeanne; Traincard, François; Raynal, Bertrand; Fontan, Elisabeth; Agou, Fabrice

2013-01-01

Hypomorphic mutations in the X-linked human NEMO gene result in various forms of anhidrotic ectodermal dysplasia with immunodeficiency. NEMO function is mediated by two distal ubiquitin binding domains located in the regulatory C-terminal domain of the protein: the coiled-coil 2-leucine zipper (CC2-LZ) domain and the zinc finger (ZF) domain. Here, we investigated the effect of the D406V mutation found in the NEMO ZF of an ectodermal dysplasia with immunodeficiency patients. This point mutation does not impair the folding of NEMO ZF or mono-ubiquitin binding but is sufficient to alter NEMO function, as NEMO-deficient fibroblasts and Jurkat T lymphocytes reconstituted with full-length D406V NEMO lead to partial and strong defects in NF-κB activation, respectively. To further characterize the ubiquitin binding properties of NEMO ZF, we employed di-ubiquitin (di-Ub) chains composed of several different linkages (Lys-48, Lys-63, and linear (Met-1-linked)). We showed that the pathogenic mutation preferentially impairs the interaction with Lys-63 and Met-1-linked di-Ub, which correlates with its ubiquitin binding defect in vivo. Furthermore, sedimentation velocity and gel filtration showed that NEMO ZF, like other NEMO related-ZFs, binds mono-Ub and di-Ub with distinct stoichiometries, indicating the presence of a new Ub site within the NEMO ZF. Extensive mutagenesis was then performed on NEMO ZF and characterization of mutants allowed the proposal of a structural model of NEMO ZF in interaction with a Lys-63 di-Ub chain. PMID:24100029

Simulation-based performance analysis of EC-Earth 3.2.0 using Dimemas

NASA Astrophysics Data System (ADS)

Yepes Arbós, Xavier; César Acosta Cobos, Mario; Serradell Maronda, Kim; Sanchez Lorente, Alicia; Doblas Reyes, Francisco Javier

2017-04-01

Earth System Models (ESMs) are complex applications executed in supercomputing facilities due to their high demand on computing resources. However, not all these models perform a good resources usage and the energy efficiency can be well below a minimum acceptable. One example is EC-Earth, a global coupled climate model which integrates different component models to simulate the Earth system. The two main components used in this analysis are IFS as atmospheric model and NEMO as ocean model, both coupled via the OASIS3-MCT coupler. Preliminary results proved that EC-Earth does not have a good computational performance. For example, the scalability of this model using the T255L91 grid with 512 MPI processes for IFS and the ORCA1L75 grid with 128 MPI processes for NEMO achieves 40.3 of speedup. This means that the 81.2% of the resources are wasted. Therefore, it is necessary a performance analysis to find the bottlenecks of the model and thus, determine the most appropriate optimization techniques. Using traces of the model collected with profiling tools such as Extrae, Paraver and Dimemas, allow us to simulate the model behaviour on a configurable parallel platform and extrapolate the impact of hardware changes in the performance of EC-Earth. In this document we propose a state-of-art procedure which makes possible to evaluate the different characteristics of climate models in a very efficient way. Accordingly, the performance of EC-Earth in different scenarios, namely assuming an ideal machine, model sensitivity and limiting model due to coupling has been shown. By simulating these scenarios, we realized that each model has different characteristics. With the ideal machine, we have seen that there are some sources of inefficiency: about a 20.59% of the execution time is communication; and there are workload imbalances produced by data dependences both between IFS and NEMO and within each model. In addition, in the model sensitivity simulations, we have described the types of messages and detected data dependencies. In IFS, we have observed that latency affects the coupling between models due to a large amount of small communications, whereas bandwidth affects another region of the code with a few big messages. In NEMO, results show that the simulated latencies and bandwidths only affect slightly to its execution time. However, it has data dependencies solved inefficiently and workload imbalances. The last simulation performed to detect the slowest model due to coupling has revealed that IFS is slower than NEMO. Moreover, there is not enough bandwidth to transfer all the data in IFS, whereas in NEMO there is almost no contention. This study is useful to improve the computational efficiency of the model, adapt it to support ultra-high resolution (UHR) experiments and future exascale supercomputers, and help code developers to design new algorithms more machine-independent.

Comprehensive Experimental and Computational Analysis of Binding Energy Hot Spots at the NF-κB Essential Modulator (NEMO)/IKKβ Protein-Protein Interface

PubMed Central

Golden, Mary S.; Cote, Shaun M.; Sayeg, Marianna; Zerbe, Brandon S.; Villar, Elizabeth A.; Beglov, Dmitri; Sazinsky, Stephen L.; Georgiadis, Rosina M.; Vajda, Sandor; Kozakov, Dima; Whitty, Adrian

2013-01-01

We report a comprehensive analysis of binding energy hot spots at the protein-protein interaction (PPI) interface between NF-κB Essential Modulator (NEMO) and IκB kinase subunit β (IKKβ), an interaction that is critical for NF-κB pathway signaling, using experimental alanine scanning mutagenesis and also the FTMap method for computational fragment screening. The experimental results confirm that the previously identified NBD region of IKKβ contains the highest concentration of hot spot residues, the strongest of which are W739, W741 and L742 (ΔΔG = 4.3, 3.5 and 3.2 kcal/mol, respectively). The region occupied by these residues defines a potentially druggable binding site on NEMO that extends for ~16 Å to additionally include the regions that bind IKKβ L737 and F734. NBD residues D738 and S740 are also important for binding but do not make direct contact with NEMO, instead likely acting to stabilize the active conformation of surrounding residues. We additionally found two previously unknown hot spot regions centered on IKKβ residues L708/V709 and L719/I723. The computational approach successfully identified all three hot spot regions on IKKβ. Moreover, the method was able to accurately quantify the energetic importance of all hot spots residues involving direct contact with NEMO. Our results provide new information to guide the discovery of small molecule inhibitors that target the NEMO/IKKβ interaction. They additionally clarify the structural and energetic complementarity between “pocket-forming” and “pocket occupying” hot spot residues, and further validate computational fragment mapping as a method for identifying hot spots at PPI interfaces. PMID:23506214

Numerical Modeling of Nanoelectronic Devices

NASA Technical Reports Server (NTRS)

Klimeck, Gerhard; Oyafuso, Fabiano; Bowen, R. Chris; Boykin, Timothy

2003-01-01

Nanoelectronic Modeling 3-D (NEMO 3-D) is a computer program for numerical modeling of the electronic structure properties of a semiconductor device that is embodied in a crystal containing as many as 16 million atoms in an arbitrary configuration and that has overall dimensions of the order of tens of nanometers. The underlying mathematical model represents the quantummechanical behavior of the device resolved to the atomistic level of granularity. The system of electrons in the device is represented by a sparse Hamiltonian matrix that contains hundreds of millions of terms. NEMO 3-D solves the matrix equation on a Beowulf-class cluster computer, by use of a parallel-processing matrix vector multiplication algorithm coupled to a Lanczos and/or Rayleigh-Ritz algorithm that solves for eigenvalues. In a recent update of NEMO 3-D, a new strain treatment, parameterized for bulk material properties of GaAs and InAs, was developed for two tight-binding submodels. The utility of the NEMO 3-D was demonstrated in an atomistic analysis of the effects of disorder in alloys and, in particular, in bulk In(x)Ga(l-x)As and in In0.6Ga0.4As quantum dots.

The SuperNemo ββ0ν enriched 82Se source foils and their radiopurity measurement with the BiPo-3 detector

NASA Astrophysics Data System (ADS)

Loaiza, P.; SuperNemo Collaboration

2017-09-01

The SuperNemo collaboration is currently building the SuperNemo demonstrator at the Modane Underground Laboratory, as the proof of concept for the full SuperNemo program. The enriched ββ0ν source consisting of thin foils containing 7 kg of 82Se is enclosed by the gas tracker and the plastic scintillator calorimeter. The full reconstruction of the ββ0ν event topology ensures an excellent background rejection and points at a true zero-background search. One of the most critical sources of background is a contamination in the source foils. The required radiopurity is 208Tl < 2 µBq/kg and 214Bi < 10 µBq/kg to achieve the sensitivity T1/2(ββ0ν) > 1026 years. The collaboration has developed a dedicated detector to measure the ultra high natural radiopurities requested, the BiPo-3 detector, installed in the Canfranc Underground Laboratory. The experimental design and performances of BiPo-3 are presented. Dedicated background measurements have been performed. After an exposure of about 2 years.m2 the surface activities of the scintillators of A(208Tl) = 1.0 ± 0.2 µBq/m2 and A(214Bi) = 1.0 ± 0.3 µBq/m2 are measured. Results of the 208Tl and 214Bi activity measurements of the first enriched 82Se foils of SuperNemo are also presented.

NEMO educational kit on micro-optics at the secondary school

NASA Astrophysics Data System (ADS)

Flores-Arias, M. T.; Bao-Varela, Carmen

2014-07-01

NEMO was the "Network of Excellence in Micro-Optics" granted in the "Sixth Framework Program" of the European Union. It aimed at providing Europe with a complete Micro-Optics food-chain, by setting up centers for optical modeling and design; measurement and instrumentation; mastering, prototyping and replication; integration and packaging and reliability and standardization. More than 300 researchers from 30 groups in 12 countries participated in the project. One of the objectives of NEMO was to spread excellence and disseminate knowledge on micro-optics and micro-photonics. To convince pupils, already from secondary school level on, about the crucial role of light and micro-optics and the opportunities this combination holds, several partners of NEMO had collaborate to create this Educational Kit. In Spain the partner involved in this aim was the "Microoptics and GRIN Optics Group" at the University of Santiago of Compostela (USC). The educational kits provided to the Secondary School were composed by two plastic cards with the following microoptical element: different kinds of diffractive optical elements or DOES and refractive optical elements or ROEs namely arrays of micro-lenses. The kit also included a DVD with a handbook for performing the experiments as well as a laser pointer source. This kit was distributed free of charge in the countries with partners in NEMO. In particular in Spain was offered to around 200 Secondary School Centers and only 80 answered accepting evaluate the kit.

A comparative signaling cost analysis of Macro Mobility scheme in NEMO (MM-NEMO) with mobility management protocol

NASA Astrophysics Data System (ADS)

Islam, Shayla; Abdalla, Aisha H.; Habaebi, Mohamed H.; Latif, Suhaimi A.; Hassan, Wan H.; Hasan, Mohammad K.; Ramli, H. A. M.; Khalifa, Othman O.

2013-12-01

NEMO BSP is an upgraded addition to Mobile IPv6 (MIPv6). As MIPv6 and its enhancements (i.e. HMIPv6) possess some limitations like higher handoff latency, packet loss, NEMO BSP also faces all these shortcomings by inheritance. Network Mobility (NEMO) is involved to handle the movement of Mobile Router (MR) and it's Mobile Network Nodes (MNNs) during handoff. Hence it is essential to upgrade the performance of mobility management protocol to obtain continuous session connectivity with lower delay and packet loss in NEMO environment. The completion of handoff process in NEMO BSP usually takes longer period since MR needs to register its single primary care of address (CoA) with home network that may cause performance degradation of the applications running on Mobile Network Nodes. Moreover, when a change in point of attachment of the mobile network is accompanied by a sudden burst of signaling messages, "Signaling Storm" occurs which eventually results in temporary congestion, packet delays or even packet loss. This effect is particularly significant for wireless environment where a wireless link is not as steady as a wired link since bandwidth is relatively limited in wireless link. Hence, providing continuous Internet connection without any interruption through applying multihoming technique and route optimization mechanism in NEMO are becoming the center of attention to the current researchers. In this paper, we propose a handoff cost model to compare the signaling cost of MM-NEMO with NEMO Basic Support Protocol (NEMO BSP) and HMIPv6.The numerical results shows that the signaling cost for the MM-NEMO scheme is about 69.6 % less than the NEMO-BSP and HMIPv6.

Naval EarthMap Observer (NEMO) science and naval products

NASA Astrophysics Data System (ADS)

Davis, Curtiss O.; Kappus, Mary E.; Gao, Bo-Cai; Bissett, W. Paul; Snyder, William A.

1998-11-01

A wide variety of applications of imaging spectrometry have been demonstrated using data from aircraft systems. Based on this experience the Navy is pursuing the Hyperspectral Remote Sensing Technology (HRST) Program to use hyperspectral imagery to characterize the littoral environment, for scientific and environmental studies and to meet Naval needs. To obtain the required space based hyperspectral imagery the Navy has joined in a partnership with industry to build and fly the Naval EarthMap Observer (NEMO). The NEMO spacecraft has the Coastal Ocean Imaging Spectrometer (COIS) a hyperspectral imager with adequate spectral and spatial resolution and a high signal-to- noise ratio to provide long term monitoring and real-time characterization of the coastal environment. It includes on- board processing for rapid data analysis and data compression, a large volume recorder, and high speed downlink to handle the required large volumes of data. This paper describes the algorithms for processing the COIS data to provide at-launch ocean data products and the research and modeling that are planned to use COIS data to advance our understanding of the dynamics of the coastal ocean.

Timing Calibration of the NEMO Optical Sensors

NASA Astrophysics Data System (ADS)

Circella, M.; de Marzo, C.; Megna, R.; Ruppi, M.

2006-04-01

This paper describes the timing calibration system for the NEMO underwater neutrino telescope. The NEMO Project aims at the construction of a km3 detector, equipped with a large number of photomultipliers, in the Mediterranean Sea. We foresee a redundant system to perform the time calibration of our apparatus: 1) A two-step procedure for measuring the offsets in the time measurements of the NEMO optical sensors, so as to measure separately the time delay for the synchronization signals to reach the offshore electronics and the response time of the photomultipliers to calibration signals delivered from optical pulsers through an optical fibre distribution system; 2) an all-optical procedure for measuring the differences in the time offsets of the different optical modules illuminated by calibration pulses. Such a system can be extended to work for a very large apparatus, even for complex arrangements of widely spaced sensors. The NEMO prototyping activities ongoing at a test site off the coast of Sicily will allow the system described in this work to be operated and tested in situ next year.

Adapting NEMO for use as the UK operational storm surge forecasting model

NASA Astrophysics Data System (ADS)

Furner, Rachel; Williams, Jane; Horsburgh, Kevin; Saulter, Andrew

2016-04-01

The United Kingdom is an area vulnerable to damage due to storm surges, particularly the East Coast which suffered losses estimated at over £1 billion during the North Sea surge event of the 5th and 6th December 2013. Accurate forecasting of storm surge events for this region is crucial to enable government agencies to assess the risk of overtopping of coastal defences so they can respond appropriately, minimising risk to life and infrastructure. There has been an operational storm surge forecast service for this region since 1978, using a numerical model developed by the National Oceanography Centre (NOC) and run at the UK Met Office. This is also implemented as part of an ensemble prediction system, using perturbed atmospheric forcing to produce an ensemble surge forecast. In order to ensure efficient use of future supercomputer developments and to create synergy with existing operational coastal ocean models the Met Office and NOC have begun a joint project transitioning the storm surge forecast system from the current CS3X code base to a configuration based on the Nucleus for European Modelling of the Ocean (NEMO). This work involves both adapting NEMO to add functionality, such as allowing the drying out of ocean cells and changes allowing NEMO to run efficiently as a two-dimensional, barotropic model. As the ensemble surge forecast system is run with 12 members 4 times a day computational efficiency is of high importance. Upon completion this project will enable interesting scientific comparisons to be made between a NEMO based surge model and the full three-dimensional baroclinic NEMO based models currently run within the Met Office, facilitating assessment of the impact of baroclinic processes, and vertical resolution on sea surface height forecasts. Moving to a NEMO code base will also allow many future developments to be more easily used within the storm surge model due to the wide range of options which currently exist within NEMO or are planned for future NEMO releases, such as data assimilation, and surge-wave coupling. Assessment of tidal performance of the NEMO-surge configuration and comparison to the existing operational CS3X model has been carried out. Evaluation of the models focus on performance relative to the UK Class A tide gauge network, a dataset which was established following the devastating flood of 1953 and which is managed by the British Oceanographic Data Service (BODC) based at NOC. Trials of the NEMO model in tide-only mode have illustrated the importance of having a well specified bathymetry and, for the 7km scaled model, a secondary sensitivity to bed friction coefficient and the specification of the coastline. Preliminary results will also be presented from model runs with atmospheric (wind stress and pressure at mean sea-level) forcing.

Withaferin A disrupts ubiquitin-based NEMO reorganization induced by canonical NF-κB signaling.

PubMed

Jackson, Shawn S; Oberley, Christopher; Hooper, Christopher P; Grindle, Kreg; Wuerzberger-Davis, Shelly; Wolff, Jared; McCool, Kevin; Rui, Lixin; Miyamoto, Shigeki

2015-02-01

The NF-κB family of transcription factors regulates numerous cellular processes, including cell proliferation and survival responses. The constitutive activation of NF-κB has also emerged as an important oncogenic driver in many malignancies, such as activated B-cell like diffuse large B cell lymphoma, among others. In this study, we investigated the impact and mechanisms of action of Withaferin A, a naturally produced steroidal lactone, against both signal-inducible as well as constitutive NF-κB activities. We found that Withaferin A is a robust inhibitor of canonical and constitutive NF-κB activities, leading to apoptosis of certain lymphoma lines. In the canonical pathway induced by TNF, Withaferin A did not disrupt RIP1 polyubiquitination or NEMO-IKKβ interaction and was a poor direct IKKβ inhibitor, but prevented the formation of TNF-induced NEMO foci which colocalized with TNF ligand. While GFP-NEMO efficiently formed TNF-induced foci, a GFP-NEMO(Y308S) mutant that is defective in binding to polyubiquitin chains did not form foci. Our study reveals that Withaferin A is a novel type of IKK inhibitor which acts by disrupting NEMO reorganization into ubiquitin-based signaling structures in vivo. Copyright © 2014 Elsevier Inc. All rights reserved.

Withaferin A disrupts ubiquitin-based NEMO reorganization induced by canonical NF-κB signaling

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

Jackson, Shawn S.; Medical Scientist Training Program, University of Wisconsin-Madison, 1111 Highland Avenue, Madison, WI 53705; Cellular and Molecular Biology Program, University of Wisconsin-Madison, 1111 Highland Avenue, Madison, WI 53705

2015-02-01

The NF-κB family of transcription factors regulates numerous cellular processes, including cell proliferation and survival responses. The constitutive activation of NF-κB has also emerged as an important oncogenic driver in many malignancies, such as activated B-cell like diffuse large B cell lymphoma, among others. In this study, we investigated the impact and mechanisms of action of Withaferin A, a naturally produced steroidal lactone, against both signal-inducible as well as constitutive NF-κB activities. We found that Withaferin A is a robust inhibitor of canonical and constitutive NF-κB activities, leading to apoptosis of certain lymphoma lines. In the canonical pathway induced bymore » TNF, Withaferin A did not disrupt RIP1 polyubiquitination or NEMO–IKKβ interaction and was a poor direct IKKβ inhibitor, but prevented the formation of TNF-induced NEMO foci which colocalized with TNF ligand. While GFP-NEMO efficiently formed TNF-induced foci, a GFP-NEMO{sup Y308S} mutant that is defective in binding to polyubiquitin chains did not form foci. Our study reveals that Withaferin A is a novel type of IKK inhibitor which acts by disrupting NEMO reorganization into ubiquitin-based signaling structures in vivo. - Highlights: • Withaferin A, a NF-κB inhibitor, disrupts signaling induced NEMO localization, a novel point of inhibition. • NEMO can be localized to distinct signaling foci after treatment with TNF. • ABC-type DLCBL cells can be sensitized to apoptosis after treatment with Withaferin A.« less

Mechanism Underlying IκB Kinase Activation Mediated by the Linear Ubiquitin Chain Assembly Complex

PubMed Central

Fujita, Hiroaki; Akita, Mariko; Kato, Ryuichi; Sasaki, Yoshiteru; Wakatsuki, Soichi

2014-01-01

The linear ubiquitin chain assembly complex (LUBAC) ligase, consisting of HOIL-1L, HOIP, and SHARPIN, specifically generates linear polyubiquitin chains. LUBAC-mediated linear polyubiquitination has been implicated in NF-κB activation. NEMO, a component of the IκB kinase (IKK) complex, is a substrate of LUBAC, but the precise molecular mechanism underlying linear chain-mediated NF-κB activation has not been fully elucidated. Here, we demonstrate that linearly polyubiquitinated NEMO activates IKK more potently than unanchored linear chains. In mutational analyses based on the crystal structure of the complex between the HOIP NZF1 and NEMO CC2-LZ domains, which are involved in the HOIP-NEMO interaction, NEMO mutations that impaired linear ubiquitin recognition activity and prevented recognition by LUBAC synergistically suppressed signal-induced NF-κB activation. HOIP NZF1 bound to NEMO and ubiquitin simultaneously, and HOIP NZF1 mutants defective in interaction with either NEMO or ubiquitin could not restore signal-induced NF-κB activation. Furthermore, linear chain-mediated activation of IKK2 involved homotypic interaction of the IKK2 kinase domain. Collectively, these results demonstrate that linear polyubiquitination of NEMO plays crucial roles in IKK activation and that this modification involves the HOIP NZF1 domain and recognition of NEMO-conjugated linear ubiquitin chains by NEMO on another IKK complex. PMID:24469399

Fibroblast growth factor homologous factor 1 interacts with NEMO to regulate NF-κB signaling in neurons.

PubMed

König, Hans-Georg; Fenner, Beau J; Byrne, Jennifer C; Schwamborn, Robert F; Bernas, Tytus; Jefferies, Caroline A; Prehn, Jochen H M

2012-12-15

Neuronal survival and plasticity critically depend on constitutive activity of the transcription factor nuclear factor-κB (NF-κB). We here describe a role for a small intracellular fibroblast growth factor homologue, the fibroblast growth factor homologous factor 1 (FHF1/FGF12), in the regulation of NF-κB activity in mature neurons. FHFs have previously been described to control neuronal excitability, and mutations in FHF isoforms give rise to a form of progressive spinocerebellar ataxia. Using a protein-array approach, we identified FHF1b as a novel interactor of the canonical NF-κB modulator IKKγ/NEMO. Co-immunoprecipitation, pull-down and GAL4-reporter experiments, as well as proximity ligation assays, confirmed the interaction of FHF1 and NEMO and demonstrated that a major site of interaction occurred within the axon initial segment. Fhf1 gene silencing strongly activated neuronal NF-κB activity and increased neurite lengths, branching patterns and spine counts in mature cortical neurons. The effects of FHF1 on neuronal NF-κB activity and morphology required the presence of NEMO. Our results imply that FHF1 negatively regulates the constitutive NF-κB activity in neurons.

Noncanonical NF-κB Signaling Is Limited by Classical NF-κB Activity

PubMed Central

Gray, Carolyn M.; Remouchamps, Caroline; McCorkell, Kelly A.; Solt, Laura A.; Dejardin, Emmanuel; Orange, Jordan S.; May, Michael J.

2014-01-01

Precise regulation of nuclear factor κB (NF-κB) signaling is crucial for normal immune responses, and defective NF-κB activity underlies a range of immunodeficiencies. NF-κB is activated through two signaling cascades: the classical and noncanonical pathways. The classical pathway requires inhibitor of κB kinase β (IKKβ) and NF-κB essential modulator (NEMO), and hypomorphic mutations in the gene encoding NEMO (ikbkg) lead to inherited immunodeficiencies, collectively termed NEMO-ID. Noncanonical NF-κB activation requires NF-κB–inducing kinase (NIK) and IKKα, but not NEMO. We found that noncanonical NF-κB was basally active in peripheral blood mononuclear cells from NEMO-ID patients, and that noncanonical NF-κB signaling was similarly enhanced in cell lines lacking functional NEMO. NIK, which normally undergoes constitutive degradation, was aberrantly present in resting NEMO-deficient cells, and regulation of its abundance was rescued by reconstitution with full-length NEMO, but not a mutant NEMO protein unable to physically associate with IKKα or IKKβ. Binding of NEMO to IKKα was not required for ligand-dependent stabilization of NIK or noncanonical NF-κB signaling. Rather, an intact and functional IKK complex was essential to suppress basal NIK activity in unstimulated cells. Despite interacting with IKKα and IKKβ to form an IKK complex, NEMO mutants associated with immunodeficiency failed to rescue classical NF-κB signaling or reverse the accumulation of NIK. Together, these findings identify a crucial role for classical NF-κB activity in the suppression of basal noncanonical NF-κB signaling. PMID:24497610

Requirement of FADD, NEMO, and BAX/BAK for Aberrant Mitochondrial Function in Tumor Necrosis Factor Alpha-Induced Necrosis▿

PubMed Central

Irrinki, Krishna M.; Mallilankaraman, Karthik; Thapa, Roshan J.; Chandramoorthy, Harish C.; Smith, Frank J.; Jog, Neelakshi R.; Gandhirajan, Rajesh Kumar; Kelsen, Steven G.; Houser, Steven R.; May, Michael J.; Balachandran, Siddharth; Madesh, Muniswamy

2011-01-01

Necroptosis represents a form of alternative programmed cell death that is dependent on the kinase RIP1. RIP1-dependent necroptotic death manifests as increased reactive oxygen species (ROS) production in mitochondria and is accompanied by loss of ATP biogenesis and eventual dissipation of mitochondrial membrane potential. Here, we show that tumor necrosis factor alpha (TNF-α)-induced necroptosis requires the adaptor proteins FADD and NEMO. FADD was found to mediate formation of the TNF-α-induced pronecrotic RIP1-RIP3 kinase complex, whereas the IκB Kinase (IKK) subunit NEMO appears to function downstream of RIP1-RIP3. Interestingly, loss of RelA potentiated TNF-α-dependent necroptosis, indicating that NEMO regulates necroptosis independently of NF-κB. Using both pharmacologic and genetic approaches, we demonstrate that the overexpression of antioxidants alleviates ROS elevation and necroptosis. Finally, elimination of BAX and BAK or overexpression of Bcl-xL protects cells from necroptosis at a later step. These findings provide evidence that mitochondria play an amplifying role in inflammation-induced necroptosis. PMID:21746883

Compact anti-radon facility

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

Fajt, L.; Kouba, P.; Mamedov, F.

Suppression of radon background is one of main tasks in ultra-low background experiments. The most promising technique for suppression of radon is its adsorption on charcoal. Within the frame of the NEMO-3 experiment, radon trapping facility (RTF) was installed in Modane underground laboratory in 2004. Based on long-term experience with this facility a new compact transportable anti-radon facility was constructed in cooperation among IEAP CTU, SÚRO and ATEKO company. The device provides 20m{sup 3}/h of purified air (air radon activity at the output ∼10mBq/m{sup 3}). The basic features and preliminary results of anti-radon device testing are presented.

NF-κB Essential Modulator (NEMO) Is Critical for Thyroid Function.

PubMed

Reale, Carla; Iervolino, Anna; Scudiero, Ivan; Ferravante, Angela; D'Andrea, Luca Egildo; Mazzone, Pellegrino; Zotti, Tiziana; Leonardi, Antonio; Roberto, Luca; Zannini, Mariastella; de Cristofaro, Tiziana; Shanmugakonar, Muralitharan; Capasso, Giovambattista; Pasparakis, Manolis; Vito, Pasquale; Stilo, Romania

2016-03-11

The I-κB kinase (IKK) subunit NEMO/IKKγ (NEMO) is an adapter molecule that is critical for canonical activation of NF-κB, a pleiotropic transcription factor controlling immunity, differentiation, cell growth, tumorigenesis, and apoptosis. To explore the functional role of canonical NF-κB signaling in thyroid gland differentiation and function, we have generated a murine strain bearing a genetic deletion of the NEMO locus in thyroid. Here we show that thyrocyte-specific NEMO knock-out mice gradually develop hypothyroidism after birth, which leads to reduced body weight and shortened life span. Histological and molecular analysis indicate that absence of NEMO in thyrocytes results in a dramatic loss of the thyroid gland cellularity, associated with down-regulation of thyroid differentiation markers and ongoing apoptosis. Thus, NEMO-dependent signaling is essential for normal thyroid physiology. © 2016 by The American Society for Biochemistry and Molecular Biology, Inc.

A comparison of linear and non-linear data assimilation methods using the NEMO ocean model

NASA Astrophysics Data System (ADS)

Kirchgessner, Paul; Tödter, Julian; Nerger, Lars

2015-04-01

The assimilation behavior of the widely used LETKF is compared with the Equivalent Weight Particle Filter (EWPF) in a data assimilation application with an idealized configuration of the NEMO ocean model. The experiments show how the different filter methods behave when they are applied to a realistic ocean test case. The LETKF is an ensemble-based Kalman filter, which assumes Gaussian error distributions and hence implicitly requires model linearity. In contrast, the EWPF is a fully nonlinear data assimilation method that does not rely on a particular error distribution. The EWPF has been demonstrated to work well in highly nonlinear situations, like in a model solving a barotropic vorticity equation, but it is still unknown how the assimilation performance compares to ensemble Kalman filters in realistic situations. For the experiments, twin assimilation experiments with a square basin configuration of the NEMO model are performed. The configuration simulates a double gyre, which exhibits significant nonlinearity. The LETKF and EWPF are both implemented in PDAF (Parallel Data Assimilation Framework, http://pdaf.awi.de), which ensures identical experimental conditions for both filters. To account for the nonlinearity, the assimilation skill of the two methods is assessed by using different statistical metrics, like CRPS and Histograms.

Nor-ursodeoxycholic acid reverses hepatocyte-specific nemo-dependent steatohepatitis.

PubMed

Beraza, Naiara; Ofner-Ziegenfuss, Lisa; Ehedego, Haksier; Boekschoten, Mark; Bischoff, Stephan C; Mueller, Michael; Trauner, Michael; Trautwein, Christian

2011-03-01

Hepatocyte-specific NEMO/NF-κB deleted mice (NEMO(Δhepa)) develop spontaneous non-alcoholic steatohepatitis (NASH). Free fatty acids and bile acids promote DR5 expression. TRAIL/NK cell-mediated activation of TRAIL-R2/DR5 plays an important role during acute injury in NEMO(Δhepa) mice. To inhibit the progression of NASH in the absence of hepatocyte-NEMO/NF-kB signaling. NEMOf/f and NEMO(Δhepa) mice were fed with a low-fat diet, and with two anticholestatic diets; UDCA and NorUDCA. The impact of these treatments on the progression of NASH was evaluated. We show that high expression of DR5 in livers from NEMO(Δhepa) mice is accompanied by an abundant presence of bile acids (BAs), misregulation of BA transporters and significant alteration of lipid metabolism-related genes. Additionally, mice lacking NEMO in hepatocytes spontaneously showed ductular response at young age. Unexpectedly, feeding of NEMO(Δhepa) mice with low-fat diet failed to improve chronic liver injury. Conversely, anti-cholestatic treatment with nor-ursodeoxycholic acid (NorUDCA), but not with ursodeoxycholic acid (UDCA), led to a significant attenuation of liver damage in NEMO(Δhepa) mice. The strong therapeutic effect of NorUDCA relied on a significant downregulation of LXR-dependent lipogenesis and the normalisation of BA metabolism through mechanisms involving cross-talk between Cyp7a1 and SHP. This was associated with the significant improvement of liver histology, NEMO(Δhepa)/NorUDCA-treated mice showed lower apoptosis and reduced CyclinD1 expression, indicating attenuation of the compensatory proliferative response to hepatocellular damage. Finally, fibrosis and ductular reaction markers were significantly reduced in NorUDCA-treated NEMO(Δhepa) mice. Overall, our work demonstrates the contribution of bile acids metabolism to the progression of NASH in the absence of hepatocyte-NF-kB through mechanisms involving DR5-apoptosis, inflammation and fibrosis. Our work suggests a potential therapeutic effect of NorUDCA in attenuating the progression of NASH.

Phosphorylation and ubiquitination of the IkappaB kinase complex by two distinct signaling pathways.

PubMed

Shambharkar, Prashant B; Blonska, Marzenna; Pappu, Bhanu P; Li, Hongxiu; You, Yun; Sakurai, Hiroaki; Darnay, Bryant G; Hara, Hiromitsu; Penninger, Josef; Lin, Xin

2007-04-04

The IkappaB kinase (IKK) complex serves as the master regulator for the activation of NF-kappaB by various stimuli. It contains two catalytic subunits, IKKalpha and IKKbeta, and a regulatory subunit, IKKgamma/NEMO. The activation of IKK complex is dependent on the phosphorylation of IKKalpha/beta at its activation loop and the K63-linked ubiquitination of NEMO. However, the molecular mechanism by which these inducible modifications occur remains undefined. Here, we demonstrate that CARMA1, a key scaffold molecule, is essential to regulate NEMO ubiquitination upon T-cell receptor (TCR) stimulation. However, the phosphorylation of IKKalpha/beta activation loop is independent of CARMA1 or NEMO ubiquitination. Further, we provide evidence that TAK1 is activated and recruited to the synapses in a CARMA1-independent manner and mediate IKKalpha/beta phosphorylation. Thus, our study provides the biochemical and genetic evidence that phosphorylation of IKKalpha/beta and ubiquitination of NEMO are regulated by two distinct pathways upon TCR stimulation.

Successful treatment with infliximab for inflammatory colitis in a patient with X-linked anhidrotic ectodermal dysplasia with immunodeficiency.

PubMed

Mizukami, Tomoyuki; Obara, Megumi; Nishikomori, Ryuta; Kawai, Tomoki; Tahara, Yoshihiro; Sameshima, Naoki; Marutsuka, Kousuke; Nakase, Hiroshi; Kimura, Nobuhiro; Heike, Toshio; Nunoi, Hiroyuki

2012-02-01

X-linked anhidrotic ectodermal dysplasia with immunodeficiency (X-EDA-ID) is caused by hypomorphic mutations in the gene encoding nuclear factor-κB essential modulator protein (NEMO). Patients are susceptibile to diverse pathogens due to insufficient cytokine and frequently show severe chronic colitis. An 11-year-old boy with X-EDA-ID was hospitalized with autoimmune symptoms and severe chronic colitis which had been refractory to immunosuppressive drugs. Since tumor necrosis factor (TNF) α is responsible for the pathogenesis of NEMO colitis according to intestinal NEMO and additional TNFR1 knockout mice studies, and high levels of TNFα-producing mononuclear cells were detected in the patient due to the unexpected gene reversion mosaicism of NEMO, an anti-TNFα monoclonal antibody was administered to ameliorate his abdominal symptoms. Repeated administrations improved his colonoscopic findings as well as his dry skin along with a reduction of TNFα-expressing T cells. These findings suggest TNF blockade therapy is of value for refractory NEMO colitis with gene reversion.

The NeMO Explorer Web Site: Interactive Exploration of a Recent Submarine Eruption and Hydrothermal Vents, Axial Volcano, Juan de Fuca Ridge

NASA Astrophysics Data System (ADS)

Weiland, C.; Chadwick, W. W.; Embley, R. W.

2001-12-01

To help visualize the submarine volcanic landscape at NOAA's New Millennium Observatory (NeMO), we have created the NeMO Explorer web site: http://www.pmel.noaa.gov/vents/nemo/explorer.html. This web site takes visitors a mile down beneath the ocean surface to explore Axial Seamount, an active submarine volcano 300 miles off the Oregon coast. We use virtual reality to put visitors in a photorealistic 3-D model of the seafloor that lets them view hydrothermal vents and fresh lava flows as if they were really on the seafloor. At each of six virtual sites there is an animated tour and a 360o panorama in which users can view the volcanic landscape and see biological communities within a spatially accurate context. From the six sites there are hyperlinks to 50 video clips taken by a remotely operated vehicle. Each virtual site concentrates on a different topic, including the dynamics of the 1998 eruption at Axial volcano (Rumbleometer), high-temperature hydrothermal vents (CASM and ASHES), diffuse hydrothermal venting (Marker33), subsurface microbial blooms (The Pit), and the boundary between old and new lavas (Castle vent). In addition to exploring the region geographically, visitors can also explore the web site via geological concepts. The concepts gallery lets you quickly find information about mid-ocean ridges, hydrothermal vents, vent fauna, lava morphology, and more. Of particular interest is an animation of the January 1998 eruption, which shows the rapid inflation (by over 3 m) and draining of the sheet flow. For more info see Fox et al., Nature, v.412, p.727, 2001. This project was funded by NOAA's High Performance Computing and Communication (HPCC) and Vents Programs. Our goal is to present a representative portion of the vast collection of NOAA's multimedia imagery to the public in a way that is easy to use and understand. These data are particularly challenging to present because of their high data rates and low contextual information. The 3-D models create effective context and new video technology allows us to present good quality video at lower data rates. Related curriculum materials for middle- and high-school students are also available from the NeMO web site at http://www.pmel.noaa.gov/vents/nemo/education.html. >http://www.pmel.noaa.gov/vents/nemo/explorer.html

Withaferin A disrupts ubiquitin-based NEMO reorganization induced by canonical NF-κB signaling

PubMed Central

Jackson, Shawn S.; Oberley, Christopher; Hooper, Christopher P.; Grindle, Kreg; Wuerzberger-Davis, Shelly; Wolff, Jared; McCool, Kevin; Rui, Lixin; Miyamoto, Shigeki

2014-01-01

The NF-κB family of transcription factors regulates numerous cellular processes, including cell proliferation and survival responses. The constitutive activation of NF-κB has also emerged as an important oncogenic driver in many malignancies, such as activated B-cell like diffuse large B cell lymphoma, among others. In this study, we investigated the impact and mechanisms of action of Withaferin A, a naturally produced steroidal lactone, against both signal-inducible as well as constitutive NF-κB activities. We found that Withaferin A is a robust inhibitor of canonical and constitutive NF-κB activities, leading to apoptosis of certain lymphoma lines. In the canonical pathway induced by TNF, Withaferin A did not disrupt RIP1 polyubiquitination or NEMO-IKKβ interaction and was a poor direct IKKβ inhibitor, but prevented the formation of TNF induced NEMO foci which colocalized with TNF ligand. While GFP-NEMO efficiently formed TNF-induced foci, a GFP-NEMOY308S mutant that is defective in binding to polyubiquitin chains did not form foci. Our study reveals that Withaferin A is a novel type of IKK inhibitor which acts by disrupting NEMO reorganization into ubiquitin-based signaling structures in vivo. PMID:25304104

Measurement of the double-{beta} decay half-life of {sup 150}Nd and search for neutrinoless decay modes with the NEMO-3 detector

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

Argyriades, J.; Augier, C.; Bongrand, M.

2009-09-15

The half-life for double-{beta} decay of {sup 150}Nd has been measured by the NEMO-3 experiment at the Modane Underground Laboratory. Using 924.7 days of data recorded with 36.55 g of {sup 150}Nd, we measured the half-life for 2{nu}{beta}{beta} decay to be T{sub 1/2}{sup 2{nu}}=(9.11{sub -0.22}{sup +0.25}(stat.){+-}0.63(syst.))x10{sup 18} yr. The observed limit on the half-life for neutrinoless double-{beta} decay is found to be T{sub 1/2}{sup 0{nu}}>1.8x10{sup 22} yr at 90% confidence level. This translates into a limit on the effective Majorana neutrino mass of <4.0-6.3 eV if the nuclear deformation is taken into account. We also set limits on modelsmore » involving Majoron emission, right-handed currents, and transitions to excited states.« less

SN-1 and NEMO: the Italian cabled observatories

NASA Astrophysics Data System (ADS)

Favali, P.; Beranzoli, L.; Calore, D.; D'Anna, G.; Gasparoni, F.; NEMO Collaboration Team

2003-04-01

A fruitful synergy between Geophysics, Environmental Sciences, Nuclear Physics and Marine Technology has started through ongoing projects within different Italian research frameworks. The Neutrino Mediterranean Observatory (NEMO) project, funded by INFN, aims at the realization of a deep-sea experiment for the detection of cosmic neutrinos using an array of towers equipped by photosensors. To test the technological solutions proposed for the realization of the project, the Laboratiori Nazionali del Sud have set up an underwater Test Site off-shore Catania. A 25 km long submarine electro-optical cable was deployed in September 2001, in order to supply power from land and receive data from the underwater site located at a depth of 2000 m. A shore station has also been realize inside the Catania port area. In October 2001, Submarine Network-1 (SN-1), the first Italian deep-sea multidisciplinary observatory for geophysical and environmental monitoring was deployed at a depth of 2105 m, in the area of the Ibleo-maltese escarpment, in proximity of the marine tail of the NEMO cable. SN-1, funded by the Italian Gruppo Nazionale di Difesa dai Terremoti and coordinated by INGV, is presently operating in local mode storing measurements on hard disks and is powered by lithium batteries with an autonomy of approximately 200 days. In the view of mutual assistance, the coordinator institutions of NEMO and SN-1 have agreed that part of the optic fibres and power lines of the NEMO-1 underwater cable be made available to power SN-1 from land and to transfer in real time the signals acquired by the geophysical and environmental sensor packages of SN-1. On this latter's side, time series of environmental parameters useful for the analysis and interpretation of NEMO-1 detections will be available. A description of the two projects and of the 'state of the art' will be given and the benefits of the development of a submarine Italian prone site will be pointed out.

Measurement of the atmospheric muon flux with the NEMO Phase-1 detector

NASA Astrophysics Data System (ADS)

Aiello, S.; Ameli, F.; Amore, I.; Anghinolfi, M.; Anzalone, A.; Barbarino, G.; Battaglieri, M.; Bazzotti, M.; Bersani, A.; Beverini, N.; Biagi, S.; Bonori, M.; Bouhadef, B.; Brunoldi, M.; Cacopardo, G.; Capone, A.; Caponetto, L.; Carminati, G.; Chiarusi, T.; Circella, M.; Cocimano, R.; Coniglione, R.; Cordelli, M.; Costa, M.; D'Amico, A.; De Bonis, G.; De Marzo, C.; De Rosa, G.; De Ruvo, G.; De Vita, R.; Distefano, C.; Falchini, E.; Flaminio, V.; Fratini, K.; Gabrielli, A.; Galatà, S.; Gandolfi, E.; Giacomelli, G.; Giorgi, F.; Giovanetti, G.; Grimaldi, A.; Habel, R.; Imbesi, M.; Kulikovsky, V.; Lattuada, D.; Leonora, E.; Lonardo, A.; Lo Presti, D.; Lucarelli, F.; Marinelli, A.; Margiotta, A.; Martini, A.; Masullo, R.; Migneco, E.; Minutoli, S.; Morganti, M.; Musico, P.; Musumeci, M.; Nicolau, C. A.; Orlando, A.; Osipenko, M.; Papaleo, R.; Pappalardo, V.; Piattelli, P.; Piombo, D.; Raia, G.; Randazzo, N.; Reito, S.; Ricco, G.; Riccobene, G.; Ripani, M.; Rovelli, A.; Ruppi, M.; Russo, G. V.; Russo, S.; Sapienza, P.; Sciliberto, D.; Sedita, M.; Shirokov, E.; Simeone, F.; Sipala, V.; Spurio, M.; Taiuti, M.; Trasatti, L.; Urso, S.; Vecchi, M.; Vicini, P.; Wischnewski, R.

2010-05-01

The NEMO Collaboration installed and operated an underwater detector including prototypes of the critical elements of a possible underwater km 3 neutrino telescope: a four-floor tower (called Mini-Tower) and a Junction Box. The detector was developed to test some of the main systems of the km 3 detector, including the data transmission, the power distribution, the timing calibration and the acoustic positioning systems as well as to verify the capabilities of a single tridimensional detection structure to reconstruct muon tracks. We present results of the analysis of the data collected with the NEMO Mini-Tower. The position of photomultiplier tubes (PMTs) is determined through the acoustic position system. Signals detected with PMTs are used to reconstruct the tracks of atmospheric muons. The angular distribution of atmospheric muons was measured and results compared to Monte Carlo simulations.

Novel hypomorphic mutation in IKBKG impairs NEMO-ubiquitylation causing ectodermal dysplasia, immunodeficiency, incontinentia pigmenti, and immune thrombocytopenic purpura.

PubMed

Ramírez-Alejo, Noé; Alcántara-Montiel, Julio C; Yamazaki-Nakashimada, Marco; Duran-McKinster, Carola; Valenzuela-León, Paola; Rivas-Larrauri, Francisco; Cedillo-Barrón, Leticia; Hernández-Rivas, Rosaura; Santos-Argumedo, Leopoldo

2015-10-01

NF-κB essential modulator (NEMO) is a component of the IKK complex, which participates in the activation of the NF-κB pathway. Hypomorphic mutations in the IKBKG gene result in different forms of anhidrotic ectodermal dysplasia with immunodeficiency (EDA-ID) in males without affecting carrier females. Here, we describe a hypomorphic and missense mutation, designated c.916G>A (p.D306N), which affects our patient, his mother, and his sister. This mutation did not affect NEMO expression; however, an immunoprecipitation assay revealed reduced ubiquitylation upon CD40-stimulation in the patient's cells. Functional studies have demonstrated reduced phosphorylation and degradation of IκBα, affecting NF-κB recruitment into the nucleus. The patient presented with clinical features of ectodermal dysplasia, immunodeficiency, and immune thrombocytopenic purpura, the latter of which has not been previously reported in a patient with NEMO deficiency. His mother and sister displayed incontinentia pigmenti indicating that, in addition to amorphic mutations, hypomorphic mutations in NEMO can affect females. Copyright © 2015 Elsevier Inc. All rights reserved.

Comparative study of sea ice dynamics simulations with a Maxwell elasto-brittle rheology and the elastic-viscous-plastic rheology in NEMO-LIM3

NASA Astrophysics Data System (ADS)

Raulier, Jonathan; Dansereau, Véronique; Fichefet, Thierry; Legat, Vincent; Weiss, Jérôme

2017-04-01

Sea ice is a highly dynamical environment characterized by a dense mesh of fractures or leads, constantly opening and closing over short time scales. This characteristic geomorphology is linked to the existence of linear kinematic features, which consist of quasi-linear patterns emerging from the observed strain rate field of sea ice. Standard rheologies used in most state-of-the-art sea ice models, like the well-known elastic-viscous-plastic rheology, are thought to misrepresent those linear kinematic features and the observed statistical distribution of deformation rates. Dedicated rheologies built to catch the processes known to be at the origin of the formation of leads are developed but still need evaluations on the global scale. One of them, based on a Maxwell elasto-brittle formulation, is being integrated in the NEMO-LIM3 global ocean-sea ice model (www.nemo-ocean.eu; www.elic.ucl.ac.be/lim). In the present study, we compare the results of the sea ice model LIM3 obtained with two different rheologies: the elastic-viscous-plastic rheology commonly used in LIM3 and a Maxwell elasto-brittle rheology. This comparison is focused on the statistical characteristics of the simulated deformation rate and on the ability of the model to reproduce the existence of leads within the ice pack. The impact of the lead representation on fluxes between ice, atmosphere and ocean is also assessed.

Inhibition of the NEMO/IKKβ association complex formation, a novel mechanism associated with the NF-κB activation suppression by Withania somnifera's key metabolite withaferin A.

PubMed

Grover, Abhinav; Shandilya, Ashutosh; Punetha, Ankita; Bisaria, Virendra S; Sundar, Durai

2010-12-02

Nuclear Factor kappa B (NF-κB) is a transcription factor involved in the regulation of cell signaling responses and is a key regulator of cellular processes involved in the immune response, differentiation, cell proliferation, and apoptosis. The constitutive activation of NF-κB contributes to multiple cellular outcomes and pathophysiological conditions such as rheumatoid arthritis, asthma, inflammatory bowel disease, AIDS and cancer. Thus there lies a huge therapeutic potential beneath inhibition of NF-κB signalling pathway for reducing these chronic ailments. Withania somnifera, a reputed herb in ayurvedic medicine, comprises a large number of steroidal lactones known as withanolides which show plethora of pharmacological activities like anti- inflammatory, antitumor, antibacterial, antioxidant, anticonvulsive, and immunosuppressive. Though a few studies have been reported depicting the effect of WA (withaferin A) on suppression of NF-κB activation, the mechanism behind this is still eluding the researchers. The study conducted here is an attempt to explore NF-κB signalling pathway modulating capability of Withania somnifera's major constituent WA and to elucidate its possible mode of action using molecular docking and molecular dynamics simulations studies. Formation of active IKK (IκB kinase) complex comprising NEMO (NF-κB Essential Modulator) and IKKβ subunits is one of the essential steps for NF-κB signalling pathway, non-assembly of which can lead to prevention of the above mentioned vulnerable disorders. As observed from our semi-flexible docking analysis, WA forms strong intermolecular interactions with the NEMO chains thus building steric as well as thermodynamic barriers to the incoming IKKβ subunits, which in turn pave way to naive complex formation capability of NEMO with IKKβ. Docking of WA into active NEMO/IKKβ complex using flexible docking in which key residues of the complex were kept flexible also suggest the disruption of the active complex. Thus the molecular docking analysis of WA into NEMO and active NEMO/IKKβ complex conducted in this study provides significant evidence in support of the proposed mechanism of NF-κB activation suppression by inhibition or disruption of active NEMO/IKKβ complex formation being accounted by non-assembly of the catalytically active NEMO/IKKβ complex. Results from the molecular dynamics simulations in water show that the trajectories of the native protein and the protein complexed with WA are stable over a considerably long time period of 2.6 ns. NF-κB is one of the most attractive topics in current biological, biochemical, and pharmacological research, and in the recent years the number of studies focusing on its inhibition/regulation has increased manifolds. Small ligands (both natural and synthetic) are gaining particular attention in this context. Our computational analysis provided a rationalization of the ability of naturally occurring withaferin A to alter the NF-κB signalling pathway along with its proposed mode of inhibition of the pathway. The absence of active IKK multisubunit complex would prevent degradation of IκB proteins, as the IκB proteins would not get phosphorylated by IKK. This would ultimately lead to non-release of NF-κB and its further translocation to the nucleus thus arresting its nefarious acts. Conclusively our results strongly suggest that withaferin A is a potent anticancer agent as ascertained by its potent NF-κB modulating capability. Moreover the present MD simulations made clear the dynamic structural stability of NEMO/IKKβ in complex with the drug WA, together with the inhibitory mechanism.

Correlating interleukin-12 stimulated interferon-γ production and the absence of ectodermal dysplasia and anhidrosis (EDA) in patients with mutations in NF-κB essential modulator (NEMO).

PubMed

Haverkamp, Margje H; Marciano, Beatriz E; Frucht, David M; Jain, Ashish; van de Vosse, Esther; Holland, Steven M

2014-05-01

Patients with hypomorphic mutations in Nuclear Factor-κB Essential Modulator (NEMO) are immunodeficient (ID) and most display ectodermal dysplasia and anhidrosis (EDA). We compared cytokine production by NEMO-ID patients with and without EDA. PBMCs of NEMO-ID patients, four with EDA carrying E315A, C417R, D311N and Q403X, and three without EDA carrying E315A, E311_L333del and R254G, were cultured with PHA, PHA plus IL-12p70, LPS, LPS plus IFN-γ, TNF and IL-1β. The production of various cytokines was measured in the supernatants. Fifty-nine healthy individuals served as controls. PBMCs of NEMO-ID patients without EDA produce subnormal amounts of IFN-γ after stimulation with PHA, but normal amounts of IFN-γ after PHA plus IL-12p70. In contrast, IFN-γ production by patients with EDA was low in both cases. Patients with EDA also generate lower PHA-stimulated IL-10 and IL-1β than controls, whereas the production of these cytokines by patients without EDA was normal. Responses of PBMCs in NEMO-ID patients with EDA to PHA with and without IL-12p70 appear less robust than in NEMO-ID patients without EDA. This possibly indicates a better preserved NEMO function in our patients without EDA.

Drosophila nemo is an essential gene involved in the regulation of programmed cell death.

PubMed

Mirkovic, Ivana; Charish, Kristi; Gorski, Sharon M; McKnight, Kristen; Verheyen, Esther M

2002-11-01

Nemo-like kinases define a novel family of serine/threonine kinases that are involved in integrating multiple signaling pathways. They are conserved regulators of Wnt/Wingless pathways, which may coordinate Wnt with TGFbeta-mediated signaling. Drosophila nemo was identified through its involvement in epithelial planar polarity, a process regulated by a non-canonical Wnt pathway. We have previously found that ectopic expression of Nemo using the Gal4-UAS system resulted in embryonic lethality associated with defects in patterning and head development. In this study we present our analyses of the phenotypes of germline clone-derived embryos. We observe lethality associated with head defects and reduction of programmed cell death and conclude that nmo is an essential gene. We also present data showing that nmo is involved in regulating apoptosis during eye development, based on both loss of function phenotypes and on genetic interactions with the pro-apoptotic gene reaper. Finally, we present genetic data from the adult wing that suggest the activity of ectopically expressed Nemo can be modulated by Jun N-terminal kinase (JNK) signaling. Such an observation supports the model that there is cross-talk between Wnt, TGFbeta and JNK signaling at multiple stages of development. Copyright 2002 Elsevier Science Ireland Ltd.

Death receptor-independent FADD signalling triggers hepatitis and hepatocellular carcinoma in mice with liver parenchymal cell-specific NEMO knockout.

PubMed

Ehlken, H; Krishna-Subramanian, S; Ochoa-Callejero, L; Kondylis, V; Nadi, N E; Straub, B K; Schirmacher, P; Walczak, H; Kollias, G; Pasparakis, M

2014-11-01

Hepatocellular carcinoma (HCC) usually develops in the context of chronic hepatitis triggered by viruses or toxic substances causing hepatocyte death, inflammation and compensatory proliferation of liver cells. Death receptors of the TNFR superfamily regulate cell death and inflammation and are implicated in liver disease and cancer. Liver parenchymal cell-specific ablation of NEMO/IKKγ, a subunit of the IκB kinase (IKK) complex that is essential for the activation of canonical NF-κB signalling, sensitized hepatocytes to apoptosis and caused the spontaneous development of chronic hepatitis and HCC in mice. Here we show that hepatitis and HCC development in NEMO(LPC-KO) mice is triggered by death receptor-independent FADD-mediated hepatocyte apoptosis. TNF deficiency in all cells or conditional LPC-specific ablation of TNFR1, Fas or TRAIL-R did not prevent hepatocyte apoptosis, hepatitis and HCC development in NEMO(LPC-KO) mice. To address potential functional redundancies between death receptors we generated and analysed NEMO(LPC-KO) mice with combined LPC-specific deficiency of TNFR1, Fas and TRAIL-R and found that also simultaneous lack of all three death receptors did not prevent hepatocyte apoptosis, chronic hepatitis and HCC development. However, LPC-specific combined deficiency in TNFR1, Fas and TRAIL-R protected the NEMO-deficient liver from LPS-induced liver failure, showing that different mechanisms trigger spontaneous and LPS-induced hepatocyte apoptosis in NEMO(LPC-KO) mice. In addition, NK cell depletion did not prevent liver damage and hepatitis. Moreover, NEMO(LPC-KO) mice crossed into a RAG-1-deficient genetic background-developed hepatitis and HCC. Collectively, these results show that the spontaneous development of hepatocyte apoptosis, chronic hepatitis and HCC in NEMO(LPC-KO) mice occurs independently of death receptor signalling, NK cells and B and T lymphocytes, arguing against an immunological trigger as the critical stimulus driving hepatocarcinogenesis in this model.

Long term monitoring of the optical background in the Capo Passero deep-sea site with the NEMO tower prototype

NASA Astrophysics Data System (ADS)

Adrián-Martínez, S.; Aiello, S.; Ameli, F.; Anghinolfi, M.; Ardid, M.; Barbarino, G.; Barbarito, E.; Barbato, F. C. T.; Beverini, N.; Biagi, S.; Biagioni, A.; Bouhadef, B.; Bozza, C.; Cacopardo, G.; Calamai, M.; Calì, C.; Calvo, D.; Capone, A.; Caruso, F.; Ceres, A.; Chiarusi, T.; Circella, M.; Cocimano, R.; Coniglione, R.; Costa, M.; Cuttone, G.; D'Amato, C.; D'Amico, A.; De Bonis, G.; De Luca, V.; Deniskina, N.; De Rosa, G.; di Capua, F.; Distefano, C.; Enzenhöfer, A.; Fermani, P.; Ferrara, G.; Flaminio, V.; Fusco, L. A.; Garufi, F.; Giordano, V.; Gmerk, A.; Grasso, R.; Grella, G.; Hugon, C.; Imbesi, M.; Kulikovskiy, V.; Lahmann, R.; Larosa, G.; Lattuada, D.; Leismüller, K. P.; Leonora, E.; Litrico, P.; Llorens Alvarez, C. D.; Lonardo, A.; Longhitano, F.; Lo Presti, D.; Maccioni, E.; Margiotta, A.; Marinelli, A.; Martini, A.; Masullo, R.; Migliozzi, P.; Migneco, E.; Miraglia, A.; Mollo, C. M.; Mongelli, M.; Morganti, M.; Musico, P.; Musumeci, M.; Nicolau, C. A.; Orlando, A.; Orzelli, A.; Papaleo, R.; Pellegrino, C.; Pellegriti, M. G.; Perrina, C.; Piattelli, P.; Pugliatti, C.; Pulvirenti, S.; Raffaelli, F.; Randazzo, N.; Real, D.; Riccobene, G.; Rovelli, A.; Saldaña, M.; Sanguineti, M.; Sapienza, P.; Sciacca, V.; Sgura, I.; Simeone, F.; Sipala, V.; Speziale, F.; Spitaleri, A.; Spurio, M.; Stellacci, S. M.; Taiuti, M.; Terreni, G.; Trasatti, L.; Trovato, A.; Ventura, C.; Vicini, P.; Viola, S.; Vivolo, D.

2016-02-01

The NEMO Phase-2 tower is the first detector which was operated underwater for more than 1 year at the "record" depth of 3500 m. It was designed and built within the framework of the NEMO (NEutrino Mediterranean Observatory) project. The 380 m high tower was successfully installed in March 2013 80 km offshore Capo Passero (Italy). This is the first prototype operated on the site where the Italian node of the KM3NeT neutrino telescope will be built. The installation and operation of the NEMO Phase-2 tower has proven the functionality of the infrastructure and the operability at 3500 m depth. A more than 1 year long monitoring of the deep water characteristics of the site has been also provided. In this paper the infrastructure and the tower structure and instrumentation are described. The results of long term optical background measurements are presented. The rates show stable and low baseline values, compatible with the contribution of ^{40}K light emission, with a small percentage of light bursts due to bioluminescence. All these features confirm the stability and good optical properties of the site.

GeNemo: a search engine for web-based functional genomic data.

PubMed

Zhang, Yongqing; Cao, Xiaoyi; Zhong, Sheng

2016-07-08

A set of new data types emerged from functional genomic assays, including ChIP-seq, DNase-seq, FAIRE-seq and others. The results are typically stored as genome-wide intensities (WIG/bigWig files) or functional genomic regions (peak/BED files). These data types present new challenges to big data science. Here, we present GeNemo, a web-based search engine for functional genomic data. GeNemo searches user-input data against online functional genomic datasets, including the entire collection of ENCODE and mouse ENCODE datasets. Unlike text-based search engines, GeNemo's searches are based on pattern matching of functional genomic regions. This distinguishes GeNemo from text or DNA sequence searches. The user can input any complete or partial functional genomic dataset, for example, a binding intensity file (bigWig) or a peak file. GeNemo reports any genomic regions, ranging from hundred bases to hundred thousand bases, from any of the online ENCODE datasets that share similar functional (binding, modification, accessibility) patterns. This is enabled by a Markov Chain Monte Carlo-based maximization process, executed on up to 24 parallel computing threads. By clicking on a search result, the user can visually compare her/his data with the found datasets and navigate the identified genomic regions. GeNemo is available at www.genemo.org. © The Author(s) 2016. Published by Oxford University Press on behalf of Nucleic Acids Research.

NBodyLab: A Testbed for Undergraduates Utilizing a Web Interface to NEMO and MD-GRAPE2 Hardware

NASA Astrophysics Data System (ADS)

Johnson, V. L.; Teuben, P. J.; Penprase, B. E.

An N-body simulation testbed called NBodyLab was developed at Pomona College as a teaching tool for undergraduates. The testbed runs under Linux and provides a web interface to selected back-end NEMO modeling and analysis tools, and several integration methods which can optionally use an MD-GRAPE2 supercomputer card in the server to accelerate calculation of particle-particle forces. The testbed provides a framework for using and experimenting with the main components of N-body simulations: data models and transformations, numerical integration of the equations of motion, analysis and visualization products, and acceleration techniques (in this case, special purpose hardware). The testbed can be used by students with no knowledge of programming or Unix, freeing such students and their instructor to spend more time on scientific experimentation. The advanced student can extend the testbed software and/or more quickly transition to the use of more advanced Unix-based toolsets such as NEMO, Starlab and model builders such as GalactICS. Cosmology students at Pomona College used the testbed to study collisions of galaxies with different speeds, masses, densities, collision angles, angular momentum, etc., attempting to simulate, for example, the Tadpole Galaxy and the Antenna Galaxies. The testbed framework is available as open-source to assist other researchers and educators. Recommendations are made for testbed enhancements.

"Genetically Engineered" Nanoelectronics

NASA Technical Reports Server (NTRS)

Klimeck, Gerhard; Salazar-Lazaro, Carlos H.; Stoica, Adrian; Cwik, Thomas

2000-01-01

The quantum mechanical functionality of nanoelectronic devices such as resonant tunneling diodes (RTDs), quantum well infrared-photodetectors (QWIPs), quantum well lasers, and heterostructure field effect transistors (HFETs) is enabled by material variations on an atomic scale. The design and optimization of such devices requires a fundamental understanding of electron transport in such dimensions. The Nanoelectronic Modeling Tool (NEMO) is a general-purpose quantum device design and analysis tool based on a fundamental non-equilibrium electron transport theory. NEW was combined with a parallelized genetic algorithm package (PGAPACK) to evolve structural and material parameters to match a desired set of experimental data. A numerical experiment that evolves structural variations such as layer widths and doping concentrations is performed to analyze an experimental current voltage characteristic. The genetic algorithm is found to drive the NEMO simulation parameters close to the experimentally prescribed layer thicknesses and doping profiles. With such a quantitative agreement between theory and experiment design synthesis can be performed.

Mediterranea Forecasting System: a focus on wave-current coupling

NASA Astrophysics Data System (ADS)

Clementi, Emanuela; Delrosso, Damiano; Pistoia, Jenny; Drudi, Massimiliano; Fratianni, Claudia; Grandi, Alessandro; Pinardi, Nadia; Oddo, Paolo; Tonani, Marina

2016-04-01

The Mediterranean Forecasting System (MFS) is a numerical ocean prediction system that produces analyses, reanalyses and short term forecasts for the entire Mediterranean Sea and its Atlantic Ocean adjacent areas. MFS became operational in the late 90's and has been developed and continuously improved in the framework of a series of EU and National funded programs and is now part of the Copernicus Marine Service. The MFS is composed by the hydrodynamic model NEMO (Nucleus for European Modelling of the Ocean) 2-way coupled with the third generation wave model WW3 (WaveWatchIII) implemented in the Mediterranean Sea with 1/16 horizontal resolution and forced by ECMWF atmospheric fields. The model solutions are corrected by the data assimilation system (3D variational scheme adapted to the oceanic assimilation problem) with a daily assimilation cycle, using a background error correlation matrix varying seasonally and in different sub-regions of the Mediterranean Sea. The focus of this work is to present the latest modelling system upgrades and the related achieved improvements. In order to evaluate the performance of the coupled system a set of experiments has been built by coupling the wave and circulation models that hourly exchange the following fields: the sea surface currents and air-sea temperature difference are transferred from NEMO model to WW3 model modifying respectively the mean momentum transfer of waves and the wind speed stability parameter; while the neutral drag coefficient computed by WW3 model is passed to NEMO that computes the turbulent component. In order to validate the modelling system, numerical results have been compared with in-situ and remote sensing data. This work suggests that a coupled model might be capable of a better description of wave-current interactions, in particular feedback from the ocean to the waves might assess an improvement on the prediction capability of wave characteristics, while suggests to proceed toward a fully coupled modelling system in order to achieve stronger enhancements of the hydrodynamic fields.

Search for Neutrinoless Quadruple-β Decay of Nd 150 with the NEMO-3 Detector

NASA Astrophysics Data System (ADS)

Arnold, R.; Augier, C.; Barabash, A. S.; Basharina-Freshville, A.; Blondel, S.; Blot, S.; Bongrand, M.; Boursette, D.; Brudanin, V.; Busto, J.; Caffrey, A. J.; Calvez, S.; Cascella, M.; Cerna, C.; Cesar, J. P.; Chapon, A.; Chauveau, E.; Chopra, A.; Dawson, L.; Duchesneau, D.; Durand, D.; Egorov, V.; Eurin, G.; Evans, J. J.; Fajt, L.; Filosofov, D.; Flack, R.; Garrido, X.; Gómez, H.; Guillon, B.; Guzowski, P.; Hodák, R.; Huber, A.; Hubert, P.; Hugon, C.; Jullian, S.; Klimenko, A.; Kochetov, O.; Konovalov, S. I.; Kovalenko, V.; Lalanne, D.; Lang, K.; Lemière, Y.; Le Noblet, T.; Liptak, Z.; Liu, X. R.; Loaiza, P.; Lutter, G.; Macko, M.; Macolino, C.; Mamedov, F.; Marquet, C.; Mauger, F.; Morgan, B.; Mott, J.; Nemchenok, I.; Nomachi, M.; Nova, F.; Nowacki, F.; Ohsumi, H.; Patrick, C.; Pahlka, R. B.; Perrot, F.; Piquemal, F.; Povinec, P.; Přidal, P.; Ramachers, Y. A.; Remoto, A.; Reyss, J. L.; Riddle, C. L.; Rukhadze, E.; Saakyan, R.; Salazar, R.; Sarazin, X.; Shitov, Yu.; Simard, L.; Šimkovic, F.; Smetana, A.; Smolek, K.; Smolnikov, A.; Söldner-Rembold, S.; Soulé, B.; Štefánik, D.; Štekl, I.; Suhonen, J.; Sutton, C. S.; Szklarz, G.; Thomas, J.; Timkin, V.; Torre, S.; Tretyak, Vl. I.; Tretyak, V. I.; Umatov, V. I.; Vanushin, I.; Vilela, C.; Vorobel, V.; Waters, D.; Xie, F.; Žukauskas, A.; NEMO-3 Collaboration

2017-07-01

We report the results of a first experimental search for lepton number violation by four units in the neutrinoless quadruple-β decay of Nd 150 using a total exposure of 0.19 kg yr recorded with the NEMO-3 detector at the Modane Underground Laboratory. We find no evidence of this decay and set lower limits on the half-life in the range T1 /2>(1.1 - 3.2 )×1 021 yr at the 90% C.L., depending on the model used for the kinematic distributions of the emitted electrons.

Status of NEMO

NASA Astrophysics Data System (ADS)

Migneco, E.; Aiello, S.; Ambriola, M.; Ameli, F.; Amore, I.; Anghinolfi, M.; Anzalone, A.; Barbarino, G.; Barbarito, E.; Battaglieri, M.; Bellotti, R.; Beverini, N.; Bonori, M.; Bouhdaef, B.; Brescia, M.; Cacopardo, G.; Cafagna, F.; Capone, A.; Caponetto, L.; Castorina, E.; Ceres, A.; Chiarusi, T.; Circella, M.; Cocimano, R.; Coniglione, R.; Cordelli, M.; Costa, M.; Cuneo, S.; D'Amico, A.; De Bonis, G.; De Marzo, C.; De Rosa, G.; De Vita, R.; Distefano, C.; Falchini, E.; Fiorello, C.; Flaminio, V.; Fratini, K.; Galeotti, S.; Gabrielli, A.; Gandolfi, E.; Giacomelli, G.; Grimaldi, A.; Habel, R.; Leonora, E.; Lonardo, A.; Longo, G.; Lo Presti, D.; Lucarelli, F.; Maccione, L.; Margiotta, A.; Martini, A.; Masullo, R.; Megna, R.; Mongelli, M.; Morganti, M.; Montaruli, T.; Musumeci, M.; Nicolau, C. A.; Orlando, A.; Osipenko, M.; Osteria, G.; Papaleo, R.; Pappalardo, V.; Petta, C.; Piattelli, P.; Raffaelli, F.; Raia, G.; Randazzo, N.; Reito, S.; Ricco, G.; Riccobene, G.; Ripani, M.; Rovelli, A.; Ruppi, M.; Russo, G. V.; Russo, S.; Sapienza, P.; Sedita, M.; Schuller, J.-P.; Shirokov, E.; Simeone, F.; Sipala, V.; Spurio, M.; Taiuti, M.; Terreni, G.; Trasatti, L.; Urso, S.; Valente, V.; Vicini, P.

2006-11-01

The activities towards the realization of a km3 Cherenkov neutrino detector carried out by the NEMO Collaboration are described. Long-term exploration of a 3500 m deep-sea site close to the Sicilian coast has shown that it is optimal for the installation of the detector. The realization of a Phase-1 project, which is under way, will validate the proposed technologies for the realization of the km3 detector on a Test Site at 2000 m depth. The realization of a new infrastructure on the candidate site (Phase-2 project) will provide the possibility to test detector components at 3500 m depth.

Brain endothelial TAK1 and NEMO safeguard the neurovascular unit

PubMed Central

Ridder, Dirk A.; Wenzel, Jan; Müller, Kristin; Töllner, Kathrin; Tong, Xin-Kang; Assmann, Julian C.; Stroobants, Stijn; Weber, Tobias; Niturad, Cristina; Fischer, Lisanne; Lembrich, Beate; Wolburg, Hartwig; Grand’Maison, Marilyn; Papadopoulos, Panayiota; Korpos, Eva; Truchetet, Francois; Rades, Dirk; Sorokin, Lydia M.; Schmidt-Supprian, Marc; Bedell, Barry J.; Pasparakis, Manolis; Balschun, Detlef; D’Hooge, Rudi; Löscher, Wolfgang; Hamel, Edith

2015-01-01

Inactivating mutations of the NF-κB essential modulator (NEMO), a key component of NF-κB signaling, cause the genetic disease incontinentia pigmenti (IP). This leads to severe neurological symptoms, but the mechanisms underlying brain involvement were unclear. Here, we show that selectively deleting Nemo or the upstream kinase Tak1 in brain endothelial cells resulted in death of endothelial cells, a rarefaction of brain microvessels, cerebral hypoperfusion, a disrupted blood–brain barrier (BBB), and epileptic seizures. TAK1 and NEMO protected the BBB by activating the transcription factor NF-κB and stabilizing the tight junction protein occludin. They also prevented brain endothelial cell death in a NF-κB–independent manner by reducing oxidative damage. Our data identify crucial functions of inflammatory TAK1–NEMO signaling in protecting the brain endothelium and maintaining normal brain function, thus explaining the neurological symptoms associated with IP. PMID:26347470

NEMO Inhibits Programmed Necrosis in an NFκB-Independent Manner by Restraining RIP1

PubMed Central

Legarda, Diana; Ting, Adrian T.

2012-01-01

TNF can trigger two opposing responses: cell survival and cell death. TNFR1 activates caspases that orchestrate apoptosis but some cell types switch to a necrotic death when treated with caspase inhibitors. Several genes that are required to orchestrate cell death by programmed necrosis have been identified, such as the kinase RIP1, but very little is known about the inhibitory signals that keep this necrotic cell death pathway in check. We demonstrate that T cells lacking the regulatory subunit of IKK, NFκB essential modifier (NEMO), are hypersensitive to programmed necrosis when stimulated with TNF in the presence of caspase inhibitors. Surprisingly, this pro-survival activity of NEMO is independent of NFκB-mediated gene transcription. Instead, NEMO inhibits necrosis by binding to ubiquitinated RIP1 to restrain RIP1 from engaging the necrotic death pathway. In the absence of NEMO, or if ubiquitination of RIP1 is blocked, necrosis ensues when caspases are blocked. These results indicate that recruitment of NEMO to ubiquitinated RIP1 is a key step in the TNFR1 signaling pathway that determines whether RIP1 triggers a necrotic death response. PMID:22848449

Spectroscopic Studies of Double Beta Decays and MOON

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

Ejiri, H.; Nuclear Science, Czech Technical University, Brehova, Prague, Czech Republic, National Institute of Radiological Sciences, Chiba, 263-8555

2007-10-12

This is a brief review of future spectroscopic experiments of neutrino-less double beta decays (0{nu}{beta}{beta}) and the MOON (Mo Observatory Of Neutrinos) project. Spectroscopic 0{nu}{beta}{beta} experiments of MOON, SuperNEMO and DCBA are planned to study Majorana masses in the quasi-degenerate (QD) and inverted mass hierarchy (IH) regions. MOON aims at 0{nu}{beta}{beta} studies with the {nu}-mass sensitivities of 100-30 meV by means of a super ensemble of multi-layer modules, each being consist of a scintillator plate, two tracking detector planes and a thin {beta}{beta} source film.

Evaluation of the coupled COSMO-CLM+NEMO-Nordic model with focus on North and Baltic seas

NASA Astrophysics Data System (ADS)

Lenhardt, J.; Pham, T. V.; Früh, B.; Brauch, J.

2017-12-01

The region east of the Baltic Sea has been identified as a hot-spot of climate change by Giorgi, 2006, on the base of temperature and precipitation variability. For this purpose, the atmosphere model COSMO-CLM has been coupled to the ocean model NEMO, including the sea ice model LIM3, via the OASIS3-MCT coupler (Pham et al., 2014). The coupler interpolates heat, fresh water, momentum fluxes, sea level pressure and the fraction of sea ice at the interface in space and time. Our aim is to find an optimal configuration of the already existing coupled regional atmospheric-ocean model COSMO-CLM+NEMO-Nordic. So far results for the North- and Baltic seas show that the coupled run has large biases compared with the E-OBS reference data. Therefore, additional simulation evaluations are planned by the use of independent satellite observation data (e.g. Copernicus, EURO4M). We have performed a series of runs with the coupled COSMO-CLM+NEMO-Nordic model to find out about differences of model outputs due to different coupling time steps. First analyses of COSMO-CLM 2m temperatures let presume that different coupling time steps have an impact on the results of the coupled model run. Additional tests over a longer period of time are conducted to understand whether the signal-to-noise ratio could influence the bias. The results will be presented in our poster.

The Mediterranean Forecasting System: recent developments

NASA Astrophysics Data System (ADS)

Tonani, Marina; Oddo, Paolo; Korres, Gerasimos; Clementi, Emanuela; Dobricic, Srdjan; Drudi, Massimiliano; Pistoia, Jenny; Guarnieri, Antonio; Romaniello, Vito; Girardi, Giacomo; Grandi, Alessandro; Bonaduce, Antonio; Pinardi, Nadia

2014-05-01

Recent developments of the Mediterranean Monitoring and Forecasting Centre of the EU-Copernicus marine service, the Mediterranean Forecasting System (MFS), are presented. MFS provides forecast, analysis and reanalysis for the physical and biogeochemical parameters of the Mediterranean Sea. The different components of the system are continuously updated in order to provide to the users the best available product. This work is focus on the physical component of the system. The physical core of MFS is composed by an ocean general circulation model (NEMO) coupled with a spectral wave model (Wave Watch-III). The NEMO model provides to WW-III surface currents and SST fields, while WW-III returns back to NEMO the neutral component of the surface drag coefficient. Satellite Sea Level Anomaly observations and in-situ T & S vertical profiles are assimilated into this system using a variational assimilation scheme based on 3DVAR (Dobricic, 2008) . Sensitive experiments have been performed in order to assess the impact of the assimilation of the latest available SLA missions, Altika and Cryosat together with the long term available mission of Jason2. The results show a significant improvement of the MFS skill due to the multi-mission along track assimilation. The primitive equations module has been recently upgraded with the introduction of the atmospheric pressure term and a new, explicit, numerical scheme has been adopted to solve the barotropic component of the equations of motion. The SLA satellite observations for data assimilation have been consequently modified in order to account for the new atmospheric pressure term introduced in the equations. This new system has been evaluated using tide gauge coastal buoys and the satellite along track data. The quality of the SSH has improved significantly while a minor impact has been observed on the other state variables (temperature, salinity and currents). Experiments with a higher resolution NWP (numerical weather prediction) forcing provided by the COSMO-MED system (provided by the Italian Meteorological Office), have been performed and a pre-operational 3-day forecast production system has been developed. The comparison between this system and the official one forced by the ECMWF NWP data will be discussed.

Nailfold videocapillaroscopy micro-haemorrhage and giant capillary counting as an accurate approach for a steady state definition of disease activity in systemic sclerosis.

PubMed

Sambataro, Domenico; Sambataro, Gianluca; Zaccara, Eleonora; Maglione, Wanda; Polosa, Riccardo; Afeltra, Antonella M V; Vitali, Claudio; Del Papa, Nicoletta

2014-10-09

Nailfold videocapillaroscopy (NVC) in systemic sclerosis (SSc) is a procedure commonly used for patient classification and subsetting, but not to define disease activity (DA). This study aimed to evaluate whether the number of micro-haemorrhages (MHE), micro-thrombosis (MT), giant capillaries (GC), and normal/dilated capillaries (Cs) in NVC could predict DA in SSc. Eight-finger NVC was performed in 107 patients with SSc, and the total number of MHE/MT, GC, and the mean number of Cs were counted and defined as number of micro-haemorrhages (NEMO), GC and Cs scores, respectively. The European Scleroderma Study Group (ESSG) index constituted the gold standard for DA assessment, and scores ≥ 3.5 and = 3 were considered indicative of high and moderate activity, respectively. NEMO and GC scores were positively correlated with ESSG index (R = 0.65, P < 0.0001, and R = 0.47, P <0.0001, respectively), whilst Cs score showed a negative correlation with that DA index (R = -0.30, P <0.001). The area under the curve (AUC) of receiver operating characteristic plots, obtained by NEMO score sensitivity and specificity values in classifying patients with ESSG index ≥ 3.5, was significantly higher than the corresponding AUC derived from either GC or Cs scores (P <0.03 and P <0.0006, respectively). A modified score, defined by the presence of a given number of MHE/MT and GC, had a good performance in classifying active patients (ESSG index ≥ 3, sensitivity 95.1%, specificity 84.8%, accuracy 88.7%). MHE/MT and GC appear to be good indicators of DA in SSc, and enhances the role of NVC as an easy technique to identify active patients.

Efficient Mobility Management Signalling in Network Mobility Supported PMIPV6

PubMed Central

Jebaseeli Samuelraj, Ananthi; Jayapal, Sundararajan

2015-01-01

Proxy Mobile IPV6 (PMIPV6) is a network based mobility management protocol which supports node's mobility without the contribution from the respective mobile node. PMIPV6 is initially designed to support individual node mobility and it should be enhanced to support mobile network movement. NEMO-BSP is an existing protocol to support network mobility (NEMO) in PMIPV6 network. Due to the underlying differences in basic protocols, NEMO-BSP cannot be directly applied to PMIPV6 network. Mobility management signaling and data structures used for individual node's mobility should be modified to support group nodes' mobility management efficiently. Though a lot of research work is in progress to implement mobile network movement in PMIPV6, it is not yet standardized and each suffers with different shortcomings. This research work proposes modifications in NEMO-BSP and PMIPV6 to achieve NEMO support in PMIPV6. It mainly concentrates on optimizing the number and size of mobility signaling exchanged while mobile network or mobile network node changes its access point. PMID:26366431

Efficient Mobility Management Signalling in Network Mobility Supported PMIPV6.

PubMed

Samuelraj, Ananthi Jebaseeli; Jayapal, Sundararajan

2015-01-01

Proxy Mobile IPV6 (PMIPV6) is a network based mobility management protocol which supports node's mobility without the contribution from the respective mobile node. PMIPV6 is initially designed to support individual node mobility and it should be enhanced to support mobile network movement. NEMO-BSP is an existing protocol to support network mobility (NEMO) in PMIPV6 network. Due to the underlying differences in basic protocols, NEMO-BSP cannot be directly applied to PMIPV6 network. Mobility management signaling and data structures used for individual node's mobility should be modified to support group nodes' mobility management efficiently. Though a lot of research work is in progress to implement mobile network movement in PMIPV6, it is not yet standardized and each suffers with different shortcomings. This research work proposes modifications in NEMO-BSP and PMIPV6 to achieve NEMO support in PMIPV6. It mainly concentrates on optimizing the number and size of mobility signaling exchanged while mobile network or mobile network node changes its access point.

Naval EarthMap Observer: overview and data processing

NASA Astrophysics Data System (ADS)

Bowles, Jeffrey H.; Davis, Curtiss O.; Carney, Megan; Clamons, Dean; Gao, Bo-Cai; Gillis, David; Kappus, Mary E.; Lamela, G.; Montes, Marcos J.; Palmadesso, Peter J.; Rhea, J.; Snyder, William A.

1999-12-01

We present an overview of the Naval EarthMap Observer (NEMO) spacecraft and then focus on the processing of NEMO data both on-board the spacecraft and on the ground. The NEMO spacecraft provides for Joint Naval needs and demonstrates the use of hyperspectral imagery for the characterization of the littoral environment and for littoral ocean model development. NEMO is being funded jointly by the U.S. government and commercial partners. The Coastal Ocean Imaging Spectrometer (COIS) is the primary instrument on the NEMO and covers the spectral range from 400 to 2500 nm at 10-nm resolution with either 30 or 60 m work GSD. The hyperspectral data is processed on-board the NEMO using NRL's Optical Real-time Automated Spectral Identification System (ORASIS) algorithm that provides for real time analysis, feature extraction and greater than 10:1 data compression. The high compression factor allows for ground coverage of greater than 106 km2/day. Calibration of the sensor is done with a combination of moon imaging, using an onboard light source and vicarious calibration using a number of earth sites being monitored for that purpose. The data will be atmospherically corrected using ATREM. Algorithms will also be available to determine water clarity, bathymetry and bottom type.

Expanding the Substantial Interactome of NEMO Using Protein Microarrays

PubMed Central

Fenner, Beau J.; Scannell, Michael; Prehn, Jochen H. M.

2010-01-01

Signal transduction by the NF-kappaB pathway is a key regulator of a host of cellular responses to extracellular and intracellular messages. The NEMO adaptor protein lies at the top of this pathway and serves as a molecular conduit, connecting signals transmitted from upstream sensors to the downstream NF-kappaB transcription factor and subsequent gene activation. The position of NEMO within this pathway makes it an attractive target from which to search for new proteins that link NF-kappaB signaling to additional pathways and upstream effectors. In this work, we have used protein microarrays to identify novel NEMO interactors. A total of 112 protein interactors were identified, with the most statistically significant hit being the canonical NEMO interactor IKKbeta, with IKKalpha also being identified. Of the novel interactors, more than 30% were kinases, while at least 25% were involved in signal transduction. Binding of NEMO to several interactors, including CALB1, CDK2, SAG, SENP2 and SYT1, was confirmed using GST pulldown assays and coimmunoprecipitation, validating the initial screening approach. Overexpression of CALB1, CDK2 and SAG was found to stimulate transcriptional activation by NF-kappaB, while SYT1 overexpression repressed TNFalpha-dependent NF-kappaB transcriptional activation in human embryonic kidney cells. Corresponding with this finding, RNA silencing of CDK2, SAG and SENP2 reduced NF-kappaB transcriptional activation, supporting a positive role for these proteins in the NF-kappaB pathway. The identification of a host of new NEMO interactors opens up new research opportunities to improve understanding of this essential cell signaling pathway. PMID:20098747

Epithelial NEMO/IKKγ limits fibrosis and promotes regeneration during pancreatitis.

PubMed

Chan, Lap Kwan; Gerstenlauer, Melanie; Konukiewitz, Björn; Steiger, Katja; Weichert, Wilko; Wirth, Thomas; Maier, Harald Jakob

2017-11-01

Inhibitory κB kinase (IKK)/nuclear factor κB (NF-κB) signalling has been implicated in the pathogenesis of pancreatitis, but its precise function has remained controversial. Here, we analyse the contribution of IKK/NF-κB signalling in epithelial cells to the pathogenesis of pancreatitis by targeting the IKK subunit NF-κB essential modulator (NEMO) (IKKγ), which is essential for canonical NF-κB activation. Mice with a targeted deletion of NEMO in the pancreas were subjected to caerulein pancreatitis. Pancreata were examined at several time points and analysed for inflammation, fibrosis, cell death, cell proliferation, as well as cellular differentiation. Human samples were used to corroborate findings established in mice. In acute pancreatitis, NEMO deletion in the pancreatic parenchyma resulted in minor changes during the early phase but led to the persistence of inflammatory and fibrotic foci in the recovery phase. In chronic pancreatitis, NEMO deletion aggravated inflammation and fibrosis, inhibited compensatory acinar cell proliferation, and enhanced acinar atrophy and acinar-ductal metaplasia. Gene expression analysis revealed sustained activation of profibrogenic genes and the CXCL12/CXCR4 axis in the absence of epithelial NEMO. In human chronic pancreatitis samples, the CXCL12/CXCR4 axis was activated as well, with CXCR4 expression correlating with the degree of fibrosis. The aggravating effects of NEMO deletion were attenuated by the administration of the CXCR4 antagonist AMD3100. Our results suggest that NEMO in epithelial cells exerts a protective effect during pancreatitis by limiting inflammation and fibrosis and improving acinar cell regeneration. The CXCL12/CXCR4 axis is an important mediator of that effect and may also be of importance in human chronic pancreatitis. Published by the BMJ Publishing Group Limited. For permission to use (where not already granted under a licence) please go to http://www.bmj.com/company/products-services/rights-and-licensing/.

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

NEMO Collaboration

Double beta decay of {sup 100}Mo (172g) is studied with the NEMO 2 detector in the Frejus Underground Laboratory. The experiment has now accumulated 2485 hours of data taking. A clear signal of 380 events for 2{beta}2{nu} decay has been obtained corresponding to a half-life of T{sub {1/2}} = 1.0 {plus_minus} 0.08 (syst.) 10{sup 19} y. Limits are presented for 2{beta}(0{nu}, {chi}), 2{beta}0{nu} (ground state and excited states 2{sub 1}{sup +} and 0{sub 1}{sup +}). The experiment will run til October 1993.

MAVS ubiquitination by the E3 ligase TRIM25 and degradation by the proteasome is involved in type I interferon production after activation of the antiviral RIG-I-like receptors

PubMed Central

2012-01-01

Background During a viral infection, the intracellular RIG-I-like receptors (RLRs) sense viral RNA and signal through the mitochondrial antiviral signaling adaptor MAVS (also known as IPS-1, Cardif and VISA) whose activation triggers a rapid production of type I interferons (IFN) and of pro-inflammatory cytokines through the transcription factors IRF3/IRF7 and NF-κB, respectively. While MAVS is essential for this signaling and known to operate through the scaffold protein NEMO and the protein kinase TBK1 that phosphorylates IRF3, its mechanism of action and regulation remain unclear. Results We report here that RLR activation triggers MAVS ubiquitination on lysine 7 and 10 by the E3 ubiquitin ligase TRIM25 and marks it for proteasomal degradation concomitantly with downstream signaling. Inhibition of this MAVS degradation with a proteasome inhibitor does not affect NF-κB signaling but it hampers IRF3 activation, and NEMO and TBK1, two essential mediators in type I IFN production, are retained at the mitochondria. Conclusions These results suggest that MAVS functions as a recruitment platform that assembles a signaling complex involving NEMO and TBK1, and that the proteasome-mediated MAVS degradation is required to release the signaling complex into the cytosol, allowing IRF3 phosphorylation by TBK1. PMID:22626058

MAVS ubiquitination by the E3 ligase TRIM25 and degradation by the proteasome is involved in type I interferon production after activation of the antiviral RIG-I-like receptors.

PubMed

Castanier, Céline; Zemirli, Naima; Portier, Alain; Garcin, Dominique; Bidère, Nicolas; Vazquez, Aimé; Arnoult, Damien

2012-05-24

During a viral infection, the intracellular RIG-I-like receptors (RLRs) sense viral RNA and signal through the mitochondrial antiviral signaling adaptor MAVS (also known as IPS-1, Cardif and VISA) whose activation triggers a rapid production of type I interferons (IFN) and of pro-inflammatory cytokines through the transcription factors IRF3/IRF7 and NF-κB, respectively. While MAVS is essential for this signaling and known to operate through the scaffold protein NEMO and the protein kinase TBK1 that phosphorylates IRF3, its mechanism of action and regulation remain unclear. We report here that RLR activation triggers MAVS ubiquitination on lysine 7 and 10 by the E3 ubiquitin ligase TRIM25 and marks it for proteasomal degradation concomitantly with downstream signaling. Inhibition of this MAVS degradation with a proteasome inhibitor does not affect NF-κB signaling but it hampers IRF3 activation, and NEMO and TBK1, two essential mediators in type I IFN production, are retained at the mitochondria. These results suggest that MAVS functions as a recruitment platform that assembles a signaling complex involving NEMO and TBK1, and that the proteasome-mediated MAVS degradation is required to release the signaling complex into the cytosol, allowing IRF3 phosphorylation by TBK1.

Unusual Father-to-Daughter Transmission of Incontinentia Pigmenti Due to Mosaicism in IP Males.

PubMed

Fusco, Francesca; Conte, Matilde Immacolata; Diociaiuti, Andrea; Bigoni, Stefania; Branda, Maria Francesca; Ferlini, Alessandra; El Hachem, Maya; Ursini, Matilde Valeria

2017-09-01

Incontinentia pigmenti (IP; Online Mendelian Inheritance in Man catalog #308300) is an X-linked dominant ectodermal disorder caused by mutations of the inhibitor of κ polypeptide gene enchancer in B cells, kinase γ ( IKBKG )/ nuclear factor κB, essential modulator ( NEMO ) gene. Hemizygous IKBKG/NEMO loss-of-function (LoF) mutations are lethal in males, thus patients are female, and the disease is always transmitted from an IP-affected mother to her daughter. We present 2 families with father-to-daughter transmission of IP and provide for the first time molecular evidence that the combination of somatic and germ-line mosaicism for IKBKG/NEMO loss of function mutations in IP males resulted in the transmission of the disease to a female child. We searched for the IKBKG/NEMO mutant allele in blood, urine, skin, and sperm DNA and found that the 2 fathers were somatic and germ-line mosaics for the p.Gln132×mutation or the exon 4-10 deletion of IKBKG/NEMO , respectively. The highest level of IKBKG/NEMO mutant cells was detected in the sperm, which might explain the recurrence of the disease. We therefore recommend careful clinical evaluation in IP male cases and the genetic investigation in sperm DNA to ensure correct genetic counseling and prevent the risk of paternal transmission of IP. Copyright © 2017 by the American Academy of Pediatrics.

Gene therapy decreases seizures in a model of Incontinentia pigmenti.

PubMed

Dogbevia, Godwin K; Töllner, Kathrin; Körbelin, Jakob; Bröer, Sonja; Ridder, Dirk A; Grasshoff, Hanna; Brandt, Claudia; Wenzel, Jan; Straub, Beate K; Trepel, Martin; Löscher, Wolfgang; Schwaninger, Markus

2017-07-01

Incontinentia pigmenti (IP) is a genetic disease leading to severe neurological symptoms, such as epileptic seizures, but no specific treatment is available. IP is caused by pathogenic variants that inactivate the Nemo gene. Replacing Nemo through gene therapy might provide therapeutic benefits. In a mouse model of IP, we administered a single intravenous dose of the adeno-associated virus (AAV) vector, AAV-BR1-CAG-NEMO, delivering the Nemo gene to the brain endothelium. Spontaneous epileptic seizures and the integrity of the blood-brain barrier (BBB) were monitored. The endothelium-targeted gene therapy improved the integrity of the BBB. In parallel, it reduced the incidence of seizures and delayed their occurrence. Neonate mice intravenously injected with the AAV-BR1-CAG-NEMO vector developed no hepatocellular carcinoma or other major adverse effects 11 months after vector injection, demonstrating that the vector has a favorable safety profile. The data show that the BBB is a target of antiepileptic treatment and, more specifically, provide evidence for the therapeutic benefit of a brain endothelial-targeted gene therapy in IP. Ann Neurol 2017;82:93-104. © 2017 American Neurological Association.

Naval EarthMap Observer (NEMO) Hyperspectral Remote Sensing Program

DTIC Science & Technology

2000-10-01

The NEMO hyperspectral remote sensing program will provide unclassified, space-based hyperspectral passive imagery at moderate resolution that offers substantial potential for direct use by Naval forces and the Civil Sector.

Continuous monitoring of noise levels in the Gulf of Catania (Ionian Sea). Study of correlation with ship traffic.

PubMed

Viola, S; Grammauta, R; Sciacca, V; Bellia, G; Beranzoli, L; Buscaino, G; Caruso, F; Chierici, F; Cuttone, G; D'Amico, A; De Luca, V; Embriaco, D; Favali, P; Giovanetti, G; Marinaro, G; Mazzola, S; Filiciotto, F; Pavan, G; Pellegrino, C; Pulvirenti, S; Simeone, F; Speziale, F; Riccobene, G

2017-08-15

Acoustic noise levels were measured in the Gulf of Catania (Ionian Sea) from July 2012 to May 2013 by a low frequency (<1000Hz) hydrophone, installed on board the NEMO-SN1 multidisciplinary observatory. NEMO-SN1 is a cabled node of EMSO-ERIC, which was deployed at a water depth of 2100m, 25km off Catania. The study area is characterized by the proximity of mid-size harbors and shipping lanes. Measured noise levels were correlated with the passage of ships tracked with a dedicated AIS antenna. Noise power was measured in the frequency range between 10Hz and 1000Hz. Experimental data were compared with the results of a fast numerical model based on AIS data to evaluate the contribution of shipping noise in six consecutive 1/3 octave frequency bands, including the 1/3 octave frequency bands centered at 63Hz and 125Hz, indicated by the Marine Strategy Framework Directive (2008/56/EC). Copyright © 2017 The Authors. Published by Elsevier Ltd.. All rights reserved.

Initialization methods and ensembles generation for the IPSL GCM

NASA Astrophysics Data System (ADS)

Labetoulle, Sonia; Mignot, Juliette; Guilyardi, Eric; Denvil, Sébastien; Masson, Sébastien

2010-05-01

The protocol used and developments made for decadal and seasonal predictability studies at IPSL (Paris, France) are presented. The strategy chosen is to initialize the IPSL-CM5 (NEMO ocean and LMDZ atmosphere) model only at the ocean-atmosphere interface, following the guidance and expertise gained from ocean-only NEMO experiments. Two novel approaches are presented for initializing the coupled system. First, a nudging of sea surface temperature and wind stress towards available reanalysis is made with the surface salinity climatologically restored. Second, the heat, salt and momentum fluxes received by the ocean model are computed as a linear combination of the fluxes computed by the atmospheric model and by a CORE-style bulk formulation using up-to-date reanalysis. The steps that led to these choices are presented, as well as a description of the code adaptation and a comparison of the computational cost of both methods. The strategy for the generation of ensembles at the end of the initialization phase is also presented. We show how the technical environment of IPSL-CM5 (LibIGCM) was modified to achieve these goals.

Advanced energy systems and technologies - National R and D programme

NASA Astrophysics Data System (ADS)

Lund, P. D.

1992-08-01

The energy R and D in Finland is accomplished through the energy research programs of the Ministry of Trade and Industry. Today there are some 12 R and D programs in operation covering the various aspects of the energy sector. The NEMO-program deals with advanced new energy technologies and systems. The NEMO-program was launched in 1988 and it ends at the end of 1992. Helsinki University of Technology has been responsible for the coordination and most of the universities, research centers, and companies on new advanced energy technologies have been involved in the realization of NEMO. The objectives of the program have been to assess the potential of new technologies in the Finnish energy supply system, encourage and support businesses, and to create necessary research tradition in Finland. At the beginning in year 1988, several new technologies were included, but as the knowledge has increased, focusing on the most promising fields has taken place. Wind and solar energy show the best promises in respect to business activities and possibilities for utilization in Finland. Energy storage some other advanced technologies such as fuel cells and hydrogen technologies represented in the NEMO-program have an important role, but the commercial applications lie more distant in the future. The NEMO-program has reached its objectives. The international evaluation in fall 1990 gave very positive feedback and the scientific quality of the work was found good. At the same time, the contents was still focused more on commercial applications to support national industries in the field. The descriptions of the ongoing NEMO research projects are included in this report.

Polyubiquitination events mediate polymethylmethacrylate (PMMA) particle activation of NF-kappaB pathway.

PubMed

Yamanaka, Yasuhiro; Karuppaiah, Kannan; Abu-Amer, Yousef

2011-07-08

The pathologic response to implant wear-debris constitutes a major component of inflammatory osteolysis and remains under intense investigation. Polymethylmethacrylate (PMMA) particles, which are released during implant wear and loosening, constitute a major culprit by virtue of inducing inflammatory and osteolytic responses by macrophages and osteoclasts, respectively. Recent work by several groups has identified important cellular entities and secreted factors that contribute to inflammatory osteolysis. In previous work, we have shown that PMMA particles contribute to inflammatory osteolysis through stimulation of major pathways in monocytes/macrophages, primarily NF-κB and MAP kinases. The former pathway requires assembly of large IKK complex encompassing IKK1, IKK2, and IKKγ/NEMO. We have shown recently that interfering with the NF-κB and MAPK activation pathways, through introduction of inhibitors and decoy molecules, impedes PMMA-induced inflammation and osteolysis in mouse models of experimental calvarial osteolysis and inflammatory arthritis. In this study, we report that PMMA particles activate the upstream transforming growth factor β-activated kinase-1 (TAK1), which is a key regulator of signal transduction cascades leading to activation of NF-κB and AP-1 factors. More importantly, we found that PMMA particles induce TAK1 binding to NEMO and UBC13. In addition, we show that PMMA particles induce TRAF6 and UBC13 binding to NEMO and that lack of TRAF6 significantly attenuates NEMO ubiquitination. Altogether, these observations suggest that PMMA particles induce ubiquitination of NEMO, an event likely mediated by TRAF6, TAK1, and UBC13. Our findings provide important information for better understanding of the mechanisms underlying PMMA particle-induced inflammatory responses.

Assessing activity of Hepatitis A virus 3C protease using a cyclized luciferase-based biosensor.

PubMed

Zhou, Junwei; Wang, Dang; Xi, Yongqiang; Zhu, Xinyu; Yang, Yuting; Lv, Mengting; Luo, Chuanzhen; Chen, Jiyao; Ye, Xu; Fang, Liurong; Xiao, Shaobo

2017-07-08

Hepatitis A is an acute infection caused by Hepatitis A virus (HAV), which is widely distributed throughout the world. The HAV 3C cysteine protease (3C pro ), an important nonstructural protein, is responsible for most cleavage within the viral polyprotein and is critical for the processes of viral replication. Our group has previously demonstrated that HAV 3C pro cleaves human NF-κB essential modulator (NEMO), a kinase required in interferon signaling. Based on this finding, we generated four luciferase-based biosensors containing the NEMO sequence (PVLKAQ↓ADIYKA) that is cleaved by HAV 3C pro and/or the Nostoc punctiforme DnaE intein, to monitor the activity of HAV 3C pro in human embryonic kidney cells (HEK-293T). Western blotting showed that HAV 3C pro recognized and cleaved the NEMO cleavage sequence incorporated in the four biosensors, whereas only one cyclized luciferase-based biosensor (233-DnaE-HAV, 233DH) showed a measurable and reliable increase in firefly luciferase activity, with very low background, in the presence of HAV 3C pro . With this biosensor (233DH), we monitored HAV 3C pro activity in HEK-293T cells, and tested it against a catalytically deficient mutant HAV 3C pro and other virus-encoded proteases. The results showed that the activity of this luciferase biosensor is specifically dependent on HAV 3C pro . Collectively, our data demonstrate that the luciferase biosensor developed here might provide a rapid, sensitive, and efficient evaluation of HAV 3C pro activity, and should extend our better understanding of the biological relevance of HAV 3C pro . Copyright © 2017 Elsevier Inc. All rights reserved.

In-surface confinement of topological insulator nanowire surface states

NASA Astrophysics Data System (ADS)

Chen, Fan W.; Jauregui, Luis A.; Tan, Yaohua; Manfra, Michael; Klimeck, Gerhard; Chen, Yong P.; Kubis, Tillmann

2015-09-01

The bandstructures of [110] and [001] Bi2Te3 nanowires are solved with the atomistic 20 band tight binding functionality of NEMO5. The theoretical results reveal: The popular assumption that all topological insulator (TI) wire surfaces are equivalent is inappropriate. The Fermi velocity of chemically distinct wire surfaces differs significantly which creates an effective in-surface confinement potential. As a result, topological insulator surface states prefer specific surfaces. Therefore, experiments have to be designed carefully not to probe surfaces unfavorable to the surface states (low density of states) and thereby be insensitive to the TI-effects.

Nemo: an evolutionary and population genetics programming framework.

PubMed

Guillaume, Frédéric; Rougemont, Jacques

2006-10-15

Nemo is an individual-based, genetically explicit and stochastic population computer program for the simulation of population genetics and life-history trait evolution in a metapopulation context. It comes as both a C++ programming framework and an executable program file. Its object-oriented programming design gives it the flexibility and extensibility needed to implement a large variety of forward-time evolutionary models. It provides developers with abstract models allowing them to implement their own life-history traits and life-cycle events. Nemo offers a large panel of population models, from the Island model to lattice models with demographic or environmental stochasticity and a variety of already implemented traits (deleterious mutations, neutral markers and more), life-cycle events (mating, dispersal, aging, selection, etc.) and output operators for saving data and statistics. It runs on all major computer platforms including parallel computing environments. The source code, binaries and documentation are available under the GNU General Public License at http://nemo2.sourceforge.net.

NEMOTAM: tangent and adjoint models for the ocean modelling platform NEMO

NASA Astrophysics Data System (ADS)

Vidard, A.; Bouttier, P.-A.; Vigilant, F.

2015-04-01

Tangent linear and adjoint models (TAMs) are efficient tools to analyse and to control dynamical systems such as NEMO. They can be involved in a large range of applications such as sensitivity analysis, parameter estimation or the computation of characteristic vectors. A TAM is also required by the 4D-Var algorithm, which is one of the major methods in data assimilation. This paper describes the development and the validation of the tangent linear and adjoint model for the NEMO ocean modelling platform (NEMOTAM). The diagnostic tools that are available alongside NEMOTAM are detailed and discussed, and several applications are also presented.

NEMOTAM: tangent and adjoint models for the ocean modelling platform NEMO

NASA Astrophysics Data System (ADS)

Vidard, A.; Bouttier, P.-A.; Vigilant, F.

2014-10-01

The tangent linear and adjoint model (TAM) are efficient tools to analyse and to control dynamical systems such as NEMO. They can be involved in a large range of applications such as sensitivity analysis, parameter estimation or the computation of characteristics vectors. TAM is also required by the 4-D-VAR algorithm which is one of the major method in Data Assimilation. This paper describes the development and the validation of the Tangent linear and Adjoint Model for the NEMO ocean modelling platform (NEMOTAM). The diagnostic tools that are available alongside NEMOTAM are detailed and discussed and several applications are also presented.

Conformational Analysis on structural perturbations of the zinc finger NEMO

NASA Astrophysics Data System (ADS)

Godwin, Ryan; Salsbury, Freddie; Salsbury Group Team

2014-03-01

The NEMO (NF-kB Essential Modulator) Zinc Finger protein (2jvx) is a functional Ubiquitin-binding domain, and plays a role in signaling pathways for immune/inflammatory responses, apoptosis, and oncogenesis [Cordier et al., 2008]. Characterized by 3 cysteines and 1 histidine residue at the active site, the biologically occurring, bound zinc configuration is a stable structural motif. Perturbations of the zinc binding residues suggest conformational changes in the 423-atom protein characterized via analysis of all-atom molecular dynamics simulations. Structural perturbations include simulations with and without a zinc ion and with and without de-protonated cysteines, resulting in four distinct configurations. Simulations of various time scales show consistent results, yet the longest, GPU driven, microsecond runs show more drastic structural and dynamic fluctuations when compared to shorter duration time-scales. The last cysteine residue (26 of 28) and the helix on which it resides exhibit a secondary, locally unfolded conformation in addition to its normal bound conformation. Combined analytics elucidate how the presence of zinc and/or protonated cysteines impact the dynamics and energetic fluctuations of NEMO. Comprehensive Cancer Center of Wake Forest University Computational Biosciences shared resource supported by NCI CCSG P30CA012197.

Double Beta Decay Experiments: Present Status and Prospects for the Future

NASA Astrophysics Data System (ADS)

Barabash, A. S.

The review of modern experiments on search and studying of double beta decay processes is done. Results of the most sensitive current experiments are discussed. The main attention is paid to EXO-200, KamLAND-Zen, GERDA-I and CUORE-0 experiments. Modern values of T1/2(2ν) and best present limits on neutrinoless double beta decay and double beta decay with Majoron emission are presented. Conservative limits on effective mass of a Majorana neutrino ( < 0.46 eV) and a coupling constant of Majoron to neutrino ( < 1.3 × 10-5) are obtained. In the second part of the review prospects of search for the neutrinoless double beta decay in new experiments with sensitivity to at the level of ˜ (0.01-0.1) eV are discussed. The main attention is paid to experiments of CUORE, GERDA, MAJORANA, EXO, KamLAND-Zen-2, SuperNEMO and SNO+. Possibilities of low-temperature scintillating bolometers on the basis of inorganic crystals (ZnSe, ZnMoO4, Li2MoO4, CaMoO4 and CdWO4) are considered too.

Interactions between Arctic sea ice drift, concentration and thickness modeled by NEMO-LIM3 at different resolutions

NASA Astrophysics Data System (ADS)

Docquier, David; Massonnet, François; Raulier, Jonathan; Lecomte, Olivier; Fichefet, Thierry

2016-04-01

Sea ice concentration and thickness have substantially decreased in the Arctic since the beginning of the satellite era. As a result, mechanical strength has decreased allowing more fracturing and leading to increased sea ice drift. However, recent studies have highlighted that the interplay between sea ice thermodynamics and dynamics is poorly represented in contemporary global climate model (GCM) simulations. Thus, the considerable inter-model spread in terms of future sea ice extent projections could be reduced by better understanding the interactions between drift, concentration and thickness. This study focuses on the results coming from the global coupled ocean-sea ice model NEMO-LIM3 between 1979 and 2012. Three different simulations are forced by the Drakkar Forcing Set (DFS) 5.2 and run on the global tripolar ORCA grid at spatial resolutions of 0.25, 1° and 2°. The relation between modeled sea ice drift, concentration and thickness is further analyzed, compared to observations and discussed in the framework of the above-mentioned poor representation. It is proposed as a process-based metric for evaluating model performance. This study forms part of the EU Horizon 2020 PRIMAVERA project aiming at developing a new generation of advanced and well-evaluated high-resolution GCMs.

Dive and Explore: An Interactive Exhibit That Simulates Making an ROV Dive to a Submarine Volcano, Hatfield Marine Science Visitor Center, Newport, Oregon

NASA Astrophysics Data System (ADS)

Weiland, C.; Chadwick, W. W.; Hanshumaker, W.; Osis, V.; Hamilton, C.

2002-12-01

We have created a new interactive exhibit in which the user can sit down and simulate that they are making a dive to the seafloor with the remotely operated vehicle (ROV) named ROPOS. The exhibit immerses the user in an interactive experience that is naturally fun but also educational. This new public display is located at the Hatfield Marine Science Visitor Center in Newport, Oregon. The exhibit is designed to look like the real ROPOS control console and includes three video monitors, a PC, a DVD player, an overhead speaker, graphic panels, buttons, lights, dials, and a seat in front of a joystick. The dives are based on real seafloor settings at Axial seamount, an active submarine volcano on the Juan de Fuca Ridge (NE Pacific) that is also the location of a seafloor observatory called NeMO. The user can choose between 1 of 3 different dives sites in the caldera of Axial Volcano. Once a dive is chosen, then the user watches ROPOS being deployed and then arrives into a 3-D computer-generated seafloor environment that is based on the real world but is easier to visualize and navigate. Once on the bottom, the user is placed within a 360 degree panorama and can look in all directions by manipulating the joystick. By clicking on markers embedded in the scene, the user can then either move to other panorama locations via movies that travel through the 3-D virtual environment, or they can play video clips from actual ROPOS dives specifically related to that scene. Audio accompanying the video clips informs the user where they are going or what they are looking at. After the user is finished exploring the dive site they end the dive by leaving the bottom and watching the ROV being recovered onto the ship at the surface. The user can then choose a different dive or make the same dive again. Within the three simulated dives there are a total of 6 arrival and departure movies, 7 seafloor panoramas, 12 travel movies, and 23 ROPOS video clips. The exhibit software was created with Macromedia Director using Apple Quicktime and Quicktime VR. The exhibit is based on the NeMO Explorer web site (http://www.pmel.noaa.gov/vents/nemo/explorer.html).

Incontinentia pigmenti: learning disabilities are a fundamental hallmark of the disease.

PubMed

Pizzamiglio, Maria Rosa; Piccardi, Laura; Bianchini, Filippo; Canzano, Loredana; Palermo, Liana; Fusco, Francesca; D'Antuono, Giovanni; Gelmini, Chiara; Garavelli, Livia; Ursini, Matilde Valeria

2014-01-01

Studies suggest that genetic factors are associated with the etiology of learning disabilities. Incontinentia Pigmenti (IP, OMIM#308300), which is caused by mutations of the IKBKG/NEMO gene, is a rare X-linked genomic disorder (1:10000/20:000) that affects the neuroectodermal tissues. It always affects the skin and sometimes the hair, teeth, nails, eyes and central nervous system (CNS). Data from IP patients demonstrate the heterogeneity of the clinical phenotype; about 30% have CNS manifestations. This extreme variability suggests that IP patients might also have learning disabilities. However, no studies in the literature have evaluated the cognitive profile of IP patients. In fact, the learning disability may go unnoticed in general neurological analyses, which focus on major disabling manifestations of the CNS. Here, we investigated the neuropsychological outcomes of a selected group of IP-patients by focusing on learning disabilities. We enrolled 10 women with IP (7 without mental retardation and 3 with mild to severe mental retardation) whose clinical diagnosis had been confirmed by the presence of a recurrent deletion in the IKBKG/NEMO gene. The participants were recruited from the Italian patients' association (I.P.A.SS.I. Onlus). They were submitted to a cognitive assessment that included the Wechsler Adult Intelligence scale and a battery of tests examining reading, arithmetic and writing skills. We found that 7 patients had deficits in calculation/arithmetic reasoning and reading but not writing skills; the remaining 3 had severe to mild intellectual disabilities. Results of this comprehensive evaluation of the molecular and psychoneurological aspects of IP make it possible to place "learning disabilities" among the CNS manifestations of the disease and suggest that the IKBKG/NEMO gene is a genetic determinant of this CNS defect. Our findings indicate the importance of an appropriate psychoneurological evaluation of IP patients, which includes early assessment of learning abilities, to prevent the onset of this deficit.

Development of novel NEMO-binding domain mimetics for inhibiting IKK/NF-κB activation.

PubMed

Zhao, Jing; Zhang, Lei; Mu, Xiaodong; Doebelin, Christelle; Nguyen, William; Wallace, Callen; Reay, Daniel P; McGowan, Sara J; Corbo, Lana; Clemens, Paula R; Wilson, Gabriela Mustata; Watkins, Simon C; Solt, Laura A; Cameron, Michael D; Huard, Johnny; Niedernhofer, Laura J; Kamenecka, Theodore M; Robbins, Paul D

2018-06-11

Nuclear factor κB (NF-κB) is a transcription factor important for regulating innate and adaptive immunity, cellular proliferation, apoptosis, and senescence. Dysregulation of NF-κB and its upstream regulator IκB kinase (IKK) contributes to the pathogenesis of multiple inflammatory and degenerative diseases as well as cancer. An 11-amino acid peptide containing the NF-κB essential modulator (NEMO)-binding domain (NBD) derived from the C-terminus of β subunit of IKK, functions as a highly selective inhibitor of the IKK complex by disrupting the association of IKKβ and the IKKγ subunit NEMO. A structure-based pharmacophore model was developed to identify NBD mimetics by in silico screening. Two optimized lead NBD mimetics, SR12343 and SR12460, inhibited tumor necrosis factor α (TNF-α)- and lipopolysaccharide (LPS)-induced NF-κB activation by blocking the interaction between IKKβ and NEMO and suppressed LPS-induced acute pulmonary inflammation in mice. Chronic treatment of a mouse model of Duchenne muscular dystrophy (DMD) with SR12343 and SR12460 attenuated inflammatory infiltration, necrosis and muscle degeneration, demonstrating that these small-molecule NBD mimetics are potential therapeutics for inflammatory and degenerative diseases.

Dimensions of biodiversity of oceanic nitrogen cycling: nutrient co-limitation, nitrogen substrate preferences and more.

NASA Astrophysics Data System (ADS)

Zehr, J.; Mills, M. M.; Shilova, I. N.; Turk-Kubo, K.; Robidart, J.; van Dijken, G.; Bjorkman, K. M.; Whitt, D. B.; Wai, B.; Pampin Baro, J.; Hogan, M.; Rapp, I.; Zakem, E.; Fredrickson, A.; Leahy, B.; Linney, M.; Santiago, A.; Follows, M. J.; Achterberg, E. P.; Kolber, Z.; Church, M. J.; Arrigo, K. R.

2016-02-01

We conducted the research cruise: Nutrient Effects on Marine microOrganisms (NEMO) onboard the R/V New Horizon (NH1417: August 18 to September 16, 2014) between the ports of San Diego, CA and Honolulu, HI. The three major objectives of the cruise were to: 1) evaluate genetic, physiological and phylogenetic responses of marine phytoplankton communities in the North Pacific Subtropical Gyre to different nitrogen (N) substrates and to determine how other nutrients (iron, phosphorus) impact N utilization; 2) characterize the physical processes and dynamics in support of the biological processes; and 3) characterize the diversity and activities of microbial communities in the upper water column in relation to the nutrient availability. Several incubation experiments were conducted along the cruise transect to assess the effect of nutrients on microbial communities. The results showed that N addition resulted in increased chlorophyll a (chl a) and rates of CO2 fixation at most sites, but Prochlorococcus, Synechococcus and picoekaryotic phytoplankton had different responses to urea, ammonium and nitrate. In contrast, chl a and CO2 fixation did not respond to additions of single nutrient (e.g. N, P or Fe alone) at the westernmost experiment (151°W), where the simultaneous addition of N and P was required for stimulation. The physical dynamics were studied through high-resolution surveys of eddy dipole features as well as diel sampling at two locations. Additionally, we characterized an extensive bloom that occurred near the critical latitude (29°N, 140°W) from mid July to the end of September; a typical but still enigmatic event. Here, we present a summary of the initial observations and findings from the NEMO cruise with data including physics, nutrient concentrations, chl a, primary productivity and microbial community composition. The results of this research cruise will help in assessing how ocean N cycling and ecosystem functions will respond to global climate change.

Study of water masses variability in the Mediterranean Sea using in-situ data / NEMO-Med12 model.

NASA Astrophysics Data System (ADS)

Margirier, Félix; Testor, Pierre; Mortier, Laurent; Arsouze, Thomas; Bosse, Anthony; Houpert, Loic; Hayes, Dan

2016-04-01

In the past 10 years, numerous observation programs in the Mediterranean deployed autonomous platforms (moorings, argo floats, gliders) and thus considerably increased the number of in-situ observations and the data coverage. In this study, we analyse time series built with profile data on interannual scales. Sorting data in regional boxes, we follow the evolution of different water masses in the basin and generate indexes to characterize their evolution. We then put those indexes in relation with external (atmospheric) forcings and present an intercomparison with the NEMO-Med12 model to estimate both the skill of the model and the relevance of the data-sampling in reproducing the evolution of water masses properties.

The trigger and data acquisition for the NEMO-Phase 2 tower

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

Pellegrino, C.; Biagi, S.; Fusco, L. A.

In the framework of the Phase 2 of the NEMO neutrino telescope project, a tower with 32 optical modules is being operated since march 2013. A new scalable Trigger and Data Acquisition System (TriDAS) has been developed and extensively tested with the data from this tower. Adopting the all-data-to-shore concept, the NEMO TriDAS is optimized to deal with a continuous data-stream from off-shore to on-shore with a large bandwidth. The TriDAS consists of four computing layers: (i) data aggregation of isochronal hits from all optical modules; (ii) data filtering by means of concurrent trigger algorithms; (iii) composition of the filteredmore » events into post-trigger files; (iv) persistent data storage. The TriDAS implementation is reported together with a review of dedicated on-line monitoring tools.« less

I Feel You: The Design and Evaluation of a Domotic Affect-Sensitive Spoken Conversational Agent

PubMed Central

Lutfi, Syaheerah Lebai; Fernández-Martínez, Fernando; Lorenzo-Trueba, Jaime; Barra-Chicote, Roberto; Montero, Juan Manuel

2013-01-01

We describe the work on infusion of emotion into a limited-task autonomous spoken conversational agent situated in the domestic environment, using a need-inspired task-independent emotion model (NEMO). In order to demonstrate the generation of affect through the use of the model, we describe the work of integrating it with a natural-language mixed-initiative HiFi-control spoken conversational agent (SCA). NEMO and the host system communicate externally, removing the need for the Dialog Manager to be modified, as is done in most existing dialog systems, in order to be adaptive. The first part of the paper concerns the integration between NEMO and the host agent. The second part summarizes the work on automatic affect prediction, namely, frustration and contentment, from dialog features, a non-conventional source, in the attempt of moving towards a more user-centric approach. The final part reports the evaluation results obtained from a user study, in which both versions of the agent (non-adaptive and emotionally-adaptive) were compared. The results provide substantial evidences with respect to the benefits of adding emotion in a spoken conversational agent, especially in mitigating users' frustrations and, ultimately, improving their satisfaction. PMID:23945740

Development from the seafloor to the sea surface of the cabled NEMO-SN1 observatory in the Western Ionian Sea

NASA Astrophysics Data System (ADS)

Sparnocchia, Stefania; Beranzoli, Laura; Borghini, Mireno; Durante, Sara; Favali, Paolo; Giovanetti, Gabriele; Italiano, Francesco; Marinaro, Giuditta; Meccia, Virna; Papaleo, Riccardo; Riccobene, Giorgio; Schroeder, Katrin

2015-04-01

A prototype of cabled deep-sea observatory has been operating in real-time since 2005 in Southern Italy (East Sicily, 37°30' N - 15°06'E), at 2100 m water depth, 25 km from the harbor of the city of Catania. It is the first-established real-time node of the "European Multidisciplinary Seafloor and water column Observatory" (EMSO, http://www.emso-eu.org) a research infrastructure of the Sector Environment of ESFRI. In the present configuration it consists of two components: the multi-parametric station NEMO-SN1 (TSN branch) equipped with geophysical and environmental sensors for measurements at the seafloor, and the NEMO-OνDE station (TSS branch) equipped with 4 wideband hydrophones. A 28 km long electro-optical cable connects the observatory to a shore laboratory in the Catania harbor, hosting the data acquisition system and supplying power and data transmission to the underwater instrumentation. The NEMO-SN1 observatory is located in an area particularly suited to multidisciplinary studies. The site is one of the most seismically active areas of the Mediterranean (some of the strongest earthquakes occurred in 1169, 1693 and 1908, also causing very intense tsunami waves) and is close to Mount Etna, one of the largest and most active volcanoes in Europe. The deployment area is also a key site for monitoring deep-water dynamics in the Ionian Sea, connecting the Levantine basin to the southern Adriatic basin where intermediate and deep waters are formed, and finally to the western Mediterranean Sea via the Strait of Sicily. The observatory is being further developed under EMSO MedIT (http://www.emso-medit.it/en/), a structural enhancement project contributing to the consolidation and enhancement of the European research infrastructure EMSO in Italian Convergence Regions. In this framework, a new Junction Box will be connected to the TSN branch and will provide wired and wireless (acoustic connections) for seafloor platforms and moorings. This will allow the implementation of new measurement capabilities at seafloor and along the water column with sensors for measurements of physical-chemical (pressure, temperature, salinity, dissolved oxygen, turbidity, pCO2, currents) and geophysical (magnetometer, seismometer and gravity meter) parameters. An imaging system for deep sea fauna will be deployed very soon at TSS. Furthermore, the data acquisition/elaboration system will be enhanced, and data will be shared in near real time through the Catania node of the high-speed telecommunication network for University and Scientific Research. An Open Access policy is adopted to favour the access of the international scientific community. According to the EMSO business plan and EC recommendations, the enhanced infrastructure will be open to scientists, companies and public actors on excellence research basis, for the development of innovative scientific and technological research products. The existing seafloor module is already offering this service under the TNA program of FixO3 EC Project (www.fixo3.eu). The ongoing development of NEMO-SN1 will strengthen its capabilities to monitor long-term variability of key physical, geophysical and biogeochemical parameters, with applications, for example, in studies on modifications of the properties of water masses and the marine circulation, changes in marine chemistry, with particular emphasis on the carbon system and its role in ocean acidification, evolving trends in global sea level, and to address geo-hazards issues, such as earthquake and tsunami risks, volcanic risk, instability and collapse of the slopes.

Toward variational assimilation of SARAL/Altika altimeter data in a North Atlantic circulation model at eddy-permitting resolution: assessment of a NEMO-based 4D-VAR system

NASA Astrophysics Data System (ADS)

Bouttier, Pierre-Antoine; Brankart, Jean-Michel; Candille, Guillem; Vidard, Arthur; Blayo, Eric; Verron, Jacques; Brasseur, Pierre

2015-04-01

In this project, the response of a variational data assimilation system based on NEMO and its linear tangent and adjoint model is investigated using a 4DVAR algorithm into a North-Atlantic model at eddy-permitting resolution. The assimilated data consist of Jason-2 and SARAL/AltiKA dataset collected during the 2013-2014 period. The main objective is to explore the robustness of the 4DVAR algorithm in the context of a realistic turbulent oceanic circulation at mid-latitude constrained by multi-satellite altimetry missions. This work relies on two previous studies. First, a study with similar objectives was performed based on academic double-gyre turbulent model and synthetic SARAL/AltiKA data, using the same DA experimental framework. Its main goal was to investigate the impact of turbulence on variational DA methods performance. The comparison with this previous work will bring to light the methodological and physical issues encountered by variational DA algorithms in a realistic context at similar, eddy-permitting spatial resolution. We also have demonstrated how a dataset mimicking future SWOT observations improves 4DVAR incremental performances at eddy-permitting resolution. Then, in the context of the OSTST and FP7 SANGOMA projects, an ensemble DA experiment based on the same model and observational datasets has been realized (see poster by Brasseur et al.). This work offers the opportunity to compare efficiency, pros and cons of both DA methods in the context of KA-band altimetric data, at spatial resolution commonly used today for research and operational applications. In this poster we will present the validation plan proposed to evaluate the skill of variational experiment vs. ensemble assimilation experiments covering the same period using independent observations (e.g. from Cryosat-2 mission).

Something black in the American Psyche: formal innovation and Freudian imagery in the comics of Winsor McCay and Robert Crumb.

PubMed

Shannon, Edward A

2010-01-01

Winsor McCay’s Little Nemo in Slumberland anticipates Robert Crumb’s work. McCay’s innocent dreamscapes seem antithetical to the sexually explicit work of anti-capitalist Crumb, but Nemo looks forward to Crumb in subject and form. Nemo’s presentation of class, gender, and race, and its pre-Freudian sensibility are ironic counterpoints to Crumb’s political, Freudian comix.

Finding NEMO (novel electromaterial muscle oscillator): a polypyrrole powered robotic fish with real-time wireless speed and directional control

NASA Astrophysics Data System (ADS)

McGovern, Scott; Alici, Gursel; Truong, Van-Tan; Spinks, Geoffrey

2009-09-01

This paper presents the development of an autonomously powered and controlled robotic fish that incorporates an active flexural joint tail fin, activated through conducting polymer actuators based on polypyrrole (PPy). The novel electromaterial muscle oscillator (NEMO) tail fin assembly on the fish could be controlled wirelessly in real time by varying the frequency and duty cycle of the voltage signal supplied to the PPy bending-type actuators. Directional control was achieved by altering the duty cycle of the voltage input to the NEMO tail fin, which shifted the axis of oscillation and enabled turning of the robotic fish. At low speeds, the robotic fish had a turning circle as small as 15 cm (or 1.1 body lengths) in radius. The highest speed of the fish robot was estimated to be approximately 33 mm s-1 (or 0.25 body lengths s-1) and was achieved with a flapping frequency of 0.6-0.8 Hz which also corresponded with the most hydrodynamically efficient mode for tail fin operation. This speed is approximately ten times faster than those for any previously reported artificial muscle based device that also offers real-time speed and directional control. This study contributes to previously published studies on bio-inspired functional devices, demonstrating that electroactive polymer actuators can be real alternatives to conventional means of actuation such as electric motors.

PORFIDO on the NEMO Phase 2 tower

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

Ciaffoni, Orlando; Cordelli, Marco; Habel, Roberto

We have designed and built an underwater measurement system, PORFIDO (Physical Oceanography by RFID Outreach) to gather oceanographic data from the Optical Modules of a neutrino telescope with a minimum of disturbance to the main installation. PORFIDO is composed of a sensor glued to the outside of an Optical Module, in contact with seawater, and of a reader placed inside the sphere, facing the sensor. Data are transmitted to the reader through the glass by RFID and to shore in real time for periods of years. The sensor gathers power from the radio frequency, thus eliminating the need for batteriesmore » or connectors through the glass. We have deployed four PORFIDO probes measuring temperatures with the NEMO-KM3Net-Italy Phase 2 tower in april 2013. The four probes are operative and are transmitting temperature data from 3500 m depth.« less

The Met Office Coupled Atmosphere/Land/Ocean/Sea-Ice Data Assimilation System

NASA Astrophysics Data System (ADS)

Lea, Daniel; Mirouze, Isabelle; Martin, Matthew; Hines, Adrian; Guiavarch, Catherine; Shelly, Ann

2014-05-01

The Met Office has developed a weakly-coupled data assimilation (DA) system using the global coupled model HADGEM3 (Hadley Centre Global Environment Model, version 3). This model combines the atmospheric model UM (Unified Model) at 60 km horizontal resolution on 85 vertical levels, the ocean model NEMO (Nucleus for European Modeling of the Ocean) at 25 km (at the equator) horizontal resolution on 75 vertical levels, and the sea-ice model CICE at the same resolution as NEMO. The atmosphere and the ocean/sea-ice fields are coupled every 1-hour using the OASIS coupler. The coupled model is corrected using two separate 6-hour window data assimilation systems: a 4D-Var for the atmosphere with associated soil moisture content nudging and snow analysis schemes on the one hand, and a 3D-Var FGAT for the ocean and sea-ice on the other hand. The background information in the DA systems comes from a previous 6-hour forecast of the coupled model. To show the impact of coupled DA, one-month experiments have been carried out, including 1) a full atmosphere/land/ocean/sea-ice coupled DA run, 2) an atmosphere-only run forced by OSTIA SSTs and sea-ice with atmosphere and land DA, and 3) an ocean-only run forced by atmospheric fields from run 2 with ocean and sea-ice DA. In addition, 5-day forecast runs, started twice a day, have been produced from initial conditions generated by either run 1 or a combination of runs 2 and 3. The different results have been compared to each other and, whenever possible, to other references such as the Met Office atmosphere and ocean operational analyses or the OSTIA data. These all show the coupled DA system functioning well. Evidence of imbalances and initialisation shocks has also been looked for.

Study of strain boundary conditions and GaAs buffer sizes in InGaAs quantum dots

NASA Technical Reports Server (NTRS)

Oyafuso, F.; Klimeck, G.; Boykin, T. B.; Bowen, R. C.; Allmen, P. von

2003-01-01

NEMO 3-D has been developed for the simulation of electronic structure in self-assembled InGaAs quantum dots on GaAs substrates. Typical self-assembled quantum dots in that material system contain about 0.5 to 1 million atoms. Effects of strain by the surrounding GaAs buffer modify the electronic structure inside the quantum dot significantly and a large GaAs buffer must be included in the strain and electronic structure.

A Hop-Sensitive Mechanism to Establish Route Optimization in Mobile Networks

NASA Astrophysics Data System (ADS)

Gnanaraj, J. Isac; Newton, P. Calduwel; Arockiam, L.; Kim, Tai-Hoon

The mobile network plays a vital role in mobile communications. It supports both host mobility and network mobility. The mobile network which supports network mobility can be called as NEMO. The NEMO refers to NEtwork MObility or mobile network that moves. Though NEMO provides many supports, it also suffers due to Quality of Service (QoS) issues. One such issue is Route Optimization (RO). When a Mobile Node (MN) is away from Home Network (HN), it will send a binding update to Home Agent (HA) in HN to inform its movement. If the Correspondent Node (CN) wants to send data to MN, it will send data through HA. In this scenario, three networks such as HN, Foreign Network (FN) and Correspondent Network are involved in data transfer. The involvement of these three networks affects the QoS. This paper concentrates on some of the QoS parameters to propose a QoS mechanism to establish RO among these three networks and significantly increases performance of the mobile network.

The Buoyancy Budget With a Nonlinear Equation of State

NASA Astrophysics Data System (ADS)

Hieronymus, M. H.; Nycander, J.

2012-12-01

There has been a number of studies focusing on different aspects of having a nonlinear equation of state for seawater. Amongst other things it has been shown that the nonlinear equation of state has implications for the oceanic energy budget and that nonlinear processes can be a significant source of dense water production. This presentation will focus on the oceanic buoyancy budget. The nonlinear equation of state of seawater can introduce a sink or source of buoyancy when water parcels of unequal salinities and temperatures are mixed. A common example is the process known as cabbeling, which is responsible for forming a water mass that is denser than the original constituents in a mixture of two water masses with equal densities but different salinities and temperatures. This presentation will contain quantitative estimates of these nonlinear effects on the buoyancy budget of the global ocean. Because of these nonlinear effects there is a net sink of buoyancy in the oceans interior and the size of this sink can be determined from the buoyancy fluxes at the ocean boundaries. These boundary buoyancy fluxes are calculated using two surface heat flux climatologies one based on in situ measurements, the other on a reanalysis and in both cases using a nonlinear equation of state. The presentation also treats the buoyancy budget in the State of the art ocean model Nucleus for European Modelling of the Ocean (NEMO) and the results from NEMO are seen to be in good agreement with the buoyancy budgets based on the heat flux climatologies. Using the ocean model is a good complement to the surface flux climatologies, because in NEMO the buoyancy fluxes can be evaluated at all vertical model levels. This means that the vertical distribution of the buoyancy sink can be looked into. The results from NEMO shows that in large parts of the ocean the nonlinear buoyancy sink is the largest contribution to the buoyancy budget.

Nemo-like kinase (NLK) expression in osteoblastic cells and suppression of osteoblastic differentiation

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

Nifuji, Akira, E-mail: nifuji-a@tsurumi-u.ac.jp; Department of Pharmacology, Tsurumi University School of Dental Medicine, Yokohama; Ideno, Hisashi

2010-04-15

Mitogen-activated protein kinases (MAPKs) regulate proliferation and differentiation in osteoblasts. The vertebral homologue of nemo, nemo-like kinase (NLK), is an atypical MAPK that targets several signaling components, including the T-cell factor/lymphoid enhancer factor (TCF/Lef1) transcription factor. Recent studies have shown that NLK forms a complex with the histone H3-K9 methyltransferase SETDB1 and suppresses peroxisome proliferator-activated receptor (PPAR)-gamma:: action in the mesenchymal cell line ST2. Here we investigated whether NLK regulates osteoblastic differentiation. We showed that NLK mRNA is expressed in vivo in osteoblasts at embryonic day 18.5 (E18.5) mouse calvariae. By using retrovirus vectors, we performed forced expression of NLKmore » in primary calvarial osteoblasts (pOB cells) and the mesenchymal cell line ST2. Wild-type NLK (NLK-WT) suppressed alkaline phosphatase activity and expression of bone marker genes such as alkaline phosphatase, type I procollagen, runx2, osterix, steopontin and osteocalcin in these cells. NLK-WT also decreased type I collagen protein expression in pOB and ST2 cells. Furthermore, mineralized nodule formation was reduced in pOB cells overexpressing NLK-WT. In contrast, kinase-negative form of NLK (NLK-KN) did not suppress or partially suppress ALP activity and bone marker gene expression in pOB and ST2 cells. NLK-KN did not suppress nodule formation in pOB cells. In addition to forced expression, suppression of endogenous NLK expression by siRNA increased bone marker gene expression in pOB and ST2 cells. Finally, transcriptional activity analysis of gene promoters revealed that NLK-WT suppressed Wnt1 activation of TOP flash promoter and Runx2 activation of the osteocalcin promoter. Taken together, these results suggest that NLK negatively regulates osteoblastic differentiation.« less

Specific NEMO mutations impair CD40-mediated c-Rel activation and B cell terminal differentiation

PubMed Central

Jain, Ashish; Ma, Chi A.; Lopez-Granados, Eduardo; Means, Gary; Brady, William; Orange, Jordan S.; Liu, Shuying; Holland, Steven; Derry, Jonathan M.J.

2004-01-01

Hypomorphic mutations in the zinc finger domain of NF-κB essential modulator (NEMO) cause X-linked hyper-IgM syndrome with ectodermal dysplasia (XHM-ED). Here we report that patient B cells are characterized by an absence of Ig somatic hypermutation (SHM) and defective class switch recombination (CSR) despite normal induction of activation-induced cytidine deaminase (AID) and Iε-Cε transcripts. This indicates that AID expression alone is insufficient to support neutralizing antibody responses. Furthermore, we show that patient B cells stimulated with CD40 ligand are impaired in both p65 and c-Rel activation, and whereas addition of IL-4 can enhance p65 activity, c-Rel activity remains deficient. This suggests that these NF-κB components have different activation requirements and that IL-4 can augment some but not all NEMO-dependent NF-κB signaling. Finally, using microarray analysis of patient B cells we identified downstream effects of impaired NF-κB activation and candidate factors that may be necessary for CSR and SHM in B cells. PMID:15578091

Simulation of bombe radiocarbon transient in the Mediterranean Sea using a high-resolution regional model.

NASA Astrophysics Data System (ADS)

Ayache, Mohamed; Dutay, Jean-claude; Mouchet, Anne; Tisnérat-Laborde, Nadine; Houma-Bachari, Fouzia; Louanchi, Ferial; jean-baptiste, Philippe

2016-04-01

The radiocarbon isotope of carbon "14C", which a half-life of 5730 years, is continually formed naturally in the atmosphere by the neutron bombardment of 14N atoms. However, in the 1950s and early1960s, the atmospheric testing of thermonuclear weapons added a large amount of 14C into the atmosphere. The gradual infusion and spread of this "bomb" 14C through the oceans has provided a unique opportunity to gain insight into the specific rates characterizing the carbon cycle and ocean ventilations on such timescales. This numerical study provides, for the first time in the Mediterranean Sea, a simulation of the anthropogenic 14C invasion covers a 70-years period spanning the entire 14C generated by the bomb test, by using a high resolution regional model NEMO-MED12 (1/12° of horizontal resolution). This distribution and evolution of Δ14C of model is compared with recent high resolution 14C measurements obtained from surface water corals (Tisnérat-Laborde et al, 2013). In addition to providing constraints on the air-sea transfer of 14C, our work provides information on the thermohaline circulation and the ventilation of the deep waters to constrain the degree to which the NEMO-MED12 can reproduce correctly the main hydrographic features of the Mediterranean Sea circulation and its variations estimated from corals 14C time series measurements. This study is part of the work carried out to assess the robustness of the NEMO-MED12 model, which will be used to study the evolution of the climate and its effect on the biogeochemical cycles in the Mediterranean Sea, and to improve our ability to predict the future evolution of the Mediterranean Sea under the increasing anthropogenic pressure.

High sensitivity detectors for measurement of diffusion, emanation and low activity of radon

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

Mamedov, Fadahat; Štekl, Ivan; Smolek, Karel

Today's underground experiments require ultra-low background conditions. One of the most important source of background is radon. It is necessary to suppress it and consequently to detect very low radon concentration. In the frame of SuperNEMO collaboration experimental setups for measurement of low radon activity, radon diffusion through shielding foils and radon emanation from construction materials have been constructed in IEAP CTU in Prague and the obtained results are presented. The application of Timepix device in radon detection is briefly discussed.

Robust and Cost-Efficient Communication Based on SNMP in Mobile Networks

NASA Astrophysics Data System (ADS)

Ryu, Sang-Hoon; Baik, Doo-Kwon

A main challenge in the design of this mobile network is the development of dynamic routing protocols that can efficiently find routes between two communicating nodes. Multimedia streaming services are receiving considerable interest in the mobile network business. An entire mobile network may change its point of attachment to the Internet. The mobile network is operated by a basic specification to support network mobility called Network Mobility (NEMO) Basic Support. However, NEMO basic Support mechanism has some problem in continuous communication. In this paper, we propose robust and cost-efficient algorithm. And we simulate proposed method and conclude some remarks.

Coarsening of physics for biogeochemical model in NEMO

NASA Astrophysics Data System (ADS)

Bricaud, Clement; Le Sommer, Julien; Madec, Gurvan; Deshayes, Julie; Chanut, Jerome; Perruche, Coralie

2017-04-01

Ocean mesoscale and submesoscale turbulence contribute to ocean tracer transport and to shaping ocean biogeochemical tracers distribution. Representing adequately tracer transport in ocean models therefore requires to increase model resolution so that the impact of ocean turbulence is adequately accounted for. But due to supercomputers power and storage limitations, global biogeochemical models are not yet run routinely at eddying resolution. Still, because the "effective resolution" of eddying ocean models is much coarser than the physical model grid resolution, tracer transport can be reconstructed to a large extent by computing tracer transport and diffusion with a model grid resolution close to the effective resolution of the physical model. This observation has motivated the implementation of a new capability in NEMO ocean model (http://www.nemo-ocean.eu/) that allows to run the physical model and the tracer transport model at different grid resolutions. In a first time, we present results obtained with this new capability applied to a synthetic age tracer in a global eddying model configuration. In this model configuration, ocean dynamic is computed at ¼° resolution but tracer transport is computed at 3/4° resolution. The solution obtained is compared to 2 reference setup ,one at ¼° resolution for both physics and passive tracer models and one at 3/4° resolution for both physics and passive tracer model. We discuss possible options for defining the vertical diffusivity coefficient for the tracer transport model based on information from the high resolution grid. We describe the impact of this choice on the distribution and one the penetration of the age tracer. In a second time we present results obtained by coupling the physics with the biogeochemical model PISCES. We look at the impact of this methodology on some tracers distribution and dynamic. The method described here can found applications in ocean forecasting, such as the Copernicus Marine service operated by Mercator-Ocean, and in Earth System Models for climate applications.

R&D for an innovative acoustic positioning system for the KM3NeT neutrino telescope

NASA Astrophysics Data System (ADS)

Ameli, F.; Ardid, M.; Bertin, V.; Bonori, M.; Bou-Cabo, M.; Calì, C.; D'Amico, A.; Giovanetti, G.; Imbesi, M.; Keller, P.; Larosa, G.; Llorens, C. D.; Masullo, R.; Randazzo, N.; Riccobene, G.; Speziale, F.; Viola, S.; KM3NeT Consortium

2011-01-01

An innovative Acoustic Positioning System for the km3-scale neutrino telescope has been designed and is under realization within the KM3NeT Consortium. Compared to the Acoustic Positioning Systems used for the km3 demonstrators, ANTARES and NEMO Phase 1, this new system is based on the “all data to shore” concept and it will permit the enhancement of detector positioning performances, reduction of costs and its use as real-time monitor of environmental acoustic noise.

Loss-of-function mutations in TNFAIP3 leading to A20 haploinsufficiency cause an early onset autoinflammatory syndrome

PubMed Central

Zhou, Qing; Wang, Hongying; Schwartz, Daniella M.; Stoffels, Monique; Park, Yong Hwan; Zhang, Yuan; Yang, Dan; Demirkaya, Erkan; Takeuchi, Masaki; Tsai, Wanxia Li; Lyons, Jonathan J.; Yu, Xiaomin; Ouyang, Claudia; Chen, Celeste; Chin, David T.; Zaal, Kristien; Chandrasekharappa, Settara C.; Hanson, Eric P.; Yu, Zhen; Mullikin, James C.; Hasni, Sarfaraz A.; Wertz, Ingrid; Ombrello, Amanda K.; Stone, Deborah L.; Hoffmann, Patrycja; Jones, Anne; Barham, Beverly K.; Leavis, Helen L.; van Royen-Kerkof, Annet; Sibley, Cailin; Batu, Ezgi D.; Gül, Ahmet; Siegel, Richard M.; Boehm, Manfred; Milner, Joshua D.; Ozen, Seza; Gadina, Massimo; Chae, JaeJin; Laxer, Ronald M.; Kastner, Daniel L.; Aksentijevich, Ivona

2016-01-01

Systemic autoinflammatory diseases are driven by abnormal activation of innate immunity1. Herein we describe a new syndrome caused by high penetrance heterozygous germline mutations in the NFκB regulatory protein TNFAIP3 (A20) in six unrelated families with early onset systemic inflammation. The syndrome resembles Behçet’s disease (BD), which is typically considered a polygenic disorder with onset in early adulthood2. A20 is a potent inhibitor of the NFκB signaling pathway3. TNFAIP3 mutant truncated proteins are likely to act by haploinsufficiency since they do not exert a dominant-negative effect in overexpression experiments. Patients’ cells show increased degradation of IκBα and nuclear translocation of NFκB p65, and increased expression of NFκB-mediated proinflammatory cytokines. A20 restricts NFκB signals via deubiquitinating (DUB) activity. In cells expressing the mutant A20 protein, there is defective removal of K63-linked ubiquitin from TRAF6, NEMO, and RIP1 after TNF stimulation. NFκB-dependent pro-inflammatory cytokines are potential therapeutic targets for these patients. PMID:26642243

Design and first tests of an acoustic positioning and detection system for KM3NeT

NASA Astrophysics Data System (ADS)

Simeone, F.; Ameli, F.; Ardid, M.; Bertin, V.; Bonori, M.; Bou-Cabo, M.; Calì, C.; D'Amico, A.; Giovanetti, G.; Imbesi, M.; Keller, P.; Larosa, G.; Llorens, C. D.; Masullo, R.; Randazzo, N.; Riccobene, G.; Speziale, F.; Viola, S.; KM3NeT Consortium

2012-01-01

In a deep-sea neutrino telescope it is mandatory to locate the position of the optical sensors with a precision of about 10 cm. To achieve this requirement, an innovative Acoustic Positioning System (APS) has been designed in the frame work of the KM3NeT neutrino telescope. The system will also be able to provide an acoustic guide during the deployment of the telescope’s components and seafloor infrastructures (junction boxes, cables, etc.). A prototype of the system based on the successful acoustic systems of ANTARES and NEMO is being developed. It will consist of an array of hydrophones and a network of acoustic transceivers forming the Long Baseline. All sensors are connected to the telescope data acquisition system and are in phase and synchronised with the telescope master clock. Data from the acoustic sensors, continuously sampled at 192 kHz, will be sent to shore where signal recognition and analysis will be carried out. The design and first tests of the system elements will be presented. This new APS is expected to have better precision compared to the systems used in ANTARES and NEMO, and can also be used as a real-time monitor of acoustic sources and environmental noise in deep sea.

Design and Development of nEMoS, an All-in-One, Low-Cost, Web-Connected and 3D-Printed Device for Environmental Analysis

PubMed Central

Salamone, Francesco; Belussi, Lorenzo; Danza, Ludovico; Ghellere, Matteo; Meroni, Italo

2015-01-01

The Indoor Environmental Quality (IEQ) refers to the quality of the environment in relation to the health and well-being of the occupants. It is a holistic concept, which considers several categories, each related to a specific environmental parameter. This article describes a low-cost and open-source hardware architecture able to detect the indoor variables necessary for the IEQ calculation as an alternative to the traditional hardware used for this purpose. The system consists of some sensors and an Arduino board. One of the key strengths of Arduino is the possibility it affords of loading the script into the board’s memory and letting it run without interfacing with computers, thus granting complete independence, portability and accuracy. Recent works have demonstrated that the cost of scientific equipment can be reduced by applying open-source principles to their design using a combination of the Arduino platform and a 3D printer. The evolution of the 3D printer has provided a new means of open design capable of accelerating self-directed development. The proposed nano Environmental Monitoring System (nEMoS) instrument is shown to have good reliability and it provides the foundation for a more critical approach to the use of professional sensors as well as for conceiving new scenarios and potential applications. PMID:26053749

Design and development of nEMoS, an all-in-one, low-cost, web-connected and 3D-printed device for environmental analysis.

PubMed

Salamone, Francesco; Belussi, Lorenzo; Danza, Ludovico; Ghellere, Matteo; Meroni, Italo

2015-06-04

The Indoor Environmental Quality (IEQ) refers to the quality of the environment in relation to the health and well-being of the occupants. It is a holistic concept, which considers several categories, each related to a specific environmental parameter. This article describes a low-cost and open-source hardware architecture able to detect the indoor variables necessary for the IEQ calculation as an alternative to the traditional hardware used for this purpose. The system consists of some sensors and an Arduino board. One of the key strengths of Arduino is the possibility it affords of loading the script into the board's memory and letting it run without interfacing with computers, thus granting complete independence, portability and accuracy. Recent works have demonstrated that the cost of scientific equipment can be reduced by applying open-source principles to their design using a combination of the Arduino platform and a 3D printer. The evolution of the 3D printer has provided a new means of open design capable of accelerating self-directed development. The proposed nano Environmental Monitoring System (nEMoS) instrument is shown to have good reliability and it provides the foundation for a more critical approach to the use of professional sensors as well as for conceiving new scenarios and potential applications.

Minimal Information for Neural Electromagnetic Ontologies (MINEMO): A standards-compliant method for analysis and integration of event-related potentials (ERP) data

PubMed Central

Frishkoff, Gwen; Sydes, Jason; Mueller, Kurt; Frank, Robert; Curran, Tim; Connolly, John; Kilborn, Kerry; Molfese, Dennis; Perfetti, Charles; Malony, Allen

2011-01-01

We present MINEMO (Minimal Information for Neural ElectroMagnetic Ontologies), a checklist for the description of event-related potentials (ERP) studies. MINEMO extends MINI (Minimal Information for Neuroscience Investigations)to the ERP domain. Checklist terms are explicated in NEMO, a formal ontology that is designed to support ERP data sharing and integration. MINEMO is also linked to an ERP database and web application (the NEMO portal). Users upload their data and enter MINEMO information through the portal. The database then stores these entries in RDF (Resource Description Framework), along with summary metrics, i.e., spatial and temporal metadata. Together these spatial, temporal, and functional metadata provide a complete description of ERP data and the context in which these data were acquired. The RDF files then serve as inputs to ontology-based labeling and meta-analysis. Our ultimate goal is to represent ERPs using a rich semantic structure, so results can be queried at multiple levels, to stimulate novel hypotheses and to promote a high-level, integrative account of ERP results across diverse study methods and paradigms. PMID:22180824

Remedying excessive numerical diapycnal mixing in a global 0.25° NEMO configuration

NASA Astrophysics Data System (ADS)

Megann, Alex; Nurser, George; Storkey, Dave

2016-04-01

If numerical ocean models are to simulate faithfully the upwelling branches of the global overturning circulation, they need to have a good representation of the diapycnal mixing processes which contribute to conversion of the bottom and deep waters produced in high latitudes into less dense watermasses. It is known that the default class of depth-coordinate ocean models such as NEMO and MOM5, as used in many state-of-the art coupled climate models and Earth System Models, have excessive numerical diapycnal mixing, resulting from irreversible advection across coordinate surfaces. The GO5.0 configuration of the NEMO ocean model, on an "eddy-permitting" 0.25° global grid, is used in the current UK GC1 and GC2 coupled models. Megann and Nurser (2016) have shown, using the isopycnal watermass analysis of Lee et al (2002), that spurious numerical mixing is substantially larger than the explicit mixing prescribed by the mixing scheme used by the model. It will be shown that increasing the biharmonic viscosity by a factor of three tends to suppress small-scale noise in the vertical velocity in the model. This significantly reduces the numerical mixing in GO5.0, and we shall show that it also leads to large-scale improvements in model biases.

Tuning without over-tuning: parametric uncertainty quantification for the NEMO ocean model

NASA Astrophysics Data System (ADS)

Williamson, Daniel B.; Blaker, Adam T.; Sinha, Bablu

2017-04-01

In this paper we discuss climate model tuning and present an iterative automatic tuning method from the statistical science literature. The method, which we refer to here as iterative refocussing (though also known as history matching), avoids many of the common pitfalls of automatic tuning procedures that are based on optimisation of a cost function, principally the over-tuning of a climate model due to using only partial observations. This avoidance comes by seeking to rule out parameter choices that we are confident could not reproduce the observations, rather than seeking the model that is closest to them (a procedure that risks over-tuning). We comment on the state of climate model tuning and illustrate our approach through three waves of iterative refocussing of the NEMO (Nucleus for European Modelling of the Ocean) ORCA2 global ocean model run at 2° resolution. We show how at certain depths the anomalies of global mean temperature and salinity in a standard configuration of the model exceeds 10 standard deviations away from observations and show the extent to which this can be alleviated by iterative refocussing without compromising model performance spatially. We show how model improvements can be achieved by simultaneously perturbing multiple parameters, and illustrate the potential of using low-resolution ensembles to tune NEMO ORCA configurations at higher resolutions.

Hypohidrotic ectodermal dysplasia, osteopetrosis, lymphedema, and immunodeficiency in an infant with multiple opportunistic infections.

PubMed

Carlberg, Valerie M; Lofgren, Sabra M; Mann, Julianne A; Austin, Jared P; Nolt, Dawn; Shereck, Evan B; Davila-Saldana, Blachy; Zonana, Jonathan; Krol, Alfons L

2014-01-01

Osteopetrosis, lymphedema, hypohidrotic ectodermal dysplasia, and immunodeficiency (OL-HED-ID) is a rare X-linked disorder with only three reported prior cases in the English-language literature. We describe a case of OL-HED-ID in a male infant who initially presented with congenital lymphedema, leukocytosis, and thrombocytopenia of unknown etiology at 7 days of age. He subsequently developed gram-negative sepsis and multiple opportunistic infections including high-level cytomegalovirus viremia and Pneumocystis jiroveci pneumonia. The infant was noted to have mildly xerotic skin, fine sparse hair, and periorbital wrinkling, all features suggestive of ectodermal dysplasia. Skeletal imaging showed findings consistent with osteopetrosis, and immunologic investigation revealed hypogammaglobulinemia and mixed T- and B-cell dysfunction. Genetic testing revealed a novel mutation in the nuclear factor kappa beta (NF-KB) essential modulator (NEMO) gene, confirming the diagnosis of OL-HED-ID. Mutations in the NEMO gene have been reported in association with hypohidrotic ectodermal dysplasia with immunodeficiency (HED-ID), OL-HED-ID, and incontinentia pigmenti. In this case, we report a novel mutation in the NEMO gene associated with OL-HED-ID. This article highlights the dermatologic manifestations of a rare disorder, OL-HED-ID, and underscores the importance of early recognition and prompt intervention to prevent life-threatening infections. © 2013 Wiley Periodicals, Inc.

NBodyLab Simulation Experiments with GRAPE-6a AND MD-GRAPE2 Acceleration

NASA Astrophysics Data System (ADS)

Johnson, V.; Ates, A.

2005-12-01

NbodyLab is an astrophysical N-body simulation testbed for student research. It is accessible via a web interface and runs as a backend framework under Linux. NbodyLab can generate data models or perform star catalog lookups, transform input data sets, perform direct summation gravitational force calculations using a variety of integration schemes, and produce analysis and visualization output products. NEMO (Teuben 1994), a popular stellar dynamics toolbox, is used for some functions. NbodyLab integrators can optionally utilize two types of low-cost desktop supercomputer accelerators, the newly available GRAPE-6a (125 Gflops peak) and the MD-GRAPE2 (64-128 Gflops peak). The initial version of NBodyLab was presented at ADASS 2002. This paper summarizes software enhancements developed subsequently, focusing on GRAPE-6a related enhancements, and gives examples of computational experiments and astrophysical research, including star cluster and solar system studies, that can be conducted with the new testbed functionality.

Evaluation of QoS supported in Network Mobility NEMO environments

NASA Astrophysics Data System (ADS)

Hussien, L. F.; Abdalla, A. H.; Habaebi, M. H.; Khalifa, O. O.; Hassan, W. H.

2013-12-01

Network mobility basic support (NEMO BS) protocol is an entire network, roaming as a unit which changes its point of attachment to the Internet and consequently its reachability in the network topology. NEMO BS doesn't provide QoS guarantees to its users same as traditional Internet IP and Mobile IPv6 as well. Typically, all the users will have same level of services without considering about their application requirements. This poses a problem to real-time applications that required QoS guarantees. To gain more effective control of the network, incorporated QoS is needed. Within QoS-enabled network the traffic flow can be distributed to various priorities. Also, the network bandwidth and resources can be allocated to different applications and users. Internet Engineering Task Force (IETF) working group has proposed several QoS solutions for static network such as IntServ, DiffServ and MPLS. These QoS solutions are designed in the context of a static environment (i.e. fixed hosts and networks). However, they are not fully adapted to mobile environments. They essentially demands to be extended and adjusted to meet up various challenges involved in mobile environments. With existing QoS mechanisms many proposals have been developed to provide QoS for individual mobile nodes (i.e. host mobility). In contrary, research based on the movement of the whole mobile network in IPv6 is still undertaking by the IETF working groups (i.e. network mobility). Few researches have been done in the area of providing QoS for roaming networks. Therefore, this paper aims to review and investigate (previous /and current) related works that have been developed to provide QoS in mobile network. Consequently, a new proposed scheme will be introduced to enhance QoS within NEMO environment, achieving by which seamless mobility to users of mobile network node (MNN).

75 FR 25268 - Submission for OMB Review; Comment Request; REDS-II-Does Pre-Donation Behavioral Deferral...

Federal Register 2010, 2011, 2012, 2013, 2014

2010-05-07

... on sexual behavior deferrals and their impact on blood safety. The two main study aims are: (1) To assess infectious disease marker prevalence in donors who are deferred for higher risk sexual and non.... George Nemo, Project Officer, NHLBI, Two Rockledge Center, Suite 10042, 6701 Rockledge Drive, Bethesda...

Estimating the numerical diapycnal mixing in the GO5.0 ocean model

NASA Astrophysics Data System (ADS)

Megann, Alex; Nurser, George

2014-05-01

Constant-depth (or "z-coordinate") ocean models such as MOM and NEMO have become the de facto workhorse in climate applications, and have attained a mature stage in their development and are well understood. A generic shortcoming of this model type, however, is a tendency for the advection scheme to produce unphysical numerical diapycnal mixing, which in some cases may exceed the explicitly parameterised mixing based on observed physical processes (e.g. Hofmann and Maqueda, 2006), and this is likely to have effects on the long-timescale evolution of the simulated climate system. Despite this, few quantitative estimations have been made of the typical magnitude of the effective diapycnal diffusivity due to numerical mixing in these models. GO5.0 is the latest ocean model configuration developed jointly by the UK Met Office and the National Oceanography Centre (Megann et al, 2013). It uses version 3.4 of the NEMO model, on the ORCA025 global tripolar grid. Two approaches to quantifying the numerical diapycnal mixing in this model are described: the first is based on the isopycnal watermass analysis of Lee et al (2002), while the second uses a passive tracer to diagnose mixing across density surfaces. Results from these two methods will be compared and contrasted. Hofmann, M. and Maqueda, M. A. M., 2006. Performance of a second-order moments advection scheme in an ocean general circulation model. JGR-Oceans, 111(C5). Lee, M.-M., Coward, A.C., Nurser, A.G., 2002. Spurious diapycnal mixing of deep waters in an eddy-permitting global ocean model. JPO 32, 1522-1535 Megann, A., Storkey, D., Aksenov, Y., Alderson, S., Calvert, D., Graham, T., Hyder, P., Siddorn, J., and Sinha, B., 2013: GO5.0: The joint NERC-Met Office NEMO global ocean model for use in coupled and forced applications, Geosci. Model Dev. Discuss., 6, 5747-5799,.

SENP1-mediated NEMO deSUMOylation in adipocytes limits inflammatory responses and type-1 diabetes progression

PubMed Central

Shao, Lan; Zhou, Huanjiao Jenny; Zhang, Haifeng; Qin, Lingfeng; Hwa, John; Yun, Zhong; Ji, Weidong; Min, Wang

2015-01-01

Adipocyte dysfunction correlates with the development of diabetes. Here we show that mice with a adipocyte-specific deletion of the SUMO-specific protease SENP1 gene develop symptoms of type-1 diabetes mellitus (T1DM), including hyperglycaemia and glucose intolerance with mild insulin resistance. Peri-pancreatic adipocytes from SENP1-deficient mice exhibit heightened NF-κB activity and production of proinflammatory cytokines, which induce CCL5 expression in adjacent pancreatic islets and direct cytotoxic effects on pancreatic islets. Mechanistic studies show that SENP1 deletion in adipocytes enhances SUMOylation of the NF-κB essential molecule, NEMO, at lysine 277/309, leading to increased NF-κB activity, cytokine production and pancreatic inflammation. We further show that NF-κB inhibitors could inhibit pre-diabetic cytokine production, β-cell damages and ameliorate the T1DM phenotype in SENP1-deficient mice. Feeding a high-fat diet augments both type-1 and type-2 diabetes phenotypes in SENP1-deficient mice, consistent with the effects on adipocyte-derived NF-κB and cytokine signalling. Our study reveals previously unrecognized mechanism regulating the onset and progression of T1DM associated with adipocyte dysfunction. PMID:26596471

SENP1-mediated NEMO deSUMOylation in adipocytes limits inflammatory responses and type-1 diabetes progression.

PubMed

Shao, Lan; Zhou, Huanjiao Jenny; Zhang, Haifeng; Qin, Lingfeng; Hwa, John; Yun, Zhong; Ji, Weidong; Min, Wang

2015-11-24

Adipocyte dysfunction correlates with the development of diabetes. Here we show that mice with a adipocyte-specific deletion of the SUMO-specific protease SENP1 gene develop symptoms of type-1 diabetes mellitus (T1DM), including hyperglycaemia and glucose intolerance with mild insulin resistance. Peri-pancreatic adipocytes from SENP1-deficient mice exhibit heightened NF-κB activity and production of proinflammatory cytokines, which induce CCL5 expression in adjacent pancreatic islets and direct cytotoxic effects on pancreatic islets. Mechanistic studies show that SENP1 deletion in adipocytes enhances SUMOylation of the NF-κB essential molecule, NEMO, at lysine 277/309, leading to increased NF-κB activity, cytokine production and pancreatic inflammation. We further show that NF-κB inhibitors could inhibit pre-diabetic cytokine production, β-cell damages and ameliorate the T1DM phenotype in SENP1-deficient mice. Feeding a high-fat diet augments both type-1 and type-2 diabetes phenotypes in SENP1-deficient mice, consistent with the effects on adipocyte-derived NF-κB and cytokine signalling. Our study reveals previously unrecognized mechanism regulating the onset and progression of T1DM associated with adipocyte dysfunction.

A Phase I Clinical Trial of Systemically Delivered NEMO Binding Domain Peptide in Dogs with Spontaneous Activated B-Cell like Diffuse Large B-Cell Lymphoma

PubMed Central

Habineza Ndikuyeze, Georges; Gaurnier-Hausser, Anita; Patel, Reema; Baldwin, Albert S.; May, Michael J.; Flood, Patrick; Krick, Erika; Propert, Kathleen J.; Mason, Nicola J.

2014-01-01

Activated B-Cell (ABC) Diffuse Large B-Cell Lymphoma (DLBCL) is a common, aggressive and poorly chemoresponsive subtype of DLBCL, characterized by constitutive canonical NF-κB signaling. Inhibition of NF-κB signaling leads to apoptosis of ABC-DLBCL cell lines, suggesting targeted disruption of this pathway may have therapeutic relevance. The selective IKK inhibitor, NEMO Binding Domain (NBD) peptide effectively blocks constitutive NF-κB activity and induces apoptosis in ABC-DLBCL cells in vitro. Here we used a comparative approach to determine the safety and efficacy of systemic NBD peptide to inhibit constitutive NF-κB signaling in privately owned dogs with spontaneous newly diagnosed or relapsed ABC-like DLBCL. Malignant lymph nodes biopsies were taken before and twenty-four hours after peptide administration to determine biological effects. Intravenous administration of <2 mg/kg NBD peptide was safe and inhibited constitutive canonical NF-κB activity in 6/10 dogs. Reductions in mitotic index and Cyclin D expression also occurred in a subset of dogs 24 hours post peptide and in 3 dogs marked, therapeutically beneficial histopathological changes were identified. Mild, grade 1 toxicities were noted in 3 dogs at the time of peptide administration and one dog developed transient subclinical hepatopathy. Long term toxicities were not identified. Pharmacokinetic data suggested rapid uptake of peptide into tissues. No significant hematological or biochemical toxicities were identified. Overall the results from this phase I study indicate that systemic administration of NBD peptide is safe and effectively blocks constitutive NF-κB signaling and reduces malignant B cell proliferation in a subset of dogs with ABC-like DLBCL. These results have potential translational relevance for human ABC-DLBCL. PMID:24798348

NEMO-Binding Domain Peptide Attenuates Lipopolysaccharide-Induced Acute Lung Injury by Inhibiting the NF-κB Signaling Pathway

PubMed Central

Huang, Jianhua; Li, Li; Yuan, Weifeng; Zheng, Linxin

2016-01-01

The aim of the present study is to investigate the protective effects and relevant mechanisms exerted by NEMO-binding domain peptide (NBD) against lipopolysaccharide- (LPS-) induced acute lung injury (ALI) in mice. The ALI model was induced by intratracheally administered atomized LPS (5 mg/kg) to BABL/c mice. Half an hour before LPS administration, we treated the mice with increasing concentrations of intratracheally administered NBD or saline aerosol. Two hours after LPS administration, each group of mice was sacrificed. We observed that NBD pretreatment significantly attenuated LPS-induced lung histopathological injury in a dose-dependent manner. Western blotting established that NBD pretreatment obviously attenuated LPS-induced IκB-α and NF-κBp65 activation and NOX1, NOX2, and NOX4 overexpression. Furthermore, NBD pretreatment increased SOD and T-AOC activity and decreased MDA levels in lung tissue. In addition, NBD also inhibited TNF-α and IL-1β secretion in BALF after LPS challenge. In conclusion, NBD protects against LPS-induced ALI in mice. PMID:27956761

Icing Characteristics of Low Altitude, Supercooled Layer Clouds. Revision

DTIC Science & Technology

1980-05-01

Droplet Size Distribution 5. Icing Rate Meters C. Accuracy and Sources of Error in the Measurements from the Period 1944-1950 11 1. Rotating...whether currently available LWC meters and icing rate detectors will give re- liable results when flown on helicopters. Concerning the forecasting...Max Dia. Size Distrib. Meter Samples 4 1944 MSP DP -- Al .... 4 6 1946 OR 2,4RC 2,4RHC Al 4RMC -- 3 7 1946-47 NEMO, 4RMC 4RMC AI 4RMC - 31 TN,OH, IN

Correcting Biases in a lower resolution global circulation model with data assimilation

NASA Astrophysics Data System (ADS)

Canter, Martin; Barth, Alexander

2016-04-01

With this work, we aim at developping a new method of bias correction using data assimilation. This method is based on the stochastic forcing of a model to correct bias. First, through a preliminary run, we estimate the bias of the model and its possible sources. Then, we establish a forcing term which is directly added inside the model's equations. We create an ensemble of runs and consider the forcing term as a control variable during the assimilation of observations. We then use this analysed forcing term to correct the bias of the model. Since the forcing is added inside the model, it acts as a source term, unlike external forcings such as wind. This procedure has been developed and successfully tested with a twin experiment on a Lorenz 95 model. It is currently being applied and tested on the sea ice ocean NEMO LIM model, which is used in the PredAntar project. NEMO LIM is a global and low resolution (2 degrees) coupled model (hydrodynamic model and sea ice model) with long time steps allowing simulations over several decades. Due to its low resolution, the model is subject to bias in area where strong currents are present. We aim at correcting this bias by using perturbed current fields from higher resolution models and randomly generated perturbations. The random perturbations need to be constrained in order to respect the physical properties of the ocean, and not create unwanted phenomena. To construct those random perturbations, we first create a random field with the Diva tool (Data-Interpolating Variational Analysis). Using a cost function, this tool penalizes abrupt variations in the field, while using a custom correlation length. It also decouples disconnected areas based on topography. Then, we filter the field to smoothen it and remove small scale variations. We use this field as a random stream function, and take its derivatives to get zonal and meridional velocity fields. We also constrain the stream function along the coasts in order not to have currents perpendicular to the coast. The randomly generated stochastic forcing are then directly injected into the NEMO LIM model's equations in order to force the model at each timestep, and not only during the assimilation step. Results from a twin experiment will be presented. This method is being applied to a real case, with observations on the sea surface height available from the mean dynamic topography of CNES (Centre national d'études spatiales). The model, the bias correction, and more extensive forcings, in particular with a three dimensional structure and a time-varying component, will also be presented.

Fighting Nemo: Effect of 17α-ethinylestradiol (EE2) on aggressive behavior and social hierarchy of the false clown anemonefish Amphiprion ocellaris.

PubMed

Chen, Te-Hao; Hsieh, Chun-Yu

2017-11-30

Aggressive behavior is crucial for maintaining social hierarchy in anemonefish. Endocrine disrupting chemicals such as EE2 may affect fish social hierarchy via disrupting their aggression. In this study, we aimed to characterize the effects of 17α-ethinylestradiol (EE2) on aggressive behavior and social hierarchy in the false clown anemonefish (Amphiprion ocellaris). In the laboratory experiment, juvenile anemonefish were randomly distributed to separated tanks to form small colonies of three individuals and were fed with EE2-dosed diet (100ng/g food) or a control diet for 90d. Through the experiment, each tank was videotaped and behavioral indicators of social status, including aggressive behavior, submissive response, and shelter utilization, were quantitatively analyzed from the videos. The EE2 exposure caused a higher frequency of intra-colonial aggressive interactions and a less stable social hierarchy. Our findings demonstrate the importance of examining the effects of endocrine disrupting chemicals on the social behavior of coral reef fish. Copyright © 2016 Elsevier Ltd. All rights reserved.

Analysis of twitter users' sharing of official new york storm response messages.

PubMed

Genes, Nicholas; Chary, Michael; Chason, Kevin

2014-01-01

Twitter is a social network where users read, send, and share snippets of text ("tweets"). Tweets can be disseminated through multiple means; on desktop computers, laptops, and mobile devices, over ethernet, Wi-Fi or cellular networks. This redundancy positions Twitter as a useful tool for disseminating information to the public during emergencies or disasters. Previous research on dissemination of information using Twitter has mostly investigated the characteristics of tweets that are most effective in raising consumer awareness about a new product or event. In particular, they describe characteristics that increase the chance the messages will be shared ("retweeted") by users. In comparison, little has been published on how information from municipal or state government agencies spreads on Twitter during emergency situations. Retweeting these messages is a way to enhance public awareness of potentially important instructions from public officials in a disaster. The aim of this study is to (1) describe the tweets of select New York State and New York City agencies by public officials surrounding two notable recent winter storms that required a large-scale emergency response, and (2) identify the characteristics of the tweets of public officials that were most disseminated (retweeted). For one week surrounding Superstorm Sandy (October 2012) and the winter blizzard Nemo (February 2013), we collected (1) tweets from the official accounts for six New York governmental agencies, and (2) all tweets containing the hashtags #sandy (or #nemo) and #nyc. From these data we calculated how many times a tweet was retweeted, controlling for differences in baseline activity in each account. We observed how many hashtags and links each tweet contained. We also calculated the lexical diversity of each tweet, a measure of the range of vocabulary used. During the Sandy storm, 3242 shared (retweeted) messages from public officials were collected. The lexical diversity of official tweets was similar (2.25-2.49) and well below the average for non-official tweets mentioning #sandy and #nyc (3.82). Most official tweets were with substantial retweets including a link for further reading. Of the 448 tweets analyzed from six official city and state Twitter accounts from the Nemo blizzard, 271 were related to the storm, and 174 had actionable information for the public. Actionable storm messages were retweeted approximately 24x per message, compared to 31x per message for general storm information. During two weather emergencies, New York public officials were able to convey storm-related information that was shared widely beyond existing follower bases, potentially improving situational awareness and disaster response. Official Sandy tweets, characterized by a lower lexical diversity score than other city- and Sandy-related tweets, were likely easier to understand, and often linked to further information and resources. Actionable information in the Nemo blizzard, such as specific instructions and cancellation notices, was not shared as often as more general warnings and "fun facts," suggesting agencies mix important instructions with more general news and trivia, as a way of reaching the broadest audience during a disaster.

KM3NeT tower data acquisition and data transport electronics

NASA Astrophysics Data System (ADS)

Nicolau, C. A.; Ameli, F.; Biagioni, A.; Capone, A.; Frezza, O.; Lonardo, A.; Masullo, R.; Mollo, C. M.; Orlando, A.; Simeone, F.; Vicini, P.

2016-04-01

In the framework of the KM3Net European project, the production stage of a large volume underwater neutrino telescope has started. The forthcoming installation includes 8 towers and 24 strings, that will be installed 100 km off-shore Capo Passero (Italy) at 3500 m depth. The KM3NeT tower, whose layout is strongly based on the NEMO Phase-2 prototype tower deployed in March 2013, has been re-engineered and partially re-designed in order to optimize production costs, power consumption, and usability. This contribution gives a description of the main electronics, including front-end, data transport and clock distribution system, of the KM3NeT tower detection unit.

Background noise levels and correlation with ship traffic in the Gulf of Catania

NASA Astrophysics Data System (ADS)

Viola, Salvatore; Buscaino, Giuseppa; Caruso, Francesco; Chierici, Francesco; Embriaco, Davide; Favali, Paolo; Giovanetti, Gabriele; Grammauta, Roasario; Larosa, Giuseppina; Pavan, Gianni; Pellegrino, Carmelo; Pulvirenti, Sara; Riccobene, Giorgio; Sciacca, Virginia; Simeone, Francesco; Beranzoli, Laura; Marinaro, Giuditta

2015-04-01

In the last decades the growing interest in the evaluation of the underwater acoustic noise for studies in the fields of geology, biology and high-energy physics is driving the scientific community to collaborate towards a multidisciplinary approach to the topic. In June 2012 in the framework of the European project EMSO, a multidisciplinary underwater observatory, named NEMO-SN1, was installed 25 km off-shore the port of Catania, at a depth of 2100 m and operated until May 2013 by INFN (Istituto Nazionale di Fisica Nucleare) and INGV (Istituto Nazionale di Geofisica e Vulcanologia). NEMO-SN1 hosted aboard geophysical, oceanographic and acoustic sensors: among these a seismic hydrophone model SMID DT-405D(V). In this work, conducted within the activity of the SMO project, the results on the evaluation of the underwater acoustic pollution in the Gulf of Catania through SMID DT-405D(V) recordings are presented. The seismic hydrophone provided a data set of about 11 months of continuous (24/7) recordings. Underwater sounds have been continuously digitized at a sampling frequency of 2 kHz and the acquired data have been stored in 10min long files for off-line analysis. To describe one-year background noise levels, the mean integrated acoustic noise was measured every second (sampling frequency 2000, NFFT 2048) in the 1/3 octave bands with centre frequency 63 Hz and for each 10 minutes-long file the 5th, the 50th and the 98th percentiles were calculated. Measured noise was correlated with the shipping traffic in the area, thanks to the data provided by an AIS receiver installed at the INFN-Laboratori Nazionali del Sud. An acoustic noise increment was measured in coincidence with the passing of crafts in the area and it was possible to identify the characteristic spectrum of each ship. A simple model for the estimation of the acoustic noise induced by the ships passing through the area was developed. The model was applied by using AIS data acquired during the operation of the NEMO-SN1 and the results of the model were compared with the experimental acoustic data. This approach paves the way for further studies on the acoustic identification of the ships producing high noise levels to find solutions to mitigate the underwater acoustic pollution. Further studies on the whole water column are foreseen, taking advantage of the data provided by the acoustic antennas that are going to be installed between 3500 m and 3000 m water depth, off-shore Portopalo di Capo Passero, in South-East Sicily.

Response of water temperature to surface wave effects in the Baltic Sea: simulations with the coupled NEMO-WAM model

NASA Astrophysics Data System (ADS)

Alari, Victor; Staneva, Joanna; Breivik, Øyvind; Bidlot, Jean-Raymond; Mogensen, Kristian; Janssen, Peter

2016-04-01

The effects of wind waves on the Baltic Sea water temperature has been studied by coupling the hydrodynamical model NEMO with the wave model WAM. The wave forcing terms that have been taken into consideration are: Stokes-Coriolis force, seastate dependent energy flux and sea-state dependent momentum flux. The combined role of these processes as well as their individual contributions on simulated temperature is analysed. The results indicate a pronounced effect of waves on surface temperature, on the distribution of vertical temperature and on upwellinǵs. In northern parts of the Baltic Sea a warming of the surface layer occurs in the wave included simulations. This in turn reduces the cold bias between simulated and measured data. The warming is primarily caused by sea-state dependent energy flux. Wave induced cooling is mostly observed in near coastal areas and is mainly due to Stokes-Coriolis forcing. The latter triggers effect of intensifying upwellings near the coasts, depending on the direction of the wind. The effect of sea-state dependent momentum flux is predominantly to warm the surface layer. During the summer the wave induced water temperature changes were up to 1 °C.

Cyclone: java-based querying and computing with Pathway/Genome databases.

PubMed

Le Fèvre, François; Smidtas, Serge; Schächter, Vincent

2007-05-15

Cyclone aims at facilitating the use of BioCyc, a collection of Pathway/Genome Databases (PGDBs). Cyclone provides a fully extensible Java Object API to analyze and visualize these data. Cyclone can read and write PGDBs, and can write its own data in the CycloneML format. This format is automatically generated from the BioCyc ontology by Cyclone itself, ensuring continued compatibility. Cyclone objects can also be stored in a relational database CycloneDB. Queries can be written in SQL, and in an intuitive and concise object-oriented query language, Hibernate Query Language (HQL). In addition, Cyclone interfaces easily with Java software including the Eclipse IDE for HQL edition, the Jung API for graph algorithms or Cytoscape for graph visualization. Cyclone is freely available under an open source license at: http://sourceforge.net/projects/nemo-cyclone. For download and installation instructions, tutorials, use cases and examples, see http://nemo-cyclone.sourceforge.net.

The development of an advanced vertical discretisation scheme for a regional ocean model

NASA Astrophysics Data System (ADS)

Bruciaferri, Diego; Shapiro, Georgy; Wobus, Fred

2017-04-01

When designing an ocean model, the choice of the vertical coordinate system must be pursued very carefully (Griffies et al., 2000); especially in those regional areas where local multi-scale processes interact with large-scale oceanographic features. Three main vertical coordinates are usually used in ocean modelling, namely the geopotential, terrain-following and isopycnic, but each one presents its own limitations and strengths. In the last decades, much research has been spent to investigate and develop hybrid approaches able to combine the advantages of each vertical coordinate system but minimising their disadvantages. Here we propose the hybrid s-s-z vertical discretisation scheme, an advanced version of the approach used by Shapiro et al. (2013). In our new scheme, the vertical domain is divided into three zones: in the upper and middle zones use s-coordinates while the deeper zone uses z-levels. The s-s-z vertical grid is introduced into the NEMO (Nucleus for European Modelling of the Ocean) model code and we compare the model skill of our new vertical discretisation scheme with the NEMO vertical grid using z-levels with partial steps through a set of idealized numerical experiments for which analytical solutions or theoretical models exist. Modelling results demonstrate that the magnitude of spurious currents arising from the horizontal pressure gradient errors are of the same order (10 ^ -3 m/s ) both with z-partial steps or with s-s-z vertical grids for the conditions favourable for the geopotential grids ( horizontal initial density levels). For a number of more realistic conditions representing a general cyclonic circulation in the sea, the new discretisation scheme produces smaller spurious currents and hence is more accurate than the z-level approach. Moreover, the enhanced capability of the s-s-z scheme to reproduce dense water cascades as compared to the z-partial steps grid is shown. Finally, we show how the new s-s-z grid can be useful to improve lateral sub-grid-physics parametrisation in ocean model with s-levels. References: Griffies, S. M., Boning, C., Bryan, F. O., Chassignet, E. P., Gerdes, R., Hasumi, H., Hirst, A., Treguier, A.-M., and Webb, D., 2000. Developments in Ocean Climate Modelling, Ocean Modelling, 2, 123-192. Shapiro, G., Luneva, M., Pickering, J., and Storkey, D.: The effect of various vertical discretisation schemes and horizontal diffusion parameterisation on the performance of a 3-D ocean model: the Black Sea case study, Ocean Sci., 9, 377-390, doi:10.5194/os-9-377-2013, 2013.

Loss-of-function mutations in TNFAIP3 leading to A20 haploinsufficiency cause an early-onset autoinflammatory disease.

PubMed

Zhou, Qing; Wang, Hongying; Schwartz, Daniella M; Stoffels, Monique; Park, Yong Hwan; Zhang, Yuan; Yang, Dan; Demirkaya, Erkan; Takeuchi, Masaki; Tsai, Wanxia Li; Lyons, Jonathan J; Yu, Xiaomin; Ouyang, Claudia; Chen, Celeste; Chin, David T; Zaal, Kristien; Chandrasekharappa, Settara C; P Hanson, Eric; Yu, Zhen; Mullikin, James C; Hasni, Sarfaraz A; Wertz, Ingrid E; Ombrello, Amanda K; Stone, Deborah L; Hoffmann, Patrycja; Jones, Anne; Barham, Beverly K; Leavis, Helen L; van Royen-Kerkof, Annet; Sibley, Cailin; Batu, Ezgi D; Gül, Ahmet; Siegel, Richard M; Boehm, Manfred; Milner, Joshua D; Ozen, Seza; Gadina, Massimo; Chae, JaeJin; Laxer, Ronald M; Kastner, Daniel L; Aksentijevich, Ivona

2016-01-01

Systemic autoinflammatory diseases are driven by abnormal activation of innate immunity. Herein we describe a new disease caused by high-penetrance heterozygous germline mutations in TNFAIP3, which encodes the NF-κB regulatory protein A20, in six unrelated families with early-onset systemic inflammation. The disorder resembles Behçet's disease, which is typically considered a polygenic disorder with onset in early adulthood. A20 is a potent inhibitor of the NF-κB signaling pathway. Mutant, truncated A20 proteins are likely to act through haploinsufficiency because they do not exert a dominant-negative effect in overexpression experiments. Patient-derived cells show increased degradation of IκBα and nuclear translocation of the NF-κB p65 subunit together with increased expression of NF-κB-mediated proinflammatory cytokines. A20 restricts NF-κB signals via its deubiquitinase activity. In cells expressing mutant A20 protein, there is defective removal of Lys63-linked ubiquitin from TRAF6, NEMO and RIP1 after stimulation with tumor necrosis factor (TNF). NF-κB-dependent proinflammatory cytokines are potential therapeutic targets for the patients with this disease.

The E3 ubiquitin ligase mind bomb-2 (MIB2) protein controls B-cell CLL/lymphoma 10 (BCL10)-dependent NF-κB activation.

PubMed

Stempin, Cinthia C; Chi, Liying; Giraldo-Vela, Juan P; High, Anthony A; Häcker, Hans; Redecke, Vanessa

2011-10-28

B-cell CLL/lymphoma 10 (BCL10) is crucial for the activation of NF-κB in numerous immune receptor signaling pathways, including the T-cell receptor (TCR) and B-cell receptor signaling pathways. However, the molecular mechanisms that lead to signal transduction from BCL10 to downstream NF-κB effector kinases, such as TAK1 and components of the IKK complex, are not entirely understood. Here we used a proteomic approach and identified the E3 ligase MIB2 as a novel component of the activated BCL10 complex. In vitro translation and pulldown assays suggest direct interaction between BCL10 and MIB2. Overexpression experiments show that MIB2 controls BCL10-mediated activation of NF-κB by promoting autoubiquitination and ubiquitination of IKKγ/NEMO, as well as recruitment and activation of TAK1. Knockdown of MIB2 inhibited BCL10-dependent NF-κB activation. Together, our results identify MIB2 as a novel component of the activated BCL10 signaling complex and a missing link in the BCL10-dependent NF-κB signaling pathway.

The Nanoelectric Modeling Tool (NEMO) and Its Expansion to High Performance Parallel Computing

NASA Technical Reports Server (NTRS)

Klimeck, G.; Bowen, C.; Boykin, T.; Oyafuso, F.; Salazar-Lazaro, C.; Stoica, A.; Cwik, T.

1998-01-01

Material variations on an atomic scale enable the quantum mechanical functionality of devices such as resonant tunneling diodes (RTDs), quantum well infrared photodetectors (QWIPs), quantum well lasers, and heterostructure field effect transistors (HFETs).

Estimating the Numerical Diapycnal Mixing in the GO5.0 Ocean Model

NASA Astrophysics Data System (ADS)

Megann, A.; Nurser, G.

2014-12-01

Constant-depth (or "z-coordinate") ocean models such as MOM4 and NEMO have become the de facto workhorse in climate applications, and have attained a mature stage in their development and are well understood. A generic shortcoming of this model type, however, is a tendency for the advection scheme to produce unphysical numerical diapycnal mixing, which in some cases may exceed the explicitly parameterised mixing based on observed physical processes, and this is likely to have effects on the long-timescale evolution of the simulated climate system. Despite this, few quantitative estimations have been made of the magnitude of the effective diapycnal diffusivity due to numerical mixing in these models. GO5.0 is the latest ocean model configuration developed jointly by the UK Met Office and the National Oceanography Centre (Megann et al, 2014), and forms part of the GC1 and GC2 climate models. It uses version 3.4 of the NEMO model, on the ORCA025 ¼° global tripolar grid. We describe various approaches to quantifying the numerical diapycnal mixing in this model, and present results from analysis of the GO5.0 model based on the isopycnal watermass analysis of Lee et al (2002) that indicate that numerical mixing does indeed form a significant component of the watermass transformation in the ocean interior.

Hepatic tissue environment in NEMO-deficient mice critically regulates positive selection of donor cells after hepatocyte transplantation.

PubMed

Kaldenbach, Michaela; Cubero, Francisco Javier; Erschfeld, Stephanie; Liedtke, Christian; Trautwein, Christian; Streetz, Konrad

2014-01-01

Hepatocyte transplantation (HT) is a promising alternative treatment strategy for end-stage liver diseases compared with orthotopic liver transplantation. A limitation for this approach is the low engraftment of donor cells. The deletion of the I-kappa B kinase-regulatory subunit IKKγ/NEMO in hepatocytes prevents nuclear factor (NF)-kB activation and triggers spontaneous liver apoptosis, chronic hepatitis and the development of liver fibrosis and hepatocellular carcinoma. We hypothesized that NEMOΔhepa mice may therefore serve as an experimental model to study HT. Pre-conditioned NEMOΔhepa mice were transplanted with donor-hepatocytes from wildtype (WT) and mice deficient for the pro-apoptotic mediator Caspase-8 (Casp8Δhepa). Transplantation of isolated WT-hepatocytes into pre-conditioned NEMOΔhepa mice resulted in a 6-7 fold increase of donor cells 12 weeks after HT, while WT-recipients showed no liver repopulation. The use of apoptosis-resistant Casp8Δhepa-derived donor cells further enhanced the selection 3-fold after 12-weeks and up to 10-fold increase after 52 weeks compared with WT donors. While analysis of NEMOΔhepa mice revealed strong liver injury, HT-recipient NEMOΔhepa mice showed improved liver morphology and decrease in serum transaminases. Concomitant with these findings, the histological examination elicited an improved liver tissue architecture associated with significantly lower levels of apoptosis, decreased proliferation and a lesser amount of liver fibrogenesis. Altogether, our data clearly support the therapeutic benefit of the HT procedure into NEMOΔhepa mice. This study demonstrates the feasibility of the NEMOΔhepa mouse as an in vivo tool to study liver repopulation after HT. The improvement of the characteristic phenotype of chronic liver injury in NEMOΔhepa mice after HT suggests the therapeutic potential of HT in liver diseases with a chronic inflammatory phenotype and opens a new door for the applicability of this technique to combat liver disease in the human clinic.

Hepatic Tissue Environment in NEMO-Deficient Mice Critically Regulates Positive Selection of Donor Cells after Hepatocyte Transplantation

PubMed Central

Kaldenbach, Michaela; Cubero, Francisco Javier; Erschfeld, Stephanie; Liedtke, Christian; Trautwein, Christian; Streetz, Konrad

2014-01-01

Background Hepatocyte transplantation (HT) is a promising alternative treatment strategy for end-stage liver diseases compared with orthotopic liver transplantation. A limitation for this approach is the low engraftment of donor cells. The deletion of the I-kappa B kinase-regulatory subunit IKKγ/NEMO in hepatocytes prevents nuclear factor (NF)-kB activation and triggers spontaneous liver apoptosis, chronic hepatitis and the development of liver fibrosis and hepatocellular carcinoma. We hypothesized that NEMOΔhepa mice may therefore serve as an experimental model to study HT. Methods Pre-conditioned NEMOΔhepa mice were transplanted with donor-hepatocytes from wildtype (WT) and mice deficient for the pro-apoptotic mediator Caspase-8 (Casp8Δhepa). Results Transplantation of isolated WT-hepatocytes into pre-conditioned NEMOΔhepa mice resulted in a 6-7 fold increase of donor cells 12 weeks after HT, while WT-recipients showed no liver repopulation. The use of apoptosis-resistant Casp8Δhepa-derived donor cells further enhanced the selection 3-fold after 12-weeks and up to 10-fold increase after 52 weeks compared with WT donors. While analysis of NEMOΔhepa mice revealed strong liver injury, HT-recipient NEMOΔhepa mice showed improved liver morphology and decrease in serum transaminases. Concomitant with these findings, the histological examination elicited an improved liver tissue architecture associated with significantly lower levels of apoptosis, decreased proliferation and a lesser amount of liver fibrogenesis. Altogether, our data clearly support the therapeutic benefit of the HT procedure into NEMOΔhepa mice. Conclusion This study demonstrates the feasibility of the NEMOΔhepa mouse as an in vivo tool to study liver repopulation after HT. The improvement of the characteristic phenotype of chronic liver injury in NEMOΔhepa mice after HT suggests the therapeutic potential of HT in liver diseases with a chronic inflammatory phenotype and opens a new door for the applicability of this technique to combat liver disease in the human clinic. PMID:24979756

NEMO: Extraction and normalization of organization names from PubMed affiliations.

PubMed

Jonnalagadda, Siddhartha Reddy; Topham, Philip

2010-10-04

Today, there are more than 18 million articles related to biomedical research indexed in MEDLINE, and information derived from them could be used effectively to save the great amount of time and resources spent by government agencies in understanding the scientific landscape, including key opinion leaders and centers of excellence. Associating biomedical articles with organization names could significantly benefit the pharmaceutical marketing industry, health care funding agencies and public health officials and be useful for other scientists in normalizing author names, automatically creating citations, indexing articles and identifying potential resources or collaborators. Large amount of extracted information helps in disambiguating organization names using machine-learning algorithms. We propose NEMO, a system for extracting organization names in the affiliation and normalizing them to a canonical organization name. Our parsing process involves multi-layered rule matching with multiple dictionaries. The system achieves more than 98% f-score in extracting organization names. Our process of normalization that involves clustering based on local sequence alignment metrics and local learning based on finding connected components. A high precision was also observed in normalization. NEMO is the missing link in associating each biomedical paper and its authors to an organization name in its canonical form and the Geopolitical location of the organization. This research could potentially help in analyzing large social networks of organizations for landscaping a particular topic, improving performance of author disambiguation, adding weak links in the co-author network of authors, augmenting NLM's MARS system for correcting errors in OCR output of affiliation field, and automatically indexing the PubMed citations with the normalized organization name and country. Our system is available as a graphical user interface available for download along with this paper.

2013 Mt. Etna Pyroclastic Activity through the ADCP Recordings of NEMO-SN1 Multidisciplinary Seafloor Observatory

NASA Astrophysics Data System (ADS)

Lo Bue, N.; Sgroi, T.; Giovinetti, G.; Marinaro, G.; Favali, P.

2014-12-01

The Acoustic Doppler Current Profiler (ADCP) is one of the most useful sensor used to measure speed and direction of sea currents in the water column. More often ADCPs are being also used to monitor concentration of suspended matter in rivers or in marine environments by the analysis of the acoustic backscatter intensity. In the framework of the European Research Infrastructure EMSO (European Multidisciplinary Seafloor and water-column Observatory, www.emso-eu.org), its cabled node, the NEMO-SN1 multidisciplinary seafloor observatory, was deployed in the Western Ionian Sea (Southern Italy) at a depth of 2100 m, about 25 km off-shore Eastern Sicily close to the submarine slope of the Mt. Etna volcano. Starting from February 2013, the Mt. Etna was interested by thirteen different parossistic events producing intense eruption followed by pyroclastic fallout that reached distances of tens kilometres from the eruptive centre. Four of these events affected the ESE sector with a consequent fallout in the Western Ionian Sea and they were detected by NEMO-SN1. In fact, its scientific payload also included an ADCP (RDI WorkHorse 600 kHz) with the main aim to monitor the hydrodynamic conditions of about 30 metres of the water column above the station. Surprisingly, this sensor offered spectacular recordings of the Mt. Etna pyroclastic activity occurred on 2013 wich affected the ESE sector. This work aims to present new records of pyroclastic fallout associated to explosive events observed at sea bottom by the analysis of backscatter signal of the ADCP. A multidisciplinary approach taking into account the Mt. Etna eruptive activity as well as the local oceanographic dynamic is necessary to describe marine processes involved in volcanic ash sedimentation.

Systemic delivery of NEMO binding domain/IKKγ inhibitory peptide to young mdx mice improves dystrophic skeletal muscle histopathology.

PubMed

Reay, Daniel P; Yang, Michele; Watchko, Jon F; Daood, Molly; O'Day, Terrence L; Rehman, Khaleel K; Guttridge, Denis C; Robbins, Paul D; Clemens, Paula R

2011-09-01

The activation of nuclear factor κB (NF-κB) contributes to muscle degeneration that results from dystrophin deficiency in human Duchenne muscular dystrophy (DMD) and in the mdx mouse. In dystrophic muscle, NF-κB participates in inflammation and failure of muscle regeneration. Peptides containing the NF-κB Essential Modulator (NEMO) binding domain (NBD) disrupt the IκB kinase complex, thus blocking NF-κB activation. The NBD peptide, which is linked to a protein transduction domain to achieve in vivo peptide delivery to muscle tissue, was systemically delivered to mdx mice for 4 or 7 weeks to study NF-κB activation, histological changes in hind limb and diaphragm muscle and ex vivo function of diaphragm muscle. Decreased NF-κB activation, decreased necrosis and increased regeneration were observed in hind limb and diaphragm muscle in mdx mice treated systemically with NBD peptide, as compared to control mdx mice. NBD peptide treatment resulted in improved generation of specific force and greater resistance to lengthening activations in diaphragm muscle ex vivo. Together these data support the potential of NBD peptides for the treatment of DMD by modulating dystrophic pathways in muscle that are downstream of dystrophin deficiency. Published by Elsevier Inc.

First results from the NEMO Test Site

NASA Astrophysics Data System (ADS)

Riccobene, Giorgio; NEMO Collaboration

2007-03-01

The NEMO (NEutrino Mediterranean Observatory) Collaboration is constructing, 25 km E from Catania (Sicily) at 2000 m depth, an underwater test site to perform long-term tests of prototypes and new technologies for an underwater high energy neutrino detector in the Mediterranean Sea. In this framework the collaboration deployed and operated an experimental apparatus for on-line monitoring of deep-sea noise. The station is equipped with 4 hydrophones operational in the range 30 Hz - 40 kHz. This interval of frequencies matches the range suitable for acoustic detection of high energy neutrino-induced showers in water. Hydrophone signals are digitized underwater at 96 kHz sampling frequency and 24 bits resolution. A custom software was developed to record data on high resolution 4-channels PCM .le. Data are used to model underwater acoustic noise as a function of frequency and time, a mandatory parametre for future acoustic neutrino detectors. Results indicate that the average noise in the site is compatible with noise produced in condition of sea surface agitation (sea state.)

Transport and storage of anthropogenic C across the Greenland-Portugal OVIDE section: Observations vs NEMO-PISCES

NASA Astrophysics Data System (ADS)

Gehlen, M.; Racapé, V.; Zunino, P.; Lherminier, P.; Bopp, L.; Mercier, H.

2016-02-01

Authors: Racapé V., Zunino P., Lherminier P., Bopp L., Mercier, H. and Gehlen M. At present, the ocean takes up approximately one-third of total anthropogenic carbon dioxide emissions. The North Atlantic Ocean is a major sink region for anthropogenic carbon (CANT) and a major contributor to its storage and transport. While evidence is growing that storage and transport are variable on interannual to decadal timescales, their evolution in recent decades and in the future remains uncertain. The variability is thought to be controlled in large part by the intensity of the meridional overturning circulation (MOC), which is suggested to slow down over the 21st century. This study aims to investigate the relationship between CANT transport across the Greenland-Portugal OVIDE section and Cant storage in the North Atlantic basin, as well as their combined evolution over the past 40 years. It relies on the combination of a pluriannual data set and output from the global biogeochemical ocean general circulation model NEMO/PISCES at 1/2° spatial resolution forced by the atmospheric reanalysis DFS4.2. Based on an observation-model comparison, the CANT advective transport is largely underestimated by the model (5 times) compared to the data-based estimate. However, the vertical gradient of CANT in the water column is well reproduced by NEMO/PISCES, supporting the use of a novel indicator computed by Zunino et al. (2014) to express the variability of CANT transport (T°CANT). Following the approach by Zunino et al. (2014), the estimator, T°CANT, was first derived in the model from MOCσ and DELTA-CANT (the vertical gradient of CANT between the upper and the lower branch of MOCσ) averaged over the month of June. Next, the representativity of T°CANT derived from a single sampling event per year was evaluated against estimates computed from annual mean values of MOCσ and DELTA-CANT. After evaluation of the model skill over the period covered by observations, the model is used to extrapolate backward and forward in time. Here the approach was applied to the analyses of the interannual variability of CANT transport and storage over the past 40 years.

Binimetinib versus dacarbazine in patients with advanced NRAS-mutant melanoma (NEMO): a multicentre, open-label, randomised, phase 3 trial.

PubMed

Dummer, Reinhard; Schadendorf, Dirk; Ascierto, Paolo A; Arance, Ana; Dutriaux, Caroline; Di Giacomo, Anna Maria; Rutkowski, Piotr; Del Vecchio, Michele; Gutzmer, Ralf; Mandala, Mario; Thomas, Luc; Demidov, Lev; Garbe, Claus; Hogg, David; Liszkay, Gabriella; Queirolo, Paola; Wasserman, Ernesto; Ford, James; Weill, Marine; Sirulnik, L Andres; Jehl, Valentine; Bozón, Viviana; Long, Georgina V; Flaherty, Keith

2017-04-01

There are no established therapies specific for NRAS-mutant melanoma despite the emergence of immunotherapy. We aimed to assess the efficacy and safety of the MEK inhibitor binimetinib versus that of dacarbazine in patients with advanced NRAS-mutant melanoma. NEMO is an ongoing, randomised, open-label phase 3 study done at 118 hospitals in 26 countries. Patients with advanced, unresectable, American Joint Committee on Cancer stage IIIC or stage IV NRAS-mutant melanoma who were previously untreated or had progressed on or after previous immunotherapy were randomised (2:1) to receive either binimetinib 45 mg orally twice daily or dacarbazine 1000 mg/m 2 intravenously every 3 weeks. Randomisation was stratified by stage, performance status, and previous immunotherapy. The primary endpoint was progression-free survival assessed by blinded central review in the intention-to-treat population. Safety analyses were done in the safety population, consisting of all patients who received at least one study drug dose and one post-baseline safety assessment. This study is registered with ClinicalTrials.gov, number NCT01763164 and with EudraCT, number 2012-003593-51. Between Aug 19, 2013, and April 28, 2015, 402 patients were enrolled and randomly assigned, 269 to binimetinib and 133 to dacarbazine. Median follow-up was 1·7 months (IQR 1·4-4·1). Median progression-free survival was 2·8 months (95% CI 2·8-3·6) in the binimetinib group and 1·5 months (1·5-1·7) in the dacarbazine group (hazard ratio 0·62 [95% CI 0·47-0·80]; one-sided p<0·001). Grade 3-4 adverse events seen in at least 5% of patients the safety population in either group were increased creatine phosphokinase (52 [19%] of 269 patients in the binimetinib group vs none of 114 in the dacarbazine group), hypertension (20 [7%] vs two [2%]), anaemia (five [2%] vs six [5%]), and neutropenia (two [1%] vs ten [9%]). Serious adverse events (all grades) occurred in 91 (34%) patients in the binimetinib group and 25 (22%) patients in the dacarbazine group. Binimetinib improved progression-free survival compared with dacarbazine and was tolerable. Binimetinib might represent a new treatment option for patients with NRAS-mutant melanoma after failure of immunotherapy. Array BioPharma and Novartis Pharmaceuticals Corporation. Copyright © 2017 Elsevier Ltd. All rights reserved.

AMM15: a new high-resolution NEMO configuration for operational simulation of the European north-west shelf

NASA Astrophysics Data System (ADS)

Graham, Jennifer A.; O'Dea, Enda; Holt, Jason; Polton, Jeff; Hewitt, Helene T.; Furner, Rachel; Guihou, Karen; Brereton, Ashley; Arnold, Alex; Wakelin, Sarah; Castillo Sanchez, Juan Manuel; Mayorga Adame, C. Gabriela

2018-02-01

This paper describes the next-generation ocean forecast model for the European north-west shelf, which will become the basis of operational forecasts in 2018. This new system will provide a step change in resolution and therefore our ability to represent small-scale processes. The new model has a resolution of 1.5 km compared with a grid spacing of 7 km in the current operational system. AMM15 (Atlantic Margin Model, 1.5 km) is introduced as a new regional configuration of NEMO v3.6. Here we describe the technical details behind this configuration, with modifications appropriate for the new high-resolution domain. Results from a 30-year non-assimilative run using the AMM15 domain demonstrate the ability of this model to represent the mean state and variability of the region.

Overall, there is an improvement in the representation of the mean state across the region, suggesting similar improvements may be seen in the future operational system. However, the reduction in seasonal bias is greater off-shelf than on-shelf. In the North Sea, biases are largely unchanged. Since there has been no change to the vertical resolution or parameterization schemes, performance improvements are not expected in regions where stratification is dominated by vertical processes rather than advection. This highlights the fact that increased horizontal resolution will not lead to domain-wide improvements. Further work is needed to target bias reduction across the north-west shelf region.

Genomic analysis of NF-κB signaling pathway reveals its complexity in Crassostrea gigas.

PubMed

Yu, Mingjia; Chen, Jianming; Bao, Yongbo; Li, Jun

2018-01-01

NF-κB signaling pathway is an evolutionarily conserved pathway that plays highly important roles in several developmental, cellular and immune response processes. With the recent release of the draft Pacific oyster (Crassostra gigas) genome sequence, we have sought to identify the various components of the NF-κB signaling pathway in these mollusks and investigate their gene structure. We further constructed phylogenetic trees to establish the evolutionary relationship of the oyster proteins with their homologues in vertebrates and invertebrates using BLASTX and neighbor-joining method. We report the presence of two classic NF-κB/Rel homologues in the pacific oyster namely Cgp100 and CgRel, which possess characteristic RHD domain and a consensus nuclear localization signal, similar to mammalian homologues and an additional CgRel-like protein, unique to C. gigas. Further, in addition to two classical IκB homologues, CgIκB1 and CgIκB2, we have identified three atypical IκB family members namely CgIκB3, CgIκB4 and CgBCL3 which lack the IκB degradation motif and consist of only one exon that might have arisen by retrotransposition from CgIκB1. Finally, we report the presence of three IKKs and one NEMO genes in oyster genome, named CgIKK1, CgIKK2, CgIKK3 and CgNEMO, respectively. While CgIKK1 and CgIKK3 domain structure is similar to their mammalian homologues, CgIKK2 was found to lack the HLH and NBD domains. Overall, the high conservation of the NF-κB/Rel, IκB and IKK family components in the pacific oyster and their structural similarity to the vertebrate and invertebrate homologues underline the functional importance of this pathway in regulation of critical cellular processes across species. Copyright © 2017 Elsevier Ltd. All rights reserved.

Evaluation of a new CNRM-CM6 model version for seasonal climate predictions

NASA Astrophysics Data System (ADS)

Volpi, Danila; Ardilouze, Constantin; Batté, Lauriane; Dorel, Laurant; Guérémy, Jean-François; Déqué, Michel

2017-04-01

This work presents the quality assessment of a new version of the Météo-France coupled climate prediction system, which has been developed in the EU COPERNICUS Climate Change Services framework to carry out seasonal forecast. The system is based on the CNRM-CM6 model, with Arpege-Surfex 6.2.2 as atmosphere/land component and Nemo 3.2 as ocean component, which has directly embedded the sea-ice component Gelato 6.0. In order to have a robust diagnostic, the experiment is composed by 60 ensemble members generated with stochastic dynamic perturbations. The experiment has been performed over a 37-year re-forecast period from 1979 to 2015, with two start dates per year, respectively in May 1st and November 1st. The evaluation of the predictive skill of the model is shown under two perspectives: on the one hand, the ability of the model to faithfully respond to positive or negative ENSO, NAO and QBO events, independently of the predictability of these events. Such assessment is carried out through a composite analysis, and shows that the model succeeds in reproducing the main patterns for 2-meter temperature, precipitation and geopotential height at 500 hPa during the winter season. On the other hand, the model predictive skill of the same events (positive and negative ENSO, NAO and QBO) is evaluated.

Emergence of the A20/ABIN-mediated inhibition of NF-κB signaling via modifying the ubiquitinated proteins in a basal chordate.

PubMed

Yuan, Shaochun; Dong, Xiangru; Tao, Xin; Xu, Liqun; Ruan, Jie; Peng, Jian; Xu, Anlong

2014-05-06

In the past decade, ubiquitination has been well documented to have multifaceted roles in regulating NF-κB activation in mammals. However, its function, especially how deubiquitinating enzymes balance the NF-κB activation, remains largely elusive in invertebrates. Investigating bbtA20 and its binding proteins, bbt A20-binding inhibitor of NF-κB (bbtABIN1) and bbtABIN2, in Chinese amphioxus Branchiostoma belcheri tsingtauense, we found that bbtABIN2 can colocalize and compete with bbt TNF receptor-associated factor 6 to connect the K63-linked polyubiquitin chains, whereas bbtABIN1 physically links bbtA20 to bbt NF-κB essential modulator (bbtNEMO) to facilitate the K48-linked ubiquitination of bbtNEMO. Similar to human A20, bbtA20 is a dual enzyme that removes the K63-linked polyubiquitin chains and builds the K48-linked polyubiquitin chains on bbt receptor-interacting serine/threonine protein kinase 1b, leading to the inhibition of NF-κB signaling. Our study not only suggests that ubiquitination is an ancient strategy in regulating NF-κB activation but also provides the first evidence, to our knowledge, for ABINs/A20-mediated inhibition of NF-κB via modifying the ubiquitinated proteins in a basal chordate, adding information on the stepwise development of vertebrate innate immune signaling.

BK virus encephalopathy and sclerosing vasculopathy in a patient with hypohidrotic ectodermal dysplasia and immunodeficiency.

PubMed

Darbinyan, Armine; Major, Eugene O; Morgello, Susan; Holland, Steven; Ryschkewitsch, Caroline; Monaco, Maria Chiara; Naidich, Thomas P; Bederson, Joshua; Malaczynska, Joanna; Ye, Fei; Gordon, Ronald; Cunningham-Rundles, Charlotte; Fowkes, Mary; Tsankova, Nadejda M

2016-07-13

Human BK polyomavirus (BKV) is reactivated under conditions of immunosuppression leading most commonly to nephropathy or cystitis; its tropism for the brain is rare and poorly understood. We present a unique case of BKV-associated encephalopathy in a man with hypohidrotic ectodermal dysplasia and immunodeficiency (HED-ID) due to IKK-gamma (NEMO) mutation, who developed progressive neurological symptoms. Brain biopsy demonstrated polyomavirus infection of gray and white matter, with predominant involvement of cortex and distinct neuronal tropism, in addition to limited demyelination and oligodendroglial inclusions. Immunohistochemistry demonstrated polyoma T-antigen in neurons and glia, but expression of VP1 capsid protein only in glia. PCR analysis on both brain biopsy tissue and cerebrospinal fluid detected high levels of BKV DNA. Sequencing studies further identified novel BKV variant and disclosed unique rearrangements in the noncoding control region of the viral DNA (BKVN NCCR). Neuropathological analysis also demonstrated an unusual form of obliterative fibrosing vasculopathy in the subcortical white matter with abnormal lysosomal accumulations, possibly related to the patient's underlying ectodermal dysplasia. Our report provides the first neuropathological description of HED-ID due to NEMO mutation, and expands the diversity of neurological presentations of BKV infection in brain, underscoring the importance of its consideration in immunodeficient patients with unexplained encephalopathy. We also document novel BKVN NCCR rearrangements that may be associated with the unique neuronal tropism in this patient.

Data transmission and acquisition in NEMO

NASA Astrophysics Data System (ADS)

Bunkheila, G.

2006-11-01

A comprehensive system for data transmission and acquisition has been developed for an "à la NEMO" underwater neutrino telescope based on Čerenkov light detection using photomultipliers (PMTs) as sensors. Signals generated by each sensor are triggered, sampled and tagged by an electronics board, called Front End Module (FEM). Data streams from up to eight FEMs located on one tower floor are collected by a concentration board called Floor Control Module (FCM) and sent to a twin FCM board—located at the onshore station and plugged into an interface machine (FCM Interface, or FCMI) via a PCI bus—through a DWDM-compliant optical fiber and using a self-synchronous serial protocol. All sensor data reach the onshore lab through FCMI where they are made available to subsequent elaboration processes, such as time-wise alignment and muon track event-triggering. To meet requirements of the latter, onshore data unpacking is carried out with respect to their topological origin. The system promised, and keeps on showing, very light charges on power consumption and infrastructure complexity, while having recently proved to behave at high performance levels in its optical part.

The Scaffold Protein TANK/I-TRAF Inhibits NF-κB Activation by Recruiting Polo-like Kinase 1

PubMed Central

Zhang, Wanqiao; Zhang, Ying; Yuan, Yanzhi; Guan, Wei; Jin, Chaozhi; Chen, Hui; Wang, Xiaohui

2010-01-01

TANK/I-TRAF is a TRAF-binding protein that negatively regulates NF-κB activation. The underlying mechanism of this activity remains unclear. Here we show that TANK directly interacts with PLK1, a conserved cell cycle–regulated kinase. PLK1 inhibits NF-κB transcriptional activation induced by TNF-α, IL-1β, or several activators, but not by nuclear transcription factor p65. PLK1 expression reduces the DNA-binding activity of NF-κB induced by TNF-α. Moreover, endogenous activation of PLK1 reduces the TNF-induced phosphorylation of endogenous IκBα. PLK1 is bound to NEMO (IKKγ) through TANK to form a ternary complex in vivo. We describe a new regulatory mechanism for PLK1: PLK1 negatively regulates TNF-induced IKK activation by inhibiting the ubiquitination of NEMO. These findings reveal that the scaffold protein TANK recruits PLK1 to negatively regulate NF-κB activation and provide direct evidence that PLK1 is required for the repression function of TANK. PMID:20484576

The CNRM-CM5.1 global climate model: description and basic evaluation

NASA Astrophysics Data System (ADS)

Voldoire, A.; Sanchez-Gomez, E.; Salas y Mélia, D.; Decharme, B.; Cassou, C.; Sénési, S.; Valcke, S.; Beau, I.; Alias, A.; Chevallier, M.; Déqué, M.; Deshayes, J.; Douville, H.; Fernandez, E.; Madec, G.; Maisonnave, E.; Moine, M.-P.; Planton, S.; Saint-Martin, D.; Szopa, S.; Tyteca, S.; Alkama, R.; Belamari, S.; Braun, A.; Coquart, L.; Chauvin, F.

2013-05-01

A new version of the general circulation model CNRM-CM has been developed jointly by CNRM-GAME (Centre National de Recherches Météorologiques—Groupe d'études de l'Atmosphère Météorologique) and Cerfacs (Centre Européen de Recherche et de Formation Avancée) in order to contribute to phase 5 of the Coupled Model Intercomparison Project (CMIP5). The purpose of the study is to describe its main features and to provide a preliminary assessment of its mean climatology. CNRM-CM5.1 includes the atmospheric model ARPEGE-Climat (v5.2), the ocean model NEMO (v3.2), the land surface scheme ISBA and the sea ice model GELATO (v5) coupled through the OASIS (v3) system. The main improvements since CMIP3 are the following. Horizontal resolution has been increased both in the atmosphere (from 2.8° to 1.4°) and in the ocean (from 2° to 1°). The dynamical core of the atmospheric component has been revised. A new radiation scheme has been introduced and the treatments of tropospheric and stratospheric aerosols have been improved. Particular care has been devoted to ensure mass/water conservation in the atmospheric component. The land surface scheme ISBA has been externalised from the atmospheric model through the SURFEX platform and includes new developments such as a parameterization of sub-grid hydrology, a new freezing scheme and a new bulk parameterisation for ocean surface fluxes. The ocean model is based on the state-of-the-art version of NEMO, which has greatly progressed since the OPA8.0 version used in the CMIP3 version of CNRM-CM. Finally, the coupling between the different components through OASIS has also received a particular attention to avoid energy loss and spurious drifts. These developments generally lead to a more realistic representation of the mean recent climate and to a reduction of drifts in a preindustrial integration. The large-scale dynamics is generally improved both in the atmosphere and in the ocean, and the bias in mean surface temperature is clearly reduced. However, some flaws remain such as significant precipitation and radiative biases in many regions, or a pronounced drift in three dimensional salinity.

Scaling and stochastic cascade properties of NEMO oceanic simulations and their potential value for GCM evaluation and downscaling

NASA Astrophysics Data System (ADS)

Verrier, Sébastien; Crépon, Michel; Thiria, Sylvie

2014-09-01

Spectral scaling properties have already been evidenced on oceanic numerical simulations and have been subject to several interpretations. They can be used to evaluate classical turbulence theories that predict scaling with specific exponents and to evaluate the quality of GCM outputs from a statistical and multiscale point of view. However, a more complete framework based on multifractal cascades is able to generalize the classical but restrictive second-order spectral framework to other moment orders, providing an accurate description of probability distributions of the fields at multiple scales. The predictions of this formalism still needed systematic verification in oceanic GCM while they have been confirmed recently for their atmospheric counterparts by several papers. The present paper is devoted to a systematic analysis of several oceanic fields produced by the NEMO oceanic GCM. Attention is focused to regional, idealized configurations that permit to evaluate the NEMO engine core from a scaling point of view regardless of limitations involved by land masks. Based on classical multifractal analysis tools, multifractal properties were evidenced for several oceanic state variables (sea surface temperature and salinity, velocity components, etc.). While first-order structure functions estimated a different nonconservativity parameter H in two scaling ranges, the multiorder statistics of turbulent fluxes were scaling over almost the whole available scaling range. This multifractal scaling was then parameterized with the help of the universal multifractal framework, providing parameters that are coherent with existing empirical literature. Finally, we argue that the knowledge of these properties may be useful for oceanographers. The framework seems very well suited for the statistical evaluation of OGCM outputs. Moreover, it also provides practical solutions to simulate subpixel variability stochastically for GCM downscaling purposes. As an independent perspective, the existence of multifractal properties in oceanic flows seems also interesting for investigating scale dependencies in remote sensing inversion algorithms.

Implementation of the NEMO model for estimating the spread of leakage from chemical munitions in the Baltic Sea - the first approach

NASA Astrophysics Data System (ADS)

Andrzejewski, Jan

2017-04-01

After the Second World War, during the Potsdam Conference a decision about demilitarization of Germany was made, and as a consequence, ammunition including chemical warfare agents (CWA) was dumped into the basins of the Baltic Sea. This type of weapon was stored in metal barrels that were under strong influence of electrochemical oxidation, also known as corrosion. Several tens years later, scientists were wondering what consequences for marine ecosystem could a leakage from this weapon bring. Although over 70 years passed since the Second World War, the influence of potential leakage of the CWA has not been properly estimated. Thus, the main goal of this work is to estimate dangerous area caused by potential leakage using the NEMO (Nucleus for European Modelling of the Ocean) ocean model. The NEMO ocean model is developed by the European Consortium including research institutes from France, England and Italy. The first step of this work is to implement the model for the area of the Baltic Sea. It requires generation of horizontal and vertical grid, bathymetry, atmospheric forces and lateral boundary conditions. Implemented model will have to be checked - it means it will have to pass a validation process. The Baltic Sea is one of the best measured sea in the World - as a consequence a lot of data are freely available for researchers. After validation and tuning up the model, implementation of passive tracer is planned. Passive tracer is the prognostic variable that could represent concentration of potential leakage and does not have influence on the density of the model. Based on distribution of the passive tracer, dangerous areas in the locations of dumpsites will be assessed. The research work was funded by the European Union (European Regional Development Fund) under the Interreg Baltic Sea Region Programme 2014-2020, project #R013 DAIMON (Decision Aid for Marine Munitions).

The Met Office Coupled Atmosphere/Land/Ocean/Sea-Ice Data Assimilation System

NASA Astrophysics Data System (ADS)

Lea, Daniel; Mirouze, Isabelle; King, Robert; Martin, Matthew; Hines, Adrian

2015-04-01

The Met Office has developed a weakly-coupled data assimilation (DA) system using the global coupled model HadGEM3 (Hadley Centre Global Environment Model, version 3). At present the analysis from separate ocean and atmosphere DA systems are combined to produced coupled forecasts. The aim of coupled DA is to produce a more consistent analysis for coupled forecasts which may lead to less initialisation shock and improved forecast performance. The HadGEM3 coupled model combines the atmospheric model UM (Unified Model) at 60 km horizontal resolution on 85 vertical levels, the ocean model NEMO (Nucleus for European Modelling of the Ocean) at 25 km (at the equator) horizontal resolution on 75 vertical levels, and the sea-ice model CICE at the same resolution as NEMO. The atmosphere and the ocean/sea-ice fields are coupled every 1-hour using the OASIS coupler. The coupled model is corrected using two separate 6-hour window data assimilation systems: a 4D-Var for the atmosphere with associated soil moisture content nudging and snow analysis schemes on the one hand, and a 3D-Var FGAT for the ocean and sea-ice on the other hand. The background information in the DA systems comes from a previous 6-hour forecast of the coupled model. To isolate the impact of the coupled DA, 13-month experiments have been carried out, including 1) a full atmosphere/land/ocean/sea-ice coupled DA run, 2) an atmosphere-only run forced by OSTIA SSTs and sea-ice with atmosphere and land DA, and 3) an ocean-only run forced by atmospheric fields from run 2 with ocean and sea-ice DA. In addition, 5-day and 10-day forecast runs, have been produced from initial conditions generated by either run 1 or a combination of runs 2 and 3. The different results have been compared to each other and, whenever possible, to other references such as the Met Office atmosphere and ocean operational analyses or the OSTIA SST data. The performance of the coupled DA is similar to the existing separate ocean and atmosphere DA systems. This is despite the fact that the assimilation error covariances have not yet been tuned for coupled DA. In addition, the coupled model also exhibits some biases which do not affect the uncoupled models. An example is precipitation and run off errors affecting the ocean salinity. This of course impacts the performance of the ocean data assimilation. This does, however, highlight a particular benefit of data assimilation in that it can help to identify short term model biases by using, for example, the differences between the observations and model background (innovations) and the mean increments. Coupled DA has the distinct advantage that this gives direct information about the coupled model short term biases. By identifying the biases and developing solutions this will improve the short range coupled forecasts, and may also improve the coupled model on climate timescales.

Evaluation of an operational ocean model configuration at 1/12° spatial resolution for the Indonesian seas (NEMO2.3/INDO12) - Part 1: Ocean physics

NASA Astrophysics Data System (ADS)

Tranchant, Benoît; Reffray, Guillaume; Greiner, Eric; Nugroho, Dwiyoga; Koch-Larrouy, Ariane; Gaspar, Philippe

2016-03-01

INDO12 is a 1/12° regional version of the NEMO physical ocean model covering the whole Indonesian EEZ (Exclusive Economic Zone). It has been developed and is now running every week in the framework of the INDESO (Infrastructure Development of Space Oceanography) project implemented by the Indonesian Ministry of Marine Affairs and Fisheries. The initial hydrographic conditions as well as open-boundary conditions are derived from the operational global ocean forecasting system at 1/4° operated by Mercator Océan. Atmospheric forcing fields (3-hourly ECMWF (European Centre for Medium-Range Weather Forecast) analyses) are used to force the regional model. INDO12 is also forced by tidal currents and elevations, and by the inverse barometer effect. The turbulent mixing induced by internal tides is taken into account through a specific parameterisation. In this study we evaluate the model skill through comparisons with various data sets including outputs of the parent model, climatologies, in situ temperature and salinity measurements, and satellite data. The biogeochemical model results assessment is presented in a companion paper (Gutknecht et al., 2015). The simulated and altimeter-derived Eddy Kinetic Energy fields display similar patterns and confirm that tides are a dominant forcing in the area. The volume transport of the Indonesian throughflow (ITF) is in good agreement with the INSTANT estimates while the transport through Luzon Strait is, on average, westward but probably too weak. Compared to satellite data, surface salinity and temperature fields display marked biases in the South China Sea. Significant water mass transformation occurs along the main routes of the ITF and compares well with observations. Vertical mixing is able to modify the South and North Pacific subtropical water-salinity maximum as seen in T-S diagrams. In spite of a few weaknesses, INDO12 proves to be able to provide a very realistic simulation of the ocean circulation and water mass transformation through the Indonesian Archipelago. Work is ongoing to reduce or eliminate the remaining problems in the second INDO12 version.

Studying Si/SiGe disordered alloys within effective mass theory

NASA Astrophysics Data System (ADS)

Gamble, John; Montaño, Inès; Carroll, Malcolm S.; Muller, Richard P.

Si/SiGe is an attractive material system for electrostatically-defined quantum dot qubits due to its high-quality crystalline quantum well interface. Modeling the properties of single-electron quantum dots in this system is complicated by the presence of alloy disorder, which typically requires atomistic techniques in order to treat properly. Here, we use the NEMO-3D empirical tight binding code to calibrate a multi-valley effective mass theory (MVEMT) to properly handle alloy disorder. The resulting MVEMT simulations give good insight into the essential physics of alloy disorder, while being extremely computationally efficient and well-suited to determining statistical properties. Sandia is a multi-program laboratory managed and operated by Sandia Corporation, a wholly owned subsidiary of Lockheed Martin Corporation, for the US Department of Energy's National Nuclear Security Administration under Contract No. DE-AC04-94AL85000.

MANEMO Routing in Practice: Protocol Selection, Expected Performance, and Experimental Evaluation

NASA Astrophysics Data System (ADS)

Tazaki, Hajime; van Meter, Rodney; Wakikawa, Ryuji; Wongsaardsakul, Thirapon; Kanchanasut, Kanchana; Dias de Amorim, Marcelo; Murai, Jun

Motivated by the deployment of post-disaster MANEMO (MANET for NEMO) composed of mobile routers and stations, we evaluate two candidate routing protocols through network simulation, theoretical performance analysis, and field experiments. The first protocol is the widely adopted Optimized Link State Routing protocol (OLSR) and the second is the combination of the Tree Discovery Protocol (TDP) with Network In Node Advertisement (NINA). To the best of our knowledge, this is the first time that these two protocols are compared in both theoretical and practical terms. We focus on the control overhead generated when mobile routers perform a handover. Our results confirm the correctness and operational robustness of both protocols. More interestingly, although in the general case OLSR leads to better results, TDP/NINA outperforms OLSR both in the case of sparse networks and in highly mobile networks, which correspond to the operation point of a large set of post-disaster scenarios.

Dive and Explore: An Interactive Web Visualization that Simulates Making an ROV Dive to an Active Submarine Volcano

NASA Astrophysics Data System (ADS)

Weiland, C.; Chadwick, W. W.

2004-12-01

Several years ago we created an exciting and engaging multimedia exhibit for the Hatfield Marine Science Center that lets visitors simulate making a dive to the seafloor with the remotely operated vehicle (ROV) named ROPOS. The exhibit immerses the user in an interactive experience that is naturally fun but also educational. The public display is located at the Hatfield Marine Science Visitor Center in Newport, Oregon. We are now completing a revision to the project that will make this engaging virtual exploration accessible to a much larger audience. With minor modifications we will be able to put the exhibit onto the world wide web so that any person with internet access can view and learn about exciting volcanic and hydrothermal activity at Axial Seamount on the Juan de Fuca Ridge. The modifications address some cosmetic and logistic ISSUES confronted in the museum environment, but will mainly involve compressing video clips so they can be delivered more efficiently over the internet. The web version, like the museum version, will allow users to choose from 1 of 3 different dives sites in the caldera of Axial Volcano. The dives are based on real seafloor settings at Axial seamount, an active submarine volcano on the Juan de Fuca Ridge (NE Pacific) that is also the location of a seafloor observatory called NeMO. Once a dive is chosen, then the user watches ROPOS being deployed and then arrives into a 3-D computer-generated seafloor environment that is based on the real world but is easier to visualize and navigate. Once on the bottom, the user is placed within a 360 degree panorama and can look in all directions by manipulating the computer mouse. By clicking on markers embedded in the scene, the user can then either move to other panorama locations via movies that travel through the 3-D virtual environment, or they can play video clips from actual ROPOS dives specifically related to that scene. Audio accompanying the video clips informs the user where they are going or what they are looking at. After the user is finished exploring the dive site they end the dive by leaving the bottom and watching the ROV being recovered onto the ship at the surface. Within the three simulated dives there are a total of 6 arrival and departure movies, 7 seafloor panoramas, 12 travel movies, and 23 ROPOS video clips. This virtual exploration is part of the NeMO web site and will be at this URL http://www.pmel.noaa.gov/vents/dive.html

An efficient climate model with water isotope physics: NEEMY

NASA Astrophysics Data System (ADS)

Hu, J.; Emile-Geay, J.

2015-12-01

This work describes the development of an isotope-enabled atmosphere-ocean global climate model, NEEMY. This is a model of intermediate complexity, which can run 100 model years in 30 hours using 33 CPUs. The atmospheric component is the SPEEDY-IER (Molteni et al. 2003; Dee et al. 2015a), which is a water isotope-enabled (with equilibrium and kinetic fractionation schemes in precipitation, evaporation and soil moisture) simplified atmospheric general circulation model, with T30 horizontal resolution and 8 vertical layers. The oceanic component is NEMO 3.4 (Madec 2008), a state-of-the-art oceanic model (~2° horizontal resolution and 31 vertical layers) with an oceanic isotope module (a passive tracer scheme). A 1000-year control run shows that NEEMY is stable and its energy is conserved. The mean state is comparable to that of CMIP3-era CGCMs, though much cheaper to run. Atmospheric teleconnections such as the NAO and PNA are simulated very well. NEEMY also simulates the oceanic meridional overturning circulation well. The tropical climate variability is weaker than observations, and the climatology exhibits a double ITCZ problem despite bias corrections. The standard deviation of the monthly mean Nino3.4 index is 0.61K, compared to 0.91K in observations (Reynolds et al. 2002). We document similarities and differences with a close cousin, SPEEDY-NEMO (Kucharski et al. 2015). With its fast speed and relatively complete physical processes, NEEMY is suitable for paleoclimate studies ; we will present some forced simulations of the past millennium and their use in forward-modeling climate proxies, via proxy system models (PSMs, Dee et al 2015b). References Dee, S., D. Noone, N. Buenning, J. Emile-Geay, and Y. Zhou, 2015a: SPEEDY-IER: A fast atmospheric GCM with water isotope physics. J. Geophys. Res. Atmos., 120: 73-91. doi:10.1002/2014JD022194. Dee, S. G., J. Emile-Geay, M. N. Evans, Allam, A., D. M. Thompson, and E. J. Steig, 2015b: PRYSM: an open-source framework for proxy system modeling, with applications to oxygen-isotope systems, J. Adv. Mod. Earth Sys., 07, doi:10.1002/2015MS000447. Kucharski et al., 2015: Atlantic forcing of Pacific decadal variability. Clim. Dyn., doi:10.1007/s00382-015-2705-z.

Association between third molar agenesis and craniofacial structure development.

PubMed

Ramiro-Verdugo, Jara; De Vicente-Corominas, Elena; Montiel-Company, José María; Gandía-Franco, José Luís; Bellot-Arcís, Carlos

2015-11-01

The aim of this investigation was to study the relationship between third molar agenesis-including the number of ageneses-and craniofacial structure growth. We reviewed 305 clinical histories of patients treated at the Orthodontics Unit of the Faculty of Medicine and Dentistry at the University of Valencia in Spain. This included radiographic records of optimal quality. Of these, 40 patients who had agenesis of at least 1 third molar were included in the study group. A control group was formed with another 40 patients with all 4 third molars present. For both groups, a further criterion for inclusion was cone-beam computed tomography records. The cephalometric analysis was performed with NemoCeph 3D software (version 11.3.1.38; Nemotec, Madrid, Spain). The only significant differences between the 2 groups were in the total gonial angle and the upper gonial angle (P ≤0.05), both of which were smaller in the study group. Third molar agenesis is associated with a reduction in Jarabak's gonial angle and upper gonial angle, characteristic of patients with a more horizontal or brachyfacial skeletal pattern. No significant differences were found in other measurements. Copyright © 2015 American Association of Orthodontists. Published by Elsevier Inc. All rights reserved.

The COSMO-CLM 4.8 regional climate model coupled to regional ocean, land surface and global earth system models using OASIS3-MCT: description and performance

NASA Astrophysics Data System (ADS)

Will, Andreas; Akhtar, Naveed; Brauch, Jennifer; Breil, Marcus; Davin, Edouard; Ho-Hagemann, Ha T. M.; Maisonnave, Eric; Thürkow, Markus; Weiher, Stefan

2017-04-01

We developed a coupled regional climate system model based on the CCLM regional climate model. Within this model system, using OASIS3-MCT as a coupler, CCLM can be coupled to two land surface models (the Community Land Model (CLM) and VEG3D), the NEMO-MED12 regional ocean model for the Mediterranean Sea, two ocean models for the North and Baltic seas (NEMO-NORDIC and TRIMNP+CICE) and the MPI-ESM Earth system model.We first present the different model components and the unified OASIS3-MCT interface which handles all couplings in a consistent way, minimising the model source code modifications and defining the physical and numerical aspects of the couplings. We also address specific coupling issues like the handling of different domains, multiple usage of the MCT library and exchange of 3-D fields.We analyse and compare the computational performance of the different couplings based on real-case simulations over Europe. The usage of the LUCIA tool implemented in OASIS3-MCT enables the quantification of the contributions of the coupled components to the overall coupling cost. These individual contributions are (1) cost of the model(s) coupled, (2) direct cost of coupling including horizontal interpolation and communication between the components, (3) load imbalance, (4) cost of different usage of processors by CCLM in coupled and stand-alone mode and (5) residual cost including i.a. CCLM additional computations.Finally a procedure for finding an optimum processor configuration for each of the couplings was developed considering the time to solution, computing cost and parallel efficiency of the simulation. The optimum configurations are presented for sequential, concurrent and mixed (sequential+concurrent) coupling layouts. The procedure applied can be regarded as independent of the specific coupling layout and coupling details.We found that the direct cost of coupling, i.e. communications and horizontal interpolation, in OASIS3-MCT remains below 7 % of the CCLM stand-alone cost for all couplings investigated. This is in particular true for the exchange of 450 2-D fields between CCLM and MPI-ESM. We identified remaining limitations in the coupling strategies and discuss possible future improvements of the computational efficiency.

Thermodynamic and dynamic ice thickness contributions in the Canadian Arctic Archipelago in NEMO-LIM2 numerical simulations

NASA Astrophysics Data System (ADS)

Hu, Xianmin; Sun, Jingfan; Chan, Ting On; Myers, Paul G.

2018-04-01

Sea ice thickness evolution within the Canadian Arctic Archipelago (CAA) is of great interest to science, as well as local communities and their economy. In this study, based on the NEMO numerical framework including the LIM2 sea ice module, simulations at both 1/4 and 1/12° horizontal resolution were conducted from 2002 to 2016. The model captures well the general spatial distribution of ice thickness in the CAA region, with very thick sea ice (˜ 4 m and thicker) in the northern CAA, thick sea ice (2.5 to 3 m) in the west-central Parry Channel and M'Clintock Channel, and thin ( < 2 m) ice (in winter months) on the east side of CAA (e.g., eastern Parry Channel, Baffin Island coast) and in the channels in southern areas. Even though the configurations still have resolution limitations in resolving the exact observation sites, simulated ice thickness compares reasonably (seasonal cycle and amplitudes) with weekly Environment and Climate Change Canada (ECCC) New Ice Thickness Program data at first-year landfast ice sites except at the northern sites with high concentration of old ice. At 1/4 to 1/12° scale, model resolution does not play a significant role in the sea ice simulation except to improve local dynamics because of better coastline representation. Sea ice growth is decomposed into thermodynamic and dynamic (including all non-thermodynamic processes in the model) contributions to study the ice thickness evolution. Relatively smaller thermodynamic contribution to ice growth between December and the following April is found in the thick and very thick ice regions, with larger contributions in the thin ice-covered region. No significant trend in winter maximum ice volume is found in the northern CAA and Baffin Bay while a decline (r2 ≈ 0.6, p < 0.01) is simulated in Parry Channel region. The two main contributors (thermodynamic growth and lateral transport) have high interannual variabilities which largely balance each other, so that maximum ice volume can vary interannually by ±12 % in the northern CAA, ±15 % in Parry Channel, and ±9 % in Baffin Bay. Further quantitative evaluation is required.

The Sea around Us: Social Climbing in "Seabiscuit," "Whale Rider," and "Finding Nemo"

ERIC Educational Resources Information Center

Beck, Bernard

2004-01-01

All life begins in the sea, people are taught, and a great transformation extends it to new places on land. The sea has always echoed this transformation in images of human aspiration in myths and metaphors. In the summer of 2003, this powerful image appeared again in the movies. In three very different films, "Seabiscuit," "Whale Rider," and…

Finding Difference: Nemo and Friends Opening the Door to Disability Theory

ERIC Educational Resources Information Center

Preston, Daniel L.

2010-01-01

While middle school and high school students may have watched the Disney and Disney/Pixar films when they were younger, chances are they did not do so with a critical eye toward difference and disability, despite the fact that these films serve as excellent tools for teaching about difference. Recent estimates label 20% of the world's population…

Binding Site Configurations Probe the Structure and Dynamics of the Zinc Finger of NEMO (NF-κB Essential Modulator).

PubMed

Godwin, Ryan C; Melvin, Ryan L; Gmeiner, William H; Salsbury, Freddie R

2017-01-31

Zinc-finger proteins are regulators of critical signaling pathways for various cellular functions, including apoptosis and oncogenesis. Here, we investigate how binding site protonation states and zinc coordination influence protein structure, dynamics, and ultimately function, as these pivotal regulatory proteins are increasingly important for protein engineering and therapeutic discovery. To better understand the thermodynamics and dynamics of the zinc finger of NEMO (NF-κB essential modulator), as well as the role of zinc, we present results of 20 μs molecular dynamics trajectories, 5 μs for each of four active site configurations. Consistent with experimental evidence, the zinc ion is essential for mechanical stabilization of the functional, folded conformation. Hydrogen bond motifs are unique for deprotonated configurations yet overlap in protonated cases. Correlated motions and principal component analysis corroborate the similarity of the protonated configurations and highlight unique relationships of the zinc-bound configuration. We hypothesize a potential mechanism for zinc binding from results of the thiol configurations. The deprotonated, zinc-bound configuration alone predominantly maintains its tertiary structure throughout all 5 μs and alludes rare conformations potentially important for (im)proper zinc-finger-related protein-protein or protein-DNA interactions.

Approximate Stokes Drift Profiles and their use in Ocean Modelling

NASA Astrophysics Data System (ADS)

Breivik, Oyvind; Bidlot, Jea-Raymond; Janssen, Peter A. E. M.; Mogensen, Kristian

2016-04-01

Deep-water approximations to the Stokes drift velocity profile are explored as alternatives to the monochromatic profile. The alternative profiles investigated rely on the same two quantities required for the monochromatic profile, viz the Stokes transport and the surface Stokes drift velocity. Comparisons against parametric spectra and profiles under wave spectra from the ERA-Interim reanalysis and buoy observations reveal much better agreement than the monochromatic profile even for complex sea states. That the profiles give a closer match and a more correct shear has implications for ocean circulation models since the Coriolis-Stokes force depends on the magnitude and direction of the Stokes drift profile and Langmuir turbulence parameterizations depend sensitively on the shear of the profile. Of the two Stokes drift profiles explored here, the profile based on the Phillips spectrum is by far the best. In particular, the shear near the surface is almost identical to that influenced by the f-5 tail of spectral wave models. The NEMO general circulation ocean model was recently extended to incorporate the Stokes-Coriolis force along with two other wave-related effects. The ECWMF coupled atmosphere-wave-ocean ensemble forecast system now includes these wave effects in the ocean model component (NEMO).

The Role of the New Zealand Plateau in the Tasman Sea Circulation and Separation of the East Australian Current

NASA Astrophysics Data System (ADS)

Bull, Christopher Y. S.; Kiss, Andrew E.; van Sebille, Erik; Jourdain, Nicolas C.; England, Matthew H.

2018-02-01

The East Australian Current (EAC) plays a major role in regional climate, circulation, and ecosystems, but predicting future changes is hampered by limited understanding of the factors controlling EAC separation. While there has been speculation that the presence of New Zealand may be important for the EAC separation, the prevailing view is that the time-mean partial separation is set by the ocean's response to gradients in the wind stress curl. This study focuses on the role of New Zealand, and the associated adjacent bathymetry, in the partial separation of the EAC and ocean circulation in the Tasman Sea. Here utilizing an eddy-permitting ocean model (NEMO), we find that the complete removal of the New Zealand plateau leads to a smaller fraction of EAC transport heading east and more heading south, with the mean separation latitude shifting >100 km southward. To examine the underlying dynamics, we remove New Zealand with two linear models: the Sverdrup/Godfrey Island Rule and NEMO in linear mode. We find that linear processes and deep bathymetry play a major role in the mean Tasman Front position, whereas nonlinear processes are crucial for the extent of the EAC retroflection. Contrary to past work, we find that meridional gradients in the basin-wide wind stress curl are not the sole factor determining the latitude of EAC separation. We suggest that the Tasman Front location is set by either the maximum meridional gradient in the wind stress curl or the northern tip of New Zealand, whichever is furthest north.

IκB kinaseα/β control biliary homeostasis and hepatocarcinogenesis in mice by phosphorylating the cell-death mediator receptor-interacting protein kinase 1.

PubMed

Koppe, Christiane; Verheugd, Patricia; Gautheron, Jérémie; Reisinger, Florian; Kreggenwinkel, Karina; Roderburg, Christoph; Quagliata, Luca; Terracciano, Luigi; Gassler, Nikolaus; Tolba, René H; Boege, Yannick; Weber, Achim; Karin, Michael; Luedde, Mark; Neumann, Ulf P; Weiskirchen, Ralf; Tacke, Frank; Vucur, Mihael; Trautwein, Christian; Lüscher, Bernhard; Preisinger, Christian; Heikenwalder, Mathias; Luedde, Tom

2016-10-01

The IκB-Kinase (IKK) complex-consisting of the catalytic subunits, IKKα and IKKβ, as well as the regulatory subunit, NEMO-mediates activation of the nuclear factor κB (NF-κB) pathway, but previous studies suggested the existence of NF-κB-independent functions of IKK subunits with potential impact on liver physiology and disease. Programmed cell death is a crucial factor in the progression of liver diseases, and receptor-interacting kinases (RIPKs) exerts strategic control over multiple pathways involved in regulating novel programmed cell-death pathways and inflammation. We hypothesized that RIPKs might be unrecognized targets of the catalytic IKK-complex subunits, thereby regulating hepatocarcinogenesis and cholestasis. In this present study, mice with specific genetic inhibition of catalytic IKK activity in liver parenchymal cells (LPCs; IKKα/β(LPC-KO) ) were intercrossed with RIPK1(LPC-KO) or RIPK3(-/-) mice to examine whether RIPK1 or RIPK3 might be downstream targets of IKKs. Moreover, we performed in vivo phospho-proteome analyses and in vitro kinase assays, mass spectrometry, and mutagenesis experiments. These analyses revealed that IKKα and IKKβ-in addition to their known function in NF-κB activation-directly phosphorylate RIPK1 at distinct regions of the protein, thereby regulating cell viability. Loss of this IKKα/β-dependent RIPK1 phosphorylation in LPCs inhibits compensatory proliferation of hepatocytes and intrahepatic biliary cells, thus impeding HCC development, but promoting biliary cell paucity and lethal cholestasis. IKK-complex subunits transmit a previously unrecognized signal through RIPK1, which is fundamental for the long-term consequences of chronic hepatic inflammation and might have potential implications for future pharmacological strategies against cholestatic liver disease and cancer. (Hepatology 2016;64:1217-1231). © 2016 by the American Association for the Study of Liver Diseases.

Assessing the sampling strategy in the Northwestern Mediterranean Sea

NASA Astrophysics Data System (ADS)

Margirier, Félix; Testor, Pierre; Bosse, Anthony; Heslop, Emma; L'Hévéder, Blandine; Arsouze, Thomas; Houpert, Loic; Mortier, Laurent

2017-04-01

The deployment of numerous autonomous platforms (gliders, argo floats, moorings) added to the repeated ship cruises in the Northwestern Mediterranean Sea account for a considerable data coverage of the area through the past 10 years. In this study, we analyse the in-situ observations' ability to assess for the changes in the Northwester Mediterranean basin water masses properties over time. Comparing the observed time series for the different regions and different water masses to that of a glider simulator in the NEMO-Med12 model, we estimate both the quality of the model and the skill of the in-situ observations in reproducing the evolution of the basin properties.

A Transgenic Drosophila melanogaster Model To Study Human T-Lymphotropic Virus Oncoprotein Tax-1-Driven Transformation In Vivo

PubMed Central

Shirinian, Margret; Kambris, Zakaria; Hamadeh, Lama; Grabbe, Caroline; Journo, Chloé; Mahieux, Renaud

2015-01-01

Human T-cell lymphotropic virus type 1 (HTLV-1)-induced adult T-cell leukemia/lymphoma is an aggressive malignancy. HTLV-2 is genetically related to HTLV-1 but does not cause any malignant disease. HTLV-1 Tax transactivator (Tax-1) contributes to leukemogenesis via NF-κB. We describe transgenic Drosophila models expressing Tax in the compound eye and plasmatocytes. We demonstrate that Tax-1 but not Tax-2 induces ommatidial perturbation and increased plasmatocyte proliferation and that the eye phenotype is dependent on Kenny (IKKγ/NEMO), thus validating this new in vivo model. PMID:25995252

20th Annual Systems Engineering Conference, Thursday, Volume 4

DTIC Science & Technology

2017-10-26

Daniel Dault, Air Force Research Lab 19809 Physics Based Modeling & Simulation For Shock and Vulnerability Assessments - Navy Enhanced Sierra...19811 Version 1.0 of the New INCOSE Competency Framework u Mr. Don Gelosh 19515 A Proposed Engineering Training Framework and Competency Methodology...nonlinearity ▪ QEV, Transient, Frequency Domain ▪ Inverse Methods Capability ▪ Coupled Physics ▪ Fluids: nemo, aero and sigma ▪ Thermal (unidirection): fuego

TNFα- and IKKβ-mediated TANK/I-TRAF phosphorylation: implications for interaction with NEMO/IKKγ and NF-κB activation

PubMed Central

Bonif, Marianne; Meuwis, Marie-Alice; Close, Pierre; Benoit, Valérie; Heyninck, Karen; Chapelle, Jean-Paul; Bours, Vincent; Merville, Marie-Paule; Piette, Jacques; Beyaert, Rudi; Chariot, Alain

2005-01-01

Pro-inflammatory cytokines trigger signalling cascades leading to NF-κB (nuclear factor-κB)-dependent gene expression through IKK [IκB (inhibitory κB) kinase]-dependent phosphorylation and subsequent degradation of the IκB proteins and via induced phosphorylation of p65. These signalling pathways rely on sequentially activated kinases which are assembled by essential and non-enzymatic scaffold proteins into functional complexes. Here, we show that the pro-inflammatory cytokine TNFα (tumour necrosis factor α) promotes TANK [TRAF (TNF receptor-associated factor) family member associated NF-κB activator] recruitment to the IKK complex via a newly characterized C-terminal zinc finger. Moreover, we show that TANK is phosphorylated by IKKβ upon TNFα stimulation and that this modification negatively regulates TANK binding to NEMO (NF-κB essential modulator). Interestingly, reduced TANK expression by RNA interference attenuates TNFα-mediated induction of a subset of NF-κB target genes through decreased p65 transactivation potential. Therefore the scaffold protein TANK is required for the cellular response to TNFα by connecting upstream signalling molecules to the IKKs and p65, and its subsequent IKKβ-mediated phosphorylation may be a mechanism to terminate the TANK-dependent wave of NF-κB activation. PMID:16336209

CIKS, a connection to Ikappa B kinase and stress-activated protein kinase.

PubMed

Leonardi, A; Chariot, A; Claudio, E; Cunningham, K; Siebenlist, U

2000-09-12

Pathogens, inflammatory signals, and stress cause acute transcriptional responses in cells. The induced expression of genes in response to these signals invariably involves transcription factors of the NF-kappaB and AP-1/ATF families. Activation of NF-kappaB factors is thought to be mediated primarily via IkappaB kinases (IKK), whereas that of AP-1/ATF can be mediated by stress-activated protein kinases (SAPKs; also named Jun kinases or JNKs). IKKalpha and IKKbeta are two catalytic subunits of a core IKK complex that also contains the regulatory subunit NEMO (NF-kappaB essential modulator)/IKKgamma. The latter protein is essential for activation of the IKKs, but its mechanism of action is not known. Here we describe the molecular cloning of CIKS (connection to IKK and SAPK/JNK), a previously unknown protein that directly interacts with NEMO/IKKgamma in cells. When ectopically expressed, CIKS stimulates IKK and SAPK/JNK kinases and it transactivates an NF-kappaB-dependent reporter. Activation of NF-kappaB is prevented in the presence of kinase-deficient, interfering mutants of the IKKs. CIKS may help to connect upstream signaling events to IKK and SAPK/JNK modules. CIKS could coordinate the activation of two stress-induced signaling pathways, functions reminiscent of those noted for tumor necrosis factor receptor-associated factor adaptor proteins.

A parapoxviral virion protein inhibits NF-κB signaling early in infection

PubMed Central

Khatiwada, Sushil; Delhon, Gustavo; Nagendraprabhu, Ponnuraj; Chaulagain, Sabal; Luo, Shuhong; Diel, Diego G.; Flores, Eduardo F.

2017-01-01

Poxviruses have evolved unique proteins and mechanisms to counteract the nuclear factor κB (NF-κB) signaling pathway, which is an essential regulatory pathway of host innate immune responses. Here, we describe a NF-κB inhibitory virion protein of orf virus (ORFV), ORFV073, which functions very early in infected cells. Infection with ORFV073 gene deletion virus (OV-IA82Δ073) led to increased accumulation of NF-κB essential modulator (NEMO), marked phosphorylation of IκB kinase (IKK) subunits IKKα and IKKβ, IκBα and NF-κB subunit p65 (NF-κB-p65), and to early nuclear translocation of NF-κB-p65 in virus-infected cells (≤ 30 min post infection). Expression of ORFV073 alone was sufficient to inhibit TNFα induced activation of the NF-κB signaling in uninfected cells. Consistent with observed inhibition of IKK complex activation, ORFV073 interacted with the regulatory subunit of the IKK complex NEMO. Infection of sheep with OV-IA82Δ073 led to virus attenuation, indicating that ORFV073 is a virulence determinant in the natural host. Notably, ORFV073 represents the first poxviral virion-associated NF-κB inhibitor described, highlighting the significance of viral inhibition of NF-κB signaling very early in infection. PMID:28787456

Modelling Greenland icebergs

NASA Astrophysics Data System (ADS)

Marson, Juliana M.; Myers, Paul G.; Hu, Xianmin

2017-04-01

The Atlantic Meridional Overturning Circulation (AMOC) is well known for carrying heat from low to high latitudes, moderating local temperatures. Numerical studies have examined the AMOC's variability under the influence of freshwater input to subduction and deep convections sites. However, an important source of freshwater has often been overlooked or misrepresented: icebergs. While liquid runoff decreases the ocean salinity near the coast, icebergs are a gradual and remote source of freshwater - a difference that affects sea ice cover, temperature, and salinity distribution in ocean models. Icebergs originated from the Greenland ice sheet, in particular, can affect the subduction process in Labrador Sea by decreasing surface water density. Our study aims to evaluate the distribution of icebergs originated from Greenland and their contribution to freshwater input in the North Atlantic. To do that, we use an interactive iceberg module coupled with the Nucleus for European Modelling of the Ocean (NEMO v3.4), which will calve icebergs from Greenland according to rates established by Bamber et al. (2012). Details on the distribution and trajectory of icebergs within the model may also be of use for understanding potential navigation threats, as shipping increases in northern waters.

Neutrinoless double-β decay of Se82 in the shell model: Beyond the closure approximation

NASA Astrophysics Data System (ADS)

Sen'kov, R. A.; Horoi, M.; Brown, B. A.

2014-05-01

We recently proposed a method [R. A. Senkov and M. Horoi, Phys. Rev. C 88, 064312 (2013), 10.1103/PhysRevC.88.064312] to calculate the standard nuclear matrix elements for neutrinoless double-β decay (0νββ) of Ca48 going beyond the closure approximation. Here we extend this analysis to the important case of Se82, which was chosen as the base isotope for the upcoming SuperNEMO experiment. We demonstrate that by using a mixed method that considers information from closure and nonclosure approaches, one can get excellent convergence properties for the nuclear matrix elements, which allows one to avoid unmanageable computational costs. We show that in contrast with the closure approximation the mixed approach has a very weak dependence on the average closure energy. The matrix elements for the heavy neutrino-exchange mechanism that could contribute to the 0νββ decay of Se82 are also presented.

HTLV-1 Tax Functions as a Ubiquitin E3 Ligase for Direct IKK Activation via Synthesis of Mixed-Linkage Polyubiquitin Chains.

PubMed

Wang, Chong; Long, Wenying; Peng, Chao; Hu, Lin; Zhang, Qiong; Wu, Ailing; Zhang, Xiaoqing; Duan, Xiaotao; Wong, Catherine C L; Tanaka, Yuetsu; Xia, Zongping

2016-04-01

The HTLV-1 oncoprotein Tax plays a key role in CD4+ T cell transformation by promoting cell proliferation and survival, mainly through permanent activation of the NK-κB pathway and induction of many NF-κB target genes. Elucidating the underlying molecular mechanism is therefore critical in understanding HTLV-1-mediated transformation. Current studies have suggested multiple but controversial mechanisms regarding Tax-induced IKK activation mainly due to blending of primary Tax-induced IKK activation events and secondary IKK activation events induced by cytokines secreted by the primary Tax-induced IKK-NF-κB activation events. We reconstituted Tax-stimulated IKK activation in a cell-free system to dissect the essential cellular components for primary IKK activation by Tax and studied the underlying biochemical mechanism. We found that Tax is a putative E3 ubiquitin ligase, which, together with UbcH2, UhcH5c, or UbcH7, catalyzes the assembly of free mixed-linkage polyubiquitin chains. These free mixed-linkage polyubiquitin chains are then responsible for direct IKK activation by binding to the NEMO subunit of IKK. Our studies revealed the biochemical function of Tax in the process of IKK activation, which utilizes the minimal cellular ubiquitination components for NF-κB activation.

HTLV-1 Tax Functions as a Ubiquitin E3 Ligase for Direct IKK Activation via Synthesis of Mixed-Linkage Polyubiquitin Chains

PubMed Central

Wang, Chong; Long, Wenying; Peng, Chao; Hu, Lin; Zhang, Qiong; Wu, Ailing; Zhang, Xiaoqing; Duan, Xiaotao; Wong, Catherine C. L.; Tanaka, Yuetsu; Xia, Zongping

2016-01-01

The HTLV-1 oncoprotein Tax plays a key role in CD4+ T cell transformation by promoting cell proliferation and survival, mainly through permanent activation of the NK-κB pathway and induction of many NF-κB target genes. Elucidating the underlying molecular mechanism is therefore critical in understanding HTLV-1-mediated transformation. Current studies have suggested multiple but controversial mechanisms regarding Tax-induced IKK activation mainly due to blending of primary Tax-induced IKK activation events and secondary IKK activation events induced by cytokines secreted by the primary Tax-induced IKK-NF-κB activation events. We reconstituted Tax-stimulated IKK activation in a cell-free system to dissect the essential cellular components for primary IKK activation by Tax and studied the underlying biochemical mechanism. We found that Tax is a putative E3 ubiquitin ligase, which, together with UbcH2, UhcH5c, or UbcH7, catalyzes the assembly of free mixed-linkage polyubiquitin chains. These free mixed-linkage polyubiquitin chains are then responsible for direct IKK activation by binding to the NEMO subunit of IKK. Our studies revealed the biochemical function of Tax in the process of IKK activation, which utilizes the minimal cellular ubiquitination components for NF-κB activation. PMID:27082114

Sensitivity of an underwater Čerenkov km 3 telescope to TeV neutrinos from Galactic microquasars

NASA Astrophysics Data System (ADS)

Aiello, S.; Ambriola, M.; Ameli, F.; Amore, I.; Anghinolfi, M.; Anzalone, A.; Barbarino, G.; Barbarito, E.; Battaglieri, M.; Bellotti, R.; Beverini, N.; Bonori, M.; Bouhadef, B.; Brescia, M.; Cacopardo, G.; Cafagna, F.; Capone, A.; Caponetto, L.; Castorina, E.; Ceres, A.; Chiarusi, T.; Circella, M.; Cocimano, R.; Coniglione, R.; Cordelli, M.; Costa, M.; Cuneo, S.; D'Amico, A.; De Bonis, G.; De Marzo, C.; De Rosa, G.; De Vita, R.; Distefano, C.; Falchini, E.; Fiorello, C.; Flaminio, V.; Fratini, K.; Gabrielli, A.; Galeotti, S.; Gandolfi, E.; Giacomelli, G.; Giorgi, F.; Grimaldi, A.; Habel, R.; Leonora, E.; Lonardo, A.; Longo, G.; Lo Presti, D.; Lucarelli, F.; Maccioni, E.; Margiotta, A.; Martini, A.; Masullo, R.; Megna, R.; Migneco, E.; Mongelli, M.; Montaruli, T.; Morganti, M.; Musumeci, M.; Nicolau, C. A.; Orlando, A.; Osipenko, M.; Osteria, G.; Papaleo, R.; Pappalardo, V.; Petta, C.; Piattelli, P.; Raia, G.; Randazzo, N.; Reito, S.; Ricco, G.; Riccobene, G.; Ripani, M.; Rovelli, A.; Ruppi, M.; Russo, G. V.; Russo, S.; Sapienza, P.; Sedita, M.; Shirokov, E.; Simeone, F.; Sipala, V.; Spurio, M.; Taiuti, M.; Terreni, G.; Trasatti, L.; Urso, S.; Valente, V.; Vicini, P.

2007-09-01

In this paper are presented the results of Monte Carlo simulations on the capability of the proposed NEMO-km 3 telescope to detect TeV muon neutrinos from Galactic microquasars. For each known microquasar we compute the number of detectable events, together with the atmospheric neutrino and muon background events. We also discuss the detector sensitivity to neutrino fluxes expected from known microquasars, optimizing the event selection also to reject the background; the number of events surviving the event selection are given. The best candidates are the steady microquasars SS433 and GX339-4 for which we estimate a sensitivity of about 5 × 10 -11 erg/cm 2 s; the predicted fluxes are expected to be well above this sensitivity. For bursting microquasars the most interesting candidates are Cygnus X-3, GRO J1655-40 and XTE J1118+480: their analyses are more complicated because of the stochastic nature of the bursts.

On-demand provisioning of HEP compute resources on cloud sites and shared HPC centers

NASA Astrophysics Data System (ADS)

Erli, G.; Fischer, F.; Fleig, G.; Giffels, M.; Hauth, T.; Quast, G.; Schnepf, M.; Heese, J.; Leppert, K.; Arnaez de Pedro, J.; Sträter, R.

2017-10-01

This contribution reports on solutions, experiences and recent developments with the dynamic, on-demand provisioning of remote computing resources for analysis and simulation workflows. Local resources of a physics institute are extended by private and commercial cloud sites, ranging from the inclusion of desktop clusters over institute clusters to HPC centers. Rather than relying on dedicated HEP computing centers, it is nowadays more reasonable and flexible to utilize remote computing capacity via virtualization techniques or container concepts. We report on recent experience from incorporating a remote HPC center (NEMO Cluster, Freiburg University) and resources dynamically requested from the commercial provider 1&1 Internet SE into our intitute’s computing infrastructure. The Freiburg HPC resources are requested via the standard batch system, allowing HPC and HEP applications to be executed simultaneously, such that regular batch jobs run side by side to virtual machines managed via OpenStack [1]. For the inclusion of the 1&1 commercial resources, a Python API and SDK as well as the possibility to upload images were available. Large scale tests prove the capability to serve the scientific use case in the European 1&1 datacenters. The described environment at the Institute of Experimental Nuclear Physics (IEKP) at KIT serves the needs of researchers participating in the CMS and Belle II experiments. In total, resources exceeding half a million CPU hours have been provided by remote sites.

The Superimposed Deubiquitination Effect of OTULIN and Porcine Reproductive and Respiratory Syndrome Virus (PRRSV) Nsp11 Promotes Multiplication of PRRSV.

PubMed

Su, Yanxin; Shi, Peidian; Zhang, Lilin; Lu, Dong; Zhao, Chengxue; Li, Ruiqiao; Zhang, Lei; Huang, Jinhai

2018-05-01

Linear ubiquitination plays an important role in the regulation of the immune response by regulating nuclear factor κB (NF-κB). The linear ubiquitination-specific deubiquitinase ovarian tumor domain deubiquitinase with linear linkage specificity (OTULIN) can control the immune signaling transduction pathway by restricting the Met1-linked ubiquitination process. In our study, the porcine OTLLIN gene was cloned and deubiquitin functions were detected in a porcine reproductive and respiratory syndrome virus (PRRSV)-infected-cell model. PRRSV infection promotes the expression of the OTULIN gene; in turn, overexpression of OTULIN contributes to PRRSV proliferation. There is negative regulation of innate immunity with OTULIN during viral infection. The cooperative effects of swine OTULIN and PRRSV Nsp11 potentiate the ability to reduce levels of cellular protein ubiquitin associated with innate immunity. Importantly, PRRSV Nsp11 recruits OTULIN through a nonenzymatic combination to enhance its ability to remove linear ubiquitination targeting NEMO, resulting in a superimposed effect that inhibits the production of type I interferons (IFNs). Our report presents a new model of virus utilization of the ubiquitin-protease system in vivo from the perspective of the viral proteins that interact with cell deubiquitination enzymes, providing new ideas for prevention and control of PRRSV. IMPORTANCE Deubiquitination effects of swine OTULIN were identified. The interaction between porcine OTULIN and PRRSV Nsp11 is dependent on the OTU domain. PRRSV Nsp11 recruits OTULIN through a nonenzymatic combination to promote removal of linear ubiquitination targeting NEMO, resulting in a superimposed effect that inhibits the production of type I IFNs. Copyright © 2018 American Society for Microbiology.

Intestinal exposure to PCB 153 induces inflammation via the ATM/NEMO pathway.

PubMed

Phillips, Matthew C; Dheer, Rishu; Santaolalla, Rebeca; Davies, Julie M; Burgueño, Juan; Lang, Jessica K; Toborek, Michal; Abreu, Maria T

2018-01-15

Polychlorinated biphenyls (PCBs) are persistent organic pollutants that adversely affect human health. PCBs bio-accumulate in organisms important for human consumption. PCBs accumulation in the body leads to activation of the transcription factor NF-κB, a major driver of inflammation. Despite dietary exposure being one of the main routes of exposure to PCBs, the gut has been widely ignored when studying the effects of PCBs. We investigated the effects of PCB 153 on the intestine and addressed whether PCB 153 affected intestinal permeability or inflammation and the mechanism by which this occurred. Mice were orally exposed to PCB 153 and gut permeability was assessed. Intestinal epithelial cells (IECs) were collected and evaluated for evidence of genotoxicity and inflammation. A human IEC line (SW480) was used to examine the direct effects of PCB 153 on epithelial function. NF-кB activation was measured using a reporter assay, DNA damage was assessed, and cytokine expression was ascertained with real-time PCR. Mice orally exposed to PCB 153 had an increase in intestinal permeability and inflammatory cytokine expression in their IECs; inhibition of NF-кB ameliorated both these effects. This inflammation was associated with genotoxic damage and NF-кB activation. Exposure of SW480 cells to PCB 153 led to similar effects as seen in vivo. We found that activation of the ATM/NEMO pathway by genotoxic stress was upstream of NF-kB activation. These results demonstrate that oral exposure to PCB 153 is genotoxic to IECs and induces downstream inflammation and barrier dysfunction in the intestinal epithelium. Copyright © 2017 Elsevier Inc. All rights reserved.

Surface wave effects on water temperature in the Baltic Sea: simulations with the coupled NEMO-WAM model

NASA Astrophysics Data System (ADS)

Alari, Victor; Staneva, Joanna; Breivik, Øyvind; Bidlot, Jean-Raymond; Mogensen, Kristian; Janssen, Peter

2016-08-01

Coupled circulation (NEMO) and wave model (WAM) system was used to study the effects of surface ocean waves on water temperature distribution and heat exchange at regional scale (the Baltic Sea). Four scenarios—including Stokes-Coriolis force, sea-state dependent energy flux (additional turbulent kinetic energy due to breaking waves), sea-state dependent momentum flux and the combination these forcings—were simulated to test the impact of different terms on simulated temperature distribution. The scenario simulations were compared to a control simulation, which included a constant wave-breaking coefficient, but otherwise was without any wave effects. The results indicate a pronounced effect of waves on surface temperature, on the distribution of vertical temperature and on upwelling's. Overall, when all three wave effects were accounted for, did the estimates of temperature improve compared to control simulation. During the summer, the wave-induced water temperature changes were up to 1 °C. In northern parts of the Baltic Sea, a warming of the surface layer occurs in the wave included simulations in summer months. This in turn reduces the cold bias between simulated and measured data, e.g. the control simulation was too cold compared to measurements. The warming is related to sea-state dependent energy flux. This implies that a spatio-temporally varying wave-breaking coefficient is necessary, because it depends on actual sea state. Wave-induced cooling is mostly observed in near-coastal areas and is the result of intensified upwelling in the scenario, when Stokes-Coriolis forcing is accounted for. Accounting for sea-state dependent momentum flux results in modified heat exchange at the water-air boundary which consequently leads to warming of surface water compared to control simulation.

A Transgenic Drosophila melanogaster Model To Study Human T-Lymphotropic Virus Oncoprotein Tax-1-Driven Transformation In Vivo.

PubMed

Shirinian, Margret; Kambris, Zakaria; Hamadeh, Lama; Grabbe, Caroline; Journo, Chloé; Mahieux, Renaud; Bazarbachi, Ali

2015-08-01

Human T-cell lymphotropic virus type 1 (HTLV-1)-induced adult T-cell leukemia/lymphoma is an aggressive malignancy. HTLV-2 is genetically related to HTLV-1 but does not cause any malignant disease. HTLV-1 Tax transactivator (Tax-1) contributes to leukemogenesis via NF-κB. We describe transgenic Drosophila models expressing Tax in the compound eye and plasmatocytes. We demonstrate that Tax-1 but not Tax-2 induces ommatidial perturbation and increased plasmatocyte proliferation and that the eye phenotype is dependent on Kenny (IKKγ/NEMO), thus validating this new in vivo model. Copyright © 2015, American Society for Microbiology. All Rights Reserved.

Earth Observations taken by Expedition 26 crewmember

NASA Image and Video Library

2011-01-09

ISS026-E-016287 (9 Jan. 2011) --- Onekotan Island, part of the Russian Federation in the western Pacific Ocean, is featured in this image photographed by an Expedition 26 crew member on the International Space Station. Snow cover highlights calderas and volcanic cones that form the northern and southern ends of the island. Calderas are depressions formed when a volcano empties its magma chamber in an explosive eruption, followed by collapse of the overlaying material into the newly evacuated space. The northern end of the island is dominated by the Nemo Peak volcano that began forming within an older caldera approximately 9,500 years ago, according to scientists. The last recorded eruptive activity at Nemo Peak occurred in the early 18th century. The southern end of the island is formed by the 7.5 kilometer wide Tao-Rusyr Caldera. The caldera is filled by Kal’tsevoe Lake and Krenitzyn Peak, a volcano that has only erupted once in recorded history during 1952. Extending between northeastern Japan and the Kamchatka Peninsula of Russia, the Kuril Islands are an island arc located along the Pacific “Ring of Fire”. Island arcs form along an active boundary between two tectonic plates where one plate is being driven beneath the other (subduction). Magma generated by the subduction process feeds volcanoes—which eventually form volcanic islands—over the subduction boundary.

CIKS, a connection to IκB kinase and stress-activated protein kinase

PubMed Central

Leonardi, Antonio; Chariot, Alain; Claudio, Estefania; Cunningham, Kirk; Siebenlist, Ulrich

2000-01-01

Pathogens, inflammatory signals, and stress cause acute transcriptional responses in cells. The induced expression of genes in response to these signals invariably involves transcription factors of the NF-κB and AP-1/ATF families. Activation of NF-κB factors is thought to be mediated primarily via IκB kinases (IKK), whereas that of AP-1/ATF can be mediated by stress-activated protein kinases (SAPKs; also named Jun kinases or JNKs). IKKα and IKKβ are two catalytic subunits of a core IKK complex that also contains the regulatory subunit NEMO (NF-κB essential modulator)/IKKγ. The latter protein is essential for activation of the IKKs, but its mechanism of action is not known. Here we describe the molecular cloning of CIKS (connection to IKK and SAPK/JNK), a previously unknown protein that directly interacts with NEMO/IKKγ in cells. When ectopically expressed, CIKS stimulates IKK and SAPK/JNK kinases and it transactivates an NF-κB-dependent reporter. Activation of NF-κB is prevented in the presence of kinase-deficient, interfering mutants of the IKKs. CIKS may help to connect upstream signaling events to IKK and SAPK/JNK modules. CIKS could coordinate the activation of two stress-induced signaling pathways, functions reminiscent of those noted for tumor necrosis factor receptor-associated factor adaptor proteins. PMID:10962033

Sperm whale assessment in the Western Ionian Sea using acoustic data from deep sea observatories

NASA Astrophysics Data System (ADS)

Caruso, Francesco; Bellia, Giorgio; Beranzoli, Laura; De Domenico, Emilio; Larosa, Giuseppina; Marinaro, Giuditta; Papale, Elena; Pavan, Gianni; Pellegrino, Carmelo; Pulvirenti, Sara; Riccobene, Giorgio; Scandura, Danila; Sciacca, Virginia; Viola, Salvatore

2015-04-01

The Italian National Institute of Nuclear Physics (INFN) operates two deep sea infrastructures: Capo Passero, Western Ionian Sea 3,600 meters of depth, and Catania Wester Ionian Sea 2,100 m depth. At the two sites, several research observatories have been run: OnDE, NEMO-SN1, SMO, KM3NeT-Italia most of them jointly operated between INFN and INGV. In all these observatories, passive acoustic sensors (hydrophones) have been installed. Passive Acoustics Monitoring (PAM) is nowadays the main tool of the bioacoustics to study marine mammals. In particular, receiving the sounds emitted by cetaceans from a multi-hydrophones array installed in a cabled seafloor observatory, a research about the ecological dynamics of the species may be performed. Data acquired with the hydrophones installed aboard the OnDE, SMO and KM3NeT-Italia observatories will be reported. Thanks to acquired data, the acoustic presence of the sperm whales was assessed and studied for several years (2005:2013). An "ad hoc" algorithm was also developed to allow the automatic identification of the "clicks" emitted by the sperm whales and measure the size of detected animals. According to the results obtained, the sperm whale population in the area is well-distributed in size, sex and sexual maturity. Although specimens more than 14 meters of length (old males) seem to be absent.

A high resolution Adriatic-Ionian Sea circulation model for operational forecasting

NASA Astrophysics Data System (ADS)

Ciliberti, Stefania Angela; Pinardi, Nadia; Coppini, Giovanni; Oddo, Paolo; Vukicevic, Tomislava; Lecci, Rita; Verri, Giorgia; Kumkar, Yogesh; Creti', Sergio

2015-04-01

A new numerical regional ocean model for the Italian Seas, with focus on the Adriatic-Ionian basin, has been implemented within the framework of Technologies for Situational Sea Awareness (TESSA) Project. The Adriatic-Ionian regional model (AIREG) represents the core of the new Adriatic-Ionian Forecasting System (AIFS), maintained operational by CMCC since November 2014. The spatial domain covers the Adriatic and the Ionian Seas, extending eastward until the Peloponnesus until the Libyan coasts; it includes also the Tyrrhenian Sea and extends westward, including the Ligurian Sea, the Sardinia Sea and part of the Algerian basin. The model is based on the NEMO-OPA (Nucleus for European Modeling of the Ocean - Ocean PArallelise), version 3.4 (Madec et al. 2008). NEMO has been implemented for AIREG at 1/45° resolution model in horizontal using 121 vertical levels with partial steps. It solves the primitive equations using the time-splitting technique for solving explicitly the external gravity waves. The model is forced by momentum, water and heat fluxes interactively computed by bulk formulae using the 6h-0.25° horizontal-resolution operational analysis and forecast fields from the European Centre for Medium-Range Weather Forecast (ECMWF) (Tonani et al. 2008, Oddo et al. 2009). The atmospheric pressure effect is included as surface forcing for the model hydrodynamics. The evaporation is derived from the latent heat flux, while the precipitation is provided by the Climate Prediction Centre Merged Analysis of Precipitation (CMAP) data. Concerning the runoff contribution, the model considers the estimate of the inflow discharge of 75 rivers that flow into the Adriatic-Ionian basin, collected by using monthly means datasets. Because of its importance as freshwater input in the Adriatic basin, the Po River contribution is provided using daily average observations from ARPA Emilia Romagna observational network. AIREG is one-way nested into the Mediterranean Forecasting System (MFS, http://medforecast.bo.ingv.it/) using daily means fields computed from daily outputs of the 1/16° general circulation model. One-way nesting is done by a novel pre-processing tool for an on-the-fly computation of boundary datasets compatible with BDY module provided by NEMO. It imposes the interpolation constraint and correction as in Pinardi et al. (2003) on the total velocity, ensuring that the total volume transport across boundaries is preserved after the interpolation procedures. In order to compute the lateral open boundary conditions, the model applies the Flow Relaxation Scheme (Engerdhal, 1995) for temperature, salinity and velocities and the Flather's radiation condition (Flather, 1976) for the depth-mean transport. Concerning the forecasting production cycle, AIFS produces 9-days forecast every day, producing hourly and daily means of temperature, salinity, surface currents, heat flux, water flux and shortwave radiation fields. AIREG model performances have been verified by using statistics (root mean square errors and BIAS) with respect to observed data (ARGO and CDT datasets)

Estimating the numerical diapycnal mixing in an eddy-permitting ocean model

NASA Astrophysics Data System (ADS)

Megann, Alex

2018-01-01

Constant-depth (or "z-coordinate") ocean models such as MOM4 and NEMO have become the de facto workhorse in climate applications, having attained a mature stage in their development and are well understood. A generic shortcoming of this model type, however, is a tendency for the advection scheme to produce unphysical numerical diapycnal mixing, which in some cases may exceed the explicitly parameterised mixing based on observed physical processes, and this is likely to have effects on the long-timescale evolution of the simulated climate system. Despite this, few quantitative estimates have been made of the typical magnitude of the effective diapycnal diffusivity due to numerical mixing in these models. GO5.0 is a recent ocean model configuration developed jointly by the UK Met Office and the National Oceanography Centre. It forms the ocean component of the GC2 climate model, and is closely related to the ocean component of the UKESM1 Earth System Model, the UK's contribution to the CMIP6 model intercomparison. GO5.0 uses version 3.4 of the NEMO model, on the ORCA025 global tripolar grid. An approach to quantifying the numerical diapycnal mixing in this model, based on the isopycnal watermass analysis of Lee et al. (2002), is described, and the estimates thereby obtained of the effective diapycnal diffusivity in GO5.0 are compared with the values of the explicit diffusivity used by the model. It is shown that the effective mixing in this model configuration is up to an order of magnitude higher than the explicit mixing in much of the ocean interior, implying that mixing in the model below the mixed layer is largely dominated by numerical mixing. This is likely to have adverse consequences for the representation of heat uptake in climate models intended for decadal climate projections, and in particular is highly relevant to the interpretation of the CMIP6 class of climate models, many of which use constant-depth ocean models at ¼° resolution

List of Posters

NASA Astrophysics Data System (ADS)

List of Posters: Dark matter annihilation in the Galactic galo, by Dokuchaev Vyacheslav, et al. NEMO developments towards km3 telescope in the Mediterranean Sea. The NEMO project. Neutrino Mediterranean Observatory By Antonio Capone, NEMO Collaboration. Alignment as a result from QCD jet production or new still unknown physics at LHC? By Alexander Snigirev. Small-scale fluctuations of extensive air showers: systematics in energy and muon density estimation By Grigory Rubtsov. SHINIE: Simulation of High-Energy Neutrino Interacting with the Earth By Lin Guey-Lin, et al.. Thermodynamics of rotating solutions in n+1 dimensional Einstein - Maxwell -dilation gravity By Ahmad Sheykhi, et al.. Supernova neutrino physics with future large Cherenkov detectors By Daniele Montanino. Crossing of the Cosmological Constant Barrier in the string Inspired Dark Energy Model By S. Yu. Vernov. Calculations of radio signals produced by ultra-high and extremely high energy neutrino induced cascades in Antarctic ice By D. Besson, et al.. Inflation, Cosmic Acceleration and string Gravity By Ischwaree Neupane. Neutrino Physics: Charm and J/Psi production in the atmosphere By Liudmila Volkova. Three generation flavor transitions and decays of supernova relic neutrinos By Daniele Montanino. Lattice calculations & computational quantum field theory: Sonification of Quark and Baryon Spectra By Markum Harald, et al.. Generalized Kramers-Wannier Duality for spin systems with non-commutative symmetry By V. M. Buchstaber, et al.. Heavy ion collisions & quark matter: Nuclear matter jets and multifragmentation By Danut Argintaru, et al.. QCD hard interactions: The qT-spectrum of the Higgs and Slepton-pairs at the LHC By Guiseppe Bozzi. QCD soft interactions: Nonperturbative effects in Single-Spin Asymmetries: Instantons and TMD-parton distributions By Igor Cherednikov, et al.. Gluon dominance model and high multiplicity By Elena Kokoulina. Resonances in eta pi- pi- pi+ system By Dmitry Ryabchikov. Saturation effects in diffractive scattering at LHC By Oleg Selugin. A nonperturbative expansion method in QCD and R-related quantities By Igor Solovtsov. Z-scaling and high multiplicity particle Production in bar pp/pp & AA collisions at Tevatron and RHIC By Mikhail Tokarev. Scaling behaviour of the reactionsdd - > p↑ /3H and pd - > pd with pT at energy I-2 GeV By Yuri Uzikov. [ADS Note: Title formula can not be rendered correctly in ASCII.] CP violation, rare decays, CKM: Precision Measurements of the Mass of the Top Quark at CDF (Precision Top Mass Measurements at CDF) By Daniel Whiteson. Measurement of the Bs Oscillation at CDF By Luciano Ristori. The Bs mixing phase at LHCb By J. J. van Hunen. ATLAS preparations for precise measurements of semileptonic rare B decays By K. Toms. Hadron spectroscopy & exotics: Searches for radial excited states of charmonium in experiments using cooled antiproton beams By M. Yu. Barabanov. Retardation effects in the rotating string model By Fabien Buisseret and Claude Semay. Final results from VEPP-2M (CMD-2 and SND) By G. V. Fedotovich. Heavy Quark Physics: Prospects for B physics measurements using the CMS detector at the LHC By Andreev Valery. Heavy flavour production at HERA-B By Andrey Bogatyrev. B-Meson subleading form factors in the Heavy Quark Effective Theory (HQET) By Frederic Jugeau. Beyond the Standard Model: Monopole Decay in a Variable External Field By Andrey Zayakin. Two-Loop matching coefficients for the strong coupling in the MSSM By Mihaila Luminita. Test of lepton flavour violation at LHC By Hidaka Keisho. Looking at New Physics through 4 jets and no ET By Maity Manas. Are Preons Dyons? Naturalness of Three Generations By Das Chitta Ranjan. SUSY Dark Matter at Linear Collider By Sezen Sekmen, Mehmet Zeyrek. MSSM light Higgs boson scenario and its test at hadron colliders By Alexander Belyaev. Antiscalar Approach to Gravity and Standard Model By E. Mychelkin. GRID distributed analysis in high energy physics: PAX: Physics Analysis Design and Application on the GRID By Martin Erdmann, et al.. D0 and the (SAM) GRID: An ongoing success story DO Collaboration. R & D for future accelerators, detectors & new facilities: High Level Trigger Selection in the CMS experiment By Monica Vazquez Acosta. R&D for a Helical Undulator Based Positron Source for the International Linear Collider By Phil Allport. Muon Detection, Reconstruction and Identification in CMS By Ivan Belotelov. Acoustic Measurements for EeV Neutrino Detection at the South Pole By Sebastian Böser. The PSI source of ultracold neutrons (UCN) By Manfred Daum. The LHCb Pixel Hybrid Photon Detectors (Characterization of Nybrig Photon Detectors for the LHCb experiment) By Neville Harnew, et al.. Semi-Insulating GaN-radiation hard semiconductor for ionizing radiation detectors By Juozas Vaitkus. Monitored Drift Tube end-cap spectrometer for the ATLAS detector By Dmitri Kotchetkov. Development of Focusing Aerogel RICH By Sergey Kononov, et al.. Electromagnetic Calibration of the Hadronic Tile Calorimeter Modules of the ATLAS detector at the LHC By Iouri Koultchitski. A Study of Proximity focusing RICH with Multiple Refractive Index Aerogel Radiator By Peter Krizan. The Heavy Flavor Tracker (HFT) for STAR By Vasil Kuspil. ATLAS Liquid Argon Calorimeter ATLAS Collaboration: Field Emission in HEP Colliders Initiated by a Relativistic Positively Charged Bunch of Particles By Boris Levchenko. MICE: the international Muon Ionization Cooling Experiment By Kenneth Long. In situ calibration of the CMS electromagnetic calorimeter By Augustino Lorenzo. The Transition Radiation Tracker for the ATLAS experiment at the LHC By Victor Maleev. Resonance depolarization and Compton-Backscattering technique for beam energy measurement of VEPP-4M collider By Ivan Nikolaev, et al.. CCD - based Pixel Detectors by LCFI By Andrei Nomerotski. The SiD Detector Concept for the International Linear Collider By Dmitry Onoprienko. CMS Hadron Calorimetry, Calibration, and Jets/Missing Transverse Energy Measurements By Sergey Petrushanko. The CMS Silicon Tracker By Oliver Pooth. Drift Chamber for CMD-3 detector By Alexandr Popov, et al.. Vacuum Phototriods for the CMS ECAL Endcap crystal calorimeter By Vladimir Postoev. CMS Silicon Tracker: Track Reconstruction and Alignment By Frank-Peter Schilling. eRHIC - A precision electron-proton/ion collider facility at Brookhaven National Laboratory By Bernd Surrow. Development of tracking detectors with industrially produced GEM foils By Bernd Surrow, et al.. A Linear Collider Facility with High Intensity e+e- beams (A high intensity e+e- Linear Collider Facility at low energy) By Andre Schoening. Construction of the BESIII detector for tau-charm physics By Yifang Wang. The HERMES Recoil Detector By Sergey Yashchenko. Simulation of MICE in G4 MICE MICE Experiment: The new DO Layer O silicon detector The DO trigger upgrade for RUNIIb The Do Collaboration. Operational experiences with the silicon detector at CDF By Jeannine Wagner. Mathematical aspects of QFT & string theory: Electron in superstrong Coulomb field By D. Gitman. Stability of a non-commutative Jackiw-Teitelboim gravity By Fresneda Rodrigo, et al.. 4d gravity localized on thick branes: the complete mass spectrum By Alfredo Herrera-Aguilar. On Emergence of Quantum Mechanics By L. V. Prokhorov.

Progress on wave-ice interactions: satellite observations and model parameterizations

NASA Astrophysics Data System (ADS)

Ardhuin, Fabrice; Boutin, Guillaume; Dumont, Dany; Stopa, Justin; Girard-Ardhuin, Fanny; Accensi, Mickael

2017-04-01

In the open ocean, numerical wave models have their largest errors near sea ice, and, until recently, virtually no wave data was available in the sea ice to. Further, wave-ice interaction processes may play an important role in the Earth system. In particular, waves may break up an ice layer into floes, with significant impact on air-sea fluxes. With thinner Arctic ice, this process may contribut to the growing similarity between Arctic and Antarctic sea ice. In return, the ice has a strong damping impact on the waves that is highly variable and not understood. Here we report progress on parameterizations of waves interacting with a single ice layer, as implemented in the WAVEWATCH III model (WW3 Development Group, 2016), and based on few in situ observations, but extensive data derived from Synthetic Aperture Radars (SARs). Our parameterizations combine three processes. First a parameterization for the energy-conserving scattering of waves by ice floes (assuming isotropic back-scatter), which has very little effect on dominant waves of periods larger than 7 s, consistent with the observed narrow directional spectra and short travel times. Second, we implemented a basal friction below the ice layer (Stopa et al. The Cryosphere, 2016). Third, we use a secondary creep associated with ice flexure (Cole et al. 1998) adapted to random waves. These three processes (scattering, friction and creep) are strongly dependent on the maximum floe size. We have thus included an estimation of the potential floe size based on an ice flexure failure estimation adapted from Williams et al. (2013). This combination of dissipation and scattering is tested against measured patterns of wave height and directional spreading, and evidence of ice break-up, all obtained from SAR imagery (Ardhuin et al. 2017), and some in situ data (Collins et al. 2015). The combination of creep and friction is required to reproduce a strong reduction in wave attenuation in broken ice as observed by Collins et al. (2015). Ongoing developments include the coupling of WAVEWATCH III to the NEMO-LIM3 and NEMO-CICE models using the OASIS3-MCT communicator. This coupled system will provide a meaningful memory of the ice floe sizes, as the ice is advected. It will also make possible the investigation of feedback processes on the ice.

Annual Acoustic Presence of Fin Whale (Balaenoptera physalus) Offshore Eastern Sicily, Central Mediterranean Sea

PubMed Central

Sciacca, Virginia; Caruso, Francesco; Beranzoli, Laura; Chierici, Francesco; De Domenico, Emilio; Embriaco, Davide; Favali, Paolo; Giovanetti, Gabriele; Larosa, Giuseppina; Marinaro, Giuditta; Papale, Elena; Pavan, Gianni; Pellegrino, Carmelo; Pulvirenti, Sara; Simeone, Francesco; Viola, Salvatore; Riccobene, Giorgio

2015-01-01

In recent years, an increasing number of surveys have definitively confirmed the seasonal presence of fin whales (Balaenoptera physalus) in highly productive regions of the Mediterranean Sea. Despite this, very little is yet known about the routes that the species seasonally follows within the Mediterranean basin and, particularly, in the Ionian area. The present study assesses for the first time fin whale acoustic presence offshore Eastern Sicily (Ionian Sea), throughout the processing of about 10 months of continuous acoustic monitoring. The recording of fin whale vocalizations was made possible by the cabled deep-sea multidisciplinary observatory, “NEMO-SN1”, deployed 25 km off the Catania harbor at a depth of about 2,100 meters. NEMO-SN1 is an operational node of the European Multidisciplinary Seafloor and water-column Observatory (EMSO) Research Infrastructure. The observatory was equipped with a low-frequency hydrophone (bandwidth: 0.05 Hz–1 kHz, sampling rate: 2 kHz) which continuously acquired data from July 2012 to May 2013. About 7,200 hours of acoustic data were analyzed by means of spectrogram display. Calls with the typical structure and patterns associated to the Mediterranean fin whale population were identified and monitored in the area for the first time. Furthermore, a background noise analysis within the fin whale communication frequency band (17.9–22.5 Hz) was conducted to investigate possible detection-masking effects. The study confirms the hypothesis that fin whales are present in the Ionian Sea throughout all seasons, with peaks in call detection rate during spring and summer months. The analysis also demonstrates that calls were more frequently detected in low background noise conditions. Further analysis will be performed to understand whether observed levels of noise limit the acoustic detection of the fin whales vocalizations, or whether the animals vocalize less in the presence of high background noise. PMID:26581104

Earth observations taken from shuttle orbiter Atlantis during STS-84 mission

NASA Image and Video Library

1997-05-20

STS084-712-003 (15-24 May 1997) --- Early morning sun highlights the volcanic features on Onekotan Island which is one of several volcanic islands in the Russian owned Kurile Island chain. Onekotan lies just south of Kamchatka. Two volcanoes are active on the island -- the small island surrounded by a moat-like lake in the south (Tao-Rusyr caldera) last erupted in 1952, and the cone-shaped peak at the north end of the island, Nemo peak, erupted in 1938.

Quantification of taurodontism: interests in the early diagnosis of hypohidrotic ectodermal dysplasia.

PubMed

Gros, C-I; Clauss, F; Obry, F; Manière, M C; Schmittbuhl, M

2010-04-01

The aim of this study was to provide a quantification of taurodontism in Hypohidrotic Ectodermal Dysplasia (HED) and to report its occurrence in a cohort of HED patients to assess phenotypic-genotypic correlations. Of 68 HED patients retrospectively reviewed, 16 patients aged 7-51 years were selected and compared with a control sample (n = 351). The pulp surface index of the first lower permanent molar was calculated from the panoramic radiograph of each individual, and statistical comparisons between the HED patients and the control sample were performed. Whatever the genetic disorder, 81.25% of the HED patients exhibited a relative enlargement (>or=1 s.d.) of the pulp. Major deviations (>5 s.d.) were respectively related to men affected by large deletion of the EDA gene or missense mutation. The autosomal recessive form was linked to a relative moderate pulp enlargement (3.44 s.d.). In NEMO forms, the increase of pulp size in men appeared to be less marked than in EDA mutations. This study provides for the first time an objective assessment of pulp enlargement in HED patients, and the various degrees of taurodontism depicted could be interesting dental phenotypic markers of HED forms.

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

Mamaluy, Denis; Gao, Xujiao; Tierney, Brian David

We created a highly efficient, universal 3D quant um transport simulator. We demonstrated that the simulator scales linearly - both with the problem size (N) and number of CPUs, which presents an important break-through in the field of computational nanoelectronics. It allowed us, for the first time, to accurately simulate and optim ize a large number of realistic nanodevices in a much shorter time, when compared to other methods/codes such as RGF[%7EN 2.333 ]/KNIT, KWANT, and QTBM[%7EN 3 ]/NEMO5. In order to determine the best-in-class for different beyond-CMOS paradigms, we performed rigorous device optimization for high-performance logic devices at 6-,more » 5- and 4-nm gate lengths. We have discovered that there exists a fundamental down-scaling limit for CMOS technology and other Field-Effect Transistors (FETs). We have found that, at room temperatures, all FETs, irre spective of their channel material, will start experiencing unacceptable level of thermally induced errors around 5-nm gate lengths.« less

Survival and signaling changes in antigen presenting cell subsets after radiation

NASA Astrophysics Data System (ADS)

Parker, Jennifer Janell

Radiation therapy is a widely used cancer treatment that has the potential to influence anti-tumor immune responses. Both myeloablative and non-myeloablative radiation are often used as part of preparatory regimens for hematopoetic stem cell transplantation, in combination with other chemotherapy or immuno-modulatory (e.g. Anti-thymocyte globulin (ATG)) therapies for both cytotoxic and immune modulatory purposes. However, the mechanisms responsible for the effect of radiation on antigen presenting cell (APC) responsiveness and radioresistance are poorly understood. The first studies described in this thesis were designed to identify and characterize early radiation-induced signaling changes in antigen presenting cells and to determine the effects of these signaling changes on APC receptor expression and function. The NFkappaB pathway in antigen presenting cells was chosen for study because it is activated by radiation in a wide range of other cell types and plays a vital role in the maintenance and regulation of the immune system. The effects of therapeutically relevant doses radiation (2 and 20 Gy) were compared at various timepoints in the human monocytic cell line (U937) using phospho-flow cytometry staining methods and cytometric analysis. These studies demonstrated that radiation-induced changes in the phosphorylation state of NFkappaB family members that were p53 independent. However, these changes were dependent upon activation of ATM in response to single or double-stranded breaks in DNA, as shown in experiments using an inhibitor of ATM and ATM siRNA knockdown U937 cells. In addition, studies examining the effect of radiation on co-stimulatory receptors with and without inhibition of the NFkappaB pathway via phospho-flow cytometry revealed that radiation-induced phosphorylation of NEMO promoted the activation and functional maturation of U937 cells. Furthermore, functional studies using both phospho-flow cytometry and/or mixed lymphocyte reactions to examine co-stimulatory receptor activation, pro-inflammatory cytokine release, and T cell proliferation with and without radiation and inhibition of the NFkappaB pathway, demonstrated that NEMO is necessary for the activation, maturation, and enhanced responsiveness of human subsets of antigen presenting cells that occur after radiation. These findings provided insight into the mechanism of action of radiation-enhanced promotion of the antigen presenting cell responses. The methods of analysis employed can be used for monitoring immune changes that impact immune modulation in transplantation and tumor vaccines studies. Furthermore, NFkappaB pathway proteins have the potential to serve as biomarkers for optimal antitumor responses. The NBD peptide may also have usefulness as a therapeutic agent for inhibition of graft versus host disease (GVHD) in patients who have undergone transplantation. While the first set of experiments focused on antigen presenting cell responsiveness, the second set of experiments were designed to enhance our understanding of why antigen presenting cells, specifically monocytes and dendritic cells, are more radioresistant than conventional T cells. Flow cytometric analysis of various surface markers and intracellular signaling markers were used to examine the mechanisms behind the radioresistance of antigen presenting cells. The experiments described here showed a hierarchy of radiosensitivity among T cells, with naive CD8 T cells being the most radiosensitive and CD4 memory T cells being the most radioresistant. Antigen presenting cells were found to be significantly more radioresistant than T cell subsets (<10 fold decrease after radiation), and among APC, monocytes were more radiosensitive than either total or conventional dendritic cells. Furthermore APC expressed lower levels of Bax after radiation than T cells, and APC subsets that expressed high levels were also more sensitive to radiation induced cell death. These results demonstrate that T cell and APC subsets are dying by apoptosis after radiation, and that the differential level of Bax expression is an important determinant of the relative radiosensitivity of these immune cell subsets. Again, these findings are clinically relevant to transplant patients and patients with tumors receiving radiation therapy since APC survival may have importance for the generation of anti-tumor immunity and post-transplantation immune sequelae such as GVHD. In addition, elucidation of the mechanism of death of APC and T cell subsets, as described in chapter 3, provides potential markers of cell death that can be correlated to good graft versus tumor (GVT) effects versus bad (tumor recurrence and persistence) GVT effects. Thus, understanding the mechanistic basis for radiation-induced changes in APC and the effect of these changes on survival and function is essential for optimizing the use of radiation in transplantation and tumor vaccine treatment protocols.

Variable reactivity of particulate organic matter in a global ocean biogeochemical model

NASA Astrophysics Data System (ADS)

Aumont, Olivier; van Hulten, Marco; Roy-Barman, Matthieu; Dutay, Jean-Claude; Éthé, Christian; Gehlen, Marion

2017-05-01

The marine biological carbon pump is dominated by the vertical transfer of particulate organic carbon (POC) from the surface ocean to its interior. The efficiency of this transfer plays an important role in controlling the amount of atmospheric carbon that is sequestered in the ocean. Furthermore, the abundance and composition of POC is critical for the removal of numerous trace elements by scavenging, a number of which, such as iron, are essential for the growth of marine organisms, including phytoplankton. Observations and laboratory experiments have shown that POC is composed of numerous organic compounds that can have very different reactivities. However, this variable reactivity of POC has never been extensively considered, especially in modelling studies. Here, we introduced in the global ocean biogeochemical model NEMO-PISCES a description of the variable composition of POC based on the theoretical reactivity continuum model proposed by Boudreau and Ruddick (1991). Our model experiments show that accounting for a variable lability of POC increases POC concentrations in the ocean's interior by 1 to 2 orders of magnitude. This increase is mainly the consequence of a better preservation of small particles that sink slowly from the surface. Comparison with observations is significantly improved both in abundance and in size distribution. Furthermore, the amount of carbon that reaches the sediments is increased by more than a factor of 2, which is in better agreement with global estimates of the sediment oxygen demand. The impact on the major macronutrients (nitrate and phosphate) remains modest. However, iron (Fe) distribution is strongly altered, especially in the upper mesopelagic zone as a result of more intense scavenging: vertical gradients in Fe are milder in the upper ocean, which appears to be closer to observations. Thus, our study shows that the variable lability of POC can play a critical role in the marine biogeochemical cycles which advocates for more dedicated in situ and laboratory experiments.

Deep seawater inherent optical properties in the Southern Ionian Sea

NASA Astrophysics Data System (ADS)

Riccobene, G.; Capone, A.; Aiello, S.; Ambriola, M.; Ameli, F.; Amore, I.; Anghinolfi, M.; Anzalone, A.; Avanzini, C.; Barbarino, G.; Barbarito, E.; Battaglieri, M.; Bellotti, R.; Beverini, N.; Bonori, M.; Bouhadef, B.; Brescia, M.; Cacopardo, G.; Cafagna, F.; Caponetto, L.; Castorina, E.; Ceres, A.; Chiarusi, T.; Circella, M.; Cocimano, R.; Coniglione, R.; Cordelli, M.; Costa, M.; Cuneo, S.; D'Amico, A.; de Bonis, G.; de Marzo, C.; de Rosa, G.; de Vita, R.; Distefano, C.; Falchini, E.; Fiorello, C.; Flaminio, V.; Fratini, K.; Gabrielli, A.; Galeotti, S.; Gandolfi, E.; Grimaldi, A.; Habel, R.; Leonora, E.; Lonardo, A.; Longo, G.; Lo Presti, D.; Lucarelli, F.; Maccioni, E.; Margiotta, A.; Martini, A.; Masullo, R.; Megna, R.; Migneco, E.; Mongelli, M.; Montaruli, T.; Morganti, M.; Musumeci, M.; Nicolau, C. A.; Orlando, A.; Osipenko, M.; Osteria, G.; Papaleo, R.; Pappalardo, V.; Petta, C.; Piattelli, P.; Raffaelli, F.; Raia, G.; Randazzo, N.; Reito, S.; Ricco, G.; Ripani, M.; Rovelli, A.; Ruppi, M.; Russo, G. V.; Russo, S.; Russo, S.; Sapienza, P.; Sedita, M.; Schuller, J.-P.; Shirokov, E.; Simeone, F.; Sipala, V.; Spurio, M.; Taiuti, M.; Terreni, G.; Trasatti, L.; Urso, S.; Valente, V.; Vicini, P.

2007-02-01

The NEMO (NEutrino Mediterranean Observatory) Collaboration has been carrying out since 1998 an evaluation programme of deep sea sites suitable for the construction of the future Mediterranean km3 Čerenkov neutrino telescope. We investigated the seawater optical and oceanographic properties of several deep sea marine areas close to the Italian Coast. Inherent optical properties (light absorption and attenuation coefficients) have been measured as a function of depth using an experimental apparatus equipped with standard oceanographic probes and the commercial transmissometer AC9 manufactured by WETLabs. This paper reports on the visible light absorption and attenuation coefficients measured in deep seawater of a marine region located in the Southern Ionian Sea, 60 100 km SE of Capo Passero (Sicily). Data show that blue light absorption coefficient is about 0.015 m-1 (corresponding to an absorption length of 67 m) close to the one of optically pure water and it does not show seasonal variation.

Effects of tides, vertical discretization schemes and runoff variability on a pan-Arctic Ocean simulation.

NASA Astrophysics Data System (ADS)

Luneva, Maria; Holt, Jason; Harle, James; Liu, Hedong

2013-04-01

The results of a recently developed NEMO-shelf pan-Arctic Ocean model coupled with LIM2 ice model are presented. This pan Arctic model has a hybrid s-z vertical discretization with terrain following coordinates on the shelf, condensing towards the bottom and surface boundary layer, and partial step z-coordinates in the abyss. This allows (a) processes near the surface to be resolved (b) Cascading (shelf convection), which contributes to the formation of halocline and deep dense water, to be well reproduced; and (c) minimize pressure gradient errors peculiar to terrain following coordinates. Horizontal grid and topography corresponds to global NEMO -ORCA 0.25 model (which uses a tripolar grid) with seamed slit between the western and eastern parts. In the Arctic basin this horizontal resolution corresponds to 15-10km with 5-7 km in the Canadian Archipelago. The model uses the General Length Scale vertical turbulent mixing scheme with (K- ɛ) closure and Kantha and Clayson type structural functions. Smagorinsky type Laplacian diffusivity and viscosity are employed for the description of a horizontal mixing. Vertical Piecewise Parabolic Method has been implemented with the aim to reduce an artificial vertical mixing. Boundary conditions are taken from the 5-days mean output of NOCS version of the global ORCA-025 model and OTPS/tpxo7 for 9 tidal harmonics . For freshwater runoff we employed two different forcings: a climatic one, used in global ORCA-0.25 model, and a recently available data base from Dai and Trenberth (Feb2011) 1948-2007, which takes in account inter-annual variability and includes 1200 river guages for the Arctic ocean coast. The simulations have been performed for two intervals: 1978-1988 and 1997-2007. The model adequately reproduces the main features of dynamics, tides and ice volume/concentration. The analysis shows that the main effects of tides occur at the ice-water interface and bottom boundary layers due to mesoscale Ekman pumping , generated by nonlinear shear tidal stresses, acting as a 'tidal winds' on the surfaces. Harmonic analysis shows, that at least five harmonics should be taken in account: three semidiurnal M2, S2, N2 and two diurnal K1 and O1. We present results from the following experiments: (a) with tidal forcing and without tidal forcing; (b) with climatic runoff and with Dai and Trenberth database. To examine the effects of summer ice openings on the formation of brine rejection and dense water cascades, additional idealised experiments have been performed: (c) for initial conditions of hydrographic fields and fluxes for 1978 with initial summer ice concentration of 2000; (d) opposite case of initial ocean conditions for 2000 and ice concentration of 1978. The comparisons with global ORCA-025 simulations and available data are discussed.

Exchanges between the shelf and the deep Black Sea: an integrated analysis of physical mechanisms

NASA Astrophysics Data System (ADS)

Shapiro, Georgy; Wobus, Fred; Zatsepin, Andrei; Akivis, Tatiana; Zhou, Feng

2017-04-01

This study provides an integrated analysis of exchanges of water, salt and heat between the north-western Black Sea shelf and the deep basin. Three contributing physical mechanisms are quantified, namely: Ekman drift, transport by mesoscale eddies at the edge of the NW Black Sea shelf and non-local cascading assisted by the rim current and mesoscale eddies. The semi-enclosed nature of the Black Sea together with its unique combination of an extensive shelf area in the North West and the deep central part make it sensitive to natural variations of fluxes, including the fluxes between the biologically productive shelf and predominantly anoxic deep sea. Exchanges between the shelf and deep sea play an important role in forming the balance of waters, nutrients and pollution within the coastal areas, and hence the level of human-induced eutrophication of coastal waters (MSFD Descriptor 5). In this study we analyse physical mechanisms and quantify shelf-deep sea exchange processes in the Black Sea sector using the NEMO ocean circulation model. The model is configured and optimized taking into account specific features of the Black Sea, and validated against in-situ and satellite observations. The study uses NEMO-BLS24 numerical model which is based on the NEMO codebase v3.2.1 with amendments introduced by the UK Met Office. The model has a horizontal resolution of 1/24×1/24° and a hybrid s-on-top-of-z vertical coordinate system with a total of 33 layers. The horizontal viscosity/diffusivity operator is rotated to reduce the contamination of vertical diffusion/viscosity by large values of their horizontal counterparts. The bathymetry is processed from ETOPO5 and capped to 1550m. Atmospheric forcing for the period 1989-2012 is given by the Drakkar Forcing Set v5.2. For comparison, the NCEP atmospheric forcing also used for 2005. The climatological runoff from 8 major rivers is included. We run the model individually for 24 calendar years without data assimilation. For the analysis of propagation of cold waters formed on the NW Black Sea shelf we use a passive tracer method. The tracer is treated as an artificial dye that "stains" a water parcel within the defined area as soon as it cooled below a 7°C temperature. To quantify the shelf-deep sea exchange, the transport of water, salt and heat between the NW shelf and deep-sea regions is calculated across an enclosed boundary (a "fence") approximating the 200 m isobath on the NW shelf plus two short segments connected to the coast. Partial transports are also calculated for the surface layer (top 20 m) and the under-surface layer (from 20 m to the bottom). The 20 m level is approximately equal to the Ekman depth in summer. It is also close to the depth of the biologically active euphotic layer. For validation of the NEMO-BLS24 configuration we present comparisons of the model with satellite-derived sea surface temperature measurements and with ship-derived cross-sections that show the vertical structure. We also compare the model to observations carried out during Black Sea cruises in 2004, 2007 and 2008. The model represents well the sea surface temperature, the depth of the upper mixed layer and the depth of the CIL, while overestimating the temperature in the core of the CIL by approx. 0.5 °C. Mechanism 1: exchanges due to a frontal eddy. Numerical simulations for the year 2005 (for which comprehensive remote sensed data is available) shows that a significant cross-shelf transport was generated by a long-lived anticyclonic eddy impinging on the shelf, sometimes assisted by a cyclonic meander of the Rim Current. Over 69 days between April 23 and June 30, 2005, a volume of 2.84×10^12 m3 of water (102% of the entire volume of the shelf waters) was transported out of the shelf and a similar amount onto the shelf (see details in Zhou et al. 2014). Mechanism 2: exchanges due to Ekman drift. During the short but intensive wind events of April 15 - 22 and July 1 - 4, 2005, 23% and 16% of shelf waters, were moved into the deep-sea region, respectively. Due to the high intensity of cross-shelf exchanges, the average renewal time for the NW shelf in the Black Sea was only 28 days in the summer of 2005 (Zhou et al. 2014). Mechanism 3: exchanges due to assisted cascading. Using the model run for 2003 as an example, we examine the fate of the tracer after 5.5 months of model integration. At 100m depth we identify four anti-cyclonic eddies: two eddies west of the Crimea peninsula, one north of Sinop and one west of Batumi. These eddies can be seen to assist cascading into the basin interior of cold waters formed on a shallow NW shelf to a depth greater than at which they were originally formed. The important result is that for many of the 24 studied years a significant proportion of dense shelf water does not cascade locally off the NW shelf, but is transported by the Rim Current over hundreds of kilometres before cascading into the deep basin in the southern and southeastern Black Sea. This work has been supported by EU FP7 PERSEUS, EU H2020 Sea Basin checkpoints Lot4 - Black Sea and a number of Chinese and Russian national projects. References Zhou, F., G. I. Shapiro, and F. Wobus, 2014: Cross-shelf exchange in the northwestern Black Sea. Journal of Geophysical Research: Oceans, 119, 2143-2164.

A weak AMOC in a cold climate: Causes and remedies for a bias in the low-resolution version of the UK Earth System Model

NASA Astrophysics Data System (ADS)

Kuhlbrodt, T.; Jones, C.

2016-02-01

The UK Earth System Model (UKESM) is currently being developed by the UK Met Office and the academic community in the UK. The low-resolution version of UKESM has got a nominal grid cell size of 150 km in the atmosphere (Unified Model [UM], N96) and 1° in the ocean (NEMO, ORCA1). In several preliminary test configurations of UKESM-N96-ORCA1, we find a significant cold bias in the northern hemisphere in comparison with HadGEM2 (N96-ORCA025, i.e. 0.25° resolution in the ocean). The sea surface is too cold by more than 2 K, and up to 6 K, in large parts of the North Atlantic and the northwest Pacific. In addition to the cold bias, the maximum AMOC transport (diagnosed below 500 m depth) decreases in all the configurations, displaying values between 11 and 14 Sv after 50 years run length. Transport at 26°N is even smaller and hence too weak in relation to observed values (approx. 18 Sv). The mixed layer is too deep within the North Atlantic Current and the Kuroshio, but too shallow north of these currents. The cold bias extends to a depth of several hundred metres. In the North Atlantic, it is accompanied by a freshening of up to 1.5 psu, compared to present-day climatology, along the path of the North Atlantic Current. A core problem appears to be the cessation of deep-water formation in the Labrador Sea. Remarkably, using earlier versions of NEMO and the UM, the AMOC is stable at around 16 or 17 Sv in the N96-ORCA1 configuration. We report on various strategies to reduce the cold bias and enhance the AMOC transport. Changing various parameters that affect the vertical mixing in NEMO has no significant effect. Modifying the bathymetry to deepen and widen the channels across the Greenland-Iceland-Scotland sill leads to a short-term improvement in AMOC transport, but only for about ten years. Strikingly, in a configuration with longer time steps for the atmosphere model we find a climate that is even colder, but has got a more vigorous maximum AMOC transport (14 Sv instead of 12 Sv). Conversely, if the isopycnal diffusivity is augmented by a factor of 1.5, we find a warming and an even weaker AMOC transport. This brings us to further strategies to modify the atmosphere-ocean fluxes of heat and freshwater.

South Atlantic meridional transports from NEMO-based simulations and reanalyses

NASA Astrophysics Data System (ADS)

Mignac, Davi; Ferreira, David; Haines, Keith

2018-02-01

The meridional heat transport (MHT) of the South Atlantic plays a key role in the global heat budget: it is the only equatorward basin-scale ocean heat transport and it sets the northward direction of the global cross-equatorial transport. Its strength and variability, however, are not well known. The South Atlantic transports are evaluated for four state-of-the-art global ocean reanalyses (ORAs) and two free-running models (FRMs) in the period 1997-2010. All products employ the Nucleus for European Modelling of the Oceans (NEMO) model, and the ORAs share very similar configurations. Very few previous works have looked at ocean circulation patterns in reanalysis products, but here we show that the ORA basin interior transports are consistently improved by the assimilated in situ and satellite observations relative to the FRMs, especially in the Argo period. The ORAs also exhibit systematically higher meridional transports than the FRMs, which is in closer agreement with observational estimates at 35 and 11° S. However, the data assimilation impact on the meridional transports still greatly varies among the ORAs, leading to differences up to ˜ 8 Sv and 0.4 PW in the South Atlantic Meridional Overturning Circulation and the MHTs, respectively. We narrow this down to large inter-product discrepancies in the western boundary currents (WBCs) at both upper and deep levels explaining up to ˜ 85 % of the inter-product differences in MHT. We show that meridional velocity differences, rather than temperature differences, in the WBCs drive ˜ 83 % of this MHT spread. These findings show that the present ocean observation network and data assimilation schemes can be used to consistently constrain the South Atlantic interior circulation but not the overturning component, which is dominated by the narrow western boundary currents. This will likely limit the effectiveness of ORA products for climate or decadal prediction studies.

microRNA-221 Enhances MYCN via Targeting Nemo-like Kinase and Functions as an Oncogene Related to Poor Prognosis in Neuroblastoma.

PubMed

He, Xiao-Yan; Tan, Zheng-Lan; Mou, Qin; Liu, Fang-Jie; Liu, Shan; Yu, Chao-Wen; Zhu, Jin; Lv, Lin-Ya; Zhang, Jun; Wang, Shan; Bao, Li-Ming; Peng, Bin; Zhao, Hui; Zou, Lin

2017-06-01

Purpose: MYCN is one of the most well-characterized genetic markers of neuroblastoma. However, the mechanisms as to how MYCN mediate neuroblastoma tumorigenesis are not fully clear. Increasing evidence has confirmed that the dysregulation of miRNAs is involved in MYCN-mediated neuroblastoma tumorigenesis, supporting their potential as therapeutic targets for neuroblastoma. Although miR-221 has been reported as one of the upregulated miRNAs, the interplay between miR-221 and MYCN-mediated neuroblastoma progression remains largely elusive. Experimental Design: The expression of miR-221 in the formalin-fixed, paraffin-embedded tissues from 31 confirmed patients with neuroblastoma was detected by locked nucleic acid- in situ hybridization and qRT-PCR. The correlation between miR-221 expression and clinical features in patients with neuroblastoma was assessed. The mechanisms as to how miR-221 regulate MYCN in neuroblastoma were addressed. The effect of miR-221 on cellular proliferation in neuroblastoma was determined both in vitro and in vivo Results: miR-221 was significantly upregulated in neuroblastoma tumor cells and tissues that overexpress MYCN, and high expression of miR-221 was positively associated with poor survival in patients with neuroblastoma. Nemo-like kinase (NLK) as a direct target of miR-221 in neuroblastoma was verified. In addition, overexpression of miR-221 decreased LEF1 phosphorylation but increased the expression of MYCN via targeting of NLK and further regulated cell cycle, particularly in S-phase, promoting the growth of neuroblastoma cells. Conclusions: This study provides a novel insight for miR-221 in the control of neuroblastoma cell proliferation and tumorigenesis, suggesting potentials of miR-221 as a prognosis marker and therapeutic target for patients with MYCN overexpressing neuroblastoma. Clin Cancer Res; 23(11); 2905-18. ©2016 AACR . ©2016 American Association for Cancer Research.

Variability of the volume and thickness of sea ice in the Bay of Bothnia

NASA Astrophysics Data System (ADS)

Ronkainen, Iina; Lehtiranta, Jonni; Lensu, Mikko; Rinne, Eero; Hordoir, Robinson; Haapala, Jari

2017-04-01

Variability of the volume and thickness of sea ice in the Bay of Bothnia In our study, we want to quantify the variability of sea ice volume and thickness in the Bay of Bothnia and to introduce the drivers of the observed variability. There has been similar studies, but only for fast ice. We use various different data sets: in-situ ice thickness data, remote sensing data, model data and ice charts. In-situ data is from the regular monitoring stations in the coastal fast ice zone and from field campaigns. The remote sensing data is helicopter-borne and ship-borne electromagnetic data. The models we use are HELMI and NEMO-Nordic. We analyze the different data sets and compare them to each other to solve the inter-annual variability and to discuss the ratio of level and deformed ice.

The PP4R1 sub-unit of protein phosphatase PP4 is essential for inhibition of NF-κB by merkel polyomavirus small tumour antigen.

PubMed

Abdul-Sada, Hussein; Müller, Marietta; Mehta, Rajni; Toth, Rachel; Arthur, J Simon C; Whitehouse, Adrian; Macdonald, Andrew

2017-04-11

Merkel cell carcinoma (MCC) is a highly aggressive skin cancer with a high metastatic potential. The majority of MCC cases are caused by the Merkel cell polyomavirus (MCPyV), through expression of the virus-encoded tumour antigens. Whilst mechanisms attributing tumour antigen expression to transformation are being uncovered, little is known of the mechanisms by which MCPyV persists in the host. We previously identified the MCPyV small T antigen (tAg) as a novel inhibitor of nuclear factor kappa B (NF-kB) signalling and a modulator of the host anti-viral response. Here we demonstrate that regulation of NF-kB activation involves a previously undocumented interaction between tAg and regulatory sub-unit 1 of protein phosphatase 4 (PP4R1). Formation of a complex with PP4R1 and PP4c is required to bridge MCPyV tAg to the NEMO adaptor protein, allowing deactivation of the NF-kB pathway. Mutations in MCPyV tAg that fail to interact with components of this complex, or siRNA depletion of PP4R1, prevents tAg-mediated inhibition of NF-kB and pro-inflammatory cytokine production. Comparison of tAg binding partners from other human polyomavirus demonstrates that interactions with NEMO and PP4R1 are unique to MCPyV. Collectively, these data identify PP4R1 as a novel target for virus subversion of the host anti-viral response.

Investigation of double-beta decay at the Institute of Theoretical and Experimental Physics (ITEP, Moscow)

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

Zeldovich, O. Ya.; Kirpichnikov, I. V.

Investigation of neutrinoless double-beta (2{beta}0{nu}) decay is presently being considered as one of the most important problems in particle physics and cosmology Interest in the problem was quickened by the observation of neutrino oscillations. The results of oscillation experiments determine the mass differences between different neutrino flavors, and the observation of neutrinoless decay may fix the absolute scale and the hierarchy of the neutrino masses. Investigation of 2{beta}0{nu} decay is the most efficient method for solving the problem of whether the neutrino is a Dirae or a Majorana particle, Physicists from the Institute of Theoretical and Experimental Physics (ITEP, Moscow)more » have been participating actively in solving this problem. They initiated and pioneered the application of semiconductor detectors manufactured from enriched germanium to searches for the double-beta decay of {sup 76}Ge. Investigations with {sup 76}Ge provided the most important results. At present, ITEP physicists are taking active part in four very large projects, GERDA. Majorana, EXO, and NEMO, which are capable of recording 2{beta}0{nu} decay at a Majorana neutrino mass of {approx} 10{sup -2} eV.« less

An EMSO data case study within the INDIGO-DC project

NASA Astrophysics Data System (ADS)

Monna, Stephen; Marcucci, Nicola M.; Marinaro, Giuditta; Fiore, Sandro; D'Anca, Alessandro; Antonacci, Marica; Beranzoli, Laura; Favali, Paolo

2017-04-01

We present our experience based on a case study within the INDIGO-DataCloud (INtegrating Distributed data Infrastructures for Global ExplOitation) project (www.indigo-datacloud.eu). The aim of INDIGO-DC is to develop a data and computing platform targeting scientific communities. Our case study is an example of activities performed by INGV using data from seafloor observatories that are nodes of the infrastructure EMSO (European Multidisciplinary Seafloor and water column Observatory)-ERIC (www.emso-eu.org). EMSO is composed of several deep-seafloor and water column observatories, deployed at key sites in the European waters, thus forming a widely distributed pan-European infrastructure. In our case study we consider data collected by the NEMO-SN1 observatory, one of the EMSO nodes used for geohazard monitoring, located in the Western Ionian Sea in proximity of Etna volcano. Starting from the case study, through an agile approach, we defined some requirements for INDIGO developers, and tested some of the proposed INDIGO solutions that are of interest for our research community. Given that EMSO is a distributed infrastructure, we are interested in INDIGO solutions that allow access to distributed data storage. Access should be both user-oriented and machine-oriented, and with the use of a common identity and access system. For this purpose, we have been testing: - ONEDATA (https://onedata.org), as global data management system. - INDIGO-IAM as Identity and Access Management system. Another aspect we are interested in is the efficient data processing, and we have focused on two types of INDIGO products: - Ophidia (http://ophidia.cmcc.it), a big data analytics framework for eScience for the analysis of multidimensional data. - A collection of INDIGO Services to run processes for scientific computing through the INDIGO Orchestrator.

AGAMA: Action-based galaxy modeling framework

NASA Astrophysics Data System (ADS)

Vasiliev, Eugene

2018-05-01

The AGAMA library models galaxies. It computes gravitational potential and forces, performs orbit integration and analysis, and can convert between position/velocity and action/angle coordinates. It offers a framework for finding best-fit parameters of a model from data and self-consistent multi-component galaxy models, and contains useful auxiliary utilities such as various mathematical routines. The core of the library is written in C++, and there are Python and Fortran interfaces. AGAMA may be used as a plugin for the stellar-dynamical software packages galpy (ascl:1411.008), AMUSE (ascl:1107.007), and NEMO (ascl:1010.051).

Calibration of sea ice dynamic parameters in an ocean-sea ice model using an ensemble Kalman filter

NASA Astrophysics Data System (ADS)

Massonnet, F.; Goosse, H.; Fichefet, T.; Counillon, F.

2014-07-01

The choice of parameter values is crucial in the course of sea ice model development, since parameters largely affect the modeled mean sea ice state. Manual tuning of parameters will soon become impractical, as sea ice models will likely include more parameters to calibrate, leading to an exponential increase of the number of possible combinations to test. Objective and automatic methods for parameter calibration are thus progressively called on to replace the traditional heuristic, "trial-and-error" recipes. Here a method for calibration of parameters based on the ensemble Kalman filter is implemented, tested and validated in the ocean-sea ice model NEMO-LIM3. Three dynamic parameters are calibrated: the ice strength parameter P*, the ocean-sea ice drag parameter Cw, and the atmosphere-sea ice drag parameter Ca. In twin, perfect-model experiments, the default parameter values are retrieved within 1 year of simulation. Using 2007-2012 real sea ice drift data, the calibration of the ice strength parameter P* and the oceanic drag parameter Cw improves clearly the Arctic sea ice drift properties. It is found that the estimation of the atmospheric drag Ca is not necessary if P* and Cw are already estimated. The large reduction in the sea ice speed bias with calibrated parameters comes with a slight overestimation of the winter sea ice areal export through Fram Strait and a slight improvement in the sea ice thickness distribution. Overall, the estimation of parameters with the ensemble Kalman filter represents an encouraging alternative to manual tuning for ocean-sea ice models.

ESONET LIDO Demonstration Mission: the East Sicily node

NASA Astrophysics Data System (ADS)

Riccobene, Giorgio; Favali, Paolo; Andrè, Michel; Chierici, Francesco; Pavan, Gianni; Esonet Lido Demonstration Mission Team

2010-05-01

Off East Sicily (at 2100 m depth, 25 km off the harbour of Catania) a prototype of a cabled deep-sea observatory (NEMO-SN1) was set up and has been operational in real-time since 2005 (the cabled deep-sea multi-parameter station SN1, equipped with geophysical and environmental sensors and the cabled NEMO-OνDE, equipped with 4 broadband hydrophones). The Western Ionian Sea is one of the node sites for the upcoming European permanent underwater network (EMSO). Within the activities of the EC project ESONET-NoE some demonstration missions have been funded. The LIDO-DM (Listening to the Deep Ocean-Demonstration Mission) is one of these and is related to two sites, East Sicily and Iberian Margin (Gulf of Cadiz), the main aims being geo-hazards monitoring and warning (seismic, tsunami, and volcanic) and bio-acoustics. The LIDO-DM East Sicily installation represents a further major step within ESONET-NoE, resulting in a fully integrated system for multidisciplinary deep-sea science, capable to transmit and distribute data in real time to the scientific community and to the general public. LIDO-DM East Sicily hosts a large number of sensors aimed at monitoring and studying oceanographic and environmental parameters (by means of CTD, ADCP, 3-C single point current meter, turbidity meter), geophysical phenomena (low frequency hydrophones, accelerometer, gravity meter, vector and scalar magnetometers, seismometer, absolute and differential pressure gauges), ocean noise monitoring and identification and tracking of biological acoustic sources in deep sea. The latter will be performed using two tetrahedral arrays of 4 hydrophones, located at a relative distance of about 5 km, and at about 25 km from the shore. The whole system will be connected and powered from shore, by means of the electro-optical cable net installed at the East Sicily Site Infrastructure, and synchronised with GPS. Sensors data sampling is performed underwater and transmitted via optical fibre link, with optimal S/N ratio for all signals. This will also permit real-time data acquisition, analysis and distribution on-shore. Innovative electronics for the off-shore data acquisition and transmission systems has been designed, built and tested. A dedicated computing and networking infrastructure for data acquisition, storage and distribution through the internet has been also created. The deployment and connection of the deep sea structures will be performed using the dedicated ROV and Deep Sea Shuttle handling facilities (PEGASO, owned by INGV and INFN). LIDO-DM constitutes the enhancement of the Western Ionian site in view of the EMSO Research Infrastructure.

Attenuation of microglial RANTES by NEMO-binding domain peptide inhibits the infiltration of CD8(+) T cells in the nigra of hemiparkinsonian monkey.

PubMed

Roy, A; Mondal, S; Kordower, J H; Pahan, K

2015-08-27

Parkinson's disease (PD) is a progressive neurodegenerative disease characterized by the loss of dopaminergic (DA) neurons in the substantia nigra pars compacta (SNpc). Despite intense investigations, little is known about its pathological mediators. Here, we report the marked upregulation of RANTES (regulated on activation, normal T cell expressed and secreted) and eotaxin, chemokines that are involved in T cell trafficking, in the serum of hemiparkinsonian monkeys. Interestingly, 1-methyl-4-phenylpyridinium (MPP(+)), a Parkinsonian toxin, increased the expression of RANTES and eotaxin in mouse microglial cells. The presence of NF-κB binding sites in promoters of RANTES and eotaxin and down-regulation of these genes by NEMO-binding domain (NBD) peptide, selective inhibitor of induced NF-κB activation, in MPP(+)-stimulated microglial cells suggest that the activation of NF-κB plays an important role in the upregulation of these two chemokines. Consistently, serum enzyme-linked immuno assay (ELISA) and nigral immunohistochemistry further confirmed that these chemokines were strongly upregulated in MPTP-induced hemiparkinsonian monkeys and that treatment with NBD peptides effectively inhibited the level of these chemokines. Furthermore, the microglial upregulation of RANTES in the nigra of hemiparkinsonian monkeys could be involved in the altered adaptive immune response in the brain as we observed greater infiltration of CD8(+) T cells around the perivascular niche and deep brain parenchyma of hemiparkinsonian monkeys as compared to control. The treatment of hemiparkinsonian monkeys with NBD peptides decreased the microglial expression of RANTES and attenuated the infiltration of CD8(+) T cells in nigra. These results indicate the possible involvement of chemokine-dependent adaptive immune response in Parkinsonism. Copyright © 2015 IBRO. Published by Elsevier Ltd. All rights reserved.

Nemo regulates cell dynamics and represses the expression of miple, a midkine/pleiotrophin cytokine, during ommatidial rotation

PubMed Central

Muñoz-Soriano, Verónica; Ruiz, Carlos; Pérez-Alonso, Manuel; Mlodzik, Marek; Paricio, Nuria

2013-01-01

Ommatidial rotation is one of the most important events for correct patterning of the Drosophila eye. Although several signaling pathways are involved in this process, few genes have been shown to specifically affect it. One of them is nemo (nmo), which encodes a MAP-like protein kinase that regulates the rate of rotation throughout the entire process, and serves as a link between core planar cell polarity (PCP) factors and the E-cadherin–β-catenin complex. To determine more precisely the role of nmo in ommatidial rotation, live-imaging analyses in nmo mutant and wild-type early pupal eye discs were performed. We demonstrate that ommatidial rotation is not a continuous process, and that rotating and non-rotating interommatidial cells are very dynamic. Our in vivo analyses also show that nmo regulates the speed of rotation and is required in cone cells for correct ommatidial rotation, and that these cells as well as interommatidial cells are less dynamic in nmo mutants. Furthermore, microarray analyses of nmo and wild-type larval eye discs led us to identify new genes and signaling pathways related to nmo function during this process. One of them, miple, encodes the Drosophila ortholog of the midkine/pleiotrophin secreted cytokines that are involved in cell migration processes. miple is highly up-regulated in nmo mutant discs. Indeed, phenotypic analyses reveal that miple overexpression leads to ommatidial rotation defects. Genetic interaction assays suggest that miple is signaling through Ptp99A, the Drosophila ortholog of the vertebrate midkine/pleiotrophin PTPζ receptor. Accordingly, we propose that one of the roles of Nmo during ommatial rotation is to repress miple expression, which may in turn affect the dynamics in E-cadherin–β-catenin complexes. PMID:23428616

Impact of the "Symmetric Instability of the Computational Kind" at mesoscale- and submesoscale-permitting resolutions

NASA Astrophysics Data System (ADS)

Ducousso, Nicolas; Le Sommer, J.; Molines, J.-M.; Bell, M.

2017-12-01

The energy- and enstrophy-conserving momentum advection scheme (EEN) used over the last 10 years in NEMO is subject to a spurious numerical instability. This instability, referred to as the Symmetric Instability of the Computational Kind (SICK), arises from a discrete imbalance between the two components of the vector-invariant form of momentum advection. The properties and the method for removing this instability have been documented by Hollingsworth et al. (1983), but the extent to which the SICK may interfere with processes of interest at mesoscale- and submesoscale-permitting resolutions is still unkown. In this paper, the impact of the SICK in realistic ocean model simulations is assessed by comparing model integrations with different versions of the EEN momentum advection scheme. Investigations are undertaken with a global mesoscale-permitting resolution (1/4 °) configuration and with a regional North Atlantic Ocean submesoscale-permitting resolution (1/60 °) configuration. At both resolutions, the instability is found to alter primarily the most energetic current systems, such as equatorial jets, western boundary currents and coherent vortices. The impact of the SICK is found to increase with model resolution with a noticeable impact at mesoscale-permitting resolution and a dramatic impact at submesoscale-permitting resolution. The SICK is shown to distort the normal functioning of current systems, by redirecting the slow energy transfer between balanced motions to a spurious energy transfer to internal inertia-gravity waves and to dissipation. Our results indicate that the SICK is likely to have significantly corrupted NEMO solutions (when run with the EEN scheme) at mesocale-permitting and finer resolutions over the last 10 years.

Sedimentary particulate iron: the missing micronutrients ?

NASA Astrophysics Data System (ADS)

Beghoura, Houda; Gorgues, Thomas; Aumont, Olivier; Planquette, Hélène

2017-04-01

Iron is known to regulate the marine primary production and to impact the structure of ecosystems. Indeed, iron is the limiting nutrient for the phytoplankton growth over about 30% of the global ocean. However, the nature of the external sources of iron to the ocean and their quantification remain uncertain. Among these external sources, the sediment sources have been recently shown to be underestimated. Besides, since the operationally defined dissolved iron (which is the sum of truly dissolved and colloidal iron) was traditionally assumed to be the only form available to phytoplankton and bacteria, most studies have focused on the supply of dissolved iron to the ocean, the role of the particulate fraction of iron being largely ignored. This traditional view has been recently challenged, noticeably, by observational evidences. Indeed, in situ observations have shown that large amounts of particulate iron are being resuspended from continental margins to the open ocean thanks to fine grained particles' transport over long distances. A fraction of this particulate iron may dissolve and thereby fuel the phytoplankton growth. The magnitude of the sedimentary sources of particulate iron and the releasing processes affecting this iron phase are not yet well constrained or quantified. As a consequence, the role of sedimentary particulate iron in the biogeochemical cycles is still unclear despite its potentially major widespread importance. Here, we propose a modeling exercise to assess the first order impacts of this newly considered particulate sedimentary iron on global ocean biogeochemistry. We designed global experiments with a coupled dynamical-biogeochemical model (NEMO-PISCES). First, a control simulation that includes only a sediment source of iron in the dissolved phase has been run. Then, this control simulation is being compared with simulations, in which we include a sediment source of iron in both phases (dissolved as well as particulate). Those latter simulations have been performed using a range of particulate iron dissolution rates (from published studies and laboratory experiment results) that will permit to test the sensitivity of the biogeochemical response.

Numerical Modelling of Freshwater Inputs in the Shelf Area of the Ofanto River (Southern Italy)

NASA Astrophysics Data System (ADS)

Verri, G.; Pinardi, N.; Tribbia, J. J.; Gochis, D.; Bryan, F.; Tseng, Y. H.; Navarra, A.; Coppini, G.

2016-02-01

The aim of this study is to understand and to assess the effects of river freshwater release on the ocean circulation and dynamics focusing on the shelf area near estuaries. A sensitivity study to different modelling approaches, which point to the representation of the dynamics of the river inflow, are presented. The modeling strategy we chose consists of an integrated modeling chain including the atmosphere, the hydrology/hydraulics and the estuarine dynamics in order to force our regional ocean model at the Ofanto outlet in a reliable way. This meteo-hydrological modeling chain allows us to take into account all the physical processes involved in the local water cycle of the Ofanto catchment such as the rainfall, the land surface infiltration/evaporation, the partitioning of total runoff into surface and subsurface runoff and the channel streamflow. In order to achieve our goal, we chose the Ofanto river catchment and its estuary as case study. The Ofanto river is a torrential river flowing across the Southern Italy and ending in the Adriatic Sea; its annual averaged discharge is low (15 m3s-1 following Raicich, 1996) but may significantly increase when heavy rain events occur. In details our regional ocean model is a finite difference numerical model based on NEMO code (Madec, G., 2008) and implemented in the Central Mediterranean Sea with 2km as horizontal resolution. The meteo-hydrological modeling chain consists of: 1) the WRF-ARW model (Skamarock et al., 2008) including NOAH-MP as Land Surface Submodel,; 2) WRF-HYDRO model (Gochis D., et al., 2013) representing the hydrology/hydraulics component with 200m as horizontal resolution, simulating the streamflow discharge along the Ofanto river network.; 3) finally an estuarine box model (Garvine et al., 2006) is inserted downstream of WRF-Hydro and upstream of the regional ocean model. A set of sensitivity experiments has been performed aiming to evaluate the capability of the regional ocean model to decribe the Ofanto river plume by providing hindcast discharge and salinity from the estuary model at the river mouth with different methods. The time window of the simulations covers the first three months of year 2011, since 4 heavy rain events affected the Ofanto catchment in this period.

Measurement of the radon diffusion through a nylon foil for different air humidities

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

Mamedov, Fadahat; Štekl, Ivan; Smolek, Karel

The dependency of the radon penetration through a nylon foil on air humidity was measured. Such information is needed for the tracking part of the SuperNEMO detector, which is planned to be shielded against radon by nylon foil and in which the air humidity is not negligible. The long term measurements of radon penetration through nylon foils for different air humidities were performed with the radon diffusion setup constructed at the IEAP, CTU in Prague. The setup consists of two stainless steel hemispheres with Si detector in each of them. Both hemispheres are separated by the tested foil. While themore » left hemisphere contains high Rn activity, the right part contains only activity caused by the radon penetration through the tested foil. Obtained results of this study with a nylon foil with the thickness of 50 µm are presented.« less

Direct molecular interactions between Beclin 1 and the canonical NFκB activation pathway.

PubMed

Niso-Santano, Mireia; Criollo, Alfredo; Malik, Shoaib Ahmad; Michaud, Michael; Morselli, Eugenia; Mariño, Guillermo; Lachkar, Sylvie; Galluzzi, Lorenzo; Maiuri, Maria Chaira; Kroemer, Guido

2012-02-01

General (macro)autophagy and the activation of NFκB constitute prominent responses to a large array of intracellular and extracellular stress conditions. The depletion of any of the three subunits of the inhibitor of NFκB (IκB) kinase (IKKα, IKKβ, IKKγ/NEMO), each of which is essential for the canonical NFκB activation pathway, limits autophagy induction by physiological or pharmacological triggers, while constitutive active IKK subunits suffice to stimulate autophagy. The activation of IKK usually relies on TGFβ-activated kinase 1 (TAK1), which is also necessary for the optimal induction of autophagy in multiple settings. TAK1 interacts with two structurally similar co-activators, TAK1-binding proteins 2 and 3 (TAB2 and TAB3). Importantly, in resting conditions both TAB2 and TAB3 bind the essential autophagic factor Beclin 1, but not TAK1. In response to pro-autophagic stimuli, TAB2 and TAB3 dissociate from Beclin 1 and engage in stimulatory interactions with TAK1. The inhibitory interaction between TABs and Beclin 1 is mediated by their coiled-coil domains (CCDs). Accordingly, the overexpression of either TAB2 or TAB3 CCD stimulates Beclin 1- and TAK1-dependent autophagy. These results point to the existence of a direct molecular crosstalk between the canonical NFκB activation pathway and the autophagic core machinery that guarantees the coordinated induction of these processes in response to stress.

The E3 ligase HOIP specifies linear ubiquitin chain assembly through its RING-IBR-RING domain and the unique LDD extension

PubMed Central

Smit, Judith J; Monteferrario, Davide; Noordermeer, Sylvie M; van Dijk, Willem J; van der Reijden, Bert A; Sixma, Titia K

2012-01-01

Activation of the NF-κB pathway requires the formation of Met1-linked ‘linear' ubiquitin chains on NEMO, which is catalysed by the Linear Ubiquitin Chain Assembly Complex (LUBAC) E3 consisting of HOIP, HOIL-1L and Sharpin. Here, we show that both LUBAC catalytic activity and LUBAC specificity for linear ubiquitin chain formation are embedded within the RING-IBR-RING (RBR) ubiquitin ligase subunit HOIP. Linear ubiquitin chain formation by HOIP proceeds via a two-step mechanism involving both RING and HECT E3-type activities. RING1-IBR catalyses the transfer of ubiquitin from the E2 onto RING2, to transiently form a HECT-like covalent thioester intermediate. Next, the ubiquitin is transferred from HOIP onto the N-terminus of a target ubiquitin. This transfer is facilitated by a unique region in the C-terminus of HOIP that we termed ‘Linear ubiquitin chain Determining Domain' (LDD), which may coordinate the acceptor ubiquitin. Consistent with this mechanism, the RING2-LDD region was found to be important for NF-κB activation in cellular assays. These data show how HOIP combines a general RBR ubiquitin ligase mechanism with unique, LDD-dependent specificity for producing linear ubiquitin chains. PMID:22863777

Biogeochemistry and plankton variabilities in the Mediterranean Sea: a long-term 3D coupled modelling approach

NASA Astrophysics Data System (ADS)

Dos Santos, Alex; Ulses, Caroline; Estournel, Claude; Marsaleix, Patrick

2017-04-01

The Mediterranean Sea is a semi-enclosed basin between Europe, Asia and North Africa. Around half a billion people (7% of the world population) live in this region, in 22 countries. The Mediterranean Sea is crossed by about one third of the world's total merchant shipping each year, representing a strong anthropogenic pressure on its ecosystems. Additionally, important climatic differences between Africa and Europe make the Mediterranean Sea a high gradients area, and thus can explain why it is very sensitive to climate change. Indeed, changes in temperature and salinity have already been observed in its deep waters. The semi-enclosed sea displays hydrodynamical processes which can be observed on a global scale, such as a thermohaline circulation or dense water formations, and a wide variety of trophic regimes. Studying environmental changes in the Mediterranean Sea can therefore bring insights for the global ocean. In this context, we propose to investigate the impact of climate and anthropogenic changes on the Mediterranean Sea pelagic planktonic ecosystems. A long-term historical simulation (hindcast) is performed in order to evaluate these changes. The regional ocean model NEMO-MED12, computing the circulation at a 1/12° resolution, is used to force offline the biogeochemical model ECO3M-S. After a validation of the simulation with existing data, a focus is made on the interannual variability of our key variables for the studied period: biogeochemical cycles are discussed, and nutrients budgets are computed on a basin scale. Finally, estimations of subsequent primary production and the structure of projected planktonic ecosystems are analysed.

Data assimilation experiments using the diffusive back and forth nudging for the NEMO ocean model

NASA Astrophysics Data System (ADS)

Ruggiero, G. A.; Ourmières, Y.; Cosme, E.; Blum, J.; Auroux, D.; Verron, J.

2014-07-01

The Diffusive Back and Forth Nudging (DBFN) is an easy-to-implement iterative data assimilation method based on the well-known Nudging method. It consists in a sequence of forward and backward model integrations, within a given time window, both of them using a feedback term to the observations. Therefore in the DBFN, the Nudging asymptotic behavior is translated into an infinite number of iterations within a bounded time domain. In this method, the backward integration is carried out thanks to what is called backward model, which is basically the forward model with reversed time step sign. To maintain numeral stability the diffusion terms also have their sign reversed, giving a diffusive character to the algorithm. In this article the DBFN performance to control a primitive equation ocean model is investigated. In this kind of model non-resolved scales are modeled by diffusion operators which dissipate energy that cascade from large to small scales. Thus, in this article the DBFN approximations and their consequences on the data assimilation system set-up are analyzed. Our main result is that the DBFN may provide results which are comparable to those produced by a 4Dvar implementation with a much simpler implementation and a shorter CPU time for convergence.

Implementation of Black Sea numerical model based on NEMO and 3DVAR data assimilation scheme for operational forecasting

NASA Astrophysics Data System (ADS)

Ciliberti, Stefania Angela; Peneva, Elisaveta; Storto, Andrea; Rostislav, Kandilarov; Lecci, Rita; Yang, Chunxue; Coppini, Giovanni; Masina, Simona; Pinardi, Nadia

2016-04-01

This study describes a new model implementation for the Black Sea, which uses data assimilation, towards operational forecasting, based on NEMO (Nucleus for European Modelling of the Ocean, Madec et al., 2012). The Black Sea domain is resolved with 1/27°×1/36° horizontal resolution (~3 km) and 31 z-levels with partial steps based on the GEBCO bathymetry data (Grayek et al., 2010). The model is forced by momentum, water and heat fluxes interactively computed by bulk formulae using high resolution atmospheric forcing provided by the European Centre for Medium-Range Forecast (ECMWF). The initial condition is calculated from long-term climatological temperature and salinity 3D fields. Precipitation field over the basin has been computed from the climatological GPCP rainfall monthly data (Adler et al., 2003; Huffman et al., 2009), while the evaporation is derived from the latent heat flux. The climatological monthly mean runoff of the major rivers in the Black Sea is computed using the hydrological dataset provided by SESAME project (Ludvig et al., 2009). The exchange with Mediterranean Sea through the Bosporus Straits is represented by a surface boundary condition taking into account the barotropic transport calculated to balance the fresh water fluxes on monthly bases (Stanev and Beckers, 1999, Peneva et al., 2001). A multi-annual run 2011-2015 has been completed in order to describe the main characteristics of the Black Sea circulation dynamics and thermohaline structure and the numerical results have been validated using in-situ (ARGO) and satellite (SST, SLA) data. The Black Sea model represents also the core of the new Black Sea Forecasting System, implemented at CMCC operationally since January 2016, which produces at daily frequency 10-day forecasts, 3-days analyses and 1-day simulation. Once a week, the system is run 15-day in the past in analysis mode to compute the new optimal initial condition for the forecast cycle. The assimilation is performed by a three-dimensional variational data assimilation system (3DVAR) that ingests all hydrographic profiles (mostly ARGO floats), sea level anomaly data from available altimetry missions and sea surface temperature measurements retrieved from infrared sensors on-board polar-orbiting satellites (Storto et al., 2014). All the data are taken from the CMEMS catalogue. The 3DVAR system implements a recursive filter to model horizontal correlations while vertical covariances are formulated through multivariate empirical orthogonal functions. The system produces hourly and daily means for temperature, salinity, currents and sea surface height with online validation against satellite observations for SST and in-situ ARGO measurements. Grayek, S., Stanev, E., Kandilarov, R., 2010. On the response of Black Sea level to external forcing: altimeter data and numerical modelling. Ocean Dyn. 60, 123-140. Ludwig W., E. Dumont, M. Meybeck, and S. Heussner, 2009. River discharges of water and nutrients to the Mediterranean and Black Sea: Major drivers for ecosystem changes during past and future decades? Progress in Oceanography, 80, 199-217. Peneva, E. L., E. Stanev, V. Belokopytov, and P.Y. Le Traon, 2001. Water transport in the Bosporus Straits estimated from hydro-meteorologycal and altimeter data: Seasonal to decadal variability. J. Mar. Sys., 31, 1-3, 21-35. Stanev E. and J.M. Beckers, 1999. Barotropic and baroclinic oscillations in strongly stratified ocean basins: Numerical study of the Black Sea. Journal of Marine Systems, 19, 65-112. Storto A., Masina S., Dobricic S., 2014. Estimation and impact of nonuniform horizontal correlation length scales for Global Ocean physical analyses. J. Atmos. Ocean. Technol., 31: 2330-2349.

Estimation of the uncertainty of a climate model using an ensemble simulation

NASA Astrophysics Data System (ADS)

Barth, A.; Mathiot, P.; Goosse, H.

2012-04-01

The atmospheric forcings play an important role in the study of the ocean and sea-ice dynamics of the Southern Ocean. Error in the atmospheric forcings will inevitably result in uncertain model results. The sensitivity of the model results to errors in the atmospheric forcings are studied with ensemble simulations using multivariate perturbations of the atmospheric forcing fields. The numerical ocean model used is the NEMO-LIM in a global configuration with an horizontal resolution of 2°. NCEP reanalyses are used to provide air temperature and wind data to force the ocean model over the last 50 years. A climatological mean is used to prescribe relative humidity, cloud cover and precipitation. In a first step, the model results is compared with OSTIA SST and OSI SAF sea ice concentration of the southern hemisphere. The seasonal behavior of the RMS difference and bias in SST and ice concentration is highlighted as well as the regions with relatively high RMS errors and biases such as the Antarctic Circumpolar Current and near the ice-edge. Ensemble simulations are performed to statistically characterize the model error due to uncertainties in the atmospheric forcings. Such information is a crucial element for future data assimilation experiments. Ensemble simulations are performed with perturbed air temperature and wind forcings. A Fourier decomposition of the NCEP wind vectors and air temperature for 2007 is used to generate ensemble perturbations. The perturbations are scaled such that the resulting ensemble spread matches approximately the RMS differences between the satellite SST and sea ice concentration. The ensemble spread and covariance are analyzed for the minimum and maximum sea ice extent. It is shown that errors in the atmospheric forcings can extend to several hundred meters in depth near the Antarctic Circumpolar Current.

Feasibility, safety and efficacy of transcutaneous vagus nerve stimulation in chronic tinnitus: an open pilot study.

PubMed

Kreuzer, Peter M; Landgrebe, Michael; Resch, Markus; Husser, Oliver; Schecklmann, Martin; Geisreiter, Florian; Poeppl, Timm B; Prasser, Sarah J; Hajak, Goeran; Rupprecht, Rainer; Langguth, Berthold

2014-01-01

Vagus nerve stimulation represents an established treatment strategy for epilepsy and affective disorders. Recently, positive effects were also shown in animals and humans with tinnitus. Here we report the results of an open pilot study exploring feasibility, safety and efficacy of tVNS in the treatment of chronic tinnitus. Fifty patients with chronic tinnitus underwent tVNS in an open single-armed pilot study which was conducted in two phases applying two different stimulating devices (Cerbomed CM02 and NEMOS). Clinical assessment was based on Tinnitus Questionnaire (TQ), Tinnitus Handicap Inventory (THI), Beck Depression Inventory (BDI), WHO Quality of Life, and various numeric rating scales. Primary outcome was defined as change in TQ (baseline vs. final visit in week 24). The study has been registered with clinicaltrials.gov (NCT01176734). Primary analysis indicated mean TQ reductions of 3.7 points (phase 1) and 2.8 points (phase 2) significant for the first study phase. Secondary analyses indicated a significant BDI reduction for phase 1 (uncorrected for multiple testing), but no further systematic or significant effects. Adverse events included twitching and pressure at electrode placement site. The occurrence of one hospitalization because of palpations and the development of a left bundle branch block were considered as unrelated to the intervention. Cognitive testing revealed no significant changes. Our data demonstrate the feasibility of tVNS over a period of 6 months. There was no clinically relevant improvement of tinnitus complaints. Our data suggest tVNS to be considered safe in patients without a history of cardiac disease. Copyright © 2014 Elsevier Inc. All rights reserved.

Simultaneous measurements of water optical properties by AC9 transmissometer and ASP-15 inherent optical properties meter in Lake Baikal

NASA Astrophysics Data System (ADS)

Balkanov, V.; Belolaptikov, I.; Bezrukov, L.; Budnev, N.; Capone, A.; Chensky, A.; Danilchenko, I.; Domogatsky, G.; Dzhilkibaev, Zh.-A.; Fialkovsky, S.; Gaponenko, O.; Gress, O.; Gress, T.; Il'Yasov, R.; Klabukov, A.; Klimov, A.; Klimushin, S.; Konischev, K.; Koshechkin, A.; Kuznetzov, Vy.; Kuzmichev, L.; Kulepov, V.; Lubsandorzhiev, B.; Masullo, R.; Migneco, E.; Mikheyev, S.; Milenin, M.; Mirgazov, R.; Moseiko, N.; Osipova, E.; Panfilov, A.; Pan'kov, L.; Parfenov, Yu.; Pavlov, A.; Petruccetti, M.; Pliskovsky, E.; Pokhil, P.; Poleschuk, V.; Popova, E.; Prosin, V.; Riccobene, G.; Rozanov, M.; Rubtzov, V.; Semeney, Yu.; Spiering, Ch.; Streicher, O.; Tarashansky, B.; Vasiljev, R.; Wischnewski, R.; Yashin, I.; Zhukov, V.

2003-02-01

Measurements of optical properties in media enclosing Cherenkov neutrino telescopes are important not only at the moment of the selection of an adequate site, but also for the continuous characterization of the medium as a function of time. Over the two last decades, the Baikal collaboration has been measuring the optical properties of the deep water in Lake Baikal (Siberia) where, since April 1998, the neutrino telescope NT-200 is in operation. Measurements have been made with custom devices. The NEMO Collaboration, aiming at the construction of a km3 Cherenkov neutrino detector in the Mediterranean Sea, has developed an experimental setup for the measurement of oceanographic and optical properties of deep sea water. This setup is based on a commercial transmissometer. During a joint campaign of the two collaborations in March and April 2001, light absorption, scattering and attenuation in water have been measured. The results are compatible with previous ones reported by the Baikal Collaboration and show convincing agreement between the two experimental techniques.

A Low-Cost Environmental Monitoring System: How to Prevent Systematic Errors in the Design Phase through the Combined Use of Additive Manufacturing and Thermographic Techniques.

PubMed

Salamone, Francesco; Danza, Ludovico; Meroni, Italo; Pollastro, Maria Cristina

2017-04-11

nEMoS (nano Environmental Monitoring System) is a 3D-printed device built following the Do-It-Yourself (DIY) approach. It can be connected to the web and it can be used to assess indoor environmental quality (IEQ). It is built using some low-cost sensors connected to an Arduino microcontroller board. The device is assembled in a small-sized case and both thermohygrometric sensors used to measure the air temperature and relative humidity, and the globe thermometer used to measure the radiant temperature, can be subject to thermal effects due to overheating of some nearby components. A thermographic analysis was made to rule out this possibility. The paper shows how the pervasive technique of additive manufacturing can be combined with the more traditional thermographic techniques to redesign the case and to verify the accuracy of the optimized system in order to prevent instrumental systematic errors in terms of the difference between experimental and actual values of the above-mentioned environmental parameters.

A Low-Cost Environmental Monitoring System: How to Prevent Systematic Errors in the Design Phase through the Combined Use of Additive Manufacturing and Thermographic Techniques

PubMed Central

Salamone, Francesco; Danza, Ludovico; Meroni, Italo; Pollastro, Maria Cristina

2017-01-01

nEMoS (nano Environmental Monitoring System) is a 3D-printed device built following the Do-It-Yourself (DIY) approach. It can be connected to the web and it can be used to assess indoor environmental quality (IEQ). It is built using some low-cost sensors connected to an Arduino microcontroller board. The device is assembled in a small-sized case and both thermohygrometric sensors used to measure the air temperature and relative humidity, and the globe thermometer used to measure the radiant temperature, can be subject to thermal effects due to overheating of some nearby components. A thermographic analysis was made to rule out this possibility. The paper shows how the pervasive technique of additive manufacturing can be combined with the more traditional thermographic techniques to redesign the case and to verify the accuracy of the optimized system in order to prevent instrumental systematic errors in terms of the difference between experimental and actual values of the above-mentioned environmental parameters. PMID:28398225

Suppression of nemo-like kinase by miR-71 in Echinococcus multilocularis.

PubMed

Guo, Xiaola; Zhang, Xueyong; Yang, Jing; Jin, Xiaoliang; Ding, Juntao; Xiang, Haitao; Ayaz, Mazhar; Luo, Xuenong; Zheng, Yadong

2017-12-01

Echinococcus multilocularis metacestodes are a causative pathogen for alveolar echinococcosis in human beings, and have been found to express miRNAs including emu-miR-71. miR-71 is evolutionarily conserved and highly expressed across platyhelminths, but little is known about its role. Here it was shown that emu-miR-71 was differentially expressed in protoscoleces and was unlikely to be expressed in neoblasts. The results of the luciferase assay indicated that emu-miR-71 was able to bind in vitro to the 3'-UTR of emu-nlk, encoding a key regulator of cell division, causing significant downregulation of luciferase activity (p < 0.01) compared to the negative control and the construct with mutations in the binding site. Consistent with the decreased luciferase activity, transfection of emu-miR-71 mimics into protoscoleces notably repressed emu-NLK (p < 0.05). These results demonstrate the suppression of emu-nlk by emu-miR-71, potentially involved in the protoscolex development. Copyright © 2017 Elsevier Inc. All rights reserved.

Assessment of Global Forecast Ocean Assimilation Model (FOAM) using new satellite SST data

NASA Astrophysics Data System (ADS)

Ascione Kenov, Isabella; Sykes, Peter; Fiedler, Emma; McConnell, Niall; Ryan, Andrew; Maksymczuk, Jan

2016-04-01

There is an increased demand for accurate ocean weather information for applications in the field of marine safety and navigation, water quality, offshore commercial operations, monitoring of oil spills and pollutants, among others. The Met Office, UK, provides ocean forecasts to customers from governmental, commercial and ecological sectors using the Global Forecast Ocean Assimilation Model (FOAM), an operational modelling system which covers the global ocean and runs daily, using the NEMO (Nucleus for European Modelling of the Ocean) ocean model with horizontal resolution of 1/4° and 75 vertical levels. The system assimilates salinity and temperature profiles, sea surface temperature (SST), sea surface height (SSH), and sea ice concentration observations on a daily basis. In this study, the FOAM system is updated to assimilate Advanced Microwave Scanning Radiometer 2 (AMSR2) and the Spinning Enhanced Visible and Infrared Imager (SEVIRI) SST data. Model results from one month trials are assessed against observations using verification tools which provide a quantitative description of model performance and error, based on statistical metrics, including mean error, root mean square error (RMSE), correlation coefficient, and Taylor diagrams. A series of hindcast experiments is used to run the FOAM system with AMSR2 and SEVIRI SST data, using a control run for comparison. Results show that all trials perform well on the global ocean and that largest SST mean errors were found in the Southern hemisphere. The geographic distribution of the model error for SST and temperature profiles are discussed using statistical metrics evaluated over sub-regions of the global ocean.

The effect of EBV on WIF1, NLK, and APC gene methylation and expression in gastric carcinoma and nasopharyngeal cancer.

PubMed

Zhao, Zhenzhen; Liu, Wen; Liu, Jincheng; Wang, Jiayi; Luo, Bing

2017-10-01

Epstein-Barr virus (EBV) is an important DNA tumor virus that is associated with approximately 10% of gastric carcinomas and 99% of nasopharyngeal cancers (NPC). DNA methylation and microRNAs (miRNAs) are the most studied epigenetic mechanisms that can prompt disease susceptibility. This study aimed to detect the effect of EBV on Wnt inhibitory factor 1 (WIF1), Nemo-like kinase (NLK), and adenomatous polyposis coli (APC) gene methylation, and expression in gastric carcinoma and NPC. The WIF1, NLK, and APC gene mRNA expression levels were measured by real-time quantitative RT-PCR in four EBV-positive cell lines and four EBV-negative cell lines. Bisulfite genomic sequencing or methylation-specific PCR was used to detect the methylation status of the WIF1, NLK, and APC promoters. All cell lines were treated with 5-azacytidine (5-aza-dC), miR-BART19-3p mimics or an inhibitor, and analyzed by flow cytometry and MTT cell proliferation assays. The WIF1, NLK, and APC promoters were hypermethylated in all eight cell lines. 5-Aza-dC displayed a growth inhibitory effect on cells . After transfection with miR-BART19-3p mimics, the expression of WIF1, and APC decreased, and the cellular proliferation rate increased. After transfection with the miR-BART19-3p inhibitor, the expression levels were higher, and the cell growth was inhibited. In the NPC and GC cell lines, the promoters of WIF1, NLK, and APC are highly methylated, and the expression of these three genes is regulated by miR-BART19-3p. The activity of the Wnt pathway in EBV-associated tumors may be enhanced by miR-BART19-3p. © 2017 Wiley Periodicals, Inc.

NEMO Binding Domain peptide inhibits constitutive NF-κB activity and reduces tumor burden in a canine model of relapsed, refractory Diffuse Large B-Cell Lymphoma

PubMed Central

Gaurnier-Hausser, Anita; Patel, Reema; Baldwin, Albert S.; May, Michael J.; Mason, Nicola J.

2011-01-01

Purpose Activated B-Cell Diffuse Large B-Cell Lymphoma (ABC-DLBCL) is an aggressive, poorly chemoresponsive lymphoid malignancy characterized by constitutive canonical NF-κB activity that promotes lymphomagenesis and chemotherapy resistance via over-expression of anti-apoptotic NF-κB target genes. Inhibition of the canonical NF-κB pathway may therefore have therapeutic relevance in ABC-DLBCL. Here we set out to determine whether dogs with spontaneous DLBCL have comparative aberrant constitutive NF-κB activity and to determine the therapeutic relevance of NF-κB inhibition in dogs with relapsed, resistant DLBCL. Experimental Design Canonical NF-κB activity was evaluated by electrophoretic mobility shift assays and immunoblot analyses, and NF-κB target gene expression was measured by qRT-PCR. Primary malignant canine B lymphocytes were treated with the selective IKK complex inhibitor Nemo Binding Domain (NBD) peptide, and evaluated for NF-κB activity and apoptosis. NBD peptide was administered intra-nodally to dogs with relapsed B-cell lymphoma and NF-κB target gene expression and tumor burden were evaluated pre and post treatment. Results Constitutive canonical NF-κB activity and increased NF-κB target gene expression was detected in primary DLBCL tissue. NBD peptide inhibited this activity and induced apoptosis of primary malignant B cells in vitro. Intra-tumoral injections of NBD peptide to dogs with relapsed DLBCL inhibited NF-κB target gene expression and reduced tumor burden. Conclusions This work shows that dogs with spontaneous DLBCL represent a clinically relevant, spontaneous, large animal model for human ABC-DLBCL and demonstrates the therapeutic relevance of NF-κB inhibition in the treatment of ABC-DLBCL. These results have important translational relevance for ABC-DLBCL treatment in human patients. PMID:21610150

Activation and Function of the MAPKs and Their Substrates, the MAPK-Activated Protein Kinases

PubMed Central

Cargnello, Marie; Roux, Philippe P.

2011-01-01

Summary: The mitogen-activated protein kinases (MAPKs) regulate diverse cellular programs by relaying extracellular signals to intracellular responses. In mammals, there are more than a dozen MAPK enzymes that coordinately regulate cell proliferation, differentiation, motility, and survival. The best known are the conventional MAPKs, which include the extracellular signal-regulated kinases 1 and 2 (ERK1/2), c-Jun amino-terminal kinases 1 to 3 (JNK1 to -3), p38 (α, β, γ, and δ), and ERK5 families. There are additional, atypical MAPK enzymes, including ERK3/4, ERK7/8, and Nemo-like kinase (NLK), which have distinct regulation and functions. Together, the MAPKs regulate a large number of substrates, including members of a family of protein Ser/Thr kinases termed MAPK-activated protein kinases (MAPKAPKs). The MAPKAPKs are related enzymes that respond to extracellular stimulation through direct MAPK-dependent activation loop phosphorylation and kinase activation. There are five MAPKAPK subfamilies: the p90 ribosomal S6 kinase (RSK), the mitogen- and stress-activated kinase (MSK), the MAPK-interacting kinase (MNK), the MAPK-activated protein kinase 2/3 (MK2/3), and MK5 (also known as p38-regulated/activated protein kinase [PRAK]). These enzymes have diverse biological functions, including regulation of nucleosome and gene expression, mRNA stability and translation, and cell proliferation and survival. Here we review the mechanisms of MAPKAPK activation by the different MAPKs and discuss their physiological roles based on established substrates and recent discoveries. PMID:21372320

A Novel Splicesite Mutation in the EDAR Gene Causes Severe Autosomal Recessive Hypohydrotic (Anhidrotic) Ectodermal Dysplasia in an Iranian Family.

PubMed

Torkamandi, Shahram; Gholami, Milad; Mohammadi-Asl, Javad; Rezaie, Somaye; Zaimy, Mohammad Ali; Omrani, Mir Davood

2016-01-01

Hypohidrotic ectodermal dysplasia (HED) is a rare congenital disorder arising from deficient development of ectoderm-derived structures including skin, nails, glands and teeth. The phenotype of HED is associated with mutation in EDA, EDAR, EDARADD and NEMO genes, all of them disruptingNF-κB signaling cascade necessary for initiation, formation and differentiation in the embryo and adult. Here we describe a novel acceptor splice site mutation c.730-2 A>G(IVS 8-2 A>G) in EDAR gene in homozygous form in all affected members of a family,and in heterozygous form in carriers. Bioinformatics analysis showed that this mutation can create a new broken splicing site and lead to aberrant splicing.

Investigation of active volcanic areas through oceanographic data collected by the NEMO-SN1 multiparametric seafloor observatory

NASA Astrophysics Data System (ADS)

Lo Bue, Nadia; Sgroi, Tiziana; Giovanetti, Gabriele; Marinaro, Giuditta; Embriaco, Davide; Beranzoli, Laura; Favali, Paolo

2015-04-01

In the framework of the European Research Infrastructure EMSO (European Multidisciplinary Seafloor and water-column Observatory, www.emso-eu.org), the cabled multidisciplinary seafloor observatory node NEMO-SN1 was deployed in the Western Ionian Sea (Southern Italy) at a depth of 2100 m, about 25 km off-shore Eastern Sicily, close to the Mt. Etna volcano system. The oceanographic payload mounted on this observatory was originally designed to monitor possible variations of the local hydrodynamic playing a crucial role on the redistribution of deep water in the Eastern Mediterranean Sea. In particular the Acoustic Doppler Current Profiler (ADCP RDI WorkHorse 600 kHz) was configured with the main aim to record the bottom dynamics, watching few meters of water column above the station (about 30 m). Surprisingly, this sensor offered a spectacular recording of the Mt.Etna pyroclastic activity occurred on 2013 which affected the ESE sector of the volcano. Although the ADCP sensor is commonly used to measure speed and direction of sea currents, it is more often used to monitor concentration suspended matter of controlled areas, such as rivers or coastal marine environments, by the analysis of the acoustic backscatter intensity. This standard condition entails some a-priori knowledge (i.e. suspended sediment concentration, particle size, echo intensity calibration) useful to well configure the sensors before starting its acquisition. However, in the case of Mt. Etna pyroclastic activity, due to the unexpected recording, these information were not available and it was necessary to work in a post-processing mode considering all acquired data. In fact, several different parameters contribute to complete the comprehension of the observed phenomenon: the ADCP acoustic wavelength able to indirectly provide information on the detectable particle size, the intensity of the explosive activity useful to define the starting energy of the volcanic system, the oceanographic local dynamics indispensable to know possible ash dispersion in seawater. This work aims to present a new perspective of observation for pyroclastic fallout in benthic seafloor areas using alternative sensors normally designed for other investigation such as the ADCP. Also, it highlights the possibility to optimize the instrumental resources used within the benthic observatories and opens new possibilities for the study of benthic processes, as volcanic ash sedimentation, through multiparametric analysis.

Regulation of HTLV-1 Tax Stability, Cellular Trafficking and NF-κB Activation by the Ubiquitin-Proteasome Pathway

PubMed Central

Lavorgna, Alfonso; Harhaj, Edward William

2014-01-01

Human T-cell leukemia virus type 1 (HTLV-1) is a complex retrovirus that infects CD4+ T cells and causes adult T-cell leukemia/lymphoma (ATLL) in 3%–5% of infected individuals after a long latent period. HTLV-1 Tax is a trans-activating protein that regulates viral gene expression and also modulates cellular signaling pathways to enhance T-cell proliferation and cell survival. The Tax oncoprotein promotes T-cell transformation, in part via constitutive activation of the NF-κB transcription factor; however, the underlying mechanisms remain unknown. Ubiquitination is a type of post-translational modification that occurs in a three-step enzymatic cascade mediated by E1, E2 and E3 enzymes and regulates protein stability as well as signal transduction, protein trafficking and the DNA damage response. Emerging studies indicate that Tax hijacks the ubiquitin machinery to activate ubiquitin-dependent kinases and downstream NF-κB signaling. Tax interacts with the E2 conjugating enzyme Ubc13 and is conjugated on C-terminal lysine residues with lysine 63-linked polyubiquitin chains. Tax K63-linked polyubiquitination may serve as a platform for signaling complexes since this modification is critical for interactions with NEMO and IKK. In addition to NF-κB signaling, mono- and polyubiquitination of Tax also regulate its subcellular trafficking and stability. Here, we review recent advances in the diverse roles of ubiquitin in Tax function and how Tax usurps the ubiquitin-proteasome pathway to promote oncogenesis. PMID:25341660

The UKC2 regional coupled prediction system

NASA Astrophysics Data System (ADS)

Castillo, Juan; Lewis, Huw; Graham, Jennifer; Saulter, Andrew; Arnold, Alex; Fallmann, Joachim; Martinez de la Torre, Alberto; Blyth, Eleanor; Bricheno, Lucy

2017-04-01

It is hypothesized that more accurate prediction and warning of natural hazards, such as of the impacts of severe weather through the environment, requires a more integrated approach to forecasting. This approach also delivers research benefits through providing tools with which to explore the known interactions and feedbacks between different physical and biogeochemical components of the environment across sky, sea and land. This hypothesis is being tested in a UK regional context at km-scale through the UK Environmental Prediction Project. This presentation will provide an introduction to the UKC2 UK Environmental Prediction research system. This incorporates models of the atmosphere (Met Office Unified Model), land surface (JULES), shelf-sea ocean (NEMO) and ocean waves (WAVEWATCH III). These components are coupled (via OASIS3-MCT libraries) at unprecedentedly high resolution across the UK and the wider north-west European regional domain. A research framework has been established to explore the representation of feedback processes in coupled and uncoupled modes, providing a unique new research tool for UK environmental science. The presentation will highlight work undertaken to review and improve the computational cost of running these systems for efficient research application. Research will be presented highlighting case study evaluation on the sensitivity of the ocean and surface waves to the representation of feedbacks to the atmosphere, and on the sensitivity of weather systems and boundary layer cloud development to the exchange of heat and momentum at the ocean surface modified through sea surface temperature and wave-induced roughness. The presentation will discuss plans for future development through UKC3 and beyond.

The Mediterranean interannual variability in MEDRYS, a Mediterranean Sea reanalysis over 1992-2013

NASA Astrophysics Data System (ADS)

Beuvier, Jonathan; Hamon, Mathieu; Lellouche, Jean-Michel; Greiner, Eric; Alias, Antoinette; Arsouze, Thomas; Benkiran, Mounir; Béranger, Karine; Drillet, Yann; Sevault, Florence; Somot, Samuel

2015-04-01

The French research community on the Mediterranean Sea and the French operational ocean forecasting center Mercator Océan are gathering their skills and expertises in physical oceanography, ocean modelling, atmospheric forcings and data assimilation, to carry out a MEDiterranean Sea ReanalYsiS (MEDRYS) at high resolution for the period 1992-2013. The reanalysis is used to have a realistic description of the ocean state over the recent decades and it will help to understand the long-term water cycle over the Mediterranean basin in terms of variability and trends, contributing thus to the HyMeX international program. The ocean model used is NEMOMED12 [Lebeaupin Brossier et al., 2011, Oc. Mod., 2012, Oc. Mod.; Beuvier et al., 2012a, JGR, 2012b, Mercator Newsl.], a Mediterranean configuration of NEMO [Madec and the NEMO Team, 2008], with a 1/12° (about 7 km) horizontal resolution and 75 vertical z-levels with partial steps. It is forced by the 3-hourly atmospheric fluxes coming from an ALADIN-Climate simulation at 12 km of resolution [Herrmann et al., 2011, NHESS], driven by the ERA-Interim atmospheric reanalysis. The exchanges with the Atlantic Ocean are performed through a buffer zone, with a damping on 3D theta-S and on sea level towards the ORA-S4 oceanic reanalysis [Balmaseda et al., 2012, QJRMS]. This model configuration is used to carry a 34-year free simulation over the period 1979-2013. This free simulation is the initial state of the reanalysis in October 1992. It is also used to compute anomalies from which the data assimilation scheme derives required characteristic covariances of the ocean model. MEDRYS1 uses the current Mercator Océan operational data assimilation system [Lellouche et al., 2013, Oc.Sci.]. It uses a reduced order Kalman filter with a 3D multivariate modal decomposition of the forecast error. A 3D-Var scheme corrects biases in temperature and salinity for the slowly evolving large-scale. In addition, some modifications dedicated to the Mediterranean area (more specific Post-Glacial-Rebound corrections, new model-equivalent for the Sea Level Anomaly for example) have been introduced. Temperature and salinity vertical profiles from the newly released CORA4 database, altimeter data and satellite SST and are jointly assimilated. Thus, the reanalysis benefits from the intensive observational field campaigns carried out during the HyMeX Special Observation Periods (SOPs) in fall 2012 and winter 2013 in the north-western Mediterranean Sea. We assess here the ability of a MEDRYS1 to reproduce the general circulation and the water masses in the Mediterranean Sea. We present the misfit between the reanalysis and the assimilated observations, as well as differences between the reanalysis and its twin free simulation. We show diagnostics on the surface circulation variability, heat and salt contents and deep water formation over the whole period of the reanalysis, with also a focus on the impact of the HyMeX data during the SOPs time period.

Role of buccal corridor in smile esthetics and its correlation with underlying skeletal and dental structures.

PubMed

Tikku, Tripti; Khanna, Rohit; Maurya, R P; Ahmad, Nabeel

2012-01-01

This study was designed to evaluate the buccal corridor in smile esthetics and to correlate it with underlying hard tissues. Posed smiling frontal photographs, digital posterior-anterior (PA) cephalograms, and study models of 25 males and 25 females in age range of 18-25 years were taken. Photographs were evaluated for smile esthetics by eight orthodontists, eight plastic surgeons, eight beauticians and eight lay people to group them into three groups with least attractive, average and attractive smile and buccal corridor width was measured. Digital PA cephalograms were transferred on Nemo-tech software for frontal facial analysis. Intercanine and intermolar widths were measured on upper study model with the help of a digital calliper. The buccal corridor width was least in attractive smile group and maximum in least attractive smile group. The buccal corridor width had a negligible correlation with hard tissues and a mild to moderate inverse correlation with intercanine and intermolar widths within the groups. As the amount of buccal corridor display was increased, smiling images were scored less attractive by the evaluators. The buccal corridor is not influenced by underlying skeletal hard tissues but have mild to moderate inverse correlation with the intercanine and intermolar width.

Modelling the impacts of a dipole-like climatic state over the Arctic

NASA Astrophysics Data System (ADS)

Pasha Karami, Mehdi; de Vernal, Anne; Hu, Xianmin; Myers, Paul G.

2015-04-01

The Arctic dipole anomaly (ADA) features a pattern with opposite sea-level pressure anomalies over the Canadian Archipelago and the Barents Sea. Changes in the predominance of Arctic atmospheric circulation modes and the shift towards a dipole mode in the past decade played a role in the summer sea ice loss and sea ice-freshwater export from the Arctic to the North Atlantic. Reconstruction of sea ice cover variations during Holocene also suggests opposite anomalies in the Barents Sea versus either the western Arctic or the Fram Strait area similar to the ADA pattern. It is vital to study such physical processes that cause dramatic changes in the Arctic sea ice recalling the link between the ADA and the current climate change. Here we focus on the question of how a persistent ADA-like state affects the Arctic sea ice distribution and its outflow to the Atlantic Ocean. For this purpose, an eddy-permitting regional configuration of the NEMO coupled ocean/sea-ice model is used. The regional domain covers the Arctic Ocean and the Northern-Hemisphere Atlantic, with a horizontal resolution of 1/4 degree at the equator (ANHA4). For the present-day simulations, boundary conditions are obtained by taking the average over the years with a positive ADA and those with a negative ADA. In the Holocene scenario, global climate model data are used to force our regional model. To exclude the role of Bering Strait and the heat flux from the Pacific Ocean, we repeat the experiments with a closed Bering Strait since a nearly closed Bering configuration was possible for the Early Holocene. The model results are compared with the paleoclimate data from Arctic and subarctic seas.

Interannual variability of temperature over 50 years in the Bay of Biscay described by global simulations

NASA Astrophysics Data System (ADS)

Assassi, Charefeddine; Vandermeirsch, Frederic; Morel, Yves; Charria, Guillaume; Theetten, Sébastien; Dussin, Raphaël; Molines, Jean-Marc

2014-05-01

The aim of this study is to better understand the different overriding mechanisms that control the evolution of the temperature in the Bay of Biscay, through realistic simulations over a period of 50 years. Before performing and analyzing our own numerical experiments with a spatial resolution of 4 km, we compared two global simulations, ORCA-G70 and ORCA-GRD100 (¼° resolution) carried out from the ocean circulation model NEMO by the DRAKKAR group with inter-annual climatologies (WOA04, Levitus et al. 2005 and Bobyclim, Michel et al. 2009). Both simulations differ in their vertical resolution (46 levels in G70 and 75 levels in GRD100) and atmospheric forcings. The comparison of the two simulations shows an underestimation of the absolute temperature in GRD100 approximately 0.4°C in the first 300 meters for the entire period of the simulation (1958-2004) compared to G70, although the net air-sea heat flux is significantly higher in GRD100 (2.92 TW for GRD100 and 0.20 TW for G70). Several parameters can explain this apparent contradiction. On one hand, the wind is more intense in GRD100 and can contribute to the heat penetration on depth. On the other hand, the thermal balances at different depths show a great disparity between both simulations, especially in terms of advective transport. However, the temperature anomaly in the two global simulations is very close to observations (climatology) in the first 400 meters. The standard deviation is higher in the mixed layer (0.29°C for both simulations ORCA) and lower in the intermediate layers (0.15°C for G70 and to 0.13°C for GRD100). Moreover, the calculation of the surface linear trend of temperature in GRD100 (0.14°C.decade-1) is closer to the observations W0A04 (0.19°C.decade-1) while it is only (0.10°C.decade-1) in G70. The GRD100 simulation provides a better evolution than G70. These analysis confirm the suitability of the simulation GRD100 to drive a regional numerical experiment at higher resolution in the Bay of Biscay. The first experiments during a short period of our regional model (4 km spatial resolution, based on MARS3D code) showed consistency in the forcings used and give realistic results in temperature. This regional approach will be used to explore and understand the main mechanisms involved in the evolution of the temperature at multi-decadal scales.

Sea state indices for a coastal strait

NASA Astrophysics Data System (ADS)

Gemmrich, Johannes; Dewey, Richard

2017-04-01

The Strait of Georgia at the west coast of Canada is an enclosed coastal strait, about 250km long and 25 to 50 km wide, with great socio-economic importance. Regular freighter traffic, ferry services, commercial and sport fisheries, and recreational boating, makes the area one of the busiest marine areas in the world. Waves in SoG are generally small, with the median value of the significant wave height Hs=0.3m. However, strong outflows off the mountainous terrain can generate significant wave heights Hs > 2.5m, with high spatial and temporal variability. In addition, strong tidal currents and the Fraser River outflow generate localized regions of steep and breaking waves that are of particular concern. We have implemented the Wavewatch III model at 500m-resolution, forced by Environment Canada's high resolution atmospheric model winds and currents from the UBC NEMO implementation of the Salish Sea. The final output combines GIS layers of the predicted wave field (Hs, dominant wave length and direction), the modeled wind field and currents, observed currents from a set of CODAR systems, and a sea state index that highlights regions of potentially steep and dangerous waves.

Ectodermal Dysplasia: A Genetic Review

PubMed Central

Prashanth, S

2012-01-01

Abstract Ectodermal dysplasia is a rare hereditary disorder with a characteristic physiognomy. It is a genetic disorder affecting the development or function of the teeth, hair, nails and sweat glands. Depending on the particular syndrome ectodermal dysplasia can also affect the skin, the lens or retina of the eye, parts of the inner ear, the development of fingers and toes, the nerves and other parts of the body. Each syndrome usually involves a different combination of symptoms, which can range from mild to severe. The history and lessons learned from hypohidrotic ectodermal dysplasia (HED) may serve as an example for unraveling of the cause and pathogenesis of other ectodermal dysplasia syndromes by demonstrating that phenotypically identical syndromes can be caused by mutations in different genes (EDA, EDAR, EDARADD), that mutations in the same gene can lead to different phenotypes and that mutations in the genes further downstream in the same signaling pathway (NEMO) may modify the phenotype quite profoundly. The aim of this paper is to describe and discuss the etiology, genetic review, clinical manifestations and treatment options of this hereditary disorder. How to cite this article: Deshmukh S, Prashanth S. Ectodermal Dysplasia: A Genetic Review. Int J Clin Pediatr Dent 2012; 5(3):197-202. PMID:25206167

Ectodermal dysplasia: a genetic review.

PubMed

Deshmukh, Seema; Prashanth, S

2012-09-01

Ectodermal dysplasia is a rare hereditary disorder with a characteristic physiognomy. It is a genetic disorder affecting the development or function of the teeth, hair, nails and sweat glands. Depending on the particular syndrome ectodermal dysplasia can also affect the skin, the lens or retina of the eye, parts of the inner ear, the development of fingers and toes, the nerves and other parts of the body. Each syndrome usually involves a different combination of symptoms, which can range from mild to severe. The history and lessons learned from hypohidrotic ectodermal dysplasia (HED) may serve as an example for unraveling of the cause and pathogenesis of other ectodermal dysplasia syndromes by demonstrating that phenotypically identical syndromes can be caused by mutations in different genes (EDA, EDAR, EDARADD), that mutations in the same gene can lead to different phenotypes and that mutations in the genes further downstream in the same signaling pathway (NEMO) may modify the phenotype quite profoundly. The aim of this paper is to describe and discuss the etiology, genetic review, clinical manifestations and treatment options of this hereditary disorder. How to cite this article: Deshmukh S, Prashanth S. Ectodermal Dysplasia: A Genetic Review. Int J Clin Pediatr Dent 2012; 5(3):197-202.

Global assessment of Level 3 SMOS and Aquarius salinity measurements using Argo and an operational ocean model

NASA Astrophysics Data System (ADS)

Banks, Chris; Gommenginger, Christine; Srokosz, Meric; Snaith, Helen

2013-04-01

The launch of the European Space Agency (ESA) Soil Moisture and Ocean Salinity (SMOS) satellite in November 2009 marked a new era in satellite oceanography. SMOS was joined in orbit, in June 2011, by the NASA/Argentine Aquarius/SAC-D mission, specifically designed to measure sea surface salinity (SSS). These two satellites have significantly improved our ability to measure SSS synoptically. Despite significant differences in how the two satellites estimate SSS, both utilise passive systems to measure the response of the brightness temperature (Tb) at L-band (1.4 GHz) to SSS and initial results are encouraging. The UK National Oceanography Centre has produced 'Level 3' SSS data products for SMOS and Aquarius using monthly data on a 1° by 1° global grid, between 60°S and 60°N, from 1 September 2011 to 31 August 2012. Previous and on-going work shows for both satellites significant temporally varying differences between SSS from ascending passes (satellite moving south to north) and SSS from descending passes (satellite moving north to south). Therefore, for both SMOS and Aquarius, separate Level 3 products are produced from data for ascending and descending passes. For this study, two separate monthly validation datasets are used based on the same grid as the satellite data. The first is averaged near-surface salinity (depth less than 10 m) as derived from the drifting Argo float programme. The second validation data source is output from the UK Met Office Forecasting Ocean Assimilation Model (FOAM), which is based on NEMO (Nucleus for European Modelling of the Ocean). We calculate maps of the difference between all possible pairs of SSS data for each month, and consider their relationships using regression on the 1˚ values. The analysis is carried out for the global ocean, as well as for smaller, more homogeneous, study regions (e.g. SPURS in the subtropical North Atlantic).

A Novel Splicesite Mutation in the EDAR Gene Causes Severe Autosomal Recessive Hypohydrotic (Anhidrotic) Ectodermal Dysplasia in an Iranian Family

PubMed Central

Torkamandi, Shahram; Gholami, Milad; Mohammadi-asl, Javad; Rezaie, Somaye; Zaimy, Mohammad Ali; Omrani, Mir Davood

2016-01-01

Hypohidrotic ectodermal dysplasia (HED) is a rare congenital disorder arising from deficient development of ectoderm-derived structures including skin, nails, glands and teeth. The phenotype of HED is associated with mutation in EDA, EDAR, EDARADD and NEMO genes, all of them disruptingNF-κB signaling cascade necessary for initiation, formation and differentiation in the embryo and adult. Here we describe a novel acceptor splice site mutation c.730-2 A>G(IVS 8-2 A>G) in EDAR gene in homozygous form in all affected members of a family,and in heterozygous form in carriers. Bioinformatics analysis showed that this mutation can create a new broken splicing site and lead to aberrant splicing. PMID:28357203

Modeling the interplay between sea ice formation and the oceanic mixed layer: Limitations of simple brine rejection parameterizations

NASA Astrophysics Data System (ADS)

Barthélemy, Antoine; Fichefet, Thierry; Goosse, Hugues; Madec, Gurvan

2015-02-01

The subtle interplay between sea ice formation and ocean vertical mixing is hardly represented in current large-scale models designed for climate studies. Convective mixing caused by the brine release when ice forms is likely to prevail in leads and thin ice areas, while it occurs in models at the much larger horizontal grid cell scale. Subgrid-scale parameterizations have hence been developed to mimic the effects of small-scale convection using a vertical distribution of the salt rejected by sea ice within the mixed layer, instead of releasing it in the top ocean layer. Such a brine rejection parameterization is included in the global ocean-sea ice model NEMO-LIM3. Impacts on the simulated mixed layers and ocean temperature and salinity profiles, along with feedbacks on the sea ice cover, are then investigated in both hemispheres. The changes are overall relatively weak, except for mixed layer depths, which are in general excessively reduced compared to observation-based estimates. While potential model biases prevent a definitive attribution of this vertical mixing underestimation to the brine rejection parameterization, it is unlikely that the latter can be applied in all conditions. In that case, salt rejections do not play any role in mixed layer deepening, which is unrealistic. Applying the parameterization only for low ice-ocean relative velocities improves model results, but introduces additional parameters that are not well constrained by observations.

Modelling the interplay between sea ice formation and the oceanic mixed layer: limitations of simple brine rejection parameterizations

NASA Astrophysics Data System (ADS)

Barthélemy, Antoine; Fichefet, Thierry; Goosse, Hugues; Madec, Gurvan

2015-04-01

The subtle interplay between sea ice formation and ocean vertical mixing is hardly represented in current large-scale models designed for climate studies. Convective mixing caused by the brine release when ice forms is likely to prevail in leads and thin ice areas, while it occurs in models at the much larger horizontal grid cell scale. Subgrid-scale parameterizations have hence been developed to mimic the effects of small-scale convection using a vertical distribution of the salt rejected by sea ice within the mixed layer, instead of releasing it in the top ocean layer. Such a brine rejection parameterization is included in the global ocean--sea ice model NEMO-LIM3. Impacts on the simulated mixed layers and ocean temperature and salinity profiles, along with feedbacks on the sea ice cover, are then investigated in both hemispheres. The changes are overall relatively weak, except for mixed layer depths, which are in general excessively reduced compared to observation-based estimates. While potential model biases prevent a definitive attribution of this vertical mixing underestimation to the brine rejection parameterization, it is unlikely that the latter can be applied in all conditions. In that case, salt rejections do not play any role in mixed layer deepening, which is unrealistic. Applying the parameterization only for low ice--ocean relative velocities improves model results, but introduces additional parameters that are not well constrained by observations.

Inertial bioluminescence rhythms at the Capo Passero (KM3NeT-Italia) site, Central Mediterranean Sea

PubMed Central

Aguzzi, J.; Fanelli, E.; Ciuffardi, T.; Schirone, A.; Craig, J.; Aiello, S.; Ameli, F.; Anghinolfi, M.; Barbarino, G.; Barbarito, E.; Beverini, N.; Biagi, S.; Biagioni, A.; Bouhadef, B.; Bozza, C.; Cacopardo, G.; Calamai, M.; Calì, C.; Capone, A.; Caruso, F.; Cecchini, S.; Ceres, A.; Chiarusi, T.; Circella, M.; Cocimano, R.; Coniglione, R.; Costa, M.; Cuttone, G.; D’Amato, C.; D’Amico, A.; De Bonis, G.; De Luca, V.; Deniskina, N.; Distefano, C.; Di Mauro, L. S.; Fermani, P.; Ferrara, G.; Flaminio, V.; Fusco, L. A.; Garufi, F.; Giordano, V.; Gmerk, A.; Grasso, R.; Grella, G.; Hugon, C.; Imbesi, M.; Kulikovskiy, V.; Larosa, G.; Lattuada, D.; Leismüller, K. P.; Leonora, E.; Litrico, P.; Lonardo, A.; Longhitano, F.; Presti, D. Lo; Maccioni, E.; Margiotta, A.; Marinelli, A.; Martini, A.; Masullo, R.; Mele, R.; Migliozzi, P.; Migneco, E.; Miraglia, A.; Mollo, C. M.; Mongelli, M.; Morganti, M.; Musico, P.; Musumeci, M.; Nicolau, C. A.; Orlando, A.; Orzelli, A.; Papaleo, R.; Pellegrino, C.; Pellegriti, M. G.; Perrina, C.; Piattelli, P.; Poma, E.; Pulvirenti, S.; Raffaelli, F.; Randazzo, N.; Riccobene, G.; Rovelli, A.; Sanguineti, M.; Sapienza, P.; Sciacca, V.; Sgura, I.; Simeone, F.; Sipala, V.; Speziale, F.; Spitaleri, A.; Spurio, M.; Stellacci, S. M.; Taiuti, M.; Terreni, G.; Trasatti, L.; Trovato, A.; Versari, F.; Vicini, P.; Viola, S.; Vivolo, D.

2017-01-01

In the deep sea, the sense of time is dependent on geophysical fluctuations, such as internal tides and atmospheric-related inertial currents, rather than day-night rhythms. Deep-sea neutrino telescopes instrumented with light detecting Photo-Multiplier Tubes (PMT) can be used to describe the synchronization of bioluminescent activity of abyssopelagic organisms with hydrodynamic cycles. PMT readings at 8 different depths (from 3069 to 3349 m) of the NEMO Phase 2 prototype, deployed offshore Capo Passero (Sicily) at the KM3NeT-Italia site, were used to characterize rhythmic bioluminescence patterns in June 2013, in response to water mass movements. We found a significant (p < 0.05) 20.5 h periodicity in the bioluminescence signal, corresponding to inertial fluctuations. Waveform and Fourier analyses of PMT data and tower orientation were carried out to identify phases (i.e. the timing of peaks) by subdividing time series on the length of detected inertial periodicity. A phase overlap between rhythms and cycles suggests a mechanical stimulation of bioluminescence, as organisms carried by currents collide with the telescope infrastructure, resulting in the emission of light. A bathymetric shift in PMT phases indicated that organisms travelled in discontinuous deep-sea undular vortices consisting of chains of inertially pulsating mesoscale cyclones/anticyclones, which to date remain poorly known. PMID:28332561

Inertial bioluminescence rhythms at the Capo Passero (KM3NeT-Italia) site, Central Mediterranean Sea

NASA Astrophysics Data System (ADS)

Aguzzi, J.; Fanelli, E.; Ciuffardi, T.; Schirone, A.; Craig, J.; Aiello, S.; Ameli, F.; Anghinolfi, M.; Barbarino, G.; Barbarito, E.; Beverini, N.; Biagi, S.; Biagioni, A.; Bouhadef, B.; Bozza, C.; Cacopardo, G.; Calamai, M.; Calì, C.; Capone, A.; Caruso, F.; Cecchini, S.; Ceres, A.; Chiarusi, T.; Circella, M.; Cocimano, R.; Coniglione, R.; Costa, M.; Cuttone, G.; D'Amato, C.; D'Amico, A.; de Bonis, G.; de Luca, V.; Deniskina, N.; Distefano, C.; di Mauro, L. S.; Fermani, P.; Ferrara, G.; Flaminio, V.; Fusco, L. A.; Garufi, F.; Giordano, V.; Gmerk, A.; Grasso, R.; Grella, G.; Hugon, C.; Imbesi, M.; Kulikovskiy, V.; Larosa, G.; Lattuada, D.; Leismüller, K. P.; Leonora, E.; Litrico, P.; Lonardo, A.; Longhitano, F.; Presti, D. Lo; Maccioni, E.; Margiotta, A.; Marinelli, A.; Martini, A.; Masullo, R.; Mele, R.; Migliozzi, P.; Migneco, E.; Miraglia, A.; Mollo, C. M.; Mongelli, M.; Morganti, M.; Musico, P.; Musumeci, M.; Nicolau, C. A.; Orlando, A.; Orzelli, A.; Papaleo, R.; Pellegrino, C.; Pellegriti, M. G.; Perrina, C.; Piattelli, P.; Poma, E.; Pulvirenti, S.; Raffaelli, F.; Randazzo, N.; Riccobene, G.; Rovelli, A.; Sanguineti, M.; Sapienza, P.; Sciacca, V.; Sgura, I.; Simeone, F.; Sipala, V.; Speziale, F.; Spitaleri, A.; Spurio, M.; Stellacci, S. M.; Taiuti, M.; Terreni, G.; Trasatti, L.; Trovato, A.; Versari, F.; Vicini, P.; Viola, S.; Vivolo, D.

2017-03-01

In the deep sea, the sense of time is dependent on geophysical fluctuations, such as internal tides and atmospheric-related inertial currents, rather than day-night rhythms. Deep-sea neutrino telescopes instrumented with light detecting Photo-Multiplier Tubes (PMT) can be used to describe the synchronization of bioluminescent activity of abyssopelagic organisms with hydrodynamic cycles. PMT readings at 8 different depths (from 3069 to 3349 m) of the NEMO Phase 2 prototype, deployed offshore Capo Passero (Sicily) at the KM3NeT-Italia site, were used to characterize rhythmic bioluminescence patterns in June 2013, in response to water mass movements. We found a significant (p < 0.05) 20.5 h periodicity in the bioluminescence signal, corresponding to inertial fluctuations. Waveform and Fourier analyses of PMT data and tower orientation were carried out to identify phases (i.e. the timing of peaks) by subdividing time series on the length of detected inertial periodicity. A phase overlap between rhythms and cycles suggests a mechanical stimulation of bioluminescence, as organisms carried by currents collide with the telescope infrastructure, resulting in the emission of light. A bathymetric shift in PMT phases indicated that organisms travelled in discontinuous deep-sea undular vortices consisting of chains of inertially pulsating mesoscale cyclones/anticyclones, which to date remain poorly known.

Extraction of pulse repetition intervals from sperm whale click trains for ocean acoustic data mining.

PubMed

Zaugg, Serge; van der Schaar, Mike; Houégnigan, Ludwig; André, Michel

2013-02-01

The analysis of acoustic data from the ocean is a valuable tool to study free ranging cetaceans and anthropogenic noise. Due to the typically large volume of acquired data, there is a demand for automated analysis techniques. Many cetaceans produce acoustic pulses (echolocation clicks) with a pulse repetition interval (PRI) remaining nearly constant over several pulses. Analyzing these pulse trains is challenging because they are often interleaved. This article presents an algorithm that estimates a pulse's PRI with respect to neighboring pulses. It includes a deinterleaving step that operates via a spectral dissimilarity metric. The sperm whale (SW) produces trains with PRIs between 0.5 and 2 s. As a validation, the algorithm was used for the PRI-based identification of SW click trains with data from the NEMO-ONDE observatory that contained other pulsed sounds, mainly from ship propellers. Separation of files containing SW clicks with a medium and high signal to noise ratio from files containing other pulsed sounds gave an area under the receiver operating characteristic curve value of 0.96. This study demonstrates that PRI can be used for the automated identification of SW clicks and that deinterleaving via spectral dissimilarity contributes to algorithm performance.

Detection and identification of Toxocara canis DNA in bronchoalveolar lavage of infected mice using a novel real-time PCR.

PubMed

Pinelli, E; Roelfsema, J H; Brandes, S; Kortbeek, T

2013-04-15

Toxocarosis is a zoonosis with worldwide distribution caused by Toxocara spp. of dogs and cats. In humans, diagnosis relies mainly on detection of parasite-specific antibodies. Although serological assays in current use have defined sensitivity and specificity, the problem of cross-reactivity still remains, particularly in areas of endemic polyparasitism. Microscopic detection of the parasite in tissue biopsies is not recommended for diagnosis because larvae can be difficult to locate, and finding the parasite eggs in faeces is not applicable since the larvae do not develop to the adult stage in the human host. In this study we describe a novel real-time PCR ('Nemo-PCR') that, in combination with DNA sequencing, allows the detection and identification of Toxocara canis and other nematodes in the Superfamily Ascaridoidea. Results indicate that this approach can detect Toxocara spp. DNA in bronchoalveolar lavage (BAL) of experimentally-infected mice. For diagnostic purposes further studies are necessary to evaluate this assay including testing human BAL fluid. The availability of such a direct assay would improve diagnosis of toxocarosis particularly for patients with pulmonary signs and symptoms. Copyright © 2013. Published by Elsevier B.V.

The role of satellite directional wave spectra for the improvement of the ocean-waves coupling

NASA Astrophysics Data System (ADS)

Aouf, Lotfi; Hauser, Danièle; Chapron, Bertrand

2017-04-01

Swell waves are well captured by the Synthetic Aperture Radar (SAR) which provides the directional wave spectra for waves roughly larger than 200 m. Since the launch of sentinel-1A and 1B SAR directional wave spectra are available to improve the swell wave forecasting and the coupling processes at the air-sea interface. Moreover next year CFOSAT mission will provide directional wave spectra for waves with wavelengths comprised between 70 to 500 m. This study aims to evaluate the assimilation of SAR and synthetic CFOSAT wave spectra on the coupling between the wave model MFWAM and the ocean model NEMO. Three coupling processes as described in Breivik et al. (2014) of Stokes-Coriolis forcing, the ocean side stress and the turbulence injected by the wave breaking in the ocean mixed layer have been used. a coupling run is performed with and without assimilation of directional wave spectra. the impact of SAR wave data on key parameters such as surface sea temperature, currents and salinity is investigated. Particular attention is carried out for ocean areas with swell dominant wave climate.

Impact of the Fraser River Geometry on Tides and the River Plumes in a Model of the Fraser River Plume

NASA Astrophysics Data System (ADS)

Liu, J.; Allen, S. E.; Soontiens, N. K.

2016-02-01

Fraser River is the largest river on the west coast of Canada. It empties into the Strait of Georgia, which is a large, semi-enclosed body of water between Vancouver Island and the mainland of British Columbia. We have developed a three-dimensional model of the Strait of Georgia, including the Fraser River plume, using the NEMO model in its regional configuration. This operational model produces daily nowcasts and forecasts for salinity, temperature, currents and sea surface heights. Observational data available for evaluation of the model includes daily British Columbia ferry salinity data, profile data and surface drifter data. The salinity of the modelled Fraser River plume agrees well with ferry based measurements of salinity. However, large discrepencies exist between the modelled and observed position of the plume. Modelled surface currents compared to drifter observations show that the model has too strong along-strait velocities and too weak cross-strait velocities. We investigated the impact of river geometry. A sensitivity experiment was performed comparing the original, short, shallow river channel to an extended and deepened river channel. With the latter bathymetry, tidal amplitudes within Fraser River correspond well with observations. Comparisons to drifter tracks show that the surface currents have been improved with the new bathymetry. However, substantial discrepencies remain. We will discuss how reducing vertical eddy viscosity and other changes further improve the modelled position of the plume.

Upscaling

NASA Astrophysics Data System (ADS)

Vandenbulcke, Luc; Barth, Alexander

2017-04-01

In the present European operational oceanography context, global and basin-scale models are run daily at different Monitoring and Forecasting Centers from the Copernicus Marine component (CMEMS). Regional forecasting centers, which run outside of CMEMS, then use these forecasts as initial conditions and/or boundary conditions for high-resolution or coastal forecasts. However, these improved simulations are lost to the basin-scale models (i.e. there is no feedback). Therefore, some potential improvements inside (and even outside) the areas covered by regional models are lost, and the risk for discrepancy between basin-scale and regional model remains high. The objective of this study is to simulate two-way nesting by extracting pseudo-observations from the regional models and assimilating them in the basin-scale models. The proposed method is called "upscaling". A ensemble of 100 one-way nested NEMO models of the Mediterranean Sea (Med) (1/16°) and the North-Western Med (1/80°) is implemented to simulate the period 2014-2015. Each member has perturbed initial conditions, atmospheric forcing fields and river discharge data. The Med model uses climatological Rhone river data, while the nested model uses measured daily discharges. The error of the pseudo-observations can be estimated by analyzing the ensemble of nested models. The pseudo-observations are then assimilated in the parent model by means of an Ensemble Kalman Filter. The experiments show that the proposed method improves different processes in the Med model, such as the position of the Northern Current and its incursion (or not) on the Gulf of Lions, the cold water mass on the shelf, and the position of the Rhone river plume. Regarding areas where no operational regional models exist, (some variables of) the parent model can still be improved by relating some resolved parameters to statistical properties of a higher-resolution simulation. This is the topic of a complementary study also presented at the EGU 2017 (Barth et al).

Downscaling Ocean Conditions: Initial Results using a Quasigeostrophic and Realistic Ocean Model

NASA Astrophysics Data System (ADS)

Katavouta, Anna; Thompson, Keith

2014-05-01

Previous theoretical work (Henshaw et al, 2003) has shown that the small-scale modes of variability of solutions of the unforced, incompressible Navier-Stokes equation, and Burgers' equation, can be reconstructed with surprisingly high accuracy from the time history of a few of the large-scale modes. Motivated by this theoretical work we first describe a straightforward method for assimilating information on the large scales in order to recover the small scale oceanic variability. The method is based on nudging in specific wavebands and frequencies and is similar to the so-called spectral nudging method that has been used successfully for atmospheric downscaling with limited area models (e.g. von Storch et al., 2000). The validity of the method is tested using a quasigestrophic model configured to simulate a double ocean gyre separated by an unstable mid-ocean jet. It is shown that important features of the ocean circulation including the position of the meandering mid-ocean jet and associated pinch-off eddies can indeed be recovered from the time history of a small number of large-scales modes. The benefit of assimilating additional time series of observations from a limited number of locations, that alone are too sparse to significantly improve the recovery of the small scales using traditional assimilation techniques, is also demonstrated using several twin experiments. The final part of the study outlines the application of the approach using a realistic high resolution (1/36 degree) model, based on the NEMO (Nucleus for European Modelling of the Ocean) modeling framework, configured for the Scotian Shelf of the east coast of Canada. The large scale conditions used in this application are obtained from the HYCOM (HYbrid Coordinate Ocean Model) + NCODA (Navy Coupled Ocean Data Assimilation) global 1/12 degree analysis product. Henshaw, W., Kreiss, H.-O., Ystrom, J., 2003. Numerical experiments on the interaction between the larger- and the small-scale motion of the Navier-Stokes equations. Multiscale Modeling and Simulation 1, 119-149. von Storch, H., Langenberg, H., Feser, F., 2000. A spectral nudging technique for dynamical downscaling purposes. Monthly Weather Review 128, 3664-3673.

Glnemo2: Interactive Visualization 3D Program

NASA Astrophysics Data System (ADS)

Lambert, Jean-Charles

2011-10-01

Glnemo2 is an interactive 3D visualization program developed in C++ using the OpenGL library and Nokia QT 4.X API. It displays in 3D the particles positions of the different components of an nbody snapshot. It quickly gives a lot of information about the data (shape, density area, formation of structures such as spirals, bars, or peanuts). It allows for in/out zooms, rotations, changes of scale, translations, selection of different groups of particles and plots in different blending colors. It can color particles according to their density or temperature, play with the density threshold, trace orbits, display different time steps, take automatic screenshots to make movies, select particles using the mouse, and fly over a simulation using a given camera path. All these features are accessible from a very intuitive graphic user interface. Glnemo2 supports a wide range of input file formats (Nemo, Gadget 1 and 2, phiGrape, Ramses, list of files, realtime gyrfalcON simulation) which are automatically detected at loading time without user intervention. Glnemo2 uses a plugin mechanism to load the data, so that it is easy to add a new file reader. It's powered by a 3D engine which uses the latest OpenGL technology, such as shaders (glsl), vertex buffer object, frame buffer object, and takes in account the power of the graphic card used in order to accelerate the rendering. With a fast GPU, millions of particles can be rendered in real time. Glnemo2 runs on Linux, Windows (using minGW compiler), and MaxOSX, thanks to the QT4API.

Optimal boundary conditions for ORCA-2 model

NASA Astrophysics Data System (ADS)

Kazantsev, Eugene

2013-08-01

A 4D-Var data assimilation technique is applied to ORCA-2 configuration of the NEMO in order to identify the optimal parametrization of boundary conditions on the lateral boundaries as well as on the bottom and on the surface of the ocean. The influence of boundary conditions on the solution is analyzed both within and beyond the assimilation window. It is shown that the optimal bottom and surface boundary conditions allow us to better represent the jet streams, such as Gulf Stream and Kuroshio. Analyzing the reasons of the jets reinforcement, we notice that data assimilation has a major impact on parametrization of the bottom boundary conditions for u and v. Automatic generation of the tangent and adjoint codes is also discussed. Tapenade software is shown to be able to produce the adjoint code that can be used after a memory usage optimization.

Reviews

NASA Astrophysics Data System (ADS)

2006-11-01

WE RECOMMEND Critical mass Philip Ball explores the idea of the physics of society. Eurekas and Euphorias A humorous yet insightful collection of scientific anecdotes. Wind turbine Low-cost wind turbine produces excellent results. Science Center Nemo Hands-on science centre has some great displays for teenagers. Crocodile Physics There’s something for everyone in this lesson software package. Wireless Dynamics Sensor System A fun way to measure and record altitude and acceleration. WORTH A LOOK Climate Change Begins at Home This well researched book tackles the issue of saving our planet. The Little Doctor Datalogger Datalogger has lots of facilities but needs some manual processing. HANDLE WITH CARE The Physics of Basketball Only of interest to budding physicists obsessed with basketball. Virtual Physics This package offers nice simulations but not a lot else. WEB WATCH An eclectic mix of nuclear- and general-physics websites.

Medicanes in an ocean-atmosphere coupled regional climate model

NASA Astrophysics Data System (ADS)

Akhtar, Naveed; Brauch, Jennifer; Ahrens, Bodo

2014-05-01

So-called medicanes (Mediterranean hurricanes) are meso-scale, marine and warm core Mediterranean cyclones which exhibit some similarities with tropical cyclones. The strong cyclonic winds associated with them are a potential thread for highly populated coastal areas around the Mediterranean basin. In this study we employ an atmospheric limited-area model (COSMO-CLM) coupled with a one-dimensional ocean model (NEMO-1d) to simulate medicanes. The goal of this study is to assess the robustness of the coupled model to simulate these extreme events. For this purpose 11 historical medicane events are simulated by the atmosphere-only and the coupled models using different set-ups (horizontal grid-spacings: 0.44o, 0.22o, 0.088o; with/with-out spectral nudging). The results show that at high resolution the coupled model is not only able to simulate all medicane events but also improves the simulated track length, warm core, and wind speed of simulated medicanes compared to atmosphere-only simulations. In most of the cases the medicanes trajectories and structures are better represented in coupled simulations compared to atmosphere-only simulations. We conclude that the coupled model is a suitable tool for systemic and detailed study of historical medicane events and also for future projections.

The application of frontal sinus index and frontal sinus area in sex estimation based on lateral cephalograms among Han nationality adults in Xinjiang.

PubMed

Luo, Huifang; Wang, Jierui; Zhang, Shuang; Mi, Congbo

2018-05-01

The frontal sinus, due to its unique anatomical features, has become an important element in research for individual identification. Previous studies have demonstrated the use of frontal sinus as an indicator for sex discrimination; however, the sex discrimination rate using frontal sinus was lower compared to that using the traditional morphological methods. In order to improve the sex discrimination percentage, we developed a new method involving the measurement of the frontal sinus index and frontal sinus area from lateral cephalogram radiographs. In this study, 475 digital lateral cephalograms of adult Han citizens from Xinjiang were included. The maximum height, depth, and area of the frontal sinus were calculated using the NemoCeph NX software. The frontal sinus index (ratio of the maximum height to the depth of frontal sinus) was also computed. Statistical analysis results showed significant differences in the frontal sinus index and area between males and females. Discriminant function equation derived from this study differentiated between sexes with 76.6% accuracy. The results demonstrated that the use of frontal sinus index and area for sex discrimination was more accurate than using the frontal sinus index alone. Copyright © 2017. Published by Elsevier Ltd.

The Dynamic Features of Lip Corners in Genuine and Posed Smiles

PubMed Central

Guo, Hui; Zhang, Xiao-Hui; Liang, Jun; Yan, Wen-Jing

2018-01-01

The smile is a frequently expressed facial expression that typically conveys a positive emotional state and friendly intent. However, human beings have also learned how to fake smiles, typically by controlling the mouth to provide a genuine-looking expression. This is often accompanied by inaccuracies that can allow others to determine that the smile is false. Mouth movement is one of the most striking features of the smile, yet our understanding of its dynamic elements is still limited. The present study analyzes the dynamic features of lip corners, and considers how they differ between genuine and posed smiles. Employing computer vision techniques, we investigated elements such as the duration, intensity, speed, symmetry of the lip corners, and certain irregularities in genuine and posed smiles obtained from the UvA-NEMO Smile Database. After utilizing the facial analysis tool OpenFace, we further propose a new approach to segmenting the onset, apex, and offset phases of smiles, as well as a means of measuring irregularities and symmetry in facial expressions. We extracted these features according to 2D and 3D coordinates, and conducted an analysis. The results reveal that genuine smiles have higher values for onset, offset, apex, and total durations, as well as offset displacement, and a variable we termed Irregularity-b (the SD of the apex phase) than do posed smiles. Conversely, values tended to be lower for onset and offset Speeds, and Irregularity-a (the rate of peaks), Symmetry-a (the correlation between left and right facial movements), and Symmetry-d (differences in onset frame numbers between the left and right faces). The findings from the present study have been compared to those of previous research, and certain speculations are made. PMID:29515508

New Geochemical Analyses Reveal Crustal Accretionary Processes at The Overlapping Spreading Center Near 3 N East Pacific Rise

NASA Astrophysics Data System (ADS)

Smithka, I. N.; Perfit, M. R.

2013-12-01

Mid-ocean ridges (MORs) are the sites of oceanic lithosphere creation and construction. Ridge discontinuities are a global phenomenom but are not as well understood as ridge axes. Geochemical analyses provide insights into upper mantle processes since elements fractionate with melting and freezing as well as reside in material to retain source signature. Lavas collected from ridge discontinuities consist of greater chemical diversity and represent variations in source, melting parameters, and local crustal processes. The small overlapping spreading center (OSC) near the third parallel north on the East Pacific Rise has been superficially analyzed previously, but here we present new isotope analyses and expand our understanding of MOR processes and processes near OSCs. Initial analyses of lavas collected in 2000 on AHA-NEMO2 revealed normal MOR basalt trends in rare earth element enrichments as well as in major element concentrations. Crystal fractionation varies along the tips of both axes, with MgO and TiO2 concentrations increasing towards the OSC basin. Newly analyzed Sr, Nd, and Pb isotope ratios will further constrain the nature of geochemical diversity along axis. As the northern tip seems to be propagating and the southern tip dying, lavas collected from each may reflect two different underlying mantle melting and magma storage processes.

EMPIRE and pyenda: Two ensemble-based data assimilation systems written in Fortran and Python

NASA Astrophysics Data System (ADS)

Geppert, Gernot; Browne, Phil; van Leeuwen, Peter Jan; Merker, Claire

2017-04-01

We present and compare the features of two ensemble-based data assimilation frameworks, EMPIRE and pyenda. Both frameworks allow to couple models to the assimilation codes using the Message Passing Interface (MPI), leading to extremely efficient and fast coupling between models and the data-assimilation codes. The Fortran-based system EMPIRE (Employing Message Passing Interface for Researching Ensembles) is optimized for parallel, high-performance computing. It currently includes a suite of data assimilation algorithms including variants of the ensemble Kalman and several the particle filters. EMPIRE is targeted at models of all kinds of complexity and has been coupled to several geoscience models, eg. the Lorenz-63 model, a barotropic vorticity model, the general circulation model HadCM3, the ocean model NEMO, and the land-surface model JULES. The Python-based system pyenda (Python Ensemble Data Assimilation) allows Fortran- and Python-based models to be used for data assimilation. Models can be coupled either using MPI or by using a Python interface. Using Python allows quick prototyping and pyenda is aimed at small to medium scale models. pyenda currently includes variants of the ensemble Kalman filter and has been coupled to the Lorenz-63 model, an advection-based precipitation nowcasting scheme, and the dynamic global vegetation model JSBACH.

Evaluation of pharyngeal space and its correlation with mandible and hyoid bone in patients with different skeletal classes and facial types.

PubMed

Nejaim, Yuri; Aps, Johan K M; Groppo, Francisco Carlos; Haiter Neto, Francisco

2018-06-01

The purpose of this article was to evaluate the pharyngeal space volume, and the size and shape of the mandible and the hyoid bone, as well as their relationships, in patients with different facial types and skeletal classes. Furthermore, we estimated the volume of the pharyngeal space with a formula using only linear measurements. A total of 161 i-CAT Next Generation (Imaging Sciences International, Hatfield, Pa) cone-beam computed tomography images (80 men, 81 women; ages, 21-58 years; mean age, 27 years) were retrospectively studied. Skeletal class and facial type were determined for each patient from multiplanar reconstructions using the NemoCeph software (Nemotec, Madrid, Spain). Linear and angular measurements were performed using 3D imaging software (version 3.4.3; Carestream Health, Rochester, NY), and volumetric analysis of the pharyngeal space was carried out with ITK-SNAP (version 2.4.0; Cognitica, Philadelphia, Pa) segmentation software. For the statistics, analysis of variance and the Tukey test with a significance level of 0.05, Pearson correlation, and linear regression were used. The pharyngeal space volume, when correlated with mandible and hyoid bone linear and angular measurements, showed significant correlations with skeletal class or facial type. The linear regression performed to estimate the volume of the pharyngeal space showed an R of 0.92 and an adjusted R 2 of 0.8362. There were significant correlations between pharyngeal space volume, and the mandible and hyoid bone measurements, suggesting that the stomatognathic system should be evaluated in an integral and nonindividualized way. Furthermore, it was possible to develop a linear regression model, resulting in a useful formula for estimating the volume of the pharyngeal space. Copyright © 2018 American Association of Orthodontists. Published by Elsevier Inc. All rights reserved.

Simultaneous Overexpression of Functional Human HO-1, E5NT and ENTPD1 Protects Murine Fibroblasts against TNF-α-Induced Injury In Vitro

PubMed Central

Cinti, Alessandro; De Giorgi, Marco; Chisci, Elisa; Arena, Claudia; Galimberti, Gloria; Farina, Laura; Bugarin, Cristina; Rivolta, Ilaria; Gaipa, Giuseppe; Smolenski, Ryszard Tom; Cerrito, Maria Grazia; Lavitrano, Marialuisa; Giovannoni, Roberto

2015-01-01

Several biomedical applications, such as xenotransplantation, require multiple genes simultaneously expressed in eukaryotic cells. Advances in genetic engineering technologies have led to the development of efficient polycistronic vectors based on the use of the 2A self-processing oligopeptide. The aim of this work was to evaluate the protective effects of the simultaneous expression of a novel combination of anti-inflammatory human genes, ENTPD1, E5NT and HO-1, in eukaryotic cells. We produced an F2A system-based multicistronic construct to express three human proteins in NIH3T3 cells exposed to an inflammatory stimulus represented by tumor necrosis factor alpha (TNF-α), a pro-inflammatory cytokine which plays an important role during inflammation, cell proliferation, differentiation and apoptosis and in the inflammatory response during ischemia/reperfusion injury in several organ transplantation settings. The protective effects against TNF-α-induced cytotoxicity and cell death, mediated by HO-1, ENTPD1 and E5NT genes were better observed in cells expressing the combination of genes as compared to cells expressing each single gene and the effect was further improved by administrating enzymatic substrates of the human genes to the cells. Moreover, a gene expression analyses demonstrated that the expression of the three genes has a role in modulating key regulators of TNF-α signalling pathway, namely Nemo and Tnfaip3, that promoted pro-survival phenotype in TNF-α injured cells. These results could provide new insights in the research of protective mechanisms in transplantation settings. PMID:26513260

Numerical modelling of the buoyant marine microplastics in the South-Eastern Baltic Sea

NASA Astrophysics Data System (ADS)

Bagaev, Andrei; Mizyuk, Artem; Chubarenko, Irina; Khatmullilna, Liliya

2017-04-01

Microplastics is a burning issue in the marine pollution science. Its sources, ways of propagation and final destiny pose a lot of questions to the modern oceanographers. Hence, a numerical model is an optimal tool for reconstruction of microplastics pathways and fate. Within the MARBLE project (lamp.ocean.ru), a model of Lagrangian particles transport was developed. It was tested coupled with oceanographic transport fields from the operational oceanography product of Copernicus Marine Monitoring Environment Service. Our model deals with two major types of microplastics such as microfibres and buoyant spheroidal particles. We are currently working to increase the grid resolution by means of the NEMO regional configuration for the south-eastern Baltic Sea. Several expeditions were organised to the three regions of the Baltic Sea (the Gotland, the Bornholm, and the Gdansk basins). Water samples from the surface and different water layers were collected, processed, and analysed by our team. A set of laboratory experiments was specifically designed to establish the settling velocity of particles of various shapes and densities. The analysis in question provided us with the understanding necessary for the model to reproduce the large-scale dynamics of microfibres. In the simulation, particles were spreading from the shore to the deep sea, slowly sinking to the bottom, while decreasing in quantity due to conditional sedimentation. Our model is expected to map out the microplastics life cycle and to account for its distribution patterns under the impact of wind and currents. For this purpose, we have already included the parameterization for the wind drag force applied to a particle. Initial results of numerical experiments seem to indicate the importance of proper implicit parameterization of the particle dynamics at the vertical solid boundary. Our suggested solutions to that problem will be presented at the EGU-2017. The MARBLE project is supported by Russian Science Foundation grant #15-17-10020.

["Psychologus nemo, nisi Physiologus"--Johannes Müller and perspectives of médecine philosophique: a discovery from University's Archive].

PubMed

Scharbert, Gerhard

2010-01-01

Taking Johannes Müller's still little examined school education in then French Koblenz at its starting point, this paper argues that Miiller's pre-academic training in the applied sciences as well as in the old languages--which Müller saw as a basic essential for the philosophically educated naturalist--had a profound impact on the scientific-philosophical views he put forward in his Dissertatio inauguralis physiologica sistens commentarios de phoronomia animalium published in 1822. The Dissertatio was influenced, in particular, by the work of Pierre-Jean-Georges Cabanis (1757-1808) and can be read as a physiological application of French Enlightenment sensualist philosophy. It shows that Müller already at early moment took up decisive impulses from revolutionary France. Also, a traditional mistake is shown to have falsified a fundamental aspect of this earliest work already with lasting effect.

DUV phase mask for 100 nm period grating printing

NASA Astrophysics Data System (ADS)

Jourlin, Y.; Bourgin, Y.; Reynaud, S.; Parriaux, O.; Talneau, A.; Karvinen, P.; Passilly, N.; Zain, A. Md.; De La Rue, R. M.

2008-04-01

Whereas microelectronic lithography is heading to the 32 nm node and discussing immersion and double-patterning strategies, there is much which can be done with the 45 nm node in microoptics for white light processing. For instance, one of the most demanding applications in terms of achievable period is the LCD lossless polarizer, which can transmit the TM polarization and reflect the TE polarization evenly all through the visible spectrum - provided that a 1D metal grid of 100 nm period can be fabricated. The manufacture of such polarizing panels cannot resort to the step & repeat cameras of microelectronics since the substrates are too large, too thin, too wavy and full of contaminants. There is therefore a need for specific fabrication techniques. It is one of these techniques that a subgroup of partners belonging to two of the Networks of Excellence of the European Community, NEMO and ePIXnet, have decided to explore together.

Data assimilation experiments using diffusive back-and-forth nudging for the NEMO ocean model

NASA Astrophysics Data System (ADS)

Ruggiero, G. A.; Ourmières, Y.; Cosme, E.; Blum, J.; Auroux, D.; Verron, J.

2015-04-01

The diffusive back-and-forth nudging (DBFN) is an easy-to-implement iterative data assimilation method based on the well-known nudging method. It consists of a sequence of forward and backward model integrations, within a given time window, both of them using a feedback term to the observations. Therefore, in the DBFN, the nudging asymptotic behaviour is translated into an infinite number of iterations within a bounded time domain. In this method, the backward integration is carried out thanks to what is called backward model, which is basically the forward model with reversed time step sign. To maintain numeral stability, the diffusion terms also have their sign reversed, giving a diffusive character to the algorithm. In this article the DBFN performance to control a primitive equation ocean model is investigated. In this kind of model non-resolved scales are modelled by diffusion operators which dissipate energy that cascade from large to small scales. Thus, in this article, the DBFN approximations and their consequences for the data assimilation system set-up are analysed. Our main result is that the DBFN may provide results which are comparable to those produced by a 4Dvar implementation with a much simpler implementation and a shorter CPU time for convergence. The conducted sensitivity tests show that the 4Dvar profits of long assimilation windows to propagate surface information downwards, and that for the DBFN, it is worth using short assimilation windows to reduce the impact of diffusion-induced errors. Moreover, the DBFN is less sensitive to the first guess than the 4Dvar.

Student chapters: effective dissemination networks for informal optics and photonics education

NASA Astrophysics Data System (ADS)

Fabian, Dirk; Vermeulen, Nathalie; Van Overmeire, Sara

2009-06-01

Professional societies sponsor student chapters in order to foster scholarship and training in photonics at the college and graduate level, but they are also an excellent resource for disseminating photonics knowledge to pre-college students and teachers. Starting in 2006, we tracked the involvement of SPIE student chapter volunteers in informal pre-college education settings. Chapter students reached 2800, 4900 and 11800 pre-college students respectively from 2006-2008 with some form of informal instruction in optics and photonics. As a case study, the EduKit, a self-contained instruction module featuring refractive and diffractive micro-optics developed by the European Network of Excellence on Micro-Optics (NEMO), was disseminated through student chapters in Argentina, Belgium, Canada, China, Colombia, India, Latvia, Mexico, Peru, Russia, Singapore, South Africa, and the United States. We tracked the movement of this material through the network, up to the student-teacher feedback stage. The student chapter network provided rapid dissemination of the material, translation of the material into the local language, and leveraged existing chapter contacts in schools to provide an audience. We describe the student chapter network and its impact on the development of the EduKit teaching module.

Medicanes in an ocean-atmosphere coupled regional climate model

NASA Astrophysics Data System (ADS)

Akhtar, N.; Brauch, J.; Dobler, A.; Béranger, K.; Ahrens, B.

2014-03-01

So-called medicanes (Mediterranean hurricanes) are meso-scale, marine, and warm-core Mediterranean cyclones that exhibit some similarities to tropical cyclones. The strong cyclonic winds associated with medicanes threaten the highly populated coastal areas around the Mediterranean basin. To reduce the risk of casualties and overall negative impacts, it is important to improve the understanding of medicanes with the use of numerical models. In this study, we employ an atmospheric limited-area model (COSMO-CLM) coupled with a one-dimensional ocean model (1-D NEMO-MED12) to simulate medicanes. The aim of this study is to assess the robustness of the coupled model in simulating these extreme events. For this purpose, 11 historical medicane events are simulated using the atmosphere-only model, COSMO-CLM, and coupled model, with different setups (horizontal atmospheric grid-spacings of 0.44°, 0.22°, and 0.08°; with/without spectral nudging, and an ocean grid-spacing of 1/12°). The results show that at high-resolution, the coupled model is able to not only simulate most of medicane events but also improve the track length, core temperature, and wind speed of simulated medicanes compared to the atmosphere-only simulations. The results suggest that the coupled model is more proficient for systemic and detailed studies of historical medicane events, and that this model can be an effective tool for future projections.

Medicanes in an ocean-atmosphere coupled regional climate model

NASA Astrophysics Data System (ADS)

Akhtar, N.; Brauch, J.; Dobler, A.; Béranger, K.; Ahrens, B.

2014-08-01

So-called medicanes (Mediterranean hurricanes) are meso-scale, marine, and warm-core Mediterranean cyclones that exhibit some similarities to tropical cyclones. The strong cyclonic winds associated with medicanes threaten the highly populated coastal areas around the Mediterranean basin. To reduce the risk of casualties and overall negative impacts, it is important to improve the understanding of medicanes with the use of numerical models. In this study, we employ an atmospheric limited-area model (COSMO-CLM) coupled with a one-dimensional ocean model (1-D NEMO-MED12) to simulate medicanes. The aim of this study is to assess the robustness of the coupled model in simulating these extreme events. For this purpose, 11 historical medicane events are simulated using the atmosphere-only model, COSMO-CLM, and coupled model, with different setups (horizontal atmospheric grid spacings of 0.44, 0.22, and 0.08°; with/without spectral nudging, and an ocean grid spacing of 1/12°). The results show that at high resolution, the coupled model is able to not only simulate most of medicane events but also improve the track length, core temperature, and wind speed of simulated medicanes compared to the atmosphere-only simulations. The results suggest that the coupled model is more proficient for systemic and detailed studies of historical medicane events, and that this model can be an effective tool for future projections.

Toward the assimilation of biogeochemical data in the CMEMS BIOMER coupled physical-biogeochemical operational system

NASA Astrophysics Data System (ADS)

Lamouroux, Julien; Testut, Charles-Emmanuel; Lellouche, Jean-Michel; Perruche, Coralie; Paul, Julien

2017-04-01

The operational production of data-assimilated biogeochemical state of the ocean is one of the challenging core projects of the Copernicus Marine Environment Monitoring Service. In that framework - and with the April 2018 CMEMS V4 release as a target - Mercator Ocean is in charge of improving the realism of its global ¼° BIOMER coupled physical-biogeochemical (NEMO/PISCES) simulations, analyses and re-analyses, and to develop an effective capacity to routinely estimate the biogeochemical state of the ocean, through the implementation of biogeochemical data assimilation. Primary objectives are to enhance the time representation of the seasonal cycle in the real time and reanalysis systems, and to provide a better control of the production in the equatorial regions. The assimilation of BGC data will rely on a simplified version of the SEEK filter, where the error statistics do not evolve with the model dynamics. The associated forecast error covariances are based on the statistics of a collection of 3D ocean state anomalies. The anomalies are computed from a multi-year numerical experiment (free run without assimilation) with respect to a running mean in order to estimate the 7-day scale error on the ocean state at a given period of the year. These forecast error covariances rely thus on a fixed-basis seasonally variable ensemble of anomalies. This methodology, which is currently implemented in the "blue" component of the CMEMS operational forecast system, is now under adaptation to be applied to the biogeochemical part of the operational system. Regarding observations - and as a first step - the system shall rely on the CMEMS GlobColour Global Ocean surface chlorophyll concentration products, delivered in NRT. The objective of this poster is to provide a detailed overview of the implementation of the aforementioned data assimilation methodology in the CMEMS BIOMER forecasting system. Focus shall be put on (1) the assessment of the capabilities of this data assimilation methodology to provide satisfying statistics of the model variability errors (through space-time analysis of dedicated representers of satellite surface Chla observations), (2) the dedicated features of the data assimilation configuration that have been implemented so far (e.g. log-transformation of the analysis state, multivariate Chlorophyll-Nutrient control vector, etc.) and (3) the assessment of the performances of this future operational data assimilation configuration.

Study of the plankton ecosystem variability using a coupled hydrodynamics biogeochemical modelling in the Mediterranean Sea

NASA Astrophysics Data System (ADS)

Kessouri, Fayçal; Ulses, Caroline; Estournel, Claude; Marsaleix, Patrick

2015-04-01

The Mediterranean Sea presents a wide variety of trophic regimes since the large and intense spring bloom of the North-Western Mediterranean Sea (NWMS) that follows winter convection to the extreme oligotrophic regions of the South-eastern basin. The Mediterranean Sea displays a strong time variability revealing its high sensitivity to climate and anthropic pressures. In this context, it is crucial to develop tools allowing to understand the evolution of the Mediterranean hydrology and marine ecosystem as a response to external forcing. Numerical coupled hydrodynamic and biogeochemical modelling carefully calibrated in the different regions of the basin is the only tool that can answer this question. However, this important step of calibration is particularly difficult because of the lack of coherent sets of data describing the seasonal evolution of the main parameters characterizing the physical and biogeochemical environment in the different sub-basins. The chlorophyll satellite data from 4km MODIS products, a multiple in situ data from MerMEX MOOSE and DEWEX cruises and Bio-Argo floats from NAOS project are believed to be an opportunity to strongly improve the realism of ecosystem models. The model is a 3D coupled simulation using NemoMed12 for hydrodynamics and ECO 3MS for biogeochemistry and covers the whole Mediterranean Sea and runs at 1/12°. The relevant variables mentioned are phytoplankton, organic and inorganic matters faced to water masses dynamics, over ten years since summer 2003. After a short validation, we will expose two topics: First, through this coupling we quantify the nutrients fluxes across the Mediterranean straits over the years. For example, we found an annual net average around 150 Giga moles NO3 per year at Gibraltar, where we expect low annual fluctuations. In contrast, the Strait of Sicily shows greater annual variability going from 70 to 92 Giga moles NO3 per year. All the fluxes are resumed in a detailed diagram of the transport for organic matters and the nutrients. Second, we described for each basin the particularities with evoking the main dynamics and biogeochemical aspects affecting primary production and export of particulate carbon outside the photic zone.

Benchmarking the mesoscale variability in global ocean eddy-permitting numerical systems

NASA Astrophysics Data System (ADS)

Cipollone, Andrea; Masina, Simona; Storto, Andrea; Iovino, Doroteaciro

2017-10-01

The role of data assimilation procedures on representing ocean mesoscale variability is assessed by applying eddy statistics to a state-of-the-art global ocean reanalysis (C-GLORS), a free global ocean simulation (performed with the NEMO system) and an observation-based dataset (ARMOR3D) used as an independent benchmark. Numerical results are computed on a 1/4 ∘ horizontal grid (ORCA025) and share the same resolution with ARMOR3D dataset. This "eddy-permitting" resolution is sufficient to allow ocean eddies to form. Further to assessing the eddy statistics from three different datasets, a global three-dimensional eddy detection system is implemented in order to bypass the need of regional-dependent definition of thresholds, typical of commonly adopted eddy detection algorithms. It thus provides full three-dimensional eddy statistics segmenting vertical profiles from local rotational velocities. This criterion is crucial for discerning real eddies from transient surface noise that inevitably affects any two-dimensional algorithm. Data assimilation enhances and corrects mesoscale variability on a wide range of features that cannot be well reproduced otherwise. The free simulation fairly reproduces eddies emerging from western boundary currents and deep baroclinic instabilities, while underestimates shallower vortexes that populate the full basin. The ocean reanalysis recovers most of the missing turbulence, shown by satellite products , that is not generated by the model itself and consistently projects surface variability deep into the water column. The comparison with the statistically reconstructed vertical profiles from ARMOR3D show that ocean data assimilation is able to embed variability into the model dynamics, constraining eddies with in situ and altimetry observation and generating them consistently with local environment.

Reduced SHARPIN and LUBAC Formation May Contribute to CCl₄- or Acetaminophen-Induced Liver Cirrhosis in Mice.

PubMed

Yamamotoya, Takeshi; Nakatsu, Yusuke; Matsunaga, Yasuka; Fukushima, Toshiaki; Yamazaki, Hiroki; Kaneko, Sunao; Fujishiro, Midori; Kikuchi, Takako; Kushiyama, Akifumi; Tokunaga, Fuminori; Asano, Tomoichiro; Sakoda, Hideyuki

2017-02-04

Linear ubiquitin chain assembly complex (LUBAC), composed of SHARPIN (SHANK-associated RH domain-interacting protein), HOIL-1L (longer isoform of heme-oxidized iron-regulatory protein 2 ubiquitin ligase-1), and HOIP (HOIL-1L interacting protein), forms linear ubiquitin on nuclear factor-κB (NF-κB) essential modulator (NEMO) and induces NF-κB pathway activation. SHARPIN expression and LUBAC formation were significantly reduced in the livers of mice 24 h after the injection of either carbon tetrachloride (CCl₄) or acetaminophen (APAP), both of which produced the fulminant hepatitis phenotype. To elucidate its pathological significance, hepatic SHARPIN expression was suppressed in mice by injecting shRNA adenovirus via the tail vein. Seven days after this transduction, without additional inflammatory stimuli, substantial inflammation and fibrosis with enhanced hepatocyte apoptosis occurred in the livers. A similar but more severe phenotype was observed with suppression of HOIP, which is responsible for the E3 ligase activity of LUBAC. Furthermore, in good agreement with these in vivo results, transduction of Hepa1-6 hepatoma cells with SHARPIN, HOIL-1L, or HOIP shRNA adenovirus induced apoptosis of these cells in response to tumor necrosis factor-α (TNFα) stimulation. Thus, LUBAC is essential for the survival of hepatocytes, and it is likely that reduction of LUBAC is a factor promoting hepatocyte death in addition to the direct effect of drug toxicity.

Implementation of a flow-dependent background error correlation length scale formulation in the NEMOVAR OSTIA system

NASA Astrophysics Data System (ADS)

Fiedler, Emma; Mao, Chongyuan; Good, Simon; Waters, Jennifer; Martin, Matthew

2017-04-01

OSTIA is the Met Office's Operational Sea Surface Temperature (SST) and Ice Analysis system, which produces L4 (globally complete, gridded) analyses on a daily basis. Work is currently being undertaken to replace the original OI (Optimal Interpolation) data assimilation scheme with NEMOVAR, a 3D-Var data assimilation method developed for use with the NEMO ocean model. A dual background error correlation length scale formulation is used for SST in OSTIA, as implemented in NEMOVAR. Short and long length scales are combined according to the ratio of the decomposition of the background error variances into short and long spatial correlations. The pre-defined background error variances vary spatially and seasonally, but not on shorter time-scales. If the derived length scales applied to the daily analysis are too long, SST features may be smoothed out. Therefore a flow-dependent component to determining the effective length scale has also been developed. The total horizontal gradient of the background SST field is used to identify regions where the length scale should be shortened. These methods together have led to an improvement in the resolution of SST features compared to the previous OI analysis system, without the introduction of spurious noise. This presentation will show validation results for feature resolution in OSTIA using the OI scheme, the dual length scale NEMOVAR scheme, and the flow-dependent implementation.

Evaluation of an operational water cycle prediction system for the Laurentian Great Lakes and St. Lawrence River

NASA Astrophysics Data System (ADS)

Fortin, Vincent; Durnford, Dorothy; Smith, Gregory; Dyck, Sarah; Martinez, Yosvany; Mackay, Murray; Winter, Barbara

2017-04-01

Environment and Climate Change Canada (ECCC) is implementing new numerical guidance products based on fully coupled numerical models to better inform the public as well as specialized users on the current and future state of various components of the water cycle, including stream flow and water levels. Outputs from this new system, named the Water Cycle Prediction System (WCPS), have been available for the Great Lakes and St. Lawrence River watershed since June 2016. WCPS links together ECCC's weather forecasting model, GEM, the 2-D ice model C-ICE, the 3-D lake and ocean model NEMO, and a 2-D hydrological model, WATROUTE. Information concerning the water cycle is passed between the models at intervals varying from a few minutes to one hour. It currently produces two forecasts per day for the next three days of the complete water cycle in the Great Lakes region, the largest freshwater lake system in the world. Products include spatially-varying precipitation, evaporation, river discharge, water level anomalies, surface water temperatures, ice coverage, and surface currents. These new products are of interest to water resources and management authority, flood forecasters, hydroelectricity producers, navigation, environmental disaster managers, search and rescue teams, agriculture, and the general public. This presentation focuses on the evaluation of various elements forecasted by the system, and weighs the advantages and disadvantages of running the system fully coupled.

Transcutaneous Auricular Vagus Nerve Stimulation with Concurrent Upper Limb Repetitive Task Practice for Poststroke Motor Recovery: A Pilot Study.

PubMed

Redgrave, Jessica N; Moore, Lucy; Oyekunle, Tosin; Ebrahim, Maryam; Falidas, Konstantinos; Snowdon, Nicola; Ali, Ali; Majid, Arshad

2018-03-23

Invasive vagus nerve stimulation (VNS) has the potential to enhance the effects of physiotherapy for upper limb motor recovery after stroke. Noninvasive, transcutaneous auricular branch VNS (taVNS) may have similar benefits, but this has not been evaluated in stroke recovery. We sought to determine the feasibility of taVNS delivered alongside upper limb repetitive task-specific practice after stroke and its effects on a range of outcome measures evaluating limb function. Thirteen participants at more than 3 months postischemic stroke with residual upper limb dysfunction were recruited from the community of Sheffield, United Kingdom (October-December 2016). Participants underwent 18 × 1-hour sessions over 6 weeks in which they made 30-50 repetitions of 8-10 arm movements concurrently with taVNS (NEMOS; Cerbomed, Erlangen, Germany, 25 Hz, .1-millisecond pulse width) at maximum tolerated intensity (mA). An electrocardiogram and rehabilitation outcome scores were obtained at each visit. Qualitative interviews determined the acceptability of taVNS to participants. Median time after stroke was 1.16 years, and baseline median/interquartile range upper limb Fugl-Meyer (UFM) score was 63 (54.5-99.5). Participants attended 92% of the planned treatment sessions. Three participants reported side effects, mainly fatigue, but all performed mean of more than 300 arm repetitions per session with no serious adverse events. There was a significant change in the UFM score with a mean increase per participant of 17.1 points (standard deviation 7.8). taVNS is feasible and well-tolerated alongside upper limb repetitive movements in poststroke rehabilitation. The motor improvements observed justify a phase 2 trial in patients with residual arm weakness. Copyright © 2018 National Stroke Association. Published by Elsevier Inc. All rights reserved.

Coupled ocean-shelf ecosystem modelling of northern North Atlantic

NASA Astrophysics Data System (ADS)

Harle, J.; Holt, J. T.; Butenschön, M.; Allen, J. I.

2016-02-01

The biogeochemistry and ecosystems of the open-ocean and shelf seas are intimately connected. For example Northwest European continental shelf receives a substantial fraction of its nutrients from the wider North Atlantic and exports carbon at depth, sequestering it from atmospheric exchange. In the EC FP7 EuroBasin project (Holt et al 2014) we have developed a 1/12 degree basin-scale NEMO-ERSEM model with specific features relevant to shelf seas (e.g. tides and advanced vertical mixing schemes). This model is eddy resolving in the open-ocean, and resolves barotropic scales on-shelf. We use this model to explore the interaction between finely resolved physical processes and the ecosystem. Here we focus on shelf-sea processes and the connection between the shelf seas and open-ocean, and compare results with a 1/4 degree (eddy permitting) model that does not include shelf sea processes. We find tidal mixing fronts and river plume are well represented in the 1/12 degree model. Using approaches developed for the NW Shelf (Holt et al 2012), we provide estimates of across-shelf break nutrient fluxes to the seas surrounding this basin, and relate these fluxes and their interannual variability to the physical processes driving ocean-shelf exchange. Holt, J., et al, 2012. Oceanic controls on the primary production of the northwest European continental shelf: model experiments under recent past conditions and a potential future scenario. Biogeosciences 9, 97-117. Holt, J., et al, 2014. Challenges in integrative approaches to modelling the marine ecosystems of the North Atlantic: Physics to Fish and Coasts to Ocean. Progress in Oceanography doi:10.1016/j.pocean.2014.04.024.

Listening to the Deep-Ocean Environment (LIDO): an ESONET Initiative for the Real-Time Monitoring of Geohazards and Marine Ambient Noise

NASA Astrophysics Data System (ADS)

André, Michel; Favali, Paolo; Piatteli, Paolo; Miranda, Jorge; Waldmann, Christoph; Esonet Lido Demonstration Mission Team

2010-05-01

Understanding the link between natural and anthropogenic processes is essential for predicting the magnitude and impact of future changes of the natural balance of the oceans. Deep-sea observatories have the potential to play a key role in the assessment and monitoring of these changes. ESONET is a European Network of Excellence of deep-sea observatories that includes 55 partners belonging to 14 countries. ESONET NoE is providing data on key parameters from the subsurface down to the seafloor at representative locations that transmit them to shore. The strategies of deployment, data sampling, technological development, standardisation and data management are being integrated with projects dealing with the spatial and near surface time series. LIDO (Listening to the Deep Ocean environment) is one of these projects and proposes to establish a first nucleus of a regional network of multidisciplinary seafloor observatories contributing to the coordination of high quality research in the ESONET NoE by allowing the real-time long-term monitoring of Geohazards and Marine Ambient Noise in the Mediterranean Sea and the adjacent Atlantic waters. Specific activities address the long-term monitoring of earthquakes and tsunamis and the characterisation of ambient noise, marine mammal sounds and anthropogenic sources. The objective of this demonstration mission will be achieved through the extension of the present capabilities of the observatories working in the ESONET key-sites of Eastern Sicily (NEMO-SN1) and of the Gulf of Cadiz (GEOSTAR configured for NEAREST pilot experiment) by installing new sensor equipments related to Bioacoustics and Geohazards, as well as by implementing international standard methods in data acquisition and management.

Idealised modelling of ocean circulation driven by conductive and hydrothermal fluxes at the seabed

NASA Astrophysics Data System (ADS)

Barnes, Jowan M.; Morales Maqueda, Miguel A.; Polton, Jeff A.; Megann, Alex P.

2018-02-01

Geothermal heating is increasingly recognised as an important factor affecting ocean circulation, with modelling studies suggesting that this heat source could lead to first-order changes in the formation rate of Antarctic Bottom Water, as well as a significant warming effect in the abyssal ocean. Where it has been represented in numerical models, however, the geothermal heat flux into the ocean is generally treated as an entirely conductive flux, despite an estimated one third of the global geothermal flux being introduced to the ocean via hydrothermal sources. A modelling study is presented which investigates the sensitivity of the geothermally forced circulation to the way heat is supplied to the abyssal ocean. An analytical two-dimensional model of the circulation is described, which demonstrates the effects of a volume flux through the ocean bed. A simulation using the NEMO numerical general circulation model in an idealised domain is then used to partition a heat flux between conductive and hydrothermal sources and explicitly test the sensitivity of the circulation to the formulation of the abyssal heat flux. Our simulations suggest that representing the hydrothermal flux as a mass exchange indeed changes the heat distribution in the abyssal ocean, increasing the advective heat transport from the abyss by up to 35% compared to conductive heat sources. Consequently, we suggest that the inclusion of hydrothermal fluxes can be an important addition to course-resolution ocean models.

Nuclear lamina defects cause ATM-dependent NF-κB activation and link accelerated aging to a systemic inflammatory response.

PubMed

Osorio, Fernando G; Bárcena, Clea; Soria-Valles, Clara; Ramsay, Andrew J; de Carlos, Félix; Cobo, Juan; Fueyo, Antonio; Freije, José M P; López-Otín, Carlos

2012-10-15

Alterations in the architecture and dynamics of the nuclear lamina have a causal role in normal and accelerated aging through both cell-autonomous and systemic mechanisms. However, the precise nature of the molecular cues involved in this process remains incompletely defined. Here we report that the accumulation of prelamin A isoforms at the nuclear lamina triggers an ATM- and NEMO-dependent signaling pathway that leads to NF-κB activation and secretion of high levels of proinflammatory cytokines in two different mouse models of accelerated aging (Zmpste24(-/-) and Lmna(G609G/G609G) mice). Causal involvement of NF-κB in accelerated aging was demonstrated by the fact that both genetic and pharmacological inhibition of NF-κB signaling prevents age-associated features in these animal models, significantly extending their longevity. Our findings provide in vivo proof of principle for the feasibility of pharmacological modulation of the NF-κB pathway to slow down the progression of physiological and pathological aging.

Approximate Stokes Drift Profiles and their use in Ocean Modelling

NASA Astrophysics Data System (ADS)

Breivik, O.; Biblot, J.; Janssen, P. A. E. M.

2016-02-01

Deep-water approximations to the Stokes drift velocity profile are explored as alternatives to the monochromatic profile. The alternative profiles investigated rely on the same two quantities required for the monochromatic profile, viz the Stokes transport and the surface Stokes drift velocity. Comparisons with parametric spectra and profiles under wave spectra from the ERA-Interim reanalysis and buoy observations reveal much better agreement than the monochromatic profile even for complex sea states. That the profiles give a closer match and a more correct shear has implications for ocean circulation models since the Coriolis-Stokes force depends on the magnitude and direction of the Stokes drift profile and Langmuir turbulence parameterizations depend sensitively on the shear of the profile. The NEMO general circulation ocean model was recently extended to incorporate the Stokes-Coriolis force along with two other wave-related effects. I will show some results from the coupled atmosphere-wave-ocean ensemble forecast system of ECMWF where these wave effects are now included in the ocean model component.

The role of adipose-derived inflammatory cytokines in type 1 diabetes

PubMed Central

Shao, Lan; Feng, Boya; Zhang, Yuying; Zhou, Huanjiao; Ji, Weidong; Min, Wang

2016-01-01

ABSTRACT Adipose tissue dysfunction correlates with the development of diabetes. Mice with an adipocyte-specific deletion of the SUMO-specific protease SENP1 develop symptoms of type-1 diabetes mellitus (T1DM). Peri-pancreatic adipocytes (PATs) exert both systemic and paracrine effects on pancreases function. Our recent studies report that PATs of SENP1-deficient mice have increased proinflammatory cytokine production compared with other adipose depots. Proinflammatory cytokines produced from PATs not only have direct cytotoxic effects on pancreatic islets, but also increase CCL5 expression in adjacent pancreatic islets, which induces persistent inflammation in pancreases by acquisition of Th1 and Th17 effector T cell subsets. Small ubiquitin-like modifier (SUMO) can post-translationally conjugate to cellular proteins (SUMOylation) and modulate their biological functions. Several components in SUMOylation associate with T1DM susceptibility. We find that SUMOylation of NF-κB essential molecule NEMO augments NF-κB activity, NF-κB-dependent cytokine production and pancreatic inflammation. NF-κB inhibitor should provide therapeutic approach to block PAT inflammation and ameliorate the T1DM phenotype. We further propose that adipocytes in PATs may play a primary role in establishing pancreatic immune regulation at onset of diabetes, providing new insights into the molecular pathogenesis of type 1 diabetes. PMID:27617172

Advanced secondary batteries: Their applications, technological status, market and opportunity

NASA Astrophysics Data System (ADS)

Yao, M.

1989-03-01

Program planning for advanced battery energy storage technology is supported within the NEMO Program. Specifically this study had focused on the review of advanced battery applications; the development and demonstration status of leading battery technologies; and potential marketing opportunity. Advanced secondary (or rechargeable) batteries have been under development for the past two decades in the U.S., Japan, and parts of Europe for potential applications in electric utilities and for electric vehicles. In the electric utility applications, the primary aim of a battery energy storage plant is to facilitate peak power load leveling and/or dynamic operations to minimize the overall power generation cost. In the application for peak power load leveling, the battery stores the off-peak base load energy and is discharged during the period of peak power demand. This allows a more efficient use of the base load generation capacity and reduces the need for conventional oil-fired or gas-fire peak power generation equipment. Batteries can facilitate dynamic operations because of their basic characteristics as an electrochemical device capable of instantaneous response to the changing load. Dynamic operating benefits results in cost savings of the overall power plant operation. Battery-powered electric vehicles facilitate conservation of petroleum fuel in the transportation sector, but more importantly, they reduce air pollution in the congested inner cities.

Finding Nemo: molecular phylogeny and evolution of the unusual life style of anemonefish.

PubMed

Santini, Simona; Polacco, Giovanni

2006-12-30

Anemonefish are a group of 28 species of coral reef fish belonging to the family Pomacentridae, subfamily Amphiprioninae, all characterized by living in symbiosis with sea anemones of several genera. Some anemonefish are specialized to cooperate with a single or few species of sea anemone, being immune to their poisonous tentacles but sensible to those of other species of sea anemones, while other anemonefish are more generalist and able to live together with a number of different species of sea anemone hosts. Despite the common life style, anemonefish species occur in a variety of colors, body shapes and degree of dependence from the host. To understand the evolutionary mechanisms responsible for the anemonefish diversification, we studied 23 out of 28 species of anemonefish by analyzing three mitochondrial regions: the cytochrome b gene, the 16S ribosomal RNA gene and the first half of the D-loop, a non-coding, regulatory region to reconstruct their molecular phylogeny through Bayesian and maximum parsimony approaches. The evolution of specialization was studied by means of character reconstruction methods. This work includes the highest number of anemonefish so far analyzed and particularly some species that had never been studied before. The results support a monophyletic origin for the subfamily Amphiprioninae, in contrast to the current taxonomy, based on morphological characters, that divides anemonefish into two separate genera. Moreover, we formulate some hypotheses concerning the life style and origin of the ancestral anemonefish.

Pelagic erosion and sedimentation north of Carnegie Ridge, eastern equatorial Pacific

NASA Astrophysics Data System (ADS)

Brooks, C. K.; Lyle, M. W.; Marcantonio, F.; Lewis, D. M.; Paul, C.

2011-12-01

The Carnegie Ridge is one of three bathymetric highs bounding the Panama Basin and is known to exhibit erosion and redeposition of pelagic sediments. The extent of erosion and redeposition was studied during the R/V Melville cruise MV1014 in November 2010 to compare with geochemical estimates of sediment focusing. The MV1014 cruise acquired geochemical, geological and geophysical data using multichannel 2-D seismic and 3.5 kHz sub-bottom profiler, swathmap bathymetry, coring, and water casts. The seismic reflection, digital sub-bottom profiler and swathmap bathymetry data were used to investigate biogenic sedimentary deposition in the Panama Basin and erosion from Carnegie Ridge. We compare the new geophysical results with drilling on ODP Leg 202, the NEMO-03 site survey cruise for Leg 202, an early survey from 1969 and other data compiled by Ecuadorian surveys. Areas of non-deposition and/or erosion include the bathymetric highs along the ridge, seamounts, and an area of interest, a valley located on the northwestern flank of the ridge. The valley encompasses 183 km2 and exhibits large scale erosion, cutting down through sediments deposited over the 10-million year life of this segment of the Carnegie Ridge. All other valleys located within the Carnegie Ridge study area demonstrate ample deposition with sedimentary packages ranging from 200-800m with an average value trending around 400m. Higher sediment deposition is found in basins to the north of the erosional valley but similar sedimentation is also found even further north, beyond intervening high topography. The thickest sediment deposit near the Carnegie Ridge is actually found on the southern flank of the ridge, more than 100 km to the south of the survey area. Digital chirp sub-bottom profiler data combined with high-resolution seismic illustrate changes in sedimentation and erosion on the Carnegie Ridge, highlighting the dynamic sedimentary environment.

Including climate variability in determination of the optimum rate of N fertilizer application using a crop model: A case study for rainfed corn in eastern Canada

NASA Astrophysics Data System (ADS)

Mesbah, M.; Pattey, E.; Jégo, G.; Geng, X.; Tremblay, N.; Didier, A.

2017-12-01

Identifying optimum nitrogen (N) application rate is essential for increasing agricultural production while limiting potential environmental contaminations caused by release of reactive N, especially for high demand N crops such as corn. The central question of N management is then how the optimum N rate is affected by climate variability for given soil. The experimental determination of optimum N rates involve the analyses of variance on the mean value of crop yield response to various N application rates used by factorial plot based experiments for a few years in several regions. This traditional approach has limitations to capture 1) the non-linear response of yield to N application rates due to large incremental N rates (often more than 40 kg N ha-1) and 2) the ecophysiological response of the crop to climate variability because of limited numbers of growing seasons considered. Modeling on the other hand, does not have such limitations and hence we use a crop model and propose a model-based methodology called Finding NEMO (N Ecophysiologically Modelled Optimum) to identify the optimum N rates for variable agro-climatic conditions and given soil properties. The performance of the methodology is illustrated using the STICS crop model adapted for rainfed corn in the Mixedwood Plains ecozone of eastern Canada (42.3oN 83oW-46.8oN 71oW) where more than 90% of Canadian corn is produced. The simulations were performed using small increment of preplant N application rate (10 kg N ha -1), long time series of daily climatic data (48 to 61 years) for 5 regions along the ecozone, and three contrasting soils per region. The results show that N recommendations should be region and soil specific. Soils with lower available water capacity required more N compared to soil with higher available water capacity. When N rates were at their ecophysiologically optimum level, 10 to 17 kg increase in dry yield could be achieved by adding 1 kg N. Expected yield also affected the optimum N rates for the region and soil. For instance, the probability to achieve a yield of 9.2 t ha-1 at 15% grain moisture on a loamy soil varied from 0 to 73% along the ecozone. For this level of expected yield, the recommended N rates ranged from 64 to 155 kg ha-1, which are relatively less than current provincial recommendations in Ontario and Quebec (120-170 kg ha-1).

Major modes of short-term climate variability in the newly developed NUIST Earth System Model (NESM)

NASA Astrophysics Data System (ADS)

Cao, Jian; Wang, Bin; Xiang, Baoqiang; Li, Juan; Wu, Tianjie; Fu, Xiouhua; Wu, Liguang; Min, Jinzhong

2015-05-01

A coupled earth system model (ESM) has been developed at the Nanjing University of Information Science and Technology (NUIST) by using version 5.3 of the European Centre Hamburg Model (ECHAM), version 3.4 of the Nucleus for European Modelling of the Ocean (NEMO), and version 4.1 of the Los Alamos sea ice model (CICE). The model is referred to as NUIST ESM1 (NESM1). Comprehensive and quantitative metrics are used to assess the model's major modes of climate variability most relevant to subseasonal-to-interannual climate prediction. The model's assessment is placed in a multi-model framework. The model yields a realistic annual mean and annual cycle of equatorial SST, and a reasonably realistic precipitation climatology, but has difficulty in capturing the spring-fall asymmetry and monsoon precipitation domains. The ENSO mode is reproduced well with respect to its spatial structure, power spectrum, phase locking to the annual cycle, and spatial structures of the central Pacific (CP)-ENSO and eastern Pacific (EP)-ENSO; however, the equatorial SST variability, biennial component of ENSO, and the amplitude of CP-ENSO are overestimated. The model captures realistic intraseasonal variability patterns, the vertical-zonal structures of the first two leading predictable modes of Madden-Julian Oscillation (MJO), and its eastward propagation; but the simulated MJO speed is significantly slower than observed. Compared with the T42 version, the high resolution version (T159) demonstrates improved simulation with respect to the climatology, interannual variance, monsoon-ENSO lead-lag correlation, spatial structures of the leading mode of the Asian-Australian monsoon rainfall variability, and the eastward propagation of the MJO.

Modelling the influence of tides on ice-shelf melt rates in the Amundsen Sea, Antarctica.

NASA Astrophysics Data System (ADS)

Jourdain, Nicolas C.; Molines, Jean-Marc; Le Sommer, Julien; Mathiot, Pierre; Chanut, Jérome; Madec, Gurvan

2017-04-01

Variations in melt beneath ice- shelves may trigger ice-sheet instabilities, in particular in West Antarctica. Therefore, improving the understanding and modelling of ice-shelf basal melt rates has been a major focus over the last decades. In this presentation, we provide further insight into the role of tides on basal melt rates, and we assess several methods to account for tides in models that do not include an explicit representation of tides. First, we use an explicit representation of tides in a regional configuration of the NEMO-3.6 model deployed over the Amundsen Sea. We show that most of the tidal influence on ice-shelf melt is explained by four tidal constituents. Tides enhance melt by more than 30% in some cavities like Abbot, Cosgrove and Dotson, but by less than 10% in others like Thwaites and Pine Island. Over the entire Amundsen Sea sector, tides enhance melt by 92 Gt/yr, which is mostly induced by tidal velocities along ice drafts (+148 Gt/yr), partly compensated by tide-induced change in thermal forcing (-31 Gt/yr) and co-variations between tidal velocities and thermal forcing (-26 Gt/yr). In the second part of this presentation, we show that using uniform tidal velocities to account for tides effects in ocean models with no explicit tides produces large biases in melt rates. By contrast, prescribing non-uniform tidal velocities allows an accurate representation of the dynamical effects of tides on melt rates.

Antarctic Climate Variability: Covariance of Ozone and Sea Ice in Atmosphere - Ocean Coupled Model Simulations

NASA Astrophysics Data System (ADS)

Jrrar, Amna; Abraham, N. Luke; Pyle, John A.; Holland, David

2014-05-01

Changes in sea ice significantly modulate climate change because of its high reflective and insulating nature. While Arctic Sea Ice Extent (SIE) shows a negative trend. Antarctic SIE shows a weak but positive trend, estimated at 0.127 x 106 km2 per decade. The trend results from large regional cancellations, more ice in the Weddell and the Ross seas, and less ice in the Amundsen - Bellingshausen seas. A number of studies had demonstrated that stratospheric ozone depletion has had a major impact on the atmospheric circulation, causing a positive trend in the Southern Annular Mode (SAM), which has been linked to the observed positive trend in autumn sea ice in the Ross Sea. However, other modelling studies show that models forced with prescribed ozone hole simulate decreased sea ice in all regions comparative to a control run. A recent study has also shown that stratospheric ozone recovery will mitigate Antarctic sea ice loss. To verify this assumed relationship, it is important first to investigate the covariance between ozone's natural (dynamical) variability and Antarctic sea ice distribution in pre-industrial climate, to estimate the trend due to natural variability. We investigate the relationship between anomalous Antarctic ozone years and the subsequent changes in Antarctic sea ice distribution in a multidecadal control simulation using the AO-UMUKCA model. The model has a horizontal resolution of 3.75 X 2.5 degrees in longitude and latitude; and 60 hybrid height levels in the vertical, from the surface up to a height of 84 km. The ocean component is the NEMO ocean model on the ORCA2 tripolar grid, and the sea ice model is CICE. We evaluate the model's performance in terms of sea ice distribution, and we calculate sea ice extent trends for composites of anomalously low versus anomalously high SH polar ozone column. We apply EOF analysis to the seasonal anomalies of sea ice concentration, MSLP, and Z 500, and identify the leading climate modes controlling the variability of Antarctic sea ice in each case, and study their relationship with SH polar ozone column.

Interannual variability of primary production and air-sea CO2 flux in the Atlantic and Indian sectors of the Southern Ocean.

NASA Astrophysics Data System (ADS)

Dufour, Carolina; Merlivat, Liliane; Le Sommer, Julien; Boutin, Jacqueline; Antoine, David

2013-04-01

As one of the major oceanic sinks of anthropogenic CO2, the Southern Ocean plays a critical role in the climate system. However, due to the scarcity of observations, little is known about physical and biological processes that control air-sea CO2 fluxes and how these processes might respond to climate change. It is well established that primary production is one of the major drivers of air-sea CO2 fluxes, consuming surface Dissolved Inorganic Carbon (DIC) during Summer. Southern Ocean primary production is though constrained by several limiting factors such as iron and light availability, which are both sensitive to mixed layer depth. Mixed layer depth is known to be affected by current changes in wind stress or freshwater fluxes over the Southern Ocean. But we still don't know how primary production may respond to anomalous mixed layer depth neither how physical processes may balance this response to set the seasonal cycle of air-sea CO2 fluxes. In this study, we investigate the impact of anomalous mixed layer depth on surface DIC in the Atlantic and Indian sectors of the Subantarctic zone of the Southern Ocean (60W-60E, 38S-55S) with a combination of in situ data, satellite data and model experiment. We use both a regional eddy permitting ocean biogeochemical model simulation based on NEMO-PISCES and data-based reconstruction of biogeochemical fields based on CARIOCA buoys and SeaWiFS data. A decomposition of the physical and biological processes driving the seasonal variability of surface DIC is performed with both the model data and observations. A good agreement is found between the model and the data for the amplitude of biological and air-sea flux contributions. The model data are further used to investigate the impact of winter and summer anomalies in mixed layer depth on surface DIC over the period 1990-2004. The relative changes of each physical and biological process contribution are quantified and discussed.

Performance and quality assessment of the recent updated CMEMS global ocean monitoring and forecasting real-time system

NASA Astrophysics Data System (ADS)

Le Galloudec, Olivier; Lellouche, Jean-Michel; Greiner, Eric; Garric, Gilles; Régnier, Charly; Drévillon, Marie; Drillet, Yann

2017-04-01

Since May 2015, Mercator Ocean opened the Copernicus Marine Environment and Monitoring Service (CMEMS) and is in charge of the global eddy resolving ocean analyses and forecast. In this context, Mercator Ocean currently delivers in real-time daily services (weekly analyses and daily forecast) with a global 1/12° high resolution system. The model component is the NEMO platform driven at the surface by the IFS ECMWF atmospheric analyses and forecasts. Observations are assimilated by means of a reduced-order Kalman filter with a 3D multivariate modal decomposition of the forecast error. It includes an adaptive-error estimate and a localization algorithm. Along track altimeter data, satellite Sea Surface Temperature and in situ temperature and salinity vertical profiles are jointly assimilated to estimate the initial conditions for numerical ocean forecasting. A 3D-Var scheme provides a correction for the slowly-evolving large-scale biases in temperature and salinity. R&D activities have been conducted at Mercator Ocean these last years to improve the real-time 1/12° global system for recent updated CMEMS version in 2016. The ocean/sea-ice model and the assimilation scheme benefited of the following improvements: large-scale and objective correction of atmospheric quantities with satellite data, new Mean Dynamic Topography taking into account the last version of GOCE geoid, new adaptive tuning of some observational errors, new Quality Control on the assimilated temperature and salinity vertical profiles based on dynamic height criteria, assimilation of satellite sea-ice concentration, new freshwater runoff from ice sheets melting, … This presentation will show the impact of some updates separately, with a particular focus on adaptive tuning experiments of satellite Sea Level Anomaly (SLA) and Sea Surface Temperature (SST) observations errors. For the SLA, the a priori prescribed observation error is globally greatly reduced. The median value of the error changed from 5cm to 2.5cm in a few assimilation cycles. For the SST, we chose to maintain the median value of the error to 0.4°C. The spatial distribution of the SST error follows the model physics and atmospheric variability. Either for SLA or SST, we improve the performances of the system using this adaptive tuning. The overall behavior of the system integrating all updates reporting on the products quality improvements will be also discussed, highlighting the level of performance and the reliability of the new system.

Spatial variability of the Black Sea surface temperature from high resolution modeling and satellite measurements

NASA Astrophysics Data System (ADS)

Mizyuk, Artem; Senderov, Maxim; Korotaev, Gennady

2016-04-01

Large number of numerical ocean models were implemented for the Black Sea basin during last two decades. They reproduce rather similar structure of synoptical variability of the circulation. Since 00-s numerical studies of the mesoscale structure are carried out using high performance computing (HPC). With the growing capacity of computing resources it is now possible to reconstruct the Black Sea currents with spatial resolution of several hundreds meters. However, how realistic these results can be? In the proposed study an attempt is made to understand which spatial scales are reproduced by ocean model in the Black Sea. Simulations are made using parallel version of NEMO (Nucleus for European Modelling of the Ocean). A two regional configurations with spatial resolutions 5 km and 2.5 km are described. Comparison of the SST from simulations with two spatial resolutions shows rather qualitative difference of the spatial structures. Results of high resolution simulation are compared also with satellite observations and observation-based products from Copernicus using spatial correlation and spectral analysis. Spatial scales of correlations functions for simulated and observed SST are rather close and differs much from satellite SST reanalysis. Evolution of spectral density for modelled SST and reanalysis showed agreed time periods of small scales intensification. Using of the spectral analysis for satellite measurements is complicated due to gaps. The research leading to this results has received funding from Russian Science Foundation (project № 15-17-20020)

Model study of the ship emissions impact on the air quality in the Adriatic/Ionian area

NASA Astrophysics Data System (ADS)

Karagiannidis, Athanasios; Poupkou, Anastasia; Liora, Natalia; Dimopoulos, Spiros; Giannaros, Christos; Melas, Dimitrios; Argiriou, Athanassios

2015-04-01

The increase of the ship traffic for touristic and commercial purposes is one of the EU Blue Growth targets. The Adriatic/Ionian is one of the sea-basin strategic areas for this target. The purpose of the study is the examination of the impact of the ship emissions on the gaseous and particulate pollutants concentrations in the Adriatic/Ionian area for which the current scientific knowledge is limited. The impact is simulated over a domain covering the Central and Eastern Mediterranean in 10 km resolution during a summer period (July) and a winter period (January) of the year 2012. The modeling system used consists of the photochemical model CAMx off line coupled with the meteorological model WRF. The zero-out modeling method is implemented involving CAMx simulations performed while including and omitting the ship emission data. The simulations are based on the European scale anthropogenic emission inventory of The Netherlands Organisation (TNO) for the reference year 2009. Natural emissions (NMVOCs from the vegetation, sea salt, wind-blown dust), estimated with the use of the Natural Emission MOdel (NEMO) developed by the Aristotle University of Thessaloniki, are accounted for in the photochemical model runs. The spatial distribution of the resulting differences in the gaseous and particulate pollutant concentration fields for both emission scenarios are presented and discussed, providing an estimation of the contribution of ship emissions on the determination of the air quality in the Adriatic/Ionian countries

Hit identification of IKKβ natural product inhibitor.

PubMed

Leung, Chung-Hang; Chan, Daniel Shiu-Hin; Li, Ying-Wei; Fong, Wang-Fun; Ma, Dik-Lung

2013-01-07

The nuclear factor-κB (NF-κB) proteins are a small group of heterodimeric transcription factors that play an important role in regulating the inflammatory, immune, and apoptotic responses. NF-κB activity is suppressed by association with the inhibitor IκB. Aberrant NF-κB signaling activity has been associated with the development of cancer, chronic inflammatory diseases and auto-immune diseases. The IKK protein complex is comprised of IKKα, IKKβ and NEMO subunits, with IKKβ thought to play the dominant role in modulating NF-κB activity. Therefore, the discovery of new IKKβ inhibitors may offer new therapeutic options for the treatment of cancer and inflammatory diseases. A structure-based molecular docking approach has been employed to discover novel IKKβ inhibitors from a natural product library of over 90,000 compounds. Preliminary screening of the 12 highest-scoring compounds using a luciferase reporter assay identified 4 promising candidates for further biological study. Among these, the benzoic acid derivative (1) showed the most promising activity at inhibiting IKKβ phosphorylation and TNF-α-induced NF-κB signaling in vitro. In this study, we have successfully identified a benzoic acid derivative (1) as a novel IKKβ inhibitor via high-throughput molecular docking. Compound 1 was able to inhibit IKKβ phosphorylation activity in vitro, and block IκBα protein degradation and subsequent NF-κB activation in human cells. Further in silico optimization of the compound is currently being conducted in order to generate more potent analogues for biological tests.

LUBAC Formation Is Impaired in the Livers of Mice with MCD-Dependent Nonalcoholic Steatohepatitis.

PubMed

Matsunaga, Yasuka; Nakatsu, Yusuke; Fukushima, Toshiaki; Okubo, Hirofumi; Iwashita, Misaki; Sakoda, Hideyuki; Fujishiro, Midori; Yamamotoya, Takeshi; Kushiyama, Akifumi; Takahashi, Shin-Ichiro; Tsuchiya, Yoshihiro; Kamata, Hideaki; Tokunaga, Fuminori; Iwai, Kazuhiro; Asano, Tomoichiro

2015-01-01

Nonalcoholic steatohepatitis (NASH) is a disorder characterized by hepatic lipid accumulation followed by the inflammation-induced death of hepatocytes and fibrosis. In this process, oxidative stress contributes to the induction of several inflammatory cytokines including TNF-α andIL-1β in macrophages, while, in hepatocytes, NF-κB reportedly induces the expressions of cell survival genes for protection from apoptosis. Recently, it was reported that the new ubiquitin ligase complex termed linear ubiquitin chain assembly complex (LUBAC), composed of SHARPIN (SHANK-associated RH domain-interacting protein), HOIL-1L (longer isoform of heme-oxidized iron-regulatory protein 2 ubiquitin ligase-1), and HOIP (HOIL-1L interacting protein), forms linear ubiquitin on NF-κB essential modulator (NEMO) and thereby induces NF-κB pathway activation. In this study, we demonstrated the formation of LUBAC to be impaired in the livers of NASH rodent models produced by methionine and choline deficient (MCD) diet feeding, first by either gel filtration or Blue Native-PAGE, with subsequent confirmation by western blotting. The reduction of LUBAC is likely to be attributable to markedly reduced expression of SHARPIN, one of its components. Thus, impaired LUBAC formation, which would result in insufficient NF-κB activation, may be one of the molecular mechanisms underlying the enhanced apoptotic response of hepatocytes in MCD diet-induced NASH livers.

c-Kit modifies the inflammatory status of smooth muscle cells

PubMed Central

Song, Lei; Martinez, Laisel; Zigmond, Zachary M.; Hernandez, Diana R.; Lassance-Soares, Roberta M.; Selman, Guillermo

2017-01-01

Background c-Kit is a receptor tyrosine kinase present in multiple cell types, including vascular smooth muscle cells (SMC). However, little is known about how c-Kit influences SMC biology and vascular pathogenesis. Methods High-throughput microarray assays and in silico pathway analysis were used to identify differentially expressed genes between primary c-Kit deficient (KitW/W–v) and control (Kit+/+) SMC. Quantitative real-time RT-PCR and functional assays further confirmed the differences in gene expression and pro-inflammatory pathway regulation between both SMC populations. Results The microarray analysis revealed elevated NF-κB gene expression secondary to the loss of c-Kit that affects both the canonical and alternative NF-κB pathways. Upon stimulation with an oxidized phospholipid as pro-inflammatory agent, c-Kit deficient SMC displayed enhanced NF-κB transcriptional activity, higher phosphorylated/total p65 ratio, and increased protein expression of NF-κB regulated pro-inflammatory mediators with respect to cells from control mice. The pro-inflammatory phenotype of mutant cells was ameliorated after restoring c-Kit activity using lentiviral transduction. Functional assays further demonstrated that c-Kit suppresses NF-κB activity in SMC in a TGFβ-activated kinase 1 (TAK1) and Nemo-like kinase (NLK) dependent manner. Discussion Our study suggests a novel mechanism by which c-Kit suppresses NF-κB regulated pathways in SMC to prevent their pro-inflammatory transformation. PMID:28626608

c-Kit modifies the inflammatory status of smooth muscle cells.

PubMed

Song, Lei; Martinez, Laisel; Zigmond, Zachary M; Hernandez, Diana R; Lassance-Soares, Roberta M; Selman, Guillermo; Vazquez-Padron, Roberto I

2017-01-01

c-Kit is a receptor tyrosine kinase present in multiple cell types, including vascular smooth muscle cells (SMC). However, little is known about how c-Kit influences SMC biology and vascular pathogenesis. High-throughput microarray assays and in silico pathway analysis were used to identify differentially expressed genes between primary c-Kit deficient (Kit W/W-v ) and control (Kit +/+ ) SMC. Quantitative real-time RT-PCR and functional assays further confirmed the differences in gene expression and pro-inflammatory pathway regulation between both SMC populations. The microarray analysis revealed elevated NF-κB gene expression secondary to the loss of c-Kit that affects both the canonical and alternative NF-κB pathways. Upon stimulation with an oxidized phospholipid as pro-inflammatory agent, c-Kit deficient SMC displayed enhanced NF-κB transcriptional activity, higher phosphorylated/total p65 ratio, and increased protein expression of NF-κB regulated pro-inflammatory mediators with respect to cells from control mice. The pro-inflammatory phenotype of mutant cells was ameliorated after restoring c-Kit activity using lentiviral transduction. Functional assays further demonstrated that c-Kit suppresses NF-κB activity in SMC in a TGFβ-activated kinase 1 (TAK1) and Nemo-like kinase (NLK) dependent manner. Our study suggests a novel mechanism by which c-Kit suppresses NF-κB regulated pathways in SMC to prevent their pro-inflammatory transformation.

Isolating Tracers of Phytoplankton with Allometric Zooplankton (TOPAZ) from Modular Ocean Model (MOM5) to Couple it with a Global Ocean Model

NASA Astrophysics Data System (ADS)

Jung, H. C.; Moon, B. K.; Wie, J.; Park, H. S.; Kim, K. Y.; Lee, J.; Byun, Y. H.

2017-12-01

This research is motivated by a need to develop a new coupled ocean-biogeochemistry model, a key tool for climate projections. The Modular Ocean Model (MOM5) is a global ocean/ice model developed by the Geophysical Fluid Dynamics Laboratory (GFDL) in the US, and it incorporates Tracers of Phytoplankton with Allometric Zooplankton (TOPAZ), which simulates the marine biota associated with carbon cycles. We isolated TOPAZ from MOM5 into a stand-alone version (TOPAZ-SA), and had it receive initial data and ocean physical fields required. Then, its reliability was verified by comparing the simulation results from the TOPAZ-SA with the MOM5/TOPAZ. This stand-alone version of TOPAZ is to be coupled to the Nucleus for European Modelling of the Ocean (NEMO). Here we present the preliminary results. Acknowledgements This research was supported by the project "Research and Development for KMA Weather, Climate, and Earth system Services" (NIMS-2016-3100) of the National Institute of Meteorological Sciences/Korea Meteorological Administration.

TAB2 Is Essential for Prevention of Apoptosis in Fetal Liver but Not for Interleukin-1 Signaling

PubMed Central

Sanjo, Hideki; Takeda, Kiyoshi; Tsujimura, Tohru; Ninomiya-Tsuji, Jun; Matsumoto, Kunihiro; Akira, Shizuo

2003-01-01

The proinflammatory cytokine interleukin-1 (IL-1) transmits a signal via several critical cytoplasmic proteins such as MyD88, IRAKs and TRAF6. Recently, serine/threonine kinase TAK1 and TAK1 binding protein 1 and 2 (TAB1/2) have been identified as molecules involved in IL-1-induced TRAF6-mediated activation of AP-1 and NF-κB via mitogen-activated protein (MAP) kinases and IκB kinases, respectively. However, their physiological functions remain to be clarified. To elucidate their roles in vivo, we generated TAB2-deficient mice. The TAB2 deficiency was embryonic lethal due to liver degeneration and apoptosis. This phenotype was similar to that of NF-κB p65-, IKKβ-, and NEMO/IKKγ-deficient mice. However, the IL-1-induced activation of NF-κB and MAP kinases was not impaired in TAB2-deficient embryonic fibroblasts. These findings demonstrate that TAB2 is essential for embryonic development through prevention of liver apoptosis but not for the IL-1 receptor-mediated signaling pathway. PMID:12556483

Nuclear lamina defects cause ATM-dependent NF-κB activation and link accelerated aging to a systemic inflammatory response

PubMed Central

Osorio, Fernando G.; Bárcena, Clea; Soria-Valles, Clara; Ramsay, Andrew J.; de Carlos, Félix; Cobo, Juan; Fueyo, Antonio; Freije, José M.P.; López-Otín, Carlos

2012-01-01

Alterations in the architecture and dynamics of the nuclear lamina have a causal role in normal and accelerated aging through both cell-autonomous and systemic mechanisms. However, the precise nature of the molecular cues involved in this process remains incompletely defined. Here we report that the accumulation of prelamin A isoforms at the nuclear lamina triggers an ATM- and NEMO-dependent signaling pathway that leads to NF-κB activation and secretion of high levels of proinflammatory cytokines in two different mouse models of accelerated aging (Zmpste24−/− and LmnaG609G/G609G mice). Causal involvement of NF-κB in accelerated aging was demonstrated by the fact that both genetic and pharmacological inhibition of NF-κB signaling prevents age-associated features in these animal models, significantly extending their longevity. Our findings provide in vivo proof of principle for the feasibility of pharmacological modulation of the NF-κB pathway to slow down the progression of physiological and pathological aging. PMID:23019125

Phytotoxicity testing of diesel-contaminated water using Petunia grandiflora Juss. Mix F1 and Marigold-Nemo Mix (Tagetes patula L.).

PubMed

Wante, Solomon Peter; Leung, David W M

2018-06-17

Tagetes patula (marigold) and Petunia grandiflora (petunia) have been shown to exhibit potential in phytoremediation of environmental pollutants including heavy metals and textile dyes. To investigate their phytoremediation potential of diesel, it was necessary to evaluate diesel phytotoxicity of these two ornamental plants. Marigold and petunia seeds were incubated, for 10 and 15 days, respectively, in deionised water contaminated with 0 to 4%, v/v, diesel in Petri dishes in a growth room with continuous lighting at 25 °C. It was found that as far as seed germination was concerned, petunia was less sensitive than marigold to 4% diesel in water. In contrast, petunia exhibited poorer seedling root growth than marigold in the presence of diesel contamination. This finding of differential sensitivity of these two ornamental plants to diesel-contaminated water during germination and seedling growth has not been reported before. Therefore, the implications of phytotoxicity evaluation and comparison between different species or genotypes of plants at both seed germination and postgermination seedling growth should both be taken into consideration in screening tolerant plants for phytoremediation.

Long-term measurements of acoustic background noise in very deep sea

NASA Astrophysics Data System (ADS)

Riccobene, G.; NEMO Collaboration

2009-06-01

The NEMO (NEutrino Mediterranean Observatory) Collaboration installed, 25 km E offshore the port of Catania (Sicily) at 2000 m depth, an underwater laboratory to perform long-term tests of prototypes and new technologies for an underwater high energy neutrino km-scale detector in the Mediterranean Sea. In this framework the Collaboration deployed and successfully operated for about two years, starting from January 2005, an experimental apparatus for on-line monitoring of deep-sea noise. The station was equipped with four hydrophones and it is operational in the range 30 Hz-43 kHz. This interval of frequencies matches the range suitable for the proposed acoustic detection technique of high energy neutrinos. Hydrophone signals were digitized underwater at 96 kHz sampling frequency and 24 bits resolution. The stored data library, consisting of more than 2000 h of recordings, is a unique tool to model underwater acoustic noise at large depth, to characterize its variations as a function of environmental parameters, biological sources and human activities (ship traffic, etc.), and to determine the presence of cetaceans in the area.

The Ups and Downs of Measuring Sea Surface Salinity from Space

NASA Astrophysics Data System (ADS)

Banks, C. J.; Gommenginger, C. P.; Srokosz, M. A.; Snaith, H. M.

2012-12-01

In November 2009, the European Space Agency (ESA) launched the Soil Moisture and Ocean Salinity (SMOS) satellite and a new era of satellite oceanography began vastly improving our ability to synoptically measure sea surface salinity (SSS). SMOS was joined in June 2011 by the NASA/Argentine Aquarius/SAC-D mission designed specifically to measure SSS. Although there are significant differences in how both satellites retrieve SSS, both utilise passive systems to measure the response of the brightness temperature (Tb) at L-band (1.4 GHz). We report on-going investigations into the validation of SMOS and Aquarius 'Level 3' measurements of SSS using monthly data on a 1° by 1° global grid between 60°S and 60°N. Previous studies have indicated significant temporally varying differences between SSS from SMOS ascending passes and from SMOS descending passes: therefore, for both SMOS and Aquarius, data from ascending and descending passes will be studied separately. Both satellites have sun-synchronous orbits but the direction of travel for the two satellites are twelve hours out of phase (i.e. at approximately 6 a.m. local time SMOS is travelling south-to-north (ascending) and Aquarius is travelling north-to-south (descending) whereas at 6 p.m. the directions of travel are switched). For validation purposes two separate monthly, 1° by 1° datasets are used over the same locations as the satellite data. The first is based on averaged near-surface salinity (depth less than 10 m) as derived from the drifting Argo float programme. The second validation data source is output from the UK Met Office Forecasting Ocean Assimilation Model (FOAM) based on NEMO (Nucleus for European Modelling of the Ocean). The SMOS Level 3 products are developed from ESA Level 2 products after quality control (QC) based on flags and SSS error provided in the ESA Level 2 products. Aquarius data (QC) is based only on data flags and a simple selection of in-range SSS values ([30, 40]). The study is based on monthly products over the period from September 2011 to May 2012. We calculate maps of the difference between each possible pair of SSS datasets for each month, and consider their relationships using regression on the 1° values. The analysis is carried out for the global ocean, as well as for smaller, more homogeneous, study regions (e.g. SPURS). In addition, a study is made of the differences and similarities, at Level 2, between the two satellites and the direction of travel.

Effects of cytokine-suppressive anti-inflammatory drugs on inflammatory activation in ex vivo human and ovine fetal membranes.

PubMed

Stinson, Lisa F; Ireland, Demelza J; Kemp, Matthew W; Payne, Matthew S; Stock, Sarah J; Newnham, John P; Keelan, Jeffrey A

2014-03-01

Intrauterine infection and inflammation are responsible for the majority of early (<32 weeks) spontaneous preterm births (PTBs). Anti-inflammatory agents, delivered intra-amniotically together with antibiotics, may be an effective strategy for preventing PTB. In this study, the effects of four cytokine-suppressive anti-inflammatory drugs (CSAIDs: N-acetyl cysteine (NAC), SB239063, TPCA-1 and NEMO binding domain inhibitor (NBDI)) were assessed on human and ovine gestational membrane inflammation. Full-thickness membranes were collected from healthy, term, human placentas delivered by Caesarean section (n=5). Using a Transwell model, they were stimulated ex vivo with γ-irradiation-killed Escherichia coli applied to the amniotic face. Membranes from near-term, ovine placentas were stimulated in utero with lipopolysaccharide, Ureaplasma parvum or saline control and subjected to explant culture. The effects of treatment with CSAIDs or vehicle (1% DMSO) on accumulation of PGE2 and cytokines (human interleukin 6 (IL6), IL10 and TNFα; ovine IL8 (oIL8)) were assessed in conditioned media at various time points (3-20  h). In human membranes, the IKKβ inhibitor TPCA-1 (7  μM) and p38 MAPK inhibitor SB239063 (20  μM) administered to the amniotic compartment were the most effective in inhibiting accumulation of cytokines and PGE2 in the fetal compartment. NAC (10  mM) inhibited accumulation of PGE2 and IL10 only; NBDI (10  μM) had no significant effect. In addition to the fetal compartment, SB239063 also exerted consistent and significant inhibitory effects in the maternal compartment. TPCA-1 and SB239063 suppressed oIL8 production, while all CSAIDs tested suppressed ovine PGE2 production. These results support the further investigation of intra-amniotically delivered CSAIDs for the prevention of inflammation-mediated PTB.

Modeling Extra-Long Tsunami Propagation: Assessing Data, Model Accuracy and Forecast Implications

NASA Astrophysics Data System (ADS)

Titov, V. V.; Moore, C. W.; Rabinovich, A.

2017-12-01

Detecting and modeling tsunamis propagating tens of thousands of kilometers from the source is a formidable scientific challenge and seemingly satisfies only scientific curiosity. However, results of such analyses produce a valuable insight into the tsunami propagation dynamics, model accuracy and would provide important implications for tsunami forecast. The Mw = 9.3 megathrust earthquake of December 26, 2004 off the coast of Sumatra generated a tsunami that devastated Indian Ocean coastlines and spread into the Pacific and Atlantic oceans. The tsunami was recorded by a great number of coastal tide gauges, including those located in 15-25 thousand kilometers from the source area. To date, it is still the farthest instrumentally detected tsunami. The data from these instruments throughout the world oceans enabled to estimate various statistical parameters and energy decay of this event. High-resolution records of this tsunami from DARTs 32401 (offshore of northern Chile), 46405 and NeMO (both offshore of the US West Coast), combined with the mainland tide gauge measurements enabled us to examine far-field characteristics of the 2004 in the Pacific Ocean and to compare the results of global numerical simulations with the observations. Despite their small heights (less than 2 cm at deep-ocean locations), the records demonstrated consistent spatial and temporal structure. The numerical model described well the frequency content, amplitudes and general structure of the observed waves at deep-ocean and coastal gages. We present analysis of the measurements and comparison with model data to discuss implication for tsunami forecast accuracy. Model study for such extreme distances from the tsunami source and at extra-long times after the event is an attempt to find accuracy bounds for tsunami models and accuracy limitations of model use for forecast. We discuss results in application to tsunami model forecast and tsunami modeling in general.

Evaluation of an operational ocean model configuration at 1/12° spatial resolution for the Indonesian seas - Part 1: Ocean physics

NASA Astrophysics Data System (ADS)

Tranchant, B.; Reffray, G.; Greiner, E.; Nugroho, D.; Koch-Larrouy, A.; Gaspar, P.

2015-08-01

INDO12, a 1/12° regional version of the NEMO physical ocean model covering the whole Indonesian EEZ has been developed and is now running every week in the framework of the INDESO project (Infrastructure Development of Space Oceanography) implemented by the Indonesian Ministry of Marine Affairs and Fisheries. The initial hydrographic conditions as well as open boundary conditions are derived from the operational global ocean forecasting system at 1/4° operated by Mercator Ocean. Atmospheric forcing fields (3 hourly ECMWF analyses) are used to force the regional model. INDO12 is also forced by tidal currents and elevations, and by the inverse barometer effect. The turbulent mixing induced by internal tides is taken into account through a specific parameterization. In this study we evaluate the model skill through comparisons with various datasets including outputs of the parent model, climatologies, in situ temperature and salinity measurements, and satellite data. The simulated and altimeter-derived Eddy Kinetic Energy fields display similar patterns and confirm that tides are a dominant forcing in the area. The volume transport of the Indonesian ThroughFlow is in good agreement with the INSTANT current meter estimates while the transport through Luzon Strait is, on average, westward but probably too weak. Significant water mass transformation occurs along the main routes of the Indonesian Throughflow (ITF) and compares well with observations. Vertical mixing is able to erode the South and North Pacific subtropical waters salinity maximum as seen in TS diagrams. Compared to satellite data, surface salinity and temperature fields display marked biases in the South China Sea. Altogether, INDO12 proves to be able to provide a very realistic simulation of the ocean circulation and water mass transformation through the Indonesian Archipelago. A few weaknesses are also detected. Work is on-going to reduce or eliminate these problems in the second INDO12 version.

Finding Nemo: hybrid assembly with Oxford Nanopore and Illumina reads greatly improves the clownfish (Amphiprion ocellaris) genome assembly

PubMed Central

Austin, Christopher M; Hammer, Michael P; Lee, Yin Peng; Gan, Han Ming

2018-01-01

Abstract Background Some of the most widely recognized coral reef fishes are clownfish or anemonefish, members of the family Pomacentridae (subfamily: Amphiprioninae). They are popular aquarium species due to their bright colours, adaptability to captivity, and fascinating behavior. Their breeding biology (sequential hermaphrodites) and symbiotic mutualism with sea anemones have attracted much scientific interest. Moreover, there are some curious geographic-based phenotypes that warrant investigation. Leveraging on the advancement in Nanopore long read technology, we report the first hybrid assembly of the clown anemonefish (Amphiprion ocellaris) genome utilizing Illumina and Nanopore reads, further demonstrating the substantial impact of modest long read sequencing data sets on improving genome assembly statistics. Results We generated 43 Gb of short Illumina reads and 9 Gb of long Nanopore reads, representing approximate genome coverage of 54× and 11×, respectively, based on the range of estimated k-mer-predicted genome sizes of between 791 and 967 Mbp. The final assembled genome is contained in 6404 scaffolds with an accumulated length of 880 Mb (96.3% BUSCO-calculated genome completeness). Compared with the Illumina-only assembly, the hybrid approach generated 94% fewer scaffolds with an 18-fold increase in N50 length (401 kb) and increased the genome completeness by an additional 16%. A total of 27 240 high-quality protein-coding genes were predicted from the clown anemonefish, 26 211 (96%) of which were annotated functionally with information from either sequence homology or protein signature searches. Conclusions We present the first genome of any anemonefish and demonstrate the value of low coverage (∼11×) long Nanopore read sequencing in improving both genome assembly contiguity and completeness. The near-complete assembly of the A. ocellaris genome will be an invaluable molecular resource for supporting a range of genetic, genomic, and phylogenetic studies specifically for clownfish and more generally for other related fish species of the family Pomacentridae. PMID:29342277

Finding Nemo: hybrid assembly with Oxford Nanopore and Illumina reads greatly improves the clownfish (Amphiprion ocellaris) genome assembly.

PubMed

Tan, Mun Hua; Austin, Christopher M; Hammer, Michael P; Lee, Yin Peng; Croft, Laurence J; Gan, Han Ming

2018-03-01

Some of the most widely recognized coral reef fishes are clownfish or anemonefish, members of the family Pomacentridae (subfamily: Amphiprioninae). They are popular aquarium species due to their bright colours, adaptability to captivity, and fascinating behavior. Their breeding biology (sequential hermaphrodites) and symbiotic mutualism with sea anemones have attracted much scientific interest. Moreover, there are some curious geographic-based phenotypes that warrant investigation. Leveraging on the advancement in Nanopore long read technology, we report the first hybrid assembly of the clown anemonefish (Amphiprion ocellaris) genome utilizing Illumina and Nanopore reads, further demonstrating the substantial impact of modest long read sequencing data sets on improving genome assembly statistics. We generated 43 Gb of short Illumina reads and 9 Gb of long Nanopore reads, representing approximate genome coverage of 54× and 11×, respectively, based on the range of estimated k-mer-predicted genome sizes of between 791 and 967 Mbp. The final assembled genome is contained in 6404 scaffolds with an accumulated length of 880 Mb (96.3% BUSCO-calculated genome completeness). Compared with the Illumina-only assembly, the hybrid approach generated 94% fewer scaffolds with an 18-fold increase in N50 length (401 kb) and increased the genome completeness by an additional 16%. A total of 27 240 high-quality protein-coding genes were predicted from the clown anemonefish, 26 211 (96%) of which were annotated functionally with information from either sequence homology or protein signature searches. We present the first genome of any anemonefish and demonstrate the value of low coverage (∼11×) long Nanopore read sequencing in improving both genome assembly contiguity and completeness. The near-complete assembly of the A. ocellaris genome will be an invaluable molecular resource for supporting a range of genetic, genomic, and phylogenetic studies specifically for clownfish and more generally for other related fish species of the family Pomacentridae.

The UKC2 regional coupled environmental prediction system

NASA Astrophysics Data System (ADS)

Lewis, Huw W.; Castillo Sanchez, Juan Manuel; Graham, Jennifer; Saulter, Andrew; Bornemann, Jorge; Arnold, Alex; Fallmann, Joachim; Harris, Chris; Pearson, David; Ramsdale, Steven; Martínez-de la Torre, Alberto; Bricheno, Lucy; Blyth, Eleanor; Bell, Victoria A.; Davies, Helen; Marthews, Toby R.; O'Neill, Clare; Rumbold, Heather; O'Dea, Enda; Brereton, Ashley; Guihou, Karen; Hines, Adrian; Butenschon, Momme; Dadson, Simon J.; Palmer, Tamzin; Holt, Jason; Reynard, Nick; Best, Martin; Edwards, John; Siddorn, John

2018-01-01

It is hypothesized that more accurate prediction and warning of natural hazards, such as of the impacts of severe weather mediated through various components of the environment, require a more integrated Earth System approach to forecasting. This hypothesis can be explored using regional coupled prediction systems, in which the known interactions and feedbacks between different physical and biogeochemical components of the environment across sky, sea and land can be simulated. Such systems are becoming increasingly common research tools. This paper describes the development of the UKC2 regional coupled research system, which has been delivered under the UK Environmental Prediction Prototype project. This provides the first implementation of an atmosphere-land-ocean-wave modelling system focussed on the United Kingdom and surrounding seas at km-scale resolution. The UKC2 coupled system incorporates models of the atmosphere (Met Office Unified Model), land surface with river routing (JULES), shelf-sea ocean (NEMO) and ocean waves (WAVEWATCH III). These components are coupled, via OASIS3-MCT libraries, at unprecedentedly high resolution across the UK within a north-western European regional domain. A research framework has been established to explore the representation of feedback processes in coupled and uncoupled modes, providing a new research tool for UK environmental science. This paper documents the technical design and implementation of UKC2, along with the associated evaluation framework. An analysis of new results comparing the output of the coupled UKC2 system with relevant forced control simulations for six contrasting case studies of 5-day duration is presented. Results demonstrate that performance can be achieved with the UKC2 system that is at least comparable to its component control simulations. For some cases, improvements in air temperature, sea surface temperature, wind speed, significant wave height and mean wave period highlight the potential benefits of coupling between environmental model components. Results also illustrate that the coupling itself is not sufficient to address all known model issues. Priorities for future development of the UK Environmental Prediction framework and component systems are discussed.

Variability in circulating gas emboli after a same scuba diving exposure.

PubMed

Papadopoulou, V; Germonpré, P; Cosgrove, D; Eckersley, R J; Dayton, P A; Obeid, G; Boutros, A; Tang, M-X; Theunissen, S; Balestra, C

2018-06-01

A reduction in ambient pressure or decompression from scuba diving can result in ultrasound-detectable venous gas emboli (VGE). These environmental exposures carry a risk of decompression sickness (DCS) which is mitigated by adherence to decompression schedules; however, bubbles are routinely observed for dives well within these limits and significant inter-personal variability in DCS risk exists. Here, we assess the variability and evolution of VGE for 2 h post-dive using echocardiography, following a standardized pool dive in calm warm conditions. 14 divers performed either one or two (with a 24 h interval) standardized scuba dives to 33 mfw (400 kPa) for 20 min of immersion time at NEMO 33 in Brussels, Belgium. Measurements were performed at 21, 56, 91 and 126 min post-dive: bubbles were counted for all 68 echocardiography recordings and the average over ten consecutive cardiac cycles taken as the bubble score. Significant inter-personal variability was demonstrated despite all divers following the same protocol in controlled pool conditions: in the detection or not of VGE, in the peak VGE score, as well as time to VGE peak. In addition, intra-personal differences in 2/3 of the consecutive day dives were seen (lower VGE counts or faster clearance). Since VGE evolution post-dive varies between people, more work is clearly needed to isolate contributing factors. In this respect, going toward a more continuous evaluation, or developing new means to detect decompression stress markers, may offer the ability to better assess dynamic correlations to other physiological parameters.

A Collaborative Approach to Monitoring Ambient Volcanogenic Pollution at Sulphur Springs, Saint Lucia.

NASA Astrophysics Data System (ADS)

Joseph, E. P.; Beckles, D. M.; Cox, L.; Jackson, V. B.; Alexander, D.

2015-12-01

The role of volcano tourism is recognized as an important contributor to the economy of volcanic islands in the Lesser Antilles. However, if it is to be promoted as a sustainable sector of the tourism industry, visitors, tour operators, and vendors must be made aware of the potential health hazards facing them in volcanic environments. Volcanogenic air pollutants are of primary concern in this setting. In general, no warning signs, guidelines for recreational use, or emissions monitoring currently exists to provide warning to the public to decrease their vulnerability to the potential risks, or to minimize the liability of the agencies managing these areas. Sulphur Springs Park in Saint Lucia is a popular international destination, and concerns about the volcanic emissions and its possible health effect have been raised by visitors, staff, and management of the Park. As part of the responsibility of the UWI, Seismic Research Centre (SRC) to provide volcanic surveillance through its geothermal monitoring programme, a network was established for quantifying the ambient SO2 concentrations at Sulphur Springs in order to assess the potential risk of unsafe exposure. This effort required collaboration with the National Emergency Management Organization (NEMO) of Saint Lucia, as well as the staff and management of the Soufrière Regional Development Foundation (SRDF). Local personnel were trained in the active field sampling and analytical techniques required for the assessment of ambient SO2 concentrations over the monitoring period, thereby contributing to an active community-based effort. This type of approach was also thought to be an effective option for scientists to engage communities as partners in disaster risk reduction. Lessons learnt from this experience are presented for the benefit of other citizen monitoring projects, including its use as a tool for promoting volcanic hazard education, and enhancing communication and understanding between geoscientists and the community they serve.

The use of EuroCordex in marine climate projections

NASA Astrophysics Data System (ADS)

Tinker, Jonathan; Palmer, Matthew; Lowe, Jason; Howard, Tom

2017-04-01

The Northwest European Shelf seas (NWS, including the North Sea, Irish Sea and Celtic Sea) are of economic, environmental and cultural importance to a number of European countries. However, their representation by global climate models (GCMs) is very crude, due to their inability to represent the complex geometry and the absence of tides. Therefore, there is a need to employ dynamical downscaling methods when considering the potential impacts of climate change on the European (and other) shelf seas. Using a shelf seas model to dynamically downscale of the ocean component of the GCM is a well established method. While taking open ocean lateral boundary conditions from the GCM ocean is acceptable, using surface flux forcings from the GCM atmosphere is often problematic. The CORDEX project provides an important dataset of high spatial and temporal resolution atmospheric forcings, derived from 'parent' CMIP5 GCM simulations. We drive the NEMO shelf seas model with data from CMIP5 models and EURO-CORDEX Regional Climate Model (RCM) data to produce a set of NWS climate projections. We require relatively high temporal resolution output, and run-off (for the river forcings), and so are limited to a subset of the available EURO-CORDEX RCMs. From these we select two CMIP5 GCMs with the same RCM with two emissions scenarios to give a minimum estimate of GCM model structural and emission scenario uncertainty. Other experiments allow an initial estimate of the uncertainty associated with the model structure of both the shelf seas and the RCM. Our analysis is focused on the uncertainty associated with the mean change in a number of physical marine impacts and the drivers of coastal variability and change, including sea level and the propagation of open ocean signals onto the shelf. Our work is part of the UK Climate Projections (UKCP18) and will inform the following UK Climate Change Risk Assessments, required as part of the Climate Change Act.

Forcing of global ocean models using an atmospheric boundary layer model: assessing consequences for the simulation of the AMOC

NASA Astrophysics Data System (ADS)

Abel, Rafael; Boening, Claus

2015-04-01

Current practice in the atmospheric forcing of ocean model simulations can lead to unphysical behaviours. The problem lies in the bulk formulation of the turbulent air-sea fluxes in conjunction with a prescribed, and unresponsive, atmospheric state as given, e.g., by reanalysis products. This forcing formulation corresponds to assuming an atmosphere with infinite heat capacity, and effectively damps SST anomalies even on basin scales. It thus curtails an important negative feedback between meridional ocean heat transport and SST in the North Atlantic, rendering simulations of the AMOC in such models excessively sensitive to details in the freshwater fluxes. As a consequence, such simulations are known for spurious drift behaviors which can only partially controlled by introducing some (and sometimes strong) unphysical restoring of sea surface salinity. There have been several suggestions during the last 20 years for at least partially alleviating the problem by including some simplified model of the atmospheric boundary layer (AML) which allows a feedback of SST anomalies on the near-surface air temperature and humidity needed to calculate the surface fluxes. We here present simulations with a simple, only thermally active AML formulation (based on the 'CheapAML' proposed by Deremble et al., 2013) implemented in a global model configuration based on NEMO (ORCA05). In a suite of experiments building on the CORE-bulk forcing methodology, we examine some general features of the AML-solutions (in which only the winds are prescribed) in comparison to solutions with a prescribed atmosperic state. The focus is on the North Atlantic, where we find that the adaptation of the atmospheric temperature the simulated ocean state can lead to strong local modifications in the surface heat fluxes in frontal regions (e.g., the 'Northwest Corner'). We particularly assess the potential of the AML-forcing concept for obtaining AMOC-simulations with reduced spurious drift, without employing the traditional remedy of salinity restoring.

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

Thein, Soe; Pham, Anna; Bayer, K. Ulrich

Highlights: • CYLD is phosphorylated by IKK in isolated PSDs in the absence of Ca{sup 2+}. • CYLD is phosphorylated by IKK at the PSDs of intact neurons in basal conditions. • Phosphorylation of CYLD by IKK increases its deubiquitinase activity. • The process is likely to influence protein trafficking at the PSD in basal conditions. - Abstract: K63-linked polyubiquitination of proteins regulates their trafficking into specific cellular pathways such as endocytosis and autophagy. CYLD, a deubiquitinase specific for K63-linked polyubiquitins, is present in high quantities at the postsynaptic density (PSD). It was previously shown that, under excitatory conditions, CaMKIImore » activates CYLD in a Ca{sup 2+}-dependent manner. The observation that CYLD can also be phosphorylated in the absence of Ca{sup 2+} in isolated PSDs led us to further explore the regulation of CYLD under basal conditions. A possible involvement of the autonomous form of CaMKII and IKK, both kinases known to be localized at the PSD, was examined. A CaMKII inhibitor CN21 had no effect on CYLD phosphorylation in the absence of Ca{sup 2+}, but two different IKK inhibitors, IKK16 and tatNEMO, inhibited its phosphorylation. Immuno-electron microscopy on hippocampal cultures, using an antibody for CYLD phosphorylated at S-418, revealed that the phosphorylated form of CYLD is present at the PSD under basal conditions. Phosphorylation of CYLD under basal conditions was inhibited by IKK16. NMDA treatment further promoted phosphorylation of CYLD at the PSD, but IKK16 failed to block the NMDA-induced effect. In vitro experiments using purified proteins demonstrated direct phosphorylation and activation of CYLD by the beta catalytic subunit of IKK. Activation of IKK in isolated PSDs also promoted phosphorylation of CYLD and an increase in endogenous deubiquitinase activity for K63-linked polyubiquitins. Altogether, the results suggest that in the absence of excitatory conditions, constitutive IKK activity at the PSD regulates CYLD and maintains basal levels of K63-linkage specific deubiquitination at the synapse.« less

Incontinentia pigmenti (IP2): familiar case report with affected men. Literature review.

PubMed

Arenas-Sordo, María de la Luz; Vallejo-Vega, Bárbara; Hernández-Zamora, Edgar; Gálvez-Rosas, Arturo; Montoya-Pérez, Luis Alberto

2005-07-01

Incontinentia pigmenti is a genodermatosis described by Garrod and in 1920 by Bloch, Sulzberger, Siemens y Bardach. It is an ectodermic disorder that affects skin, teeth, eyes and may also have neurological problems. The IP2 name describes the histological characteristics, the incontinence of melanin into the melanocytes cells in the epidermal basal layer and its presence in superficial dermis. IP2 is an x-linked dominant condition but genetic heterogeneity may exist. The patient was 4 yrs 5 months old when she came for the first time. In a physical exploration she presented sparse and thin hair, eyelashes and eyebrows, beaked nose, labial protrusion, the four central teeth have a conic crown and there was also a delayed eruption of other teeth, right eye strabismus, hipoacusia, language defects and a trunk, legs, feet, and face dermatosis characterized by grouped vesicles, hyperkeratotic and warty lesions and brownish-gray lesions in a lineal pattern. The patient s father had hypopigmented lesions in the posterior regions of both legs. The oral clinical and radiographic exams showed diverse anomalies. Both the patient's and the father's chromosomal studies were normal. In the present case we can see that the father has IP2 without supernumeraries X, with the antecedent that his mother had something similar. It is possible that the inheritance was autosomic dominant or it is a different mutation of NEMO (NF-kappa-B essential modulator) gene to a classical one, which was found in some affected men. It is necessary to carry out a molecular study of these patients.

Tax-Independent Constitutive IκB Kinase Activation in Adult T-Cell Leukemia Cells1

PubMed Central

Hironaka, Noriko; Mochida, Kanako; Mori, Naoki; Maeda, Michiyuki; Yamamoto, Naoki; Yamaoka, Shoji

2004-01-01

Abstract Adult T-cell leukemia (ATL) is a fatal T-cell malignancy that arises long after infection with human T-cell leukemia virus type I (HTLV-I). We reported previously that nuclear factor-κB (NF-κB) was constitutively activated in ATL cells, although expression of the viral proteins was barely detectable, including Tax, which was known to persistently activate NF-κB. Here we demonstrate that ATL cells that do not express detectable Tax protein exhibit constitutive IκB kinase (IKK) activity. Transfection studies revealed that a dominant-negative form of IKK1, and not of IKK2 or NF-κB essential modulator (NEMO), suppressed constitutive NFκB activity in ATL cells. This IKK activity was accompanied by elevated expression of p52, suggesting that the recently described noncanonical pathway of NF-κB activation operates in ATL cells. We finally show that specific inhibition of NF-κB by a super-repressor form of IκBα (SR-IκBα) in HTLV-I-infected T cells results in cell death regardless of Tax expression, providing definitive evidence of an essential role for NF-κB in the survival of ATL cells. In conclusion, the IKK complex is constitutively activated in ATL cells through a cellular mechanism distinct from that of Tax-mediated IKK activation. Further elucidation of this cellular mechanism should contribute to establishing a rationale for treatment of ATL. PMID:15153339

Performance and Quality Assessment of the Forthcoming Copernicus Marine Service Global Ocean Monitoring and Forecasting Real-Time System

NASA Astrophysics Data System (ADS)

Lellouche, J. M.; Le Galloudec, O.; Greiner, E.; Garric, G.; Regnier, C.; Drillet, Y.

2016-02-01

Mercator Ocean currently delivers in real-time daily services (weekly analyses and daily forecast) with a global 1/12° high resolution system. The model component is the NEMO platform driven at the surface by the IFS ECMWF atmospheric analyses and forecasts. Observations are assimilated by means of a reduced-order Kalman filter with a 3D multivariate modal decomposition of the forecast error. It includes an adaptive-error estimate and a localization algorithm. Along track altimeter data, satellite Sea Surface Temperature and in situ temperature and salinity vertical profiles are jointly assimilated to estimate the initial conditions for numerical ocean forecasting. A 3D-Var scheme provides a correction for the slowly-evolving large-scale biases in temperature and salinity.Since May 2015, Mercator Ocean opened the Copernicus Marine Service (CMS) and is in charge of the global ocean analyses and forecast, at eddy resolving resolution. In this context, R&D activities have been conducted at Mercator Ocean these last years in order to improve the real-time 1/12° global system for the next CMS version in 2016. The ocean/sea-ice model and the assimilation scheme benefit among others from the following improvements: large-scale and objective correction of atmospheric quantities with satellite data, new Mean Dynamic Topography taking into account the last version of GOCE geoid, new adaptive tuning of some observational errors, new Quality Control on the assimilated temperature and salinity vertical profiles based on dynamic height criteria, assimilation of satellite sea-ice concentration, new freshwater runoff from ice sheets melting …This presentation doesn't focus on the impact of each update, but rather on the overall behavior of the system integrating all updates. This assessment reports on the products quality improvements, highlighting the level of performance and the reliability of the new system.

Design and validation of MEDRYS, a Mediterranean Sea reanalysis over the period 1992-2013

NASA Astrophysics Data System (ADS)

Hamon, Mathieu; Beuvier, Jonathan; Somot, Samuel; Lellouche, Jean-Michel; Greiner, Eric; Jordà, Gabriel; Bouin, Marie-Noëlle; Arsouze, Thomas; Béranger, Karine; Sevault, Florence; Dubois, Clotilde; Drevillon, Marie; Drillet, Yann

2016-04-01

The French research community in the Mediterranean Sea modeling and the French operational ocean forecasting center Mercator Océan have gathered their skill and expertise in physical oceanography, ocean modeling, atmospheric forcings and data assimilation to carry out a MEDiterranean sea ReanalYsiS (MEDRYS) at high resolution for the period 1992-2013. The ocean model used is NEMOMED12, a Mediterranean configuration of NEMO with a 1/12° ( ˜ 7 km) horizontal resolution and 75 vertical z levels with partial steps. At the surface, it is forced by a new atmospheric-forcing data set (ALDERA), coming from a dynamical downscaling of the ERA-Interim atmospheric reanalysis by the regional climate model ALADIN-Climate with a 12 km horizontal and 3 h temporal resolutions. This configuration is used to carry a 34-year hindcast simulation over the period 1979-2013 (NM12-FREE), which is the initial state of the reanalysis in October 1992. MEDRYS uses the existing Mercator Océan data assimilation system SAM2 that is based on a reduced-order Kalman filter with a three-dimensional (3-D) multivariate modal decomposition of the forecast error. Altimeter data, satellite sea surface temperature (SST) and temperature and salinity vertical profiles are jointly assimilated. This paper describes the configuration we used to perform MEDRYS. We then validate the skills of the data assimilation system. It is shown that the data assimilation restores a good average temperature and salinity at intermediate layers compared to the hindcast. No particular biases are identified in the bottom layers. However, the reanalysis shows slight positive biases of 0.02 psu and 0.15 °C above 150 m depth. In the validation stage, it is also shown that the assimilation allows one to better reproduce water, heat and salt transports through the Strait of Gibraltar. Finally, the ability of the reanalysis to represent the sea surface high-frequency variability is shown.

The Leading Edge of the Galapagos Hotspot: Geochemistry and Geochronology of Submarine Glasses Coupled to New Sidescan Sonar Imagery

NASA Astrophysics Data System (ADS)

Kurz, M. D.; Fornari, D. J.; Geist, D. J.; Johnson, P. D.; Curtice, J. M.; Lott, D. E.; Harpp, K.; Saal, A. E.; Peckman, U. G.

2001-12-01

Fernandina, the western-most volcano in the Galapagos archipelago, is at the leading edge of the hotspot with respect to plate motion. Recent mapping of the ocean floor west of Fernandina (on R/V Revelle, using the HMRG towed sidescan sonar MR1, and Simrad EM120 multibeam) provides a dramatic new view of the volcanic constructional processes that have created the islands. The western flank of the volcano is characterized by the prominent Northwest, West, and Southwest rift zones, which are constructed of hummocky pillow lavas. Older lava flow terrain is distinguished by weaker acoustic return, whereas extensive younger flows are characterized by strong backscatter patterns with distinctive flow-like margins. MR1 sidescan sonar mapping provides an important new geologic and stratigraphic context for understanding the submarine Galapagos platform, particularly from a geochemical perspective. Fernandina lavas have high 3He/4He ratios, up to 29 times atmospheric, and solar-like neon isotopic compositions, characteristics which suggest they are derived from the deep mantle. The high 3He/4He ratios, and rapid eruption rates at Fernandina also indicate that it lies directly above the center of the Galapagos hotspot. In order to place these geochemical data into a chronological framework, we have determined ages for Fernandina submarine glasses using the Th-U-He crushing/melting disequilibrium method. Preliminary Th-U-He ages (from the 2000 R/V Melville AHA-Nemo expedition), combined with the new MR1 sonar mapping, shows that the rift zones are characterized by extremely young ages (0 to 30 Ka) while older submarine lava flows with lower acoustic backscatter have significantly older ages ( ~ 100 Ka). The geochronological data, and the geological context from the side-scan sonar, provide new evidence for volcano growth rates in oceanic hotspot provinces, and will be used to determine the growth rate of the Galapagos platform.

The paracaspase MALT1 cleaves HOIL1 reducing linear ubiquitination by LUBAC to dampen lymphocyte NF-κB signalling

PubMed Central

Klein, Theo; Fung, Shan-Yu; Renner, Florian; Blank, Michael A.; Dufour, Antoine; Kang, Sohyeong; Bolger-Munro, Madison; Scurll, Joshua M.; Priatel, John J.; Schweigler, Patrick; Melkko, Samu; Gold, Michael R.; Viner, Rosa I.; Régnier, Catherine H.; Turvey, Stuart E.; Overall, Christopher M.

2015-01-01

Antigen receptor signalling activates the canonical NF-κB pathway via the CARD11/BCL10/MALT1 (CBM) signalosome involving key, yet ill-defined roles for linear ubiquitination. The paracaspase MALT1 cleaves and removes negative checkpoint proteins, amplifying lymphocyte responses in NF-κB activation and in B-cell lymphoma subtypes. To identify new human MALT1 substrates, we compare B cells from the only known living MALT1mut/mut patient with healthy MALT1+/mut family members using 10-plex Tandem Mass Tag TAILS N-terminal peptide proteomics. We identify HOIL1 of the linear ubiquitin chain assembly complex as a novel MALT1 substrate. We show linear ubiquitination at B-cell receptor microclusters and signalosomes. Late in the NF-κB activation cycle HOIL1 cleavage transiently reduces linear ubiquitination, including of NEMO and RIP1, dampening NF-κB activation and preventing reactivation. By regulating linear ubiquitination, MALT1 is both a positive and negative pleiotropic regulator of the human canonical NF-κB pathway—first promoting activation via the CBM—then triggering HOIL1-dependent negative-feedback termination, preventing reactivation. PMID:26525107

TrackMate: An open and extensible platform for single-particle tracking.

PubMed

Tinevez, Jean-Yves; Perry, Nick; Schindelin, Johannes; Hoopes, Genevieve M; Reynolds, Gregory D; Laplantine, Emmanuel; Bednarek, Sebastian Y; Shorte, Spencer L; Eliceiri, Kevin W

2017-02-15

We present TrackMate, an open source Fiji plugin for the automated, semi-automated, and manual tracking of single-particles. It offers a versatile and modular solution that works out of the box for end users, through a simple and intuitive user interface. It is also easily scriptable and adaptable, operating equally well on 1D over time, 2D over time, 3D over time, or other single and multi-channel image variants. TrackMate provides several visualization and analysis tools that aid in assessing the relevance of results. The utility of TrackMate is further enhanced through its ability to be readily customized to meet specific tracking problems. TrackMate is an extensible platform where developers can easily write their own detection, particle linking, visualization or analysis algorithms within the TrackMate environment. This evolving framework provides researchers with the opportunity to quickly develop and optimize new algorithms based on existing TrackMate modules without the need of having to write de novo user interfaces, including visualization, analysis and exporting tools. The current capabilities of TrackMate are presented in the context of three different biological problems. First, we perform Caenorhabditis-elegans lineage analysis to assess how light-induced damage during imaging impairs its early development. Our TrackMate-based lineage analysis indicates the lack of a cell-specific light-sensitive mechanism. Second, we investigate the recruitment of NEMO (NF-κB essential modulator) clusters in fibroblasts after stimulation by the cytokine IL-1 and show that photodamage can generate artifacts in the shape of TrackMate characterized movements that confuse motility analysis. Finally, we validate the use of TrackMate for quantitative lifetime analysis of clathrin-mediated endocytosis in plant cells. Copyright © 2016 The Author(s). Published by Elsevier Inc. All rights reserved.

Bortezomib inhibits STAT5-dependent degradation of LEF-1, inducing granulocytic differentiation in congenital neutropenia CD34+ cells

PubMed Central

Gupta, Kshama; Kuznetsova, Inna; Klimenkova, Olga; Klimiankou, Maksim; Meyer, Johann; Moore, Malcolm A. S.; Zeidler, Cornelia; Welte, Karl

2014-01-01

The transcription factor lymphoid enhancer–binding factor 1 (LEF-1), which plays a definitive role in granulocyte colony-stimulating factor (G-CSF) receptor-triggered granulopoiesis, is downregulated in granulocytic progenitors of severe congenital neutropenia (CN) patients. However, the exact mechanism of LEF-1 downregulation is unclear. CN patients are responsive to therapeutically high doses of G-CSF and are at increased risk of developing acute myeloid leukemia. The normal expression of LEF-1 in monocytes and lymphocytes, whose differentiation is unaffected in CN, suggests the presence of a granulopoiesis-specific mechanism downstream of G-CSF receptor signaling that leads to LEF-1 downregulation. Signal transducer and activator of transcription 5 (STAT5) is activated by G-CSF and is hyperactivated in acute myeloid leukemia. Here, we investigated the effects of activated STAT5 on LEF-1 expression and functions in hematopoietic progenitor cells. We demonstrated that constitutively active STAT5a (caSTAT5a) inhibited LEF-1–dependent autoregulation of the LEF-1 gene promoter by binding to the LEF-1 protein, recruiting Nemo-like kinase and the E3 ubiquitin-ligase NARF to LEF-1, leading to LEF-1 ubiquitination and a reduction in LEF-1 protein levels. The proteasome inhibitor bortezomib reversed the defective G-CSF–triggered granulocytic differentiation of CD34+ cells from CN patients in vitro, an effect that was accompanied by restoration of LEF-1 protein levels and LEF-1 messenger RNA autoregulation. Taken together, our data define a novel mechanism of LEF-1 downregulation in CN patients via enhanced ubiquitination and degradation of LEF-1 protein by hyperactivated STAT5. PMID:24394665

[The crosstalk between canonical and noncanonical Wnt signaling pathway in osteoblast differentiation of periodontal ligament stem cells in inflammatory microenvironments].

PubMed

Liu, N; Shi, H G; Zhang, W; Gu, B

2016-11-09

Objective: To investigate the crosstalk between canonical Wnt/β-catenin and noncanonical Wnt/Ca 2+ pathway in osteoblast differentiation process of periodontal ligament stem cell (PDLSC) in inflammatory microenvironments. Methods: PDLSCs were obtained from human healthy individuals(H-PDLSC) and patients with periodontitis(P-PDLSC). The H/P-PDLSCs were transfected with β-catenin siRNA. Cell morphology was observed under fluorescent microscope and transfection efficiency was easured by Western blotting after transfection of PDLSC. The mRNA expressions of Runt-related transcription factor 2(Runx2), β-catenin and nemo like kinase(NLK) were detected by real time PCR, the protein expressions of calcium/calmodulin-dependent protein kinase Ⅱ (CaMK Ⅱ) and NLK were examined by Western blotting and the CaMK Ⅱ was observed by immunofluorescence staining, respectively. Results: The β-catenin expressions in H/P-PDLSCs were inhibited specifically and efficiently by treatment of β-catenin-siRNA for 24 h. After a 3-day-osteogenic process, results of real-time quantitative PCR showed that the Runx2 mRNA expression in P-PDLSC siRNA β-catenin transfected group(4.553 ± 0.659) was significantly higher than that in P-PDLSC empty plasmid control group(1.918 ± 0.315) ( P= 0.000). A similar trend was observed in the NLK mRNA expression tests(7.341 ± 1.331 vs. 5.664 ± 0.792) ( P= 0.030). Accordingly, the protein expression levels of CaMK Ⅱ, NLK were higher in P-PDLSC siRNA β-catenin transfected group than that in P-PDLSC empty plasmid control group in osteogenic differentiation condition for 3 days. CaMKⅡ was more strongly induced in P-PDLSC siRNA β-catenin group than that in P-PDLSC empty plasmid control group after PDLSC cultured in osteogenic medium for 3 days. Conclusions: Both canonical Wnt/β-catenin and noncanonical Wnt/Ca 2+ pathway could regulate the osteogenic differentiation potential of P-PDLSC. Suppression of β-catenin by siRNA promoted osteogenic differentiation via increasing noncanonical Wnt signaling pathway of PDLSC in inflammatory microenvironments.

Oceanic N2O emissions in the 21st century

NASA Astrophysics Data System (ADS)

Martinez-Rey, J.; Bopp, L.; Gehlen, M.; Tagliabue, A.; Gruber, N.

2014-12-01

The ocean is a substantial source of nitrous oxide (N2O) to the atmosphere, but little is known on how this flux might change in the future. Here, we investigate the potential evolution of marine N2O emissions in the 21st century in response to anthropogenic climate change using the global ocean biogeochemical model NEMO-PISCES. We implemented two different parameterizations of N2O production, which differ primarily at low oxygen (O2) conditions. When forced with output from a climate model simulation run under the business-as-usual high CO2 concentration scenario (RCP8.5), our simulations suggest a decrease of 4 to 12% in N2O emissions from 2005 to 2100, i.e., a reduction from 4.03/3.71 to 3.54/3.56 Tg N yr-1 depending on the parameterization. The emissions decrease strongly in the western basins of the Pacific and Atlantic oceans, while they tend to increase above the Oxygen Minimum Zones (OMZs), i.e., in the Eastern Tropical Pacific and in the northern Indian Ocean. The reduction in N2O emissions is caused on the one hand by weakened nitrification as a consequence of reduced primary and export production, and on the other hand by stronger vertical stratification, which reduces the transport of N2O from the ocean interior to the ocean surface. The higher emissions over the OMZ are linked to an expansion of these zones under global warming, which leads to increased N2O production associated primarily with denitrification. From the perspective of a global climate system, the averaged feedback strength associated with the projected decrease in oceanic N2O emissions amounts to around -0.009 W m-2 K-1, which is comparable to the potential increase from terrestrial N2O sources. However, the assesment for a compensation between the terrestrial and marine feedbacks calls for an improved representation of N2O production terms in fully coupled next generation of Earth System Models.

The Influenza A Virus Genotype Determines the Antiviral Function of NF-κB

PubMed Central

Dam, Sharmistha; Kracht, Michael; Pleschka, Stephan

2016-01-01

ABSTRACT The role of NF-κB in influenza A virus (IAV) infection does not reveal a coherent picture, as pro- and also antiviral functions of this transcription factor have been described. To address this issue, we used clustered regularly interspaced short palindromic repeat with Cas9 (CRISPR-Cas9)-mediated genome engineering to generate murine MLE-15 cells lacking two essential components of the NF-κB pathway. Cells devoid of either the central NF-κB essential modulator (NEMO) scaffold protein and thus defective in IκB kinase (IKK) activation or cells not expressing the NF-κB DNA-binding and transactivation subunit p65 were tested for propagation of the SC35 virus, which has an avian host range, and its mouse-adapted variant, SC35M. While NF-κB was not relevant for replication of SC35M, the absence of NF-κB activity increased replication of the nonadapted SC35 virus. This antiviral effect of NF-κB was most prominent upon infection of cells with low virus titers as they usually occur during the initiation phase of IAV infection. The defect in NF-κB signaling resulted in diminished IAV-triggered phosphorylation of interferon regulatory factor 3 (IRF3) and expression of the antiviral beta interferon (IFN-β) gene. To identify the viral proteins responsible for NF-κB dependency, reassortant viruses were generated by reverse genetics. SC35 viruses containing the SC35M segment encoding neuraminidase (NA) were completely inert to the inhibitory effect of NF-κB, emphasizing the importance of the viral genotype for susceptibility to the antiviral functions of NF-κB. IMPORTANCE This study addresses two different issues. First, we investigated the role of the host cell transcription factor NF-κB in IAV replication by genetic manipulation of IAVs by reverse genetics combined with targeted genome engineering of host cells using CRISPR-Cas9. The analysis of these two highly defined genetic systems indicated that the IAV genotype can influence whether NF-κB displays an antiviral function and thus might in part explain incoherent results from the literature. Second, we found that perturbation of NF-κB function greatly improved the growth of a nonadapted IAV, suggesting that NF-κB may contribute to the maintenance of the host species barrier. PMID:27356900

North-western Mediterranean sea-breeze circulation in a regional climate system model

NASA Astrophysics Data System (ADS)

Drobinski, Philippe; Bastin, Sophie; Arsouze, Thomas; Béranger, Karine; Flaounas, Emmanouil; Stéfanon, Marc

2017-04-01

In the Mediterranean basin, moisture transport can occur over large distance from remote regions by the synoptic circulation or more locally by sea breezes, driven by land-sea thermal contrast. Sea breezes play an important role in inland transport of moisture especially between late spring and early fall. In order to explicitly represent the two-way interactions at the atmosphere-ocean interface in the Mediterranean region and quantify the role of air-sea feedbacks on regional meteorology and climate, simulations at 20 km resolution performed with WRF regional climate model (RCM) and MORCE atmosphere-ocean regional climate model (AORCM) coupling WRF and NEMO-MED12 in the frame of HyMeX/MED-CORDEX are compared. One result of this study is that these simulations reproduce remarkably well the intensity, direction and inland penetration of the sea breeze and even the existence of the shallow sea breeze despite the overestimate of temperature over land in both simulations. The coupled simulation provides a more realistic representation of the evolution of the SST field at fine scale than the atmosphere-only one. Temperature and moisture anomalies are created in direct response to the SST anomaly and are advected by the sea breeze over land. However, the SST anomalies are not of sufficient magnitude to affect the large-scale sea-breeze circulation. The temperature anomalies are quickly damped by strong surface heating over land, whereas the water vapor mixing ratio anomalies are transported further inland. The inland limit of significance is imposed by the vertical dilution in a deeper continental boundary-layer.

Effects of wave-induced forcing on a circulation model of the North Sea

NASA Astrophysics Data System (ADS)

Staneva, Joanna; Alari, Victor; Breivik, Øyvind; Bidlot, Jean-Raymond; Mogensen, Kristian

2017-04-01

The effect of wind waves on water level and currents during two storms in the North Sea is investigated using a high-resolution NEMO model forced with fluxes and fields from a high-resolution wave model. The additional terms accounting for wave-current interaction that are considered in this study are the Stokes-Coriolis force and the sea-state dependent energy and momentum fluxes. The individual and collective role of these processes is quantified and the results are compared with a control run without wave effects as well as against current and water level measurements from coastal stations. We find a better agreement with observations when the circulation model is forced by sea-state dependent fluxes, especially in extreme events. The two extreme events, the storm Christian (25-27 October 2013), and about a month later, the storm Xaver (5-7 December 2013), induce different wave and surge conditions over the North Sea. Including the wave effects in the circulation model for the storm Xaver raises the modelled surge by more than 40 cm compared with the control run in the German Bight area. For the storm Christian, a difference of 20-30 cm in the surge level between the wave-forced and the stand-alone ocean model is found over the whole southern part of the North Sea. Moreover, the modelled vertical velocity profile fits the observations very well when the wave forcing is accounted for. The contribution of wave-induced forcing has been quantified indicating that this represents an important mechanism for improving water level and current predictions.

Effects of wave-induced forcing on a circulation model of the North Sea

NASA Astrophysics Data System (ADS)

Staneva, Joanna; Alari, Victor; Breivik, Øyvind; Bidlot, Jean-Raymond; Mogensen, Kristian

2017-01-01

The effect of wind waves on water level and currents during two storms in the North Sea is investigated using a high-resolution Nucleus for European Modelling of the Ocean (NEMO) model forced with fluxes and fields from a high-resolution wave model. The additional terms accounting for wave-current interaction that are considered in this study are the Stokes-Coriolis force, the sea-state-dependent energy and momentum fluxes. The individual and collective role of these processes is quantified and the results are compared with a control run without wave effects as well as against current and water-level measurements from coastal stations. We find a better agreement with observations when the circulation model is forced by sea-state-dependent fluxes, especially in extreme events. The two extreme events, the storm Christian (25-27 October 2013), and about a month later, the storm Xaver (5-7 December 2013), induce different wave and surge conditions over the North Sea. Including the wave effects in the circulation model for the storm Xaver raises the modelled surge by more than 40 cm compared with the control run in the German Bight area. For the storm Christian, a difference of 20-30 cm in the surge level between the wave-forced and the stand-alone ocean model is found over the whole southern part of the North Sea. Moreover, the modelled vertical velocity profile fits the observations very well when the wave forcing is accounted for. The contribution of wave-induced forcing has been quantified indicating that this represents an important mechanism for improving water-level and current predictions.

Multi-million atom electronic structure calculations for quantum dots

NASA Astrophysics Data System (ADS)

Usman, Muhammad

Quantum dots grown by self-assembly process are typically constructed by 50,000 to 5,000,000 structural atoms which confine a small, countable number of extra electrons or holes in a space that is comparable in size to the electron wavelength. Under such conditions quantum dots can be interpreted as artificial atoms with the potential to be custom tailored to new functionality. In the past decade or so, these nanostructures have attracted significant experimental and theoretical attention in the field of nanoscience. The new and tunable optical and electrical properties of these artificial atoms have been proposed in a variety of different fields, for example in communication and computing systems, medical and quantum computing applications. Predictive and quantitative modeling and simulation of these structures can help to narrow down the vast design space to a range that is experimentally affordable and move this part of nanoscience to nano-Technology. Modeling of such quantum dots pose a formidable challenge to theoretical physicists because: (1) Strain originating from the lattice mismatch of the materials penetrates deep inside the buffer surrounding the quantum dots and require large scale (multi-million atom) simulations to correctly capture its effect on the electronic structure, (2) The interface roughness, the alloy randomness, and the atomistic granularity require the calculation of electronic structure at the atomistic scale. Most of the current or past theoretical calculations are based on continuum approach such as effective mass approximation or k.p modeling capturing either no or one of the above mentioned effects, thus missing some of the essential physics. The Objectives of this thesis are: (1) to model and simulate the experimental quantum dot topologies at the atomistic scale; (2) to theoretically explore the essential physics i.e. long range strain, linear and quadratic piezoelectricity, interband optical transition strengths, quantum confined stark shift, coherent coupling of electronic states in a quantum dot molecule etc.; (3) to assess the potential use of the quantum dots in real device implementation and to provide physical insight to the experimentalists. Full three dimensional strain and electronic structure simulations of quantum dot structures containing multi-million atoms are done using NEMO 3-D. Both single and vertically stacked quantum dot structures are analyzed in detail. The results show that the strain and the piezoelectricity significantly impact the electronic structure of these devices. This work shows that the InAs quantum dots when placed in the InGaAs quantum well red shifts the emission wavelength. Such InAs/GaAs-based optical devices can be used for optical-fiber based communication systems at longer wavelengths (1.3um -- 1.5um). Our atomistic simulations of InAs/InGaAs/GaAs quantum dots quantitatively match with the experiment and give the critical insight of the physics involved in these structures. A single quantum dot molecule is studied for coherent quantum coupling of electronic states under the influence of static electric field applied in the growth direction. Such nanostructures can be used in the implementation of quantum information technologies. A close quantitative match with the experimental optical measurements allowed us to get a physical insight into the complex physics of quantum tunnel couplings of electronic states as the device operation switches between atomic and molecular regimes. Another important aspect is to design the quantum dots for a desired isotropic polarization of the optical emissions. Both single and coupled quantum dots are studied for TE/TM ratio engineering. The atomistic study provides a detailed physical analysis of these computationally expensive large nanostructures and serves as a guide for the experimentalists for the design of the polarization independent devices for the optical communication systems.

Inorganic carbon fluxes on the Mackenzie Shelf of the Beaufort Sea

NASA Astrophysics Data System (ADS)

Mol, Jacoba; Thomas, Helmuth; Myers, Paul G.; Hu, Xianmin; Mucci, Alfonso

2018-02-01

The Mackenzie Shelf in the southeastern Beaufort Sea is a region that has experienced large changes in the past several decades as warming, sea-ice loss, and increased river discharge have altered carbon cycling. Upwelling and downwelling events are common on the shelf, caused by strong, fluctuating along-shore winds, resulting in cross-shelf Ekman transport, and an alternating estuarine and anti-estuarine circulation. Downwelling carries dissolved inorganic carbon (DIC) and other remineralization products off the shelf and into the deep basin for possible long-term storage in the world's oceans. Upwelling carries DIC and nutrient-rich waters from the Pacific-origin upper halocline layer (UHL) onto the shelf. Profiles of DIC and total alkalinity (TA) taken in August and September of 2014 are used to investigate the cycling of carbon on the Mackenzie Shelf. The along-shore transport of water and the cross-shelf transport of DIC are quantified using velocity field output from a simulation of the Arctic and Northern Hemisphere Atlantic (ANHA4) configuration of the Nucleus of European Modelling of the Ocean (NEMO) framework. A strong upwelling event prior to sampling on the Mackenzie Shelf took place, bringing CO2-rich (elevated pCO2) water from the UHL onto the shelf bottom. The maximum on-shelf DIC flux was estimated at 16.9×103 mol C d-1 m-2 during the event. The maximum on-shelf transport of DIC through the upwelling event was found to be 65±15×10-3 Tg C d-1. TA and the oxygen isotope ratio of water (δ18O-H2O) are used to examine water-mass distributions in the study area and to investigate the influence of Pacific Water, Mackenzie River freshwater, and sea-ice melt on carbon dynamics and air-sea fluxes of carbon dioxide (CO2) in the surface mixed layer. Understanding carbon transfer in this seasonally dynamic environment is key to quantify the importance of Arctic shelf regions to the global carbon cycle and provide a basis for understanding how it will respond to the aforementioned climate-induced changes.

Ocean modelling aspects for drift applications

NASA Astrophysics Data System (ADS)

Stephane, L.; Pierre, D.

2010-12-01

Nowadays, many authorities in charge of rescue-at-sea operations lean on operational oceanography products to outline research perimeters. Moreover, current fields estimated with sophisticated ocean forecasting systems can be used as input data for oil spill/ adrift object fate models. This emphasises the necessity of an accurate sea state forecast, with a mastered level of reliability. This work focuses on several problems inherent to drift modeling, dealing in the first place with the efficiency of the oceanic current field representation. As we want to discriminate the relevance of a particular physical process or modeling option, the idea is to generate series of current fields of different characteristics and then qualify them in term of drift prediction efficiency. Benchmarked drift scenarios were set up from real surface drifters data, collected in the Mediterranean sea and off the coasts of Angola. The time and space scales that we are interested in are about 72 hr forecasts (typical timescale communicated in case of crisis), for distance errors that we hope about a few dozen of km around the forecast (acceptable for reconnaissance by aircrafts) For the ocean prediction, we used some regional oceanic configurations based on the NEMO 2.3 code, nested into Mercator 1/12° operational system. Drift forecasts were computed offline with Mothy (Météo France oil spill modeling system) and Ariane (B. Blanke, 1997), a Lagrangian diagnostic tool. We were particularly interested in the importance of the horizontal resolution, vertical mixing schemes, and any processes that may impact the surface layer. The aim of the study is to ultimately point at the most suitable set of parameters for drift forecast use inside operational oceanic systems. We are also motivated in assessing the relevancy of ensemble forecasts regarding determinist predictions. Several tests showed that mis-described observed trajectories can finally be modelled statistically by using uncertainties over the initial position of the drifting material. Works in the near future will explore that concept with ensemble of currents obtained with different initial conditions, phase shifted boundary forcings or perturbed atmospheric surface forcings.

Simulating the Agulhas system in global ocean models - nesting vs. multi-resolution unstructured meshes

NASA Astrophysics Data System (ADS)

Biastoch, Arne; Sein, Dmitry; Durgadoo, Jonathan V.; Wang, Qiang; Danilov, Sergey

2018-01-01

Many questions in ocean and climate modelling require the combined use of high resolution, global coverage and multi-decadal integration length. For this combination, even modern resources limit the use of traditional structured-mesh grids. Here we compare two approaches: A high-resolution grid nested into a global model at coarser resolution (NEMO with AGRIF) and an unstructured-mesh grid (FESOM) which allows to variably enhance resolution where desired. The Agulhas system around South Africa is used as a testcase, providing an energetic interplay of a strong western boundary current and mesoscale dynamics. Its open setting into the horizontal and global overturning circulations also requires global coverage. Both model configurations simulate a reasonable large-scale circulation. Distribution and temporal variability of the wind-driven circulation are quite comparable due to the same atmospheric forcing. However, the overturning circulation differs, owing each model's ability to represent formation and spreading of deep water masses. In terms of regional, high-resolution dynamics, all elements of the Agulhas system are well represented. Owing to the strong nonlinearity in the system, Agulhas Current transports of both configurations and in comparison with observations differ in strength and temporal variability. Similar decadal trends in Agulhas Current transport and Agulhas leakage are linked to the trends in wind forcing.

Ocean products delivered by the Mercator Ocean Service Department

NASA Astrophysics Data System (ADS)

Crosnier, L.; Durand, E.; Soulat, F.; Messal, F.; Buarque, S.; Toumazou, V.; Landes, V.; Drevillon, M.; Lellouche, J.

2008-12-01

The newly created Service Department at Mercator Ocean is now offering various services for academic and private ocean applications. Mercator Ocean runs operationally ocean forecast systems for the Global and North Atlantic Ocean. These systems are based on an ocean general circulation model NEMO as well as on data assimilation of sea level anomalies, sea surface temperature and temperature and salinity vertical profiles. Three dimensional ocean fields of temperature, salinity and currents are updated and available weekly, including analysis and 2 weeks forecast fields. The Mercator Ocean service department is now offering a wide range of ocean derived products. This presentation will display some of the various products delivered in the framework of academic and private ocean applications: " Monitoring of the ocean current at the surface and at depth in several geographical areas for offshore oil platform, for offshore satellite launch platform, for transatlantic sailing or rowing boat races. " Monitoring of ocean climate indicators (Coral bleaching...) for marine reserve survey; " Monitoring of upwelling systems for fisheries; " Monitoring of the ocean heat content for tropical cyclone monitoring. " Monitoring of the ocean temperature/salinity and currents to guide research vessels during scientific cruises. The Mercator Ocean products catalogue will grow wider in the coming years, especially in the framework of the European GMES MyOcean project (FP7).

Identification of differentially expressed genes in brown planthopper Nilaparvata lugens (Hemiptera: Delphacidae) responding to host plant resistance.

PubMed

Yang, Zhifan; Zhang, Futie; Zhu, Lili; He, Guangcun

2006-02-01

The brown planthopper Nilaparvata lugens Stål is one of the major insect pests of rice Oryza sativa L. The host resistance exhibits profound effects on growth, development and propagation of N. lugens. To investigate the molecular response of N. lugens to host resistance, a cDNA-amplified fragment length polymorphism (cDNA-AFLP) technique was employed to identify the differentially expressed genes in the nymphs feeding on three rice varieties. Of the 2,800 cDNA bands analysed, 54 were up-regulated and seven down-regulated qualitatively in N. lugens when the ingestion sources were changed from susceptible rice plants to resistant ones. Sequence analysis of the differential transcript-derived fragments showed that the genes involved in signalling, stress response, gene expression regulation, detoxification and metabolism were regulated by host resistance. Four of the transcript-derived fragments corresponding to genes encoding for a putative B subunit of phosphatase PP2A, a nemo kinase, a cytochrome P450 monooxygenase and a prolyl endopeptidase were further characterized in detail. Northern blot analysis confirmed that the expression of the four genes was enhanced in N. lugens feeding on resistant rice plants. The roles of these genes in the defensive response of N. lugens to host plant resistance were discussed.

User Manual for the PROTEUS Mesh Tools

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

Smith, Micheal A.; Shemon, Emily R

2016-09-19

PROTEUS is built around a finite element representation of the geometry for visualization. In addition, the PROTEUS-SN solver was built to solve the even-parity transport equation on a finite element mesh provided as input. Similarly, PROTEUS-MOC and PROTEUS-NEMO were built to apply the method of characteristics on unstructured finite element meshes. Given the complexity of real world problems, experience has shown that using commercial mesh generator to create rather simple input geometries is overly complex and slow. As a consequence, significant effort has been put into place to create multiple codes that help assist in the mesh generation and manipulation.more » There are three input means to create a mesh in PROTEUS: UFMESH, GRID, and NEMESH. At present, the UFMESH is a simple way to generate two-dimensional Cartesian and hexagonal fuel assembly geometries. The UFmesh input allows for simple assembly mesh generation while the GRID input allows the generation of Cartesian, hexagonal, and regular triangular structured grid geometry options. The NEMESH is a way for the user to create their own mesh or convert another mesh file format into a PROTEUS input format. Given that one has an input mesh format acceptable for PROTEUS, we have constructed several tools which allow further mesh and geometry construction (i.e. mesh extrusion and merging). This report describes the various mesh tools that are provided with the PROTEUS code giving both descriptions of the input and output. In many cases the examples are provided with a regression test of the mesh tools. The most important mesh tools for any user to consider using are the MT_MeshToMesh.x and the MT_RadialLattice.x codes. The former allows the conversion between most mesh types handled by PROTEUS while the second allows the merging of multiple (assembly) meshes into a radial structured grid. Note that the mesh generation process is recursive in nature and that each input specific for a given mesh tool (such as .axial or .merge) can be used as “mesh” input for any of the mesh tools discussed in this manual.« less

New Insights on Submarine Volcanism in the Western Galapagos Archipelago from High Resolution Sonar and Magnetic Surveys

NASA Astrophysics Data System (ADS)

Glass, J. B.; Fornari, D. J.; Tivey, M. A.; Hall, H. F.; Cougan, A. A.; Berkenbosch, H. A.; Holmes, M. L.; White, S. M.; de La Torre, G.

2006-12-01

We combine high-resolution MR-1 sidescan sonar and EM-300 bathymetric data collected on four cruises (AHA-Nemo2 in 2000 (R/V Melville), DRIFT4 in 2001 (R/V Revelle), TN188 and TN189 in January 2006 (R/V Thompson) to study volcanic platform-building processes on the submarine flanks of Fernandina, Isabela, Roca Redonda and Santiago volcanoes, in the western Galapagos. Three primary volcanic provinces were identified including: rift zones (16, ranging from 5 to 20 km in length), small submarine volcanic cones (<3 km in diameter and several 100 m high) and deep (>3000 m), long (>10 km), large-area submarine lava flows. Lengths of the Galapagos rift zones are comparable to western Canary Island rift zones, but significantly shorter than Hawaiian submarine rift zones, possibly reflecting lower magma supply. A surface-towed magnetic survey was conducted over the NW Fernandina rift on TN189 and Fourier inversions were performed to correct for topographic effects. Calculated magnetization was highest (up to +32 A/m) over the shallow southwest flank of the rift, coinciding with cone fields and suggesting most recent volcanism has focused at this portion of the rift. Small submarine volcanic cones with various morphologies (e.g., pointed, cratered and occasionally breached) are common in the submarine western Galapagos both on rift zones and on the island flanks where no rifts are present, such as the northern flank of Santiago Island. Preliminary study of these cones suggests that their morphologies and depth of occurrence may reflect a combination of petrogenetic and eruption processes. Deep, long large-area lava flow fields in regions of low bathymetric relief have been previously identified as a common seafloor feature in the western Galapagos by Geist et al. [in press], and new EM300 data show that a number of the deep lava flows originate from small cones along the mid-lower portion of the NW submarine rift of Fernandina. Our high-resolution sonar data suggest that submarine volcanism in the western Galapagos occurs both on and off rift zones. Volcanic cones are prevalent on the Galapagos volcanic platform and long lava flows dominate in the deep regions west and north of the platform, possibly representing the foundation upon which the next Galapagos volcanoes will be constructed.

Investigating the impact of media on demand for wildlife: A case study of Harry Potter and the UK trade in owls.

PubMed

Megias, Diane A; Anderson, Sean C; Smith, Robert J; Veríssimo, Diogo

2017-01-01

In recent decades, a substantial number of popular press articles have described an increase in demand for certain species in the pet trade due to films such as "Finding Nemo", "Ninja turtles", and "Harry Potter". Nevertheless, such assertions are largely supported only by anecdotal evidence. Given the role of the wildlife trade in the spread of pathogens and zoonosis, the introduction of invasive species, the overexploitation of biodiversity, and the neglect of animal welfare, it is crucial to understand what factors drive demand for a species. Here, we investigate the effect the movie industry may have on wildlife trade by examining the relationship between the "Harry Potter" cultural phenomenon and the trade in owls within the United Kingdom (UK). We gathered data from the UK box office, book sales, and newspaper mentions, and examined their relationship with data from three independent sources reflecting the legal ownership of owls in the UK, which is likely to involve several thousands of animals. Additionally, we conducted a questionnaire survey with UK animal sanctuaries to study the presumed mass abandonment of pet owls when the film series ended. Counter to common assertions, we find no evidence that the "Harry Potter" phenomenon increased the legal trade in owls within the UK, even when possible time-lag effects were taken into account. Only one indicator, the number of movie tickets sold, showed a weak but contradictory relationship with demand for owls, with a recorded drop of 13% (95% CI: 3-27%) per 1 SD in tickets sold in the original analysis but an increase of 4% (95% CI: 0-8%) with a one-year lag. In addition, our results suggest that the end of the Harry Potter series did not have a noticeable impact on the number of owls abandoned in UK wildlife sanctuaries, as only two of the 46 animal sanctuaries we contacted independently stated they had seen an increase in owls received and believed this was due to the Harry Potter series. We highlight the importance of further research on the drivers of demand for wildlife to better manage this global trade, and discuss the potential to use films to positively influence behaviour.

Development of the Play Experience Model to Enhance Desirable Qualifications of Early Childhood

ERIC Educational Resources Information Center

Panpum, Watchara; Soonthornrojana, Wimonrat; Nakunsong, Thatsanee

2015-01-01

The objectives of this research were to develop the play experience model and to study the effect of usage in play experience model for enhancing the early childhood's desirable qualification. There were 3 phases of research: 1) the document and context in experience management were studied, 2) the play experience model was developed, and 3) the…

Viewing experience of 3DTV: An exploration of the feeling of sickness and presence in a shopping mall.

PubMed

Obrist, Marianna; Wurhofer, Daniela; Meneweger, Thomas; Grill, Thomas; Tscheligi, Manfred

2013-02-01

The adoption and deployment of 3DTV can be seen as a major step in the history of television, comparable to the transition from analogue to digital and standard to high definition TV. Although 3D is expected to emerge from the cinema to peoples' home, there is still a lack of knowledge on how people (future end users) perceive 3DTV and how this influences their viewing experience as well as their acceptance of 3DTV. Within this paper, findings from a three-day field evaluation study on people's 3DTV experiences, focusing on the feeling of sickness and presence, are presented. Contrary to the traditional controlled laboratory setting, the study was conducted in the public setting of a shopping center and involved 700 participants. The study revealed initial insights on users' feeling of presence and sickness when watching 3DTV content. Results from this explorative study show that most of the participants reported symptoms of sickness after watching 3DTV with an effect of gender and age on the reported feeling of sickness. Our results further suggest that the users' previous experience with 3D content has an influence on how realistic people rate the viewing experience and how involved they feel. The particularities of the study environment, a shopping mall, are reflected in our findings and future research directions and action points for investigating people's viewing experiences of 3DTV are summarized.

Viewing experience of 3DTV: An exploration of the feeling of sickness and presence in a shopping mall

PubMed Central

Obrist, Marianna; Wurhofer, Daniela; Meneweger, Thomas; Grill, Thomas; Tscheligi, Manfred

2013-01-01

The adoption and deployment of 3DTV can be seen as a major step in the history of television, comparable to the transition from analogue to digital and standard to high definition TV. Although 3D is expected to emerge from the cinema to peoples’ home, there is still a lack of knowledge on how people (future end users) perceive 3DTV and how this influences their viewing experience as well as their acceptance of 3DTV. Within this paper, findings from a three-day field evaluation study on people’s 3DTV experiences, focusing on the feeling of sickness and presence, are presented. Contrary to the traditional controlled laboratory setting, the study was conducted in the public setting of a shopping center and involved 700 participants. The study revealed initial insights on users’ feeling of presence and sickness when watching 3DTV content. Results from this explorative study show that most of the participants reported symptoms of sickness after watching 3DTV with an effect of gender and age on the reported feeling of sickness. Our results further suggest that the users’ previous experience with 3D content has an influence on how realistic people rate the viewing experience and how involved they feel. The particularities of the study environment, a shopping mall, are reflected in our findings and future research directions and action points for investigating people’s viewing experiences of 3DTV are summarized. PMID:23482894

Arctic Ocean Pathways in the 21st century

NASA Astrophysics Data System (ADS)

Aksenov, Yevgeny; van Gennip, Simon J.; Kelly, Stephen J.; Popova, Ekaterina E.; Yool, Andrew

2017-04-01

In the last three decades, changes in the Arctic environment have been occurring at an increasing rate. The opening up of large areas of previously sea ice-covered ocean affects the marine environment with potential impacts on Arctic ecosystems, including through changes in Arctic access, industries and societies. Changes to sea ice and surface winds result in large-scale shifts in ocean circulation and oceanic pathways. This study presents a high-resolution analysis of the projected ocean circulation and pathways of the Arctic water masses across the 21st century. The analysis is based on an eddy-permitting high-resolution global simulation of the ocean general circulation model NEMO (Nucleus for European Modelling of the Ocean) at the 1/4-degree horizontal resolution. The atmospheric forcing is from HadGEM2-ES model output from IPCC Assessment Report 5 (AR5) simulations performed for Coupled Model Intercomparison Project 5 (CMIP5), and follow the Representative Concentration Pathway 8.5 (RCP8.5) scenario. During the 21st century the AO experiences a significant warming, with sea surface temperature increased by in excess of 4 deg. C. Annual mean Arctic sea ice thickness drops to less than 0.5m, and the Arctic Ocean is ice-free in summer from the mid-century. We use an off-line tracer technique to investigate Arctic pathways of the Atlantic and Pacific waters (AW and PW respectively) under this future climate. The AW tracers have been released in the eastern Fram Strait and in the western Barents Sea, whereas the PW tracer has been seeded in the Bering Strait. In the second half of the century the upper 1000 m ocean circulation shows a reduction in the eastward AW flow along the continental slopes towards the Makarov and Canada basins and a deviation of the PW flow away from the Beaufort Sea towards the Siberian coast. Strengthening of Arctic boundary current and intensification of the cyclonic gyre in the Nansen basin of the Arctic Ocean is accompanied by weakening of the current and an anti-cyclonic gyre spin-up in the Makarov Basin. This presents a shift of the Arctic circulation "dipole" and of the Transpolar Drift, with the consequence that the PW flow towards Fram Strait is significantly reduced by the end of the century, weakening the Pacific-Atlantic connection via the Arctic Ocean, and reducing the Arctic freshwater outflow into the North Atlantic. Examination of the simulations suggests that these circulation changes are primarily due to the shift in the wind.

The effect of pre-dive ingestion of dark chocolate on endothelial function after a scuba dive.

PubMed

Theunissen, Sigrid; Balestra, Costantino; Boutros, Antoine; De Bels, David; Guerrero, François; Germonpré, Peter

2015-03-01

The aim of the study was to observe the effects of dark chocolate on endothelial function after scuba diving. Forty-two male scuba divers were divided into two groups: a control (n=21) and a chocolate group (n=21). They performed a 33-metres deep scuba-air dive for 20 minutes in a diving pool (Nemo 33, Brussels). Water temperature was 33⁰C. The chocolate group ingested 30 g of dark chocolate (86% cocoa) 90 minutes before the dive. Flow-mediated dilatation (FMD), digital photoplethysmography and nitric oxide (NO) and peroxynitrites (ONOO-) levels were measured before and after the scuba dive in both groups. A significant decrease in FMD was observed in the control group after the dive (91±7% (mean±95% confidence interval) of pre-dive values; P<0.001) while it was increased in the chocolate group (105±5% of pre-dive values; P<0.001). No difference in digital photoplethysmography was observed between before and after the dives. No variation of circulating NO level was observed in the control group whereas an increase was shown in the chocolate group (154±73% of pre-dive values; P=0.04). A significant reduction in ONOO- was observed in the control group (84±12% of pre-dive values; P=0.003) whereas no variation was shown after the dive with chocolate intake (100±28% of pre-dive values; ns). Ingestion of 30 g of dark chocolate 90 minutes before scuba diving prevented post-dive endothelial dysfunction, as the antioxidants contained in dark chocolate probably scavenge free radicals.

Modelling temporal and spatial dynamics of benthic fauna in North-West-European shelf seas

NASA Astrophysics Data System (ADS)

Lessin, Gennadi; Bruggeman, Jorn; Artioli, Yuri; Butenschön, Momme; Blackford, Jerry

2017-04-01

Benthic zones of shallow shelf seas receive high amounts of organic material. Physical processes such as resuspension, as well as complex transformations mediated by diverse faunal and microbial communities, define fate of this material, which can be returned to the water column, reworked within sediments or ultimately buried. In recent years, numerical models of various complexity and serving different goals have been developed and applied in order to better understand and predict dynamics of benthic processes. ERSEM includes explicit parameterisations of several groups of benthic biota, which makes it particularly applicable for studies of benthic biodiversity, biological interactions within sediments and benthic-pelagic coupling. To assess model skill in reproducing temporal (inter-annual and seasonal) dynamics of major benthic macrofaunal groups, 1D model simulation results were compared with data from the Western Channel Observatory (WCO) benthic survey. The benthic model was forced with organic matter deposition rates inferred from observed phytoplankton abundance and model parameters were subsequently recalibrated. Based on model results and WCO data comparison, deposit-feeders exert clear seasonal variability, while for suspension-feeders inter-annual variability is more pronounced. Spatial distribution of benthic fauna was investigated using results of a full-scale NEMO-ERSEM hindcast simulation of the North-West European Shelf Seas area, covering the period of 1981-2014. Results suggest close relationship between spatial distribution of biomass of benthic faunal functional groups in relation to bathymetry, hydrodynamic conditions and organic matter supply. Our work highlights that it is feasible to construct, implement and validate models that explicitly include functional groups of benthic macrofauna. Moreover, the modelling approach delivers detailed information on benthic biogeochemistry and food-web at spatial and temporal scales that are unavailable through other sources but highly relevant to marine management, planning and policy.

Dense water formation in the north-western Mediterranean area during HyMeX-SOP2 in 1/36° ocean simulations: Ocean-atmosphere coupling impact

NASA Astrophysics Data System (ADS)

Lebeaupin Brossier, Cindy; Léger, Fabien; Giordani, Hervé; Beuvier, Jonathan; Bouin, Marie-Noëlle; Ducrocq, Véronique; Fourrié, Nadia

2017-07-01

The north-western Mediterranean Sea is a key location for the thermohaline circulation of the basin. The area is characterized by intense air-sea exchanges favored by the succession of strong northerly and north-westerly wind situations (mistral and tramontane) in autumn and winter. Such meteorological conditions lead to significant evaporation and ocean heat loss that are well known as the main triggering factor for the Dense Water Formation (DWF) and winter deep convection episodes. During the HyMeX second field campaign (SOP2, 1 February to 15 March 2013), several platforms were deployed in the area in order to document the DWF and the ocean deep convection, as the air-sea interface conditions. This study investigates the role of the ocean-atmosphere coupling on DWF during winter 2012-2013. The coupled system, based on the NEMO-WMED36 ocean model (1/36° resolution) and the AROME-WMED atmospheric model (2.5 km resolution), was run during 2 months covering the SOP2 and is compared to an ocean-only simulation forced by AROME-WMED real-time forecasts and to observations collected in the north-western Mediterranean area during the HyMeX SOP2. The comparison shows small differences in terms of net heat, water, and momentum fluxes. On average, DWF is slightly sensitive to air-sea coupling. However, fine-scale ocean processes, such as shelf DWF and export or eddies and fronts at the rim of the convective patch, are significantly modified. The wind-current interactions constitute an efficient coupled process at fine scale, acting as a turbulence propagating vectors, producing large mixing and convection at the rim of the convective patch.

Evaluating the Impact of Changes in Oceanic Dissolved Oxygen on Marine Nitrous Oxide

NASA Astrophysics Data System (ADS)

Suntharalingam, Parvadha; Buitenhuis, Erik; Schmidtko, Sunke; Andrews, Oliver; LeQuere, Corinne

2013-04-01

Emissions of the greenhouse gas nitrous-oxide (N2O) from oceanic oxygen minimum zones (OMZs) in the Equatorial Pacific and Northwest Indian Ocean are believed to provide a significant portion of the global oceanic flux to the atmosphere. Mechanisms of marine N2O production and consumption in these regions display significant sensitivity to ambient oxygen, with high yields at low oxygen levels (O2 < 50 micromol/L), and N2O depletion via denitrification in anoxic zones. These OMZ regions display large gradients in sub-surface N2O, and high rates of N2O turnover that far exceed those observed in the open ocean. Recent studies have suggested that possible expansion of oceanic OMZs in a warming climate, could lead to significant changes in N2O emissions from these zones. In this analysis we employ a global ocean biogeochemistry model (NEMO-PlankTOM), which includes representation of the marine N2O cycle, to explore the impact of changes in dissolved oxygen on the ocean-atmosphere N2O flux. We focus on the period 1960-2000, and evaluate the impact of estimated changes in ocean oxygen from two alternative sources : (a) the observationally-based upper-ocean oxygen distributions and trends of Stramma et al. [2012]; (b) simulated oxygen distributions and temporal variations from a set of CMIP5 Earth System models. We will inter-compare the oceanic N2O estimates derived from these alternative scenarios of ocean de-oxygenation. We will also discuss the implications of our results for the ability to reliably predict changes in N2O emissions under potential expansion of oceanic OMZs, particularly in view of the recently noted discrepancies between observed and modeled trends in oceanic oxygen by Stramma et al. [2012].

Emotional arousal enhances word repetition priming

PubMed Central

Thomas, Laura A.; LaBar, Kevin S.

2012-01-01

Three experiments were conducted to determine if emotional content increases repetition priming magnitude. In the study phase of Experiment 1, participants rated high-arousing negative (taboo) words and neutral words for concreteness. In the test phase, they made lexical decision judgements for the studied words intermixed with novel words (half taboo, half neutral) and pseudowords. In Experiment 2, low-arousing negative (LAN) words were substituted for the taboo words, and in Experiment 3 all three word types were used. Results showed significant priming in all experiments, as indicated by faster reaction times for studied words than for novel words. A priming × emotion interaction was found in Experiments 1 and 3, with greater priming for taboo relative to neutral words. The LAN words in Experiments 2 and 3 showed no difference in priming magnitude relative to the other word types. These results show selective enhancement of word repetition priming by emotional arousal. PMID:26321783

Performance and quality assessment of the global ocean eddy-permitting physical reanalysis GLORYS2V4.

NASA Astrophysics Data System (ADS)

Garric, Gilles; Parent, Laurent; Greiner, Eric; Drévillon, Marie; Hamon, Mathieu; Lellouche, Jean-Michel; Régnier, Charly; Desportes, Charles; Le Galloudec, Olivier; Bricaud, Clement; Drillet, Yann; Hernandez, Fabrice; Le Traon, Pierre-Yves

2017-04-01

The purpose of this presentation is to give an overview of the recent upgrade of GLORYS2 (version 4 and GLORYS2V4 hereafter), the latest ocean reanalysis produced at Mercator Ocean that covers the altimetry era (1993-2015) in the framework of Copernicus Marine Environment Monitoring Service (CMEMS; http://marine.copernicus.eu/). The reanalysis is run at eddy-permitting resolution (¼° horizontal resolution and 75 vertical levels) with the NEMO model and driven at the surface by ERA-Interim reanalysis from ECMWF (European Centre for Medium-Range Weather Forecasts). The reanalysis system uses a multi-data and multivariate reduced order Kalman filter based on the singular extended evolutive Kalman (SEEK) filter formulation together with a 3D-VAR large scale bias correction. The assimilated observations are along-track satellite altimetry, sea surface temperature, sea ice concentration and in-situ profiles of temperature and salinity. With respect to the previous version (GLORYS2V3), GLORYS2V4 contains a number of improvements. In particular: a) new initial temperature and salinity conditions derived from EN4 data base with a better mass equilibrium with altimetry, b) the use of the updated delayed mode CORA in situ observations from CMEMS, c) a new hybrid Mean Dynamical Topography (MDT) for the assimilation scheme referenced over the 1993-2013 period, d) a better observation operator for altimetry observations for the data assimilation scheme: e) A correction of large scale ERA-Interim atmospheric surface (precipitations and radiative) fluxes as in GLORYS2V3 but towards new satellite data set f) an update of the climatological runoff data base by using the latest version of Dai's 2009 data set for the global ocean together with better account of freshwater fluxes from polar ice sheet's glaciers. The presentation will show that the new reanalysis outperforms the previous version in many aspects such as biases and root mean squared error and, especially in representing the variability of global heat and salt content and associated steric sea level in the last two decades. The dataset is available in NetCDF format and GLORYS2V4 best analysis products are distributed onto the CMEMS data portal.

HTLV-1 Tax Stimulates Ubiquitin E3 Ligase, Ring Finger Protein 8, to Assemble Lysine 63-Linked Polyubiquitin Chains for TAK1 and IKK Activation.

PubMed

Ho, Yik-Khuan; Zhi, Huijun; Bowlin, Tara; Dorjbal, Batsukh; Philip, Subha; Zahoor, Muhammad Atif; Shih, Hsiu-Ming; Semmes, Oliver John; Schaefer, Brian; Glover, J N Mark; Giam, Chou-Zen

2015-08-01

Human T lymphotropic virus type 1 (HTLV-1) trans-activator/oncoprotein, Tax, impacts a multitude of cellular processes, including I-κB kinase (IKK)/NF-κB signaling, DNA damage repair, and mitosis. These activities of Tax have been implicated in the development of adult T-cell leukemia (ATL) in HTLV-1-infected individuals, but the underlying mechanisms remain obscure. IKK and its upstream kinase, TGFβ-activated kinase 1 (TAK1), contain ubiquitin-binding subunits, NEMO and TAB2/3 respectively, which interact with K63-linked polyubiquitin (K63-pUb) chains. Recruitment to K63-pUb allows cross auto-phosphorylation and activation of TAK1 to occur, followed by TAK1-catalyzed IKK phosphorylation and activation. Using cytosolic extracts of HeLa and Jurkat T cells supplemented with purified proteins we have identified ubiquitin E3 ligase, ring finger protein 8 (RNF8), and E2 conjugating enzymes, Ubc13:Uev1A and Ubc13:Uev2, to be the cellular factors utilized by Tax for TAK1 and IKK activation. In vitro, the combination of Tax and RNF8 greatly stimulated TAK1, IKK, IκBα and JNK phosphorylation. In vivo, RNF8 over-expression augmented while RNF8 ablation drastically reduced canonical NF-κB activation by Tax. Activation of the non-canonical NF-κB pathway by Tax, however, is unaffected by the loss of RNF8. Using purified components, we further demonstrated biochemically that Tax greatly stimulated RNF8 and Ubc13:Uev1A/Uev2 to assemble long K63-pUb chains. Finally, co-transfection of Tax with increasing amounts of RNF8 greatly induced K63-pUb assembly in a dose-dependent manner. Thus, Tax targets RNF8 and Ubc13:Uev1A/Uev2 to promote the assembly of K63-pUb chains, which signal the activation of TAK1 and multiple downstream kinases including IKK and JNK. Because of the roles RNF8 and K63-pUb chains play in DNA damage repair and cytokinesis, this mechanism may also explain the genomic instability of HTLV-1-transformed T cells and ATL cells.

HTLV-1 Tax Stimulates Ubiquitin E3 Ligase, Ring Finger Protein 8, to Assemble Lysine 63-Linked Polyubiquitin Chains for TAK1 and IKK Activation

PubMed Central

Ho, Yik-Khuan; Zhi, Huijun; Bowlin, Tara; Dorjbal, Batsukh; Philip, Subha; Zahoor, Muhammad Atif; Shih, Hsiu-Ming; Semmes, Oliver John; Schaefer, Brian; Glover, J. N. Mark; Giam, Chou-Zen

2015-01-01

Human T lymphotropic virus type 1 (HTLV-1) trans-activator/oncoprotein, Tax, impacts a multitude of cellular processes, including I-κB kinase (IKK)/NF-κB signaling, DNA damage repair, and mitosis. These activities of Tax have been implicated in the development of adult T-cell leukemia (ATL) in HTLV-1-infected individuals, but the underlying mechanisms remain obscure. IKK and its upstream kinase, TGFβ-activated kinase 1 (TAK1), contain ubiquitin-binding subunits, NEMO and TAB2/3 respectively, which interact with K63-linked polyubiquitin (K63-pUb) chains. Recruitment to K63-pUb allows cross auto-phosphorylation and activation of TAK1 to occur, followed by TAK1-catalyzed IKK phosphorylation and activation. Using cytosolic extracts of HeLa and Jurkat T cells supplemented with purified proteins we have identified ubiquitin E3 ligase, ring finger protein 8 (RNF8), and E2 conjugating enzymes, Ubc13:Uev1A and Ubc13:Uev2, to be the cellular factors utilized by Tax for TAK1 and IKK activation. In vitro, the combination of Tax and RNF8 greatly stimulated TAK1, IKK, IκBα and JNK phosphorylation. In vivo, RNF8 over-expression augmented while RNF8 ablation drastically reduced canonical NF-κB activation by Tax. Activation of the non-canonical NF-κB pathway by Tax, however, is unaffected by the loss of RNF8. Using purified components, we further demonstrated biochemically that Tax greatly stimulated RNF8 and Ubc13:Uev1A/Uev2 to assemble long K63-pUb chains. Finally, co-transfection of Tax with increasing amounts of RNF8 greatly induced K63-pUb assembly in a dose-dependent manner. Thus, Tax targets RNF8 and Ubc13:Uev1A/Uev2 to promote the assembly of K63-pUb chains, which signal the activation of TAK1 and multiple downstream kinases including IKK and JNK. Because of the roles RNF8 and K63-pUb chains play in DNA damage repair and cytokinesis, this mechanism may also explain the genomic instability of HTLV-1-transformed T cells and ATL cells. PMID:26285145

The role of hybrid ubiquitin chains in the MyD88 and other innate immune signalling pathways.

PubMed

Cohen, Philip; Strickson, Sam

2017-07-01

The adaptor protein MyD88 is required for signal transmission by toll-like receptors and receptors of the interleukin-1 family of cytokines. MyD88 signalling triggers the formation of Lys63-linked and Met1-linked ubiquitin (K63-Ub, M1-Ub) chains within minutes. The K63-Ub chains, which are formed by the E3 ubiquitin ligases TRAF6, Pellino1 and Pellino2, activate TAK1, the master kinase that switches on mitogen-activated protein (MAP) kinase cascades and initiates activation of the canonical IκB kinase (IKK) complex. The M1-Ub chains, which are formed by the linear ubiquitin chain assembly complex (LUBAC), bind to the NEMO (NF-κB essential modulator) component of the IKK complex and are required for TAK1 to activate IKKs, but not MAP kinases. An essential E3 ligase-independent role of TRAF6 is to recruit LUBAC into the MyD88 signalling complex, where it recognises preformed K63-Ub chains attached to protein components of these complexes, such as IRAK1 (IL-1 receptor-associated kinase), producing ubiquitin chains containing both types of linkage, termed K63/M1-Ub hybrids. The formation of K63/M1-Ub hybrids, which is a feature of several innate immune signalling pathways, permits the co-recruitment of proteins that interact with either K63-Ub or M1-Ub chains. Two likely roles for K63/M1-Ub hybrids are to facilitate the TAK1-dependent activation of the IKK complex and to prevent the hyperactivation of these kinases by recruiting A20 and A20-binding inhibitor of NF-κB1 (ABIN1). These proteins restrict activation of the TAK1 and IKK complexes, probably by competing with them for binding to K63/M1-Ub hybrids. The formation of K63/M1-Ub hybrids may also regulate the rate at which the ubiquitin linkages in these chains are hydrolysed. The IKK-catalysed phosphorylation of some of its substrates permits their recognition by the E3 ligase SCF βTRCP , leading to their Lys48-linked ubiquitylation and proteasomal degradation. Innate immune signalling is therefore controlled by the formation and destruction of three different types of ubiquitin linkage.

The role of hybrid ubiquitin chains in the MyD88 and other innate immune signalling pathways

PubMed Central

Cohen, Philip; Strickson, Sam

2017-01-01

The adaptor protein MyD88 is required for signal transmission by toll-like receptors and receptors of the interleukin-1 family of cytokines. MyD88 signalling triggers the formation of Lys63-linked and Met1-linked ubiquitin (K63-Ub, M1-Ub) chains within minutes. The K63-Ub chains, which are formed by the E3 ubiquitin ligases TRAF6, Pellino1 and Pellino2, activate TAK1, the master kinase that switches on mitogen-activated protein (MAP) kinase cascades and initiates activation of the canonical IκB kinase (IKK) complex. The M1-Ub chains, which are formed by the linear ubiquitin chain assembly complex (LUBAC), bind to the NEMO (NF-κB essential modulator) component of the IKK complex and are required for TAK1 to activate IKKs, but not MAP kinases. An essential E3 ligase-independent role of TRAF6 is to recruit LUBAC into the MyD88 signalling complex, where it recognises preformed K63-Ub chains attached to protein components of these complexes, such as IRAK1 (IL-1 receptor-associated kinase), producing ubiquitin chains containing both types of linkage, termed K63/M1-Ub hybrids. The formation of K63/M1-Ub hybrids, which is a feature of several innate immune signalling pathways, permits the co-recruitment of proteins that interact with either K63-Ub or M1-Ub chains. Two likely roles for K63/M1-Ub hybrids are to facilitate the TAK1-dependent activation of the IKK complex and to prevent the hyperactivation of these kinases by recruiting A20 and A20-binding inhibitor of NF-κB1 (ABIN1). These proteins restrict activation of the TAK1 and IKK complexes, probably by competing with them for binding to K63/M1-Ub hybrids. The formation of K63/M1-Ub hybrids may also regulate the rate at which the ubiquitin linkages in these chains are hydrolysed. The IKK-catalysed phosphorylation of some of its substrates permits their recognition by the E3 ligase SCFβTRCP, leading to their Lys48-linked ubiquitylation and proteasomal degradation. Innate immune signalling is therefore controlled by the formation and destruction of three different types of ubiquitin linkage. PMID:28475177

Projections of oceanic N2O emissions in the 21st century using the IPSL Earth system model

NASA Astrophysics Data System (ADS)

Martinez-Rey, J.; Bopp, L.; Gehlen, M.; Tagliabue, A.; Gruber, N.

2015-07-01

The ocean is a substantial source of nitrous oxide (N2O) to the atmosphere, but little is known about how this flux might change in the future. Here, we investigate the potential evolution of marine N2O emissions in the 21st century in response to anthropogenic climate change using the global ocean biogeochemical model NEMO-PISCES. Assuming nitrification as the dominant N2O formation pathway, we implemented two different parameterizations of N2O production which differ primarily under low-oxygen (O2) conditions. When forced with output from a climate model simulation run under the business-as-usual high-CO2 concentration scenario (RCP8.5), our simulations suggest a decrease of 4 to 12 % in N2O emissions from 2005 to 2100, i.e., a reduction from 4.03/3.71 to 3.54/3.56 TgN yr-1 depending on the parameterization. The emissions decrease strongly in the western basins of the Pacific and Atlantic oceans, while they tend to increase above the oxygen minimum zones (OMZs), i.e., in the eastern tropical Pacific and in the northern Indian Ocean. The reduction in N2O emissions is caused on the one hand by weakened nitrification as a consequence of reduced primary and export production, and on the other hand by stronger vertical stratification, which reduces the transport of N2O from the ocean interior to the ocean surface. The higher emissions over the OMZ are linked to an expansion of these zones under global warming, which leads to increased N2O production, associated primarily with denitrification. While there are many uncertainties in the relative contribution and changes in the N2O production pathways, the increasing storage seems unequivocal and determines largely the decrease in N2O emissions in the future. From the perspective of a global climate system, the averaged feedback strength associated with the projected decrease in oceanic N2O emissions amounts to around -0.009 W m-2 K-1, which is comparable to the potential increase from terrestrial N2O sources. However, the assessment for a potential balance between the terrestrial and marine feedbacks calls for an improved representation of N2O production terms in fully coupled next-generation Earth system models.

Rainfall as a trigger for stratification and winter phytoplankton growth in temperate shelf seas

NASA Astrophysics Data System (ADS)

Jardine, Jenny; Palmer, Matthew; Mahaffey, Claire; Holt, Jason; Mellor, Adam; Wakelin, Sarah

2017-04-01

We present new data from ocean gliders to investigate physical controls on stratification and phytoplankton dynamics, collected in the Celtic Sea between November 2014 and August 2015 as part of the UK Shelf Sea Biogeochemistry programme. This presentation focuses on the winter period (Jan-March) when the diurnal heating cycle results in regular but weak near surface stratification followed by night-time convection. Despite low light conditions, this daily cycle often promotes a daytime increase in observed chlorophyll fluorescence, indicative of phytoplankton growth. This daily cycle is occasionally interrupted when buoyancy inputs are sufficient to outcompete night-time convection and result in short-term periods of sustained winter stratification, typically lasting 2-3 days. Sustained stratification often coincides with periods of heavy rainfall, suggesting freshwater input from precipitation may play a role on these events by producing a subtle yet significant freshening of the surface layer of the order of 0.005 PSU. Comparing rainfall estimates with observed salinity changes confirms rainfall to often be the initiator of these winter stratification periods. As winter winds subside and solar heating increases towards spring, the water column becomes more susceptible to periods of halo-stratification, such that heavy rainfall during the winter-spring transition is likely to promote sustained stratification. The timing and extent of a heavy rainfall event in March 2015 does suggest it may be the critical trigger for shelf-wide stratification that eventually instigates the spring bloom. We propose that the timing of these downpours relative to the daily heating cycle can be a triggering mechanism for both short term and seasonal stratification in shelf seas, and so play a critical role in winter and early spring phytoplankton growth and the shelf sea carbon cycle. We further test the importance of this process using historical data, and results from the NEMO-AMM7 model to test how rainfall events have affected previous winter and spring conditions.

Recent assimilation developments of FOAM the Met Office ocean forecast system

NASA Astrophysics Data System (ADS)

Lea, Daniel; Martin, Matthew; Waters, Jennifer; Mirouze, Isabelle; While, James; King, Robert

2015-04-01

FOAM is the Met Office's operational ocean forecasting system. This system comprises a range of models from a 1/4 degree resolution global to 1/12 degree resolution regional models and shelf seas models at 7 km resolution. The system is made up of the ocean model NEMO (Nucleus for European Modeling of the Ocean), the Los Alomos sea ice model CICE and the NEMOVAR assimilation run in 3D-VAR FGAT mode. Work is ongoing to transition to both a higher resolution global ocean model at 1/12 degrees and to run FOAM in coupled models. The FOAM system generally performs well. One area of concern however is the performance in the tropics where spurious oscillations and excessive vertical velocity gradients are found after assimilation. NEMOVAR includes a balance operator which in the extra-tropics uses geostrophic balance to produce velocity increments which balance the density increments applied. In the tropics, however, the main balance is between the pressure gradients produced by the density gradient and the applied wind stress. A scheme is presented which aims to maintain this balance when increments are applied. Another issue in FOAM is that there are sometimes persistent temperature and salinity errors which are not effectively corrected by the assimilation. The standard NEMOVAR has a single correlation length scale based on the local Rossby radius. This means that observations in the extra tropics have influence on the model only on short length-scales. In order to maximise the information extracted from the observations and to correct large scale model biases a multiple correlation length-scale scheme has been developed. This includes a larger length scale which spreads observation information further. Various refinements of the scheme are also explored including reducing the longer length scale component at the edge of the sea ice and in areas with high potential vorticity gradients. A related scheme which varies the correlation length scale in the shelf seas is also described.

High Energy Density Plasmas (HEDP) for studies of basic nuclear science relevant to Stellar and Big Bang Nucleosynthesis

NASA Astrophysics Data System (ADS)

Frenje, Johan

2014-06-01

Thermonuclear reaction rates and nuclear processes have been explored traditionally by means of conventional accelerator experiments, which are difficult to execute at conditions relevant to stellar nucleosynthesis. Thus, nuclear reactions at stellar energies are often studied through extrapolations from higher-energy data or in low-background underground experiments. Even when measurements are possible using accelerators at relevant energies, thermonuclear reaction rates in stars are inherently different from those in accelerator experiments. The fusing nuclei are surrounded by bound electrons in accelerator experiments, whereas electrons occupy mainly continuum states in a stellar environment. Nuclear astrophysics research will therefore benefit from an enlarged toolkit for studies of nuclear reactions. In this presentation, we report on the first use of High Energy Density Plasmas for studies of nuclear reactions relevant to basic nuclear science, stellar and Big Bang nucleosynthesis. These experiments were carried out at the OMEGA laser facility at University of Rochester and the National Ignition Facility (NIF) at Lawrence Livermore National Laboratory, in which spherical capsules were irradiated with powerful lasers to compress and heat the fuel to high enough temperatures and densities for nuclear reactions to occur. Four experiments will be highlighted in this presentation. In the first experiment, the differential cross section for the elastic neutron-triton (n-T) scattering at 14.1 MeV was measured with significantly higher accuracy than achieved in accelerator experiments. In the second experiment, the T(t,2n)4He reaction, a mirror reaction to the 3He(3He,2p)4He reaction that plays an important role in the proton-proton chain that transforms hydrogen into ordinary 4He in stars like our Sun, was studied at energies in the range 15-40 keV. In the third experiment, the 3He+3He solar fusion reaction was studied directly, and in the fourth experiment, we probed the T+3He reaction, possibly relevant to Big Bang nucleosynthesis.

The Solomon Sea eddy activity from a 1/36° regional model

NASA Astrophysics Data System (ADS)

Djath, Bughsin; Babonneix, Antoine; Gourdeau, Lionel; Marin, Frédéric; Verron, Jacques

2013-04-01

In the South West Pacific, the Solomon Sea exhibits the highest levels of eddy kinetic energy but relatively little is known about the eddy activity in this region. This Sea is directly influenced by a monsoonal regime and ENSO variability, and occupies a strategical location as the Western Boundary Currents exiting it are known to feed the warm pool and to be the principal sources of the Equatorial UnderCurrent. During their transit in the Solomon Sea, meso-scale eddies are suspected to notably interact and influence these water masses. The goal of this study is to give an exhaustive description of this eddy activity. A dual approach, based both on altimetric data and high resolution modeling, has then been chosen for this purpose. First, an algorithm is applied on nearly 20 years of 1/3° x 1/3° gridded SLA maps (provided by the AVISO project). This allows eddies to be automatically detected and tracked, thus providing some basic eddy properties. The preliminary results show that two main and distinct types of eddies are detected. Eddies in the north-eastern part shows a variability associated with the mean structure, while those in the southern part are associated with generation/propagation processes. However, the resolution of the AVISO dataset is not very well suited to observe fine structures and to match with the numerous islands bordering the Solomon Sea. For this reason, we will confront these observations with the outputs of a 1/36° resolution realistic model of the Solomon Sea. The high resolution numerical model (1/36°) indeed permits to reproduce very fine scale features, such as eddies and filaments. The model is two-way embedded in a 1/12° regional model which is itself one-way embedded in the DRAKKAR 1/12° global model. The NEMO code is used as well as the AGRIF software for model nestings. Validation is realized by comparison with AVISO observations and available in situ data. In preparing the future wide-swath altimetric SWOT mission that is expected to provide observations of small-scale sea level variability, spectral analysis is performed from the 1/36° resolution realistic model in order to characterize the finer scale signals in the Solomon sea region. The preliminary SSH spectral analysis shows a k-4 slope, in good agreement with the suface quasigeostrophic (SQG) turbulence theory. Keywords: Solomon Sea; meso-scale activity; eddy detection, tracking and properties; wavenumber spectrum.

The Influenza A Virus Genotype Determines the Antiviral Function of NF-κB.

PubMed

Dam, Sharmistha; Kracht, Michael; Pleschka, Stephan; Schmitz, M Lienhard

2016-09-01

The role of NF-κB in influenza A virus (IAV) infection does not reveal a coherent picture, as pro- and also antiviral functions of this transcription factor have been described. To address this issue, we used clustered regularly interspaced short palindromic repeat with Cas9 (CRISPR-Cas9)-mediated genome engineering to generate murine MLE-15 cells lacking two essential components of the NF-κB pathway. Cells devoid of either the central NF-κB essential modulator (NEMO) scaffold protein and thus defective in IκB kinase (IKK) activation or cells not expressing the NF-κB DNA-binding and transactivation subunit p65 were tested for propagation of the SC35 virus, which has an avian host range, and its mouse-adapted variant, SC35M. While NF-κB was not relevant for replication of SC35M, the absence of NF-κB activity increased replication of the nonadapted SC35 virus. This antiviral effect of NF-κB was most prominent upon infection of cells with low virus titers as they usually occur during the initiation phase of IAV infection. The defect in NF-κB signaling resulted in diminished IAV-triggered phosphorylation of interferon regulatory factor 3 (IRF3) and expression of the antiviral beta interferon (IFN-β) gene. To identify the viral proteins responsible for NF-κB dependency, reassortant viruses were generated by reverse genetics. SC35 viruses containing the SC35M segment encoding neuraminidase (NA) were completely inert to the inhibitory effect of NF-κB, emphasizing the importance of the viral genotype for susceptibility to the antiviral functions of NF-κB. This study addresses two different issues. First, we investigated the role of the host cell transcription factor NF-κB in IAV replication by genetic manipulation of IAVs by reverse genetics combined with targeted genome engineering of host cells using CRISPR-Cas9. The analysis of these two highly defined genetic systems indicated that the IAV genotype can influence whether NF-κB displays an antiviral function and thus might in part explain incoherent results from the literature. Second, we found that perturbation of NF-κB function greatly improved the growth of a nonadapted IAV, suggesting that NF-κB may contribute to the maintenance of the host species barrier. Copyright © 2016, American Society for Microbiology. All Rights Reserved.

Tests of oceanic stochastic parameterisation in a seasonal forecast system.

NASA Astrophysics Data System (ADS)

Cooper, Fenwick; Andrejczuk, Miroslaw; Juricke, Stephan; Zanna, Laure; Palmer, Tim

2015-04-01

Over seasonal time scales, our aim is to compare the relative impact of ocean initial condition and model uncertainty, upon the ocean forecast skill and reliability. Over seasonal timescales we compare four oceanic stochastic parameterisation schemes applied in a 1x1 degree ocean model (NEMO) with a fully coupled T159 atmosphere (ECMWF IFS). The relative impacts upon the ocean of the resulting eddy induced activity, wind forcing and typical initial condition perturbations are quantified. Following the historical success of stochastic parameterisation in the atmosphere, two of the parameterisations tested were multiplicitave in nature: A stochastic variation of the Gent-McWilliams scheme and a stochastic diffusion scheme. We also consider a surface flux parameterisation (similar to that introduced by Williams, 2012), and stochastic perturbation of the equation of state (similar to that introduced by Brankart, 2013). The amplitude of the stochastic term in the Williams (2012) scheme was set to the physically reasonable amplitude considered in that paper. The amplitude of the stochastic term in each of the other schemes was increased to the limits of model stability. As expected, variability was increased. Up to 1 month after initialisation, ensemble spread induced by stochastic parameterisation is greater than that induced by the atmosphere, whilst being smaller than the initial condition perturbations currently used at ECMWF. After 1 month, the wind forcing becomes the dominant source of model ocean variability, even at depth.

CMIP5-downscaled projections for the NW European Shelf Seas: initial results and insights into uncertainties

NASA Astrophysics Data System (ADS)

Tinker, Jonathan; Palmer, Matthew; Lowe, Jason; Howard, Tom

2017-04-01

The North Sea, and wider Northwest European Shelf seas (NWS) are economically, environmentally, and culturally important for a number of European countries. They are protected by European legislation, often with specific reference to the potential impacts of climate change. Coastal climate change projections are an important source of information for effective management of European Shelf Seas. For example, potential changes in the marine environment are a key component of the climate change risk assessments (CCRAs) carried out under the UK Climate Change Act We use the NEMO shelf seas model combined with CMIP5 climate model and EURO-CORDEX regional atmospheric model data to generate new simulations of the NWS. Building on previous work using a climate model perturbed physics ensemble and the POLCOMS, this new model setup is used to provide first indication of the uncertainties associated with: (i) the driving climate model; (ii) the atmospheric downscaling model (iii) the shelf seas downscaling model; (iv) the choice of climate change scenario. Our analysis considers a range of physical marine impacts and the drivers of coastal variability and change, including sea level and the propagation of open ocean signals onto the shelf. The simulations are being carried out as part of the UK Climate Projections 2018 (UKCP18) and will feed into the following UK CCRA.

Improving the simulation of landfast ice by combining tensile strength and a parameterization for grounded ridges

NASA Astrophysics Data System (ADS)

Lemieux, Jean-François; Dupont, Frédéric; Blain, Philippe; Roy, François; Smith, Gregory C.; Flato, Gregory M.

2016-10-01

In some coastal regions of the Arctic Ocean, grounded ice ridges contribute to stabilizing and maintaining a landfast ice cover. Recently, a grounding scheme representing this effect on sea ice dynamics was introduced and tested in a viscous-plastic sea ice model. This grounding scheme, based on a basal stress parameterization, improves the simulation of landfast ice in many regions such as in the East Siberian Sea, the Laptev Sea, and along the coast of Alaska. Nevertheless, in some regions like the Kara Sea, the area of landfast ice is systematically underestimated. This indicates that another mechanism such as ice arching is at play for maintaining the ice cover fast. To address this problem, the combination of the basal stress parameterization and tensile strength is investigated using a 0.25° Pan-Arctic CICE-NEMO configuration. Both uniaxial and isotropic tensile strengths notably improve the simulation of landfast ice in the Kara Sea but also in the Laptev Sea. However, the simulated landfast ice season for the Kara Sea is too short compared to observations. This is especially obvious for the onset of the landfast ice season which systematically occurs later in the model and with a slower build up. This suggests that improvements to the sea ice thermodynamics could reduce these discrepancies with the data.

Scientific advances of the MyOcean projects underpinning the transition towards the Marine Copernicus service

NASA Astrophysics Data System (ADS)

Brasseur, Pierre

2015-04-01

The MyOcean projects supported by the European Commission period have been developed during the 2008-2015 period to build an operational service of ocean physical state and ecosystem information to intermediate and downstream users in the areas of marine safety, marine resources, marine and coastal environment and weather, climate and seasonal forecasting. The "core" information provided to users is obtained through the combination of satellite and in situ observations, eddy-resolving modelling of the global ocean and regional european seas, biochemistry, ecosystem and sea-ice modelling, and data assimilation for global to basin scale circulation. A comprehensive R&D plan was established in 2010 to ensure the collection and provision of information of best possible quality for daily estimates of the ocean state (real-time), its short-term evolution, and its history over the past (reanalyses). A service validation methodology was further developed to ensure proper scientific evaluation and routine monitoring of the accuracy of MyOcean products. In this presentation, we will present an overview of the main scientific advances achieved in MyOcean using the NEMO modelling platform, ensemble-based assimilation schemes, coupled circulation-ecosystem, sea-ice assimilative models and probabilistic methodologies for ensemble validation. We will further highlight the key areas that will require additional innovation effort to support the Marine Copernicus service evolution.

Accurate Modelling of Surface Currents and Internal Tides in a Semi-enclosed Coastal Sea

NASA Astrophysics Data System (ADS)

Allen, S. E.; Soontiens, N. K.; Dunn, M. B. H.; Liu, J.; Olson, E.; Halverson, M. J.; Pawlowicz, R.

2016-02-01

The Strait of Georgia is a deep (400 m), strongly stratified, semi-enclosed coastal sea on the west coast of North America. We have configured a baroclinic model of the Strait of Georgia and surrounding coastal waters using the NEMO ocean community model. We run daily nowcasts and forecasts and publish our sea-surface results (including storm surge warnings) to the web (salishsea.eos.ubc.ca/storm-surge). Tides in the Strait of Georgia are mixed and large. The baroclinic model and previous barotropic models accurately represent tidal sea-level variations and depth mean currents. The baroclinic model reproduces accurately the diurnal but not the semi-diurnal baroclinic tidal currents. In the Southern Strait of Georgia, strong internal tidal currents at the semi-diurnal frequency are observed. Strong semi-diurnal tides are also produced in the model, but are almost 180 degrees out of phase with the observations. In the model, in the surface, the barotropic and baroclinic tides reinforce, whereas the observations show that at the surface the baroclinic tides oppose the barotropic. As such the surface currents are very poorly modelled. Here we will present evidence of the internal tidal field from observations. We will discuss the generation regions of the tides, the necessary modifications to the model required to correct the phase, the resulting baroclinic tides and the improvements in the surface currents.

Subjective evaluation of mobile 3D video content: depth range versus compression artifacts

NASA Astrophysics Data System (ADS)

Jumisko-Pyykkö, Satu; Haustola, Tomi; Boev, Atanas; Gotchev, Atanas

2011-02-01

Mobile 3D television is a new form of media experience, which combines the freedom of mobility with the greater realism of presenting visual scenes in 3D. Achieving this combination is a challenging task as greater viewing experience has to be achieved with the limited resources of the mobile delivery channel such as limited bandwidth and power constrained handheld player. This challenge sets need for tight optimization of the overall mobile 3DTV system. Presence of depth and compression artifacts in the played 3D video are two major factors that influence viewer's subjective quality of experience and satisfaction. The primary goal of this study has been to examine the influence of varying depth and compression artifacts on the subjective quality of experience for mobile 3D video content. In addition, the influence of the studied variables on simulator sickness symptoms has been studied and vocabulary-based descriptive quality of experience has been conducted for a sub-set of variables in order to understand the perceptual characteristics in detail. In the experiment, 30 participants have evaluated the overall quality of different 3D video contents with varying depth ranges and compressed with varying quantization parameters. The test video content has been presented on a portable autostereoscopic LCD display with horizontal double density pixel arrangement. The results of the psychometric study indicate that compression artifacts are a dominant factor determining the quality of experience compared to varying depth range. More specifically, contents with strong compression has been rejected by the viewers and deemed unacceptable. The results of descriptive study confirm the dominance of visible spatial artifacts along the added value of depth for artifact-free content. The level of visual discomfort has been determined as not offending.

Rats' Visual-Spatial Working Memory: New Object Choice Accuracy as a Function of Number of Objects in the Study Array

ERIC Educational Resources Information Center

Cohen, Jerome; Han, Xue; Matei, Anca; Parameswaran, Varakini; Zuniga, Robert; Hlynka, Myron

2010-01-01

When rats had to find new (jackpot) objects for rewards from among previously sampled baited objects, increasing the number of objects in the sample (study) segment of a trial from 3 to 5 and then to 7 (Experiment 1) or from 3 to 6 and 9 (Experiments 2 and 3) or from 6 to 9 and 12 (Experiment 4) did not reduce rats' test segment performance.…

Developing the Cyber Victimization Experiences and Cyberbullying Behaviors Scales.

PubMed

Betts, Lucy R; Spenser, Karin A

2017-01-01

The reported prevalence rates of cyber victimization experiences and cyberbullying behaviors vary. Part of this variation is likely due to the diverse definitions and operationalizations of the constructs adopted in previous research and the lack of psychometrically robust measures. Through 2 studies, the authors developed (Study 1) and evaluated (Study 2) the cyber victimization experiences and cyberbullying behaviors scales. Participants in Study 1 were 393 (122 boys, 171 girls) and in Study 2 were 345 (153 boys, 192 girls) 11-15-year-olds who completed measures of cyber victimization experiences, cyberbullying behaviors, face-to-face victimization experiences, face-to-face bullying behaviors, and social desirability. The 3-factor cyber victimization experiences scale comprised threat, shared images, and personal attack. The 3-factor cyberbullying behaviors scale comprised sharing images, gossip, and personal attack. Both scales demonstrated acceptable internal consistency and convergent validity.

Cross-cultural evidence for the two-facet structure of pride.

PubMed

Shi, Yan; Chung, Joanne M; Cheng, Joey T; Tracy, Jessica L; Robins, Richard W; Chen, Xiao; Zheng, Yong

2015-04-01

Across six studies conducted in Mainland China and South Korea, the present research extended prior findings showing that pride is comprised of two distinct conceptual and experiential facets in the U.S.: a pro-social, achievement-oriented "authentic pride", and an arrogant, self-aggrandizing "hubristic pride". This same two-facet structure emerged in Chinese participants' semantic conceptualizations of pride (Study 1), Chinese and Koreans' dispositional tendencies to experience pride (Studies 2, 3a, and 3b), Chinese and Koreans' momentary pride experiences (Studies 3a, 3b, and 5), and Americans' pride experiences using descriptors derived indigenously in Korea (Study 4). Together, these studies provide the first evidence that the two-facet structure of pride generalizes to cultures with highly divergent views of pride and self-enhancement processes from North America.

Haptic fMRI: Reliability and performance of electromagnetic haptic interfaces for motion and force neuroimaging experiments.

PubMed

Menon, Samir; Zhu, Jack; Goyal, Deeksha; Khatib, Oussama

2017-07-01

Haptic interfaces compatible with functional magnetic resonance imaging (Haptic fMRI) promise to enable rich motor neuroscience experiments that study how humans perform complex manipulation tasks. Here, we present a large-scale study (176 scans runs, 33 scan sessions) that characterizes the reliability and performance of one such electromagnetically actuated device, Haptic fMRI Interface 3 (HFI-3). We outline engineering advances that ensured HFI-3 did not interfere with fMRI measurements. Observed fMRI temporal noise levels with HFI-3 operating were at the fMRI baseline (0.8% noise to signal). We also present results from HFI-3 experiments demonstrating that high resolution fMRI can be used to study spatio-temporal patterns of fMRI blood oxygenation dependent (BOLD) activation. These experiments include motor planning, goal-directed reaching, and visually-guided force control. Observed fMRI responses are consistent with existing literature, which supports Haptic fMRI's effectiveness at studying the brain's motor regions.

The Effects of L2 Experience on L3 Perception

ERIC Educational Resources Information Center

Onishi, Hiromi

2016-01-01

This study examines the influence of experience with a second language (L2) on the perception of phonological contrasts in a third language (L3). This study contributes to L3 phonology by examining the influence of L2 phonological perception abilities on the perception of an L3 at the beginner level. Participants were native speakers of Korean…

A Neuron-Specific Deletion of the MicroRNA-Processing Enzyme DICER Induces Severe but Transient Obesity in Mice

PubMed Central

Mang, Géraldine M.; Pradervand, Sylvain; Du, Ngoc-Hien; Arpat, Alaaddin Bulak; Preitner, Frédéric; Wigger, Leonore; Gatfield, David; Franken, Paul

2015-01-01

MicroRNAs (miRNAs) are small, non-coding RNA molecules that regulate gene expression post-transcriptionally. MiRNAs are implicated in various biological processes associated with obesity, including adipocyte differentiation and lipid metabolism. We used a neuronal-specific inhibition of miRNA maturation in adult mice to study the consequences of miRNA loss on obesity development. Camk2a-CreERT2 (Cre+) and floxed Dicer (Dicerlox/lox) mice were crossed to generate tamoxifen-inducible conditional Dicer knockouts (cKO). Vehicle- and/or tamoxifen-injected Cre+;Dicerlox/lox and Cre+;Dicer+/+ served as controls. Four cohorts were used to a) measure body composition, b) follow food intake and body weight dynamics, c) evaluate basal metabolism and effects of food deprivation, and d) assess the brain transcriptome consequences of miRNA loss. cKO mice developed severe obesity and gained 18 g extra weight over the 5 weeks following tamoxifen injection, mainly due to increased fat mass. This phenotype was highly reproducible and observed in all 38 cKO mice recorded and in none of the controls, excluding possible effects of tamoxifen or the non-induced transgene. Development of obesity was concomitant with hyperphagia, increased food efficiency, and decreased activity. Surprisingly, after reaching maximum body weight, obese cKO mice spontaneously started losing weight as rapidly as it was gained. Weight loss was accompanied by lowered O2-consumption and respiratory-exchange ratio. Brain transcriptome analyses in obese mice identified several obesity-related pathways (e.g. leptin, somatostatin, and nemo-like kinase signaling), as well as genes involved in feeding and appetite (e.g. Pmch, Neurotensin) and in metabolism (e.g. Bmp4, Bmp7, Ptger1, Cox7a1). A gene cluster with anti-correlated expression in the cerebral cortex of post-obese compared to obese mice was enriched for synaptic plasticity pathways. While other studies have identified a role for miRNAs in obesity, we here present a unique model that allows for the study of processes involved in reversing obesity. Moreover, our study identified the cortex as a brain area important for body weight homeostasis. PMID:25629159

Cue quality and criterion setting in recognition memory.

PubMed

Kent, Christopher; Lamberts, Koen; Patton, Richard

2018-02-02

Previous studies on how people set and modify decision criteria in old-new recognition tasks (in which they have to decide whether or not a stimulus was seen in a study phase) have almost exclusively focused on properties of the study items, such as presentation frequency or study list length. In contrast, in the three studies reported here, we manipulated the quality of the test cues in a scene-recognition task, either by degrading through Gaussian blurring (Experiment 1) or by limiting presentation duration (Experiment 2 and 3). In Experiments 1 and 2, degradation of the test cue led to worse old-new discrimination. Most importantly, however, participants were more liberal in their responses to degraded cues (i.e., more likely to call the cue "old"), demonstrating strong within-list, item-by-item, criterion shifts. This liberal response bias toward degraded stimuli came at the cost of increasing the false alarm rate while maintaining a constant hit rate. Experiment 3 replicated Experiment 2 with additional stimulus types (words and faces) but did not provide accuracy feedback to participants. The criterion shifts in Experiment 3 were smaller in magnitude than Experiments 1 and 2 and varied in consistency across stimulus type, suggesting, in line with previous studies, that feedback is important for participants to shift their criteria.

Cascading of high salinity bottom waters from the Arabian/Persian Gulf to the northern Arabian Sea

NASA Astrophysics Data System (ADS)

Shapiro, Georgy; Wobus, Fred; Solovyev, Vladimir; Francis, Xavier; Hyder, Patrick; Chen, Feng; Asif, Muhammad

2017-04-01

Cascading (aka shelf convection) is a specific type of buoyancy driven current in which dense water is formed over the continental shelf and then descends down the slope to a greater depth. The cascades of dense water down continental slopes provide a mechanism for shelf-ocean exchange in many parts of the world's oceans (Shapiro et al, 2003). Dense water is formed on the shelf by a number of processes, with high evaporation, limited river discharge and low precipitation being the major processes in warm climates (Ivanov et al, 2004). The formation and outflow of high salinity waters in the near-bottom layer of the Arabian/Persian Gulf is an example of dense water cascading (Bower et al 2000). Despite of its importance for the self-cleaning and the state of the marine ecosystem in the Arabian/Persian Gulf, the properties of the outflow have so far mainly been analysed using climatologically averaged data or observations of a limited set of parameters (mainly temperature), see (Bower et al 2000). In this paper we study the dynamics of the flow using a comprehensive set of observational data (temperature, salinity velocity and turbidity profiles) obtained during the GRASP (Gulf Reconnaissance And Selective Profiling) observational campaign in the Gulf of Oman, which are complemented by the results of numerical modelling of the area using a number of 3D ocean models, and some ARGO T/S profiles. The GRASP measurements were carried out using an Aqualog climbing moored profiler, which was equipped with a Seabird CTD sensor, a Nortek Aquadopp current meter and a Seapoint turbidity meter. The Ocean circulation models used in the study include PGM4 and IND12 (UK Met Office); and AS20 and AG60 (University of Plymouth). All models are based on NEMO (Nucleus for European Modelling of the Ocean) codebase with a resolution from 9 km down to 1.8 km. The models were calibrated and validated against ARGO float profiles in the area. The study revealed the mesoscale and sub-mesoscale circulation patterns of the outflow, their spatial and temporal variability over time scales from a few days to seasonal. References Shapiro, G.I.; Huthnance, J.M.; Ivanov, V.V.. 2003 Dense water cascading off the continental shelf. Journal of Geophysical Research, 108 (C12). 3390.10.1029/2002JC001610 Ivanov, V.V.; Shapiro, G.I.; Huthnance, J.M.; Aleynik, D.L.; Golovin, P.N.. 2004 Cascades of dense water around the world ocean. Progress in Oceanography, 60 (1). 47-98.10.1016/j.pocean.2003.12.002 Bower, A. S., H. D. Hunt and J. Price, 2000. Character and Dynamics of the Red Sea and Persian Gulf Outflows. Journal of Geophysical Research - Oceans, Vol. 105, No. C3, pp. 6387-6414.

Cross-cultural evidence for the two-facet structure of pride

PubMed Central

Shi, Yan; Chung, Joanne M.; Cheng, Joey T.; Tracy, Jessica L.; Robins, Richard W.; Chen, Xiao; Zheng, Yong

2016-01-01

Across six studies conducted in Mainland China and South Korea, the present research extended prior findings showing that pride is comprised of two distinct conceptual and experiential facets in the U.S.: a pro-social, achievement-oriented “authentic pride”, and an arrogant, self-aggrandizing “hubristic pride”. This same two-facet structure emerged in Chinese participants’ semantic conceptualizations of pride (Study 1), Chinese and Koreans’ dispositional tendencies to experience pride (Studies 2, 3a, and 3b), Chinese and Koreans’ momentary pride experiences (Studies 3a, 3b, and 5), and Americans’ pride experiences using descriptors derived indigenously in Korea (Study 4). Together, these studies provide the first evidence that the two-facet structure of pride generalizes to cultures with highly divergent views of pride and self-enhancement processes from North America. PMID:27158171

Study of Metal-NH[subscript 3] Interfaces (Metal= Cu, Ni, Ag) Using Potentiostatic Curves

ERIC Educational Resources Information Center

Nunes, Nelson; Martins, Angela; Leitao, Ruben Elvas

2007-01-01

Experiment is conducted to determine the kinetic parameters of metal-solution interfaces. During the experiment the kinetic parameters for the interfaces Cu-NH[subscript 3], Ag-NH[subscript 3] and Ni-NH[subscript 3] is easily determined.

Semantic Development in Spanish-English Bilingual Children: Effects of Age and Language Experience

ERIC Educational Resources Information Center

Sheng, Li; Bedore, Lisa M.; Pena, Elizabeth D.; Fiestas, Christine

2013-01-01

This study examines semantic development in 60 Spanish-English bilingual children, ages 7 years 3 months to 9 years 11 months, who differed orthogonally in age (younger, older) and language experience (higher English experience [HEE], higher Spanish experience [HSE]). Children produced 3 associations to 12 pairs of translation equivalents. Older…

Effect of post-encoding emotion on recollection and familiarity for pictures.

PubMed

Wang, Bo; Ren, Yanju

2017-07-01

Although prior studies have examined the effect of post-encoding emotional arousal on recognition memory for words, it is unknown whether the enhancement effect observed on words generalizes to pictures. Furthermore, prior studies using words have showed that the effect of emotional arousal can be modulated by stimuli valence and delay in emotion induction, but it is unclear whether such modulation can extend to pictures and whether other factors such as encoding method (incidental vs. intentional encoding) can be modulatory. Five experiments were conducted to answer these questions. In Experiment 1, participants encoded a list of neutral and negative pictures and then watched a 3-min neutral or negative video. The delayed test showed that negative arousal impaired recollection regardless of picture valence but had no effect on familiarity. Experiment 2 replicated the above findings. Experiment 3 was similar to Experiment 1 except that participants watched a 3-min neutral, negative, or positive video and conducted free recall before the recognition test. Unlike the prior two experiments, the impairment effect of negative arousal disappeared. Experiment 4, where the free recall task was eliminated, replicated the results from Experiment 3. Experiment 5 replicated Experiments 1 and 2 and further showed that the impairment effects of negative arousal could be modulated by delay in emotion induction but not by encoding method or stimuli valence. Taken together, the current study suggests that the enhancement effect observed on words may not generalize to pictures.

Acute O3 damage on first year coppice sprouts of aspen and maple sprouts in an open-air experiment

Treesearch

Joseph N.T. Darbah; Wendy S. Jones; Andrew J. Burton; John Nagy; Mark E. Kubiske

2011-01-01

We studied the effect of high ozone (O3) concentration (110-490 nmol mol-1) on regenerating aspen (Populus tremuloides) and maple (Acer saccharum) trees at an open-air O3 pollution experiment near Rhinelander WI USA. This study is the first of its kind to examine...

The Effect of Inversion on 3- to 5-Year-Olds' Recognition of Face and Nonface Visual Objects

ERIC Educational Resources Information Center

Picozzi, Marta; Cassia, Viola Macchi; Turati, Chiara; Vescovo, Elena

2009-01-01

This study compared the effect of stimulus inversion on 3- to 5-year-olds' recognition of faces and two nonface object categories matched with faces for a number of attributes: shoes (Experiment 1) and frontal images of cars (Experiments 2 and 3). The inversion effect was present for faces but not shoes at 3 years of age (Experiment 1). Analogous…

Do explicit memory manipulations affect the memory blocking effect?

PubMed

Landau, Joshua D; Leynes, P Andrew

2006-01-01

The memory blocking effect (MBE) occurs when people are prevented from completing word fragments because they studied orthographically similar words. Across 3 experiments, we investigated how manipulations that influence explicit memory tasks would influence the MBE. Although a significant MBE was observed in all 3 experiments, manipulating depth of processing (Experiment 1), time to complete the fragments (Experiment 2), and awareness of the MBE (Experiment 3) did not change the magnitude of the MBE. We discuss these results in the context of a suppression mechanism involved in retrieval-induced forgetting.

The Synthesis of 1-Phenyl-1,2,3,4-tetrahydroisoquinolines: An Undergraduate Organic Laboratory Experiment and Class Project.

ERIC Educational Resources Information Center

Letcher, R. M.; Sammes, M. P.

1985-01-01

Describes an undergraduate organic chemistry experiment (requiring three/four 3-hour laboratory sessions) involving a four-stage synthesis of 1-phenyl-1,2,3,4-tetrahydroisoquinolines via the Pictet-Spengler route. In addition, the experiment allows students to study the spectra and properties of aklaloid-like materials while completing several…

Experience and information loss in auditory and visual memory.

PubMed

Gloede, Michele E; Paulauskas, Emily E; Gregg, Melissa K

2017-07-01

Recent studies show that recognition memory for sounds is inferior to memory for pictures. Four experiments were conducted to examine the nature of auditory and visual memory. Experiments 1-3 were conducted to evaluate the role of experience in auditory and visual memory. Participants received a study phase with pictures/sounds, followed by a recognition memory test. Participants then completed auditory training with each of the sounds, followed by a second memory test. Despite auditory training in Experiments 1 and 2, visual memory was superior to auditory memory. In Experiment 3, we found that it is possible to improve auditory memory, but only after 3 days of specific auditory training and 3 days of visual memory decay. We examined the time course of information loss in auditory and visual memory in Experiment 4 and found a trade-off between visual and auditory recognition memory: Visual memory appears to have a larger capacity, while auditory memory is more enduring. Our results indicate that visual and auditory memory are inherently different memory systems and that differences in visual and auditory recognition memory performance may be due to the different amounts of experience with visual and auditory information, as well as structurally different neural circuitry specialized for information retention.

Highly Stressed: Stressful and Traumatic Experiences among individuals with HIV/AIDS in the Deep South

PubMed Central

Reif, Susan; Mugavero, Michael; Raper, James; Thielman, Nathan; Leserman, Jane; Whetten, Kathryn; Pence, Brian W.

2013-01-01

A history of traumatic and/or stressful experiences is prevalent among HIV-infected individuals and has been consistently associated with poorer health outcomes. However, little is known about incident stressful experiences and the factors that predict these experiences among HIV-infected individuals. Data from a longitudinal study of 611 HIV-infected individuals in the Southeastern US were used to examine the frequency and types of incident stress reported in a 27-month period and to determine predictors associated with 3 incident stress measures (all stressful events, severe stressful events, and traumatic events such as physical assault). Incident stressful experiences frequently occurred among study participants, as 91% reported at least one stressful experience (median= 3.5 experiences) and 10% of study participants reported traumatic stress in any given 9-month reporting period. Financial stressors were the most frequently reported by study participants. Greater emotional distress, substance use, and number of baseline stressful experiences were significantly associated with reporting a greater number of incident stressful experiences and any traumatic experiences. Study results indicate that efforts are needed to identify individuals at risk for traumatic events and/or substantial stressors and to address the factors, including mental health and substance abuse that contribute to these experiences. PMID:21259127

Adverse Childhood Experiences in a Post-bariatric Surgery Psychiatric Inpatient Sample.

PubMed

Fink, Kathryn; Ross, Colin A

2017-12-01

Sixty-three inpatients in a psychiatric hospital who had previously undergone bariatric surgery were interviewed by the hospital dietitian. The purpose of the study was to determine the frequency of adverse childhood experiences in this population. Participants completed the Adverse Childhood Experiences (ACE) Scale. The average score on the ACE was 5.4 (3.3); 76% of participants reported childhood emotional neglect, 70% childhood verbal abuse, and 64% childhood sexual abuse; only two participants reported no adverse childhood experiences. The participants in the study reported high levels of adverse childhood experiences compared to the general population, which is consistent with prior literature on rates of childhood trauma in post-bariatric surgery patients. The role of adverse childhood experiences in post-bariatric surgery adaptation should be investigated in future research, including in prospective studies.

Family characteristics and caries experience in preschool children. A longitudinal study from pregnancy to 5 years of age.

PubMed

Wigen, Tove I; Espelid, Ivar; Skaare, Anne B; Wang, Nina J

2011-08-01

The purpose of the study was to explore associations between family status, family income, family size, mother's age at child birth, mother's education and parents' national background and caries experience in 5-year-old children. This study is based on data from the Norwegian Mother and Child Cohort Study conducted by the Norwegian Institute of Public Health and the Public Dental Services. A total of 1348 children were followed from pregnancy to the age of 5 years. Questionnaires were completed by mothers twice during pregnancy and when the children were 3 and 5 years of age. Clinical and radiographic examination of the children was performed at the age of 5 years. Caries experience in the 5-year-old children was low; 89% had no caries experience (d(3-5) mft = 0). In multiple logistic regression having one or both parents of non-western origin (OR 3.4, CI 1.6-7.3), having had a change in family status from pregnancy to 5 years of age (OR 2.0, CI 1.1-3.4) and having mother with low education (OR 1.9, CI 1.3-2.8) were statistically significant risk indicators for having caries experience at the age of five. Family characteristics in pregnancy and early life were associated with caries experience in 5-year-old children. Primary care personnel meeting young children with one or several of these characteristics should consider referring the child to dental personnel to enable early initiation of health-promoting activities. © 2010 John Wiley & Sons A/S.

Childhood trauma and psychosis in a prospective cohort study: cause, effect, and directionality.

PubMed

Kelleher, Ian; Keeley, Helen; Corcoran, Paul; Ramsay, Hugh; Wasserman, Camilla; Carli, Vladimir; Sarchiapone, Marco; Hoven, Christina; Wasserman, Danuta; Cannon, Mary

2013-07-01

Using longitudinal and prospective measures, the authors assessed the relationship between childhood trauma and psychotic experiences, addressing the following questions: 1) Does exposure to trauma predict incident psychotic experiences? 2) Does cessation of trauma predict cessation of psychotic experiences? 3) What is the direction of the relationship between childhood trauma and psychotic experiences? This was a nationally representative prospective cohort study of 1,112 school-based adolescents 13-16 years of age, assessed at baseline and at 3-month and 12-month follow-ups for childhood trauma (physical assault and bullying) and psychotic experiences. A bidirectional relationship was observed between childhood trauma and psychosis, with trauma predicting psychotic experiences over time and vice versa. However, even after accounting for this bidirectional relationship with a number of strict adjustments (only newly incident psychotic experiences occurring over the course of the study following exposure to traumatic experiences were examined), trauma was strongly predictive of psychotic experiences. A dose-response relationship was observed between severity of bullying and risk for psychotic experiences. Moreover, cessation of trauma predicted cessation of psychotic experiences, with the incidence of psychotic experiences decreasing significantly in individuals whose exposure to trauma ceased over the course of the study. After a series of conservative adjustments, the authors found that exposure to childhood trauma predicted newly incident psychotic experiences. The study also provides the first direct evidence that cessation of traumatic experiences leads to a reduced incidence of psychotic experiences.

Priming for new associations in animacy decision: evidence for context dependency.

PubMed

Pecher, Diane; Raaijmakers, Jeroen

2004-10-01

In four experiments we investigated the context-dependent nature of semantic memory by looking at priming effects in animacy decision for newly formed associations. The first experiment investigated whether the priming effect depended on the nature of the prior relation between the word pairs. The results showed no such effect, replicating earlier findings. Experiments 2, 3, and 4 investigated the role of context overlap between study and test. In Experiment 2 priming for new associations was found only for word pairs that had been presented in the animacy decision task during study. Experiment 3 showed that in order to obtain priming effects for new associations these associations have to be studied in a study task that is aimed at unitized processing of the word pair at a semantic level. Experiment 4 showed that processing the pairs as separate words at an orthographic level cancelled the priming effect. The results are explained by assuming that priming results from the overlap of features that are activated during both study and test.

Towards a National Hydrological Forecasting system for Canada : Lessons Learned from the Great Lakes and St. Lawrence Prediction System

NASA Astrophysics Data System (ADS)

Fortin, V.; Durnford, D.; Gaborit, E.; Davison, B.; Dimitrijevic, M.; Matte, P.

2016-12-01

Environment and Climate Change Canada has recently deployed a water cycle prediction system for the Great Lakes and St. Lawrence River. The model domain includes both the Canadian and US portions of the watershed. It provides 84-h forecasts of weather elements, lake level, lake ice cover and surface currents based on two-way coupling of the GEM numerical weather prediction (NWP) model with the NEMO ocean model. Streamflow of all the major tributaries of the Great Lakes and St. Lawrence River are estimated by the WATROUTE routing model, which routes the surface runoff forecasted by GEM's land-surface scheme and assimilates streamflow observations where available. Streamflow forecasts are updated twice daily and are disseminated through an OGC compliant web map service (WMS) and a web feature service (WFS). In this presentation, in addition to describing the system and documenting its forecast skill, we show how it is being used by clients for various environmental prediction applications. We then discuss the importance of two-way coupling, land-surface and hillslope modelling and the impact of horizontal resolution on hydrological prediction skill. In the second portion of the talk, we discuss plans for implementing a similar system at the national scale, using what we have learned in the Great Lakes and St. Lawrence watershed. Early results obtained for the headwaters of the Saskatchewan River as well as for the whole Nelson-Churchill watershed are presented.

MINE: Module Identification in Networks

PubMed Central

2011-01-01

Background Graphical models of network associations are useful for both visualizing and integrating multiple types of association data. Identifying modules, or groups of functionally related gene products, is an important challenge in analyzing biological networks. However, existing tools to identify modules are insufficient when applied to dense networks of experimentally derived interaction data. To address this problem, we have developed an agglomerative clustering method that is able to identify highly modular sets of gene products within highly interconnected molecular interaction networks. Results MINE outperforms MCODE, CFinder, NEMO, SPICi, and MCL in identifying non-exclusive, high modularity clusters when applied to the C. elegans protein-protein interaction network. The algorithm generally achieves superior geometric accuracy and modularity for annotated functional categories. In comparison with the most closely related algorithm, MCODE, the top clusters identified by MINE are consistently of higher density and MINE is less likely to designate overlapping modules as a single unit. MINE offers a high level of granularity with a small number of adjustable parameters, enabling users to fine-tune cluster results for input networks with differing topological properties. Conclusions MINE was created in response to the challenge of discovering high quality modules of gene products within highly interconnected biological networks. The algorithm allows a high degree of flexibility and user-customisation of results with few adjustable parameters. MINE outperforms several popular clustering algorithms in identifying modules with high modularity and obtains good overall recall and precision of functional annotations in protein-protein interaction networks from both S. cerevisiae and C. elegans. PMID:21605434

A new real-time tsunami detection algorithm

NASA Astrophysics Data System (ADS)

Chierici, F.; Embriaco, D.; Pignagnoli, L.

2016-12-01

Real-time tsunami detection algorithms play a key role in any Tsunami Early Warning System. We have developed a new algorithm for tsunami detection based on the real-time tide removal and real-time band-pass filtering of sea-bed pressure recordings. The algorithm greatly increases the tsunami detection probability, shortens the detection delay and enhances detection reliability, at low computational cost. The algorithm is designed to be used also in autonomous early warning systems with a set of input parameters and procedures which can be reconfigured in real time. We have also developed a methodology based on Monte Carlo simulations to test the tsunami detection algorithms. The algorithm performance is estimated by defining and evaluating statistical parameters, namely the detection probability, the detection delay, which are functions of the tsunami amplitude and wavelength, and the occurring rate of false alarms. Pressure data sets acquired by Bottom Pressure Recorders in different locations and environmental conditions have been used in order to consider real working scenarios in the test. We also present an application of the algorithm to the tsunami event which occurred at Haida Gwaii on October 28th, 2012 using data recorded by the Bullseye underwater node of Ocean Networks Canada. The algorithm successfully ran for test purpose in year-long missions onboard the GEOSTAR stand-alone multidisciplinary abyssal observatory, deployed in the Gulf of Cadiz during the EC project NEAREST and on NEMO-SN1 cabled observatory deployed in the Western Ionian Sea, operational node of the European research infrastructure EMSO.

Sex Differences in Faculty Salaries: A Cohort Analysis.

ERIC Educational Resources Information Center

Perna, Laura Walter

This study examined sex differences in faculty salaries, exploring how lower salaries for women varied across different rank/experience cohorts. Data came from the 1993 National Study of Postsecondary Faculty. Six cohorts were defined: assistant professors with 1-2 years experience, 3-6 years experience, 7-12 years experience, or 13-20 years…

Experience of violation during the past 3 months, social capital, and self-rated health: a population-based study.

PubMed

Lindström, Martin; Axelsson, Jakob; Rosvall, Maria

2012-12-01

The objective was to investigate the association between experience of violation during the past 3 months and self-rated health, taking trust (social capital), economic stress, and country of birth and parents' country of birth into account. The 2008 public health survey in Skåne is a cross-sectional study with 55% response rate. A random sample was approached using a postal questionnaire, and 28,198 persons aged 18-80 responded. Logistic regression models investigated associations between experience of violation during the past 3 months and self-rated health. A 27.4% proportion of the men and 30.0% of the women reported less than good health. Less than good health was significantly higher in older age groups, among persons born outside Sweden, with low education, economic stress, low trust in other people, and experience of violation during the past 3 months. The group with experience of violation at one occasion during the past 3 months had odds ratio 1.76 (95% CI 1.57-1.97) of less than good health among men and odds ratio 1.78 (95% CI 1.62-1.96) among women, while the group with experience of violation two or more times during the past 3 months had odds ratio 4.28 (95% CI 3.36-5.44) among men and 3.54 (95% CI 2.89-4.35) among women in the final multiple analyses. Experience of violation during the past 3 months is significantly associated with less than good health, which is a finding with important policy implications.

Comparison of crop yield sensitivity to ozone between open-top chamber and free-air experiments.

PubMed

Feng, Zhaozhong; Uddling, Johan; Tang, Haoye; Zhu, Jianguo; Kobayashi, Kazuhiko

2018-02-02

Assessments of the impacts of ozone (O 3 ) on regional and global food production are currently based on results from experiments using open-top chambers (OTCs). However, there are concerns that these impact estimates might be biased due to the environmental artifacts imposed by this enclosure system. In this study, we collated O 3 exposure and yield data for three major crop species-wheat, rice, and soybean-for which O 3 experiments have been conducted with OTCs as well as the ecologically more realistic free-air O 3 elevation (O 3 -FACE) exposure system; both within the same cultivation region and country. For all three crops, we found that the sensitivity of crop yield to the O 3 metric AOT40 (accumulated hourly O 3 exposure above a cut-off threshold concentration of 40 ppb) significantly differed between OTC and O 3 -FACE experiments. In wheat and rice, O 3 sensitivity was higher in O 3 -FACE than OTC experiments, while the opposite was the case for soybean. In all three crops, these differences could be linked to factors influencing stomatal conductance (manipulation of water inputs, passive chamber warming, and cultivar differences in gas exchange). Our study thus highlights the importance of accounting for factors that control stomatal O 3 flux when applying experimental data to assess O 3 impacts on crops at large spatial scales. © 2018 John Wiley & Sons Ltd.

Bullying in elementary school and psychotic experiences at 18 years: a longitudinal, population-based cohort study.

PubMed

Wolke, D; Lereya, S T; Fisher, H L; Lewis, G; Zammit, S

2014-07-01

Victims of bullying are at risk for psychotic experiences in early adolescence. It is unclear if this elevated risk extends into late adolescence. The aim of this study was to test whether bullying perpetration and victimization in elementary school predict psychotic experiences in late adolescence. The current study is based on the Avon Longitudinal Study of Parents and Children (ALSPAC), a prospective community-based study. A total of 4720 subjects with bullying perpetration and victimization were repeatedly assessed between the ages of 8 and 11 years by child and mother reports. Suspected or definite psychotic experiences were assessed with the Psychosis-Like Symptoms semi-structured interview at age 18 years. Controlling for child's gender, intelligence quotient at age 8 years, childhood behavioural and emotional problems, and also depression symptoms and psychotic experiences in early adolescence, victims [child report at 10 years: odds ratio (OR) 2.4, 95% confidence interval (CI) 1.6-3.4; mother report: OR 1.6, 95% CI 1.1-2.3], bully/victims (child report at 10 years: OR 3.1, 95% CI 1.7-5.8; mother: OR 2.9, 95% CI 1.7-5.0) and bullies (child report at 10 years: OR 4.9, 95% CI 1.3-17.7; mother: OR 1.2, 95% CI 0.46-3.1, n.s.) had a higher prevalence of psychotic experiences at age 18 years. Path analysis revealed that the association between peer victimization in childhood and psychotic experiences at age 18 years was only partially mediated by psychotic or depression symptoms in early adolescence. Involvement in bullying, whether as victim, bully/victim or bully, may increase the risk of developing psychotic experiences in adolescence. Health professionals should ask routinely during consultations with children about their bullying of and by peers.

The 2004 Sumatra tsunami in the southeastern Pacific: Coastal and offshore measurements and numerical modeling

NASA Astrophysics Data System (ADS)

Moore, C. W.; Eble, M. C.; Rabinovich, A.; Titov, V. V.

2016-12-01

The Mw = 9.3 megathrust earthquake of December 26, 2004 off the coast of Sumatra generated a catastrophic tsunami that crossed the Indian Ocean and was widespread in the Pacific and Atlantic oceans being recorded by a great number of coastal tide gauges located in 15-25 thousand kilometers from the source area. The data from these instruments throughout the world oceans enabled estimates of various statistical parameters and energy decay of this event. However, only very few open-ocean records of this tsunami had been obtained. A unique high-resolution record of this tsunami from DART 32401 located offshore of northern Chile, combined with the South American mainland tide gauge measurements and the data from three island stations (San Felix, Juan Fernandez and Easter) enabled us to examine far-field characteristics of the event in the southeastern Pacific and to compare the results of global numerical simulations with observations. The maximum wave height measured at DART 32401 was only 1.8 cm but the signal was very clear and reliable. Despite their small heights, the waves demonstrated consistent spatial and temporal structure and good agreement with DART 46405/NeMO records in the NE Pacific. The travel time from the source area to DART 32401 was 25h 55min in good agreement with the computed travel time (25h 45min) and consistent with the times obtained from the nearby coastal tide gauges. This agreement was much better than it followed from the direct travel time estimation based classical kinematic theory that gave the travel time approximately 1.5 hrs shorter than observed. The later actual arrival of the 2004 tsunami waves corresponds to the most energetically economic path along the mid-ocean ridge wave-guides, which is distinctly reproduced by the numerical model. Also, the numerical model described well the frequency content, amplitudes and general structure of the observed waves at this DART and the three island stations. Maximum wave heights in this region were identified at Arica (72 cm) and Callao (65 cm). The open-ocean and coastal records indicate that the 2004 tsunami wave energy occupied the period band of 6 min to 3.7 hrs with the main energy concentrated at periods of 30 to 70 min and peak values at 40 min.

Longitudinal effects of disaster-related experiences on mental health among Fukushima nuclear plant workers: The Fukushima NEWS Project Study.

PubMed

Ikeda, A; Tanigawa, T; Charvat, H; Wada, H; Shigemura, J; Kawachi, I

2017-08-01

The Fukushima Nuclear Energy Workers' Support (NEWS) Project Study previously showed that experiences related to the Fukushima nuclear disaster on 11 March 2011 had a great impact on psychological states, including post-traumatic stress response (PTSR) and general psychological distress (GPD), among the Fukushima nuclear plant workers. To determine the causal relationship between disaster-related experiences and levels of psychological states, we conducted a 3-year longitudinal study from 2011 to 2014. PTSR and GPD of the nuclear plant workers were assessed by annual questionnaires conducted from 2011 to 2014. The present study included a total of 1417 workers who provided an assessment at baseline (2011). A total of 4160 observations were used in the present analysis. The relationship between disaster-related experiences and psychological states over time was analysed using mixed-effects logistic regression models. A declining influence of disaster-related experiences on PTSR over time was found. However, the impact on PTSR remained significantly elevated even 3 years after the disaster in several categories of exposure including the experience of life-threatening danger, experiences of discrimination, the witnessing of plant explosion, the death of a colleague and home evacuation. The associations between GPD and disaster-related experiences showed similar effects. The effects of disaster-related experiences on psychological states among the nuclear plant workers reduced over time, but remained significantly high even 3 years after the event.

The predictive role of support in the birth experience: A longitudinal cohort study.

PubMed

Sigurdardottir, Valgerdur Lisa; Gamble, Jennifer; Gudmundsdottir, Berglind; Kristjansdottir, Hildur; Sveinsdottir, Herdis; Gottfredsdottir, Helga

2017-12-01

Several risk factors for negative birth experience have been identified, but little is known regarding the influence of social and midwifery support on the birth experience over time. The aim of this study was to describe women's birth experience up to two years after birth and to detect the predictive role of satisfaction with social and midwifery support in the birth experience. A longitudinal cohort study was conducted with a convenience sample of pregnant women from 26 community health care centres. Data was gathered using questionnaires at 11-16 weeks of pregnancy (T1, n=1111), at five to six months (T2, n=765), and at 18-24 months after birth (T3, n=657). Data about sociodemographic factors, reproductive history, birth outcomes, social and midwifery support, depressive symptoms, and birth experience were collected. The predictive role of midwifery support in the birth experience was examined using binary logistic regression. The prevalence of negative birth experience was 5% at T2 and 5.7% at T3. Women who were not satisfied with midwifery support during pregnancy and birth were more likely to have negative birth experience at T2 than women who were satisfied with midwifery support. Operative birth, perception of prolonged birth and being a student predicted negative birth experience at both T2 and T3. Perception of negative birth experience was relatively consistent during the study period and the role of support from midwives during pregnancy and birth had a significant impact on women's perception of birth experience. Copyright © 2017 Australian College of Midwives. Published by Elsevier Ltd. All rights reserved.

Modular space station phase B extension preliminary system design. Volume 3: Experiment analyses

NASA Technical Reports Server (NTRS)

Wengrow, G. L.; Lillenas, A. N.

1972-01-01

Experiment analysis tasks performed during program definition study are described. Experiment accommodation and scheduling, and defining and implementing the laboratory evolution are discussed. The general purpose laboratory requirements and concepts are defined, and supplemental studies are reported.

Tracking the fate of nitrate through pulse-flow wetlands: A mesocosm scale 15N enrichment tracer study

USGS Publications Warehouse

Messer, Tiffany L.; Burchell, Michael R.; Böhlke, John Karl; Tobias, Craig R.

2017-01-01

Quantitative information about the fate of applied nitrate (NO3-N) in pulse-flow constructed wetlands is essential for designing wetland treatment systems and assessing their nitrogen removal services for agricultural and stormwater applications. Although many studies have documented NO3-N losses in wetlands, controlled experiments indicating the relative importance of different processes and N sinks are scarce. In the current study, 15NO3-N isotope enrichment tracer experiments were conducted in wetland mesocosms of two different wetland soil types at two realistic agricultural NO3-N source loads. The 15N label was traced from the source NO3-N into plant biomass, soil (including organic matter and ammonium), and N-gas constituents over 7–10 day study periods. All sinks responded positively to higher NO3-N loading. Plant uptake exceeded denitrification 2–3 fold in the low NO3-N loading experiments, while both fates were nearly equivalent in the high loading experiments. One to two years later, soils largely retained the assimilated tracer N, whereas plants had lost much of it. Results demonstrated that plant and microbial assimilation in the soil (temporary N sinks) can exceed denitrification (permanent N loss) in pulse-flow environments and must be considered by wetland designers and managers for optimizing nitrogen removal potential.

The problem of creating habits: establishing health-protective dental behaviors.

PubMed

McCaul, K D; Glasgow, R E; O'Neill, H K

1992-01-01

We describe three experiments testing treatments to promote the performance of health-protective dental behaviors. Subjects included 55 women from an introductory psychology course (Experiment 1), 45 men and women (Experiment 2), and 81 older-than-average students identified as at risk for gum disease (Experiment 3). The interventions, derived from social cognitive theory, included health education, skills training, and self-monitoring. In each study, we examined the contribution of additional treatment components, including social support (Experiment 1), intensive contact (Experiment 2), and flexible goal setting (Experiment 3). Across experiments, the behavioral results were remarkably similar: Subjects exhibited excellent adherence while in the study but, at follow-up, reported behavior that differed little from baseline. We discuss parallels between attempts to promote health-protective dental behaviors and other health-promotion programs, and we describe different perspectives from which to address the problem of creating healthy habits.

Comparative Analysis of Visitors' Experiences and Knowledge Acquisition between a 3Dimensional Online and a Real-World Art Museum Tour

ERIC Educational Resources Information Center

D' Alba, Adriana; Jones, Greg; Wright, Robert

2015-01-01

This paper discusses a study conducted in the fall of 2011 and the spring of 2012 which explored the use of existing 3D virtual environment technologies by bringing a selected permanent museum exhibit displayed at a museum located in central Mexico into an online 3Dimensional experience. Using mixed methods, the research study analyzed knowledge…

Sources of volatiles in basalts from the Galapagos Archipelago: deep and shallow evidence

NASA Astrophysics Data System (ADS)

Peterson, M. E.; Saal, A. E.; Hauri, E. H.; Werner, R.; Hauff, S. F.; Kurz, M. D.; Geist, D.; Harpp, K. S.

2010-12-01

The study of volatiles (H2O, CO2, F, S, and Cl) is important because volatiles assert a strong influence on mantle melting and magma crystallization, as well as on the viscosity and rheology of the mantle. Despite this importance, there have been a minimal number of volatile studies done on magmas from the four main mantle sources that define the end member compositions of the Galapagos lavas. For this reason, we here present new volatile concentrations of 89 submarine glass chips from dredges collected across the archipelago during the SONNE SO158, PLUM02, AHA-NEMO, and DRIFT04 cruises. All samples, with the exception of six, were collected at depths greater than 1000m. Major elements (E-probe), and volatile and trace elements (SIMS), are analyzed on the same glass chip, using 4 chips per sample, to better represent natural and analytical variation. Trace element contents reveal three main compositional groups: an enriched group typical of OIB, a group with intermediate compositions, and a group with a depleted trace element composition similar to MORB. The absolute ranges of volatile contents for all three compositional groups are .098-1.15wt% for H2O, 10.7-193.7 ppm for CO2, 61.4-806.5 ppm for F, 715.8-1599.2 ppm for S and 3.8-493.3 for Cl. The effect of degassing, sulfide saturation and assimilation of hydrothermally altered material must be understood before using the volatile content of submarine glasses to establish the primary volatile concentration of basalts and their mantle sources. CO2 has a low solubility in basaltic melts causing it to extensively degas. Based on the CO2/Nb ratio, we estimate the extent of degassing for the Galapagos lavas to range from approximately undegassed to 90% degassed. We demonstrate that 98% of the samples are sulfur undersaturated. Therefore, sulfur will behave as a moderately incompatible element during magmatic processes. Finally, we evaluate the effect of assimilation of hydrothermally altered material on the volatile content of the lavas. This process is evident when volatile/refractory element ratios are compared to the trace elements indicative of interaction between melt and the oceanic lithosphere such as a positive Sr anomaly (Sr*) in a primitive mantle normalized diagram. This is indicative of the interaction of basaltic melts with plagioclase cumulates. For the Galapagos depleted submarine glasses, we find a positive correlation between Sr* and all volatile/refractory element ratios suggesting significant volatile input from melt-lithosphere interaction. These samples, due to their low trace element concentrations, readily show the alteration signature, thus making the establishment of their primitive volatile content difficult. As a result, we will present the primary volatile concentrations for the trace element intermediate and enriched groups after careful consideration for degassing, sulfide saturation, and assimilation of hydrothermally altered material.

Perceptual effects on remembering: recollective processes in picture recognition memory.

PubMed

Rajaram, S

1996-03-01

In 3 experiments, the effects of perceptual manipulations on recollective experience were tested. In Experiment 1, a picture-superiority effect was obtained for overall recognition and Remember judgements in a picture recognition task. In Experiment 2, size changes of pictorial stimuli across study and test reduced recognition memory and Remember judgements. In Experiment 3, deleterious effects of changes in left-right orientation of pictorial stimuli across study and test were obtained for Remember judgements. An alternate framework that emphasizes a distinctiveness-fluency processing distinction is proposed to account for these findings because they cannot easily be accommodated within the existing account of differences in conceptual and perceptual processing for the 2 categories of recollective experience: Remembering and Knowing, respectively (J. M. Gardiner, 1988; S. Rajaram, 1993).

Bumetanide for the treatment of seizures in newborn babies with hypoxic ischaemic encephalopathy (NEMO): an open-label, dose finding, and feasibility phase 1/2 trial.

PubMed

Pressler, Ronit M; Boylan, Geraldine B; Marlow, Neil; Blennow, Mats; Chiron, Catherine; Cross, J Helen; de Vries, Linda S; Hallberg, Boubou; Hellström-Westas, Lena; Jullien, Vincent; Livingstone, Vicki; Mangum, Barry; Murphy, Brendan; Murray, Deirdre; Pons, Gerard; Rennie, Janet; Swarte, Renate; Toet, Mona C; Vanhatalo, Sampsa; Zohar, Sarah

2015-05-01

Preclinical data suggest that the loop-diuretic bumetanide might be an effective treatment for neonatal seizures. We aimed to assess dose and feasibility of intravenous bumetanide as an add-on to phenobarbital for treatment of neonatal seizures. In this open-label, dose finding, and feasibility phase 1/2 trial, we recruited full-term infants younger than 48 h who had hypoxic ischaemic encephalopathy and electrographic seizures not responding to a loading-dose of phenobarbital from eight neonatal intensive care units across Europe. Newborn babies were allocated to receive an additional dose of phenobarbital and one of four bumetanide dose levels by use of a bivariate Bayesian sequential dose-escalation design to assess safety and efficacy. We assessed adverse events, pharmacokinetics, and seizure burden during 48 h continuous electroencephalogram (EEG) monitoring. The primary efficacy endpoint was a reduction in electrographic seizure burden of more than 80% without the need for rescue antiepileptic drugs in more than 50% of infants. The trial is registered with ClinicalTrials.gov, number NCT01434225. Between Sept 1, 2011, and Sept 28, 2013, we screened 30 infants who had electrographic seizures due to hypoxic ischaemic encephalopathy. 14 of these infants (10 boys) were included in the study (dose allocation: 0·05 mg/kg, n=4; 0·1 mg/kg, n=3; 0·2 mg/kg, n=6; 0·3 mg/kg, n=1). All babies received at least one dose of bumetanide with the second dose of phenobarbital; three were withdrawn for reasons unrelated to bumetanide, and one because of dehydration. All but one infant also received aminoglycosides. Five infants met EEG criteria for seizure reduction (one on 0·05 mg/kg, one on 0·1 mg/kg and three on 0·2 mg/kg), and only two did not need rescue antiepileptic drugs (ie, met rescue criteria; one on 0·05 mg/kg and one on 0·3 mg/kg). We recorded no short-term dose-limiting toxic effects, but three of 11 surviving infants had hearing impairment confirmed on auditory testing between 17 and 108 days of age. The most common non-serious adverse reactions were moderate dehydration in one, mild hypotension in seven, and mild to moderate electrolyte disturbances in 12 infants. The trial was stopped early because of serious adverse reactions and limited evidence for seizure reduction. Our findings suggest that bumetanide as an add-on to phenobarbital does not improve seizure control in newborn infants who have hypoxic ischaemic encephalopathy and might increase the risk of hearing loss, highlighting the risks associated with the off-label use of drugs in newborn infants before safety assessment in controlled trials. European Community's Seventh Framework Programme. Copyright © 2015 Elsevier Ltd. All rights reserved.

Compendium of NASA data base for the Global Tropospheric Experiment's Arctic Boundary Layer Experiments ABLE-3A and ABLE-3B

NASA Technical Reports Server (NTRS)

Gregory, Gerald L.; Scott, A. Donald, Jr.

1994-01-01

The report provides a compendium of NASA aircraft data that are available from NASA's Global Tropospheric Experiment's (GTE) Arctic Boundary Layer Experiments (ABLE) conducted in July and August of 1988 (ABLE-3A) and 1990 (ABLE-3B). ABLE-3A flight experiments were based at Barrow and Bethel, Alaska, and included survey/transit flights to Thule, Greenland. ABLE-3B flight experiments were based at North Bay (Ontario) and Goose Bay, Canada, and included flights northward to Frobisher Bay, Canada. The primary purposes of the experiments were (1) the measurement of the flux of various trace gases from high-arctic ecosystems, (2) the elucidation of factors important to the production and destruction of ozone, and (3) the documentation of source and chemical signature of air common to and transported into the regions. The report provides a representation, in the form of selected data plots, of aircraft data that are available in archived format via NASA Langley's Distributed Active Archive Center. The archived data bases include data for other species measured on the aircraft as well as numerous supporting data, including meteorological observations/products, results from surface studies, satellite observations, and sondes releases.

Dental caries experience in young Australian Army recruits 2008.

PubMed

Hopcraft, M S; Yapp, K E; Mahoney, G; Morgan, M V

2009-12-01

Recent studies have shown a substantial decline in caries experience in Australian Army recruits between 1996 and 2002-2003, and in Australian adults between 1987-1988 and 2004-2006. However, studies in children have reported an increasing trend in caries experience between 1998 and 2002. The aim of this study was to investigate caries experience in Australian Army recruits in 2008. A cross-sectional study involving 1084 Australian Army recruits was conducted from January to May 2008. Data were obtained from a clinical dental examination with bitewing radiographs, and a questionnaire elicited socio-demographic data and history on lifetime exposure to fluoridated drinking water. Mean DMFT scores were 3.16, 4.08, 5.16 and 7.11 for recruits aged 17-20, 21-25, 26-30 and 31-35 years, respectively. Recruits with a lifetime exposure to fluoridated drinking water had a mean DMFT of 3.02, while recruits with no exposure had a mean DMFT of 3.87. Caries experience in Australian Army recruits aged 17-25 years increased between 2002-2003 and 2008. Recruits with lifetime exposure to fluoridated drinking water had 25 per cent less caries experience compared with recruits who had no exposure to fluoridated drinking water after adjusting for the effects of age, gender, education and socio-economic status.

Modelling MIZ dynamics in a global model

NASA Astrophysics Data System (ADS)

Rynders, Stefanie; Aksenov, Yevgeny; Feltham, Daniel; Nurser, George; Naveira Garabato, Alberto

2016-04-01

Exposure of large, previously ice-covered areas of the Arctic Ocean to the wind and surface ocean waves results in the Arctic pack ice cover becoming more fragmented and mobile, with large regions of ice cover evolving into the Marginal Ice Zone (MIZ). The need for better climate predictions, along with growing economic activity in the Polar Oceans, necessitates climate and forecasting models that can simulate fragmented sea ice with a greater fidelity. Current models are not fully fit for the purpose, since they neither model surface ocean waves in the MIZ, nor account for the effect of floe fragmentation on drag, nor include sea ice rheology that represents both the now thinner pack ice and MIZ ice dynamics. All these processes affect the momentum transfer to the ocean. We present initial results from a global ocean model NEMO (Nucleus for European Modelling of the Ocean) coupled to the Los Alamos sea ice model CICE. The model setup implements a novel rheological formulation for sea ice dynamics, accounting for ice floe collisions, thus offering a seamless framework for pack ice and MIZ simulations. The effect of surface waves on ice motion is included through wave pressure and the turbulent kinetic energy of ice floes. In the multidecadal model integrations we examine MIZ and basin scale sea ice and oceanic responses to the changes in ice dynamics. We analyse model sensitivities and attribute them to key sea ice and ocean dynamical mechanisms. The results suggest that the effect of the new ice rheology is confined to the MIZ. However with the current increase in summer MIZ area, which is projected to continue and may become the dominant type of sea ice in the Arctic, we argue that the effects of the combined sea ice rheology will be noticeable in large areas of the Arctic Ocean, affecting sea ice and ocean. With this study we assert that to make more accurate sea ice predictions in the changing Arctic, models need to include MIZ dynamics and physics.

Evaluation of numerical models by FerryBox and Fixed Platform in-situ data in the southern North Sea

NASA Astrophysics Data System (ADS)

Haller, M.; Janssen, F.; Siddorn, J.; Petersen, W.; Dick, S.

2015-02-01

FerryBoxes installed on ships of opportunity (SoO) provide high-frequency surface biogeochemical measurements along selected tracks on a regular basis. Within the European FerryBox Community, several FerryBoxes are operated by different institutions. Here we present a comparison of model simulations applied to the North Sea with FerryBox temperature and salinity data from a transect along the southern North Sea and a more detailed analysis at three different positions located off the English East coast, at the Oyster Ground and in the German Bight. In addition to the FerryBox data, data from a Fixed Platform of the MARNET network are applied. Two operational hydrodynamic models have been evaluated for different time periods: results of BSHcmod v4 are analysed for 2009-2012, while simulations of FOAM AMM7 NEMO have been available from MyOcean data base for 2011 and 2012. The simulation of water temperatures is satisfying; however, limitations of the models exist, especially near the coast in the southern North Sea, where both models are underestimating salinity. Statistical errors differ between the models and the measured parameters, as the root mean square error (rmse) accounts for BSHcmod v4 to 0.92 K, for AMM7 only to 0.44 K. For salinity, BSHcmod is slightly better than AMM7 (0.98 and 1.1 psu, respectively). The study results reveal weaknesses of both models, in terms of variability, absolute levels and limited spatial resolution. In coastal areas, where the simulation of the transition zone between the coasts and the open ocean is still a demanding task for operational modelling, FerryBox data, combined with other observations with differing temporal and spatial scales serve as an invaluable tool for model evaluation and optimization. The optimization of hydrodynamical models with high frequency regional datasets, like the FerryBox data, is beneficial for their subsequent integration in ecosystem modelling.

Nitrate removal from agricultural drainage ditch sediments with amendments of organic carbon: Potential for an innovative best management practice

USGS Publications Warehouse

Faust, Derek R.; Kröger, Robert; Miranda, Leandro E.; Rush, Scott A.

2016-01-01

Agricultural fertilizer applications have resulted in loading of nutrients to agricultural drainage ditches in the Lower Mississippi Alluvial Valley. The purpose of this study was to determine effects of dissolved organic carbon (DOC) and particulate organic carbon (POC) amendments on nitrate-nitrogen (NO3−-N) removal from overlying water, pore water, and sediment of an agricultural drainage ditch. Two experiments were conducted. In experiment 1, control (i.e., no amendment), DOC, and POC treatments were applied in laboratory microcosms for time intervals of 3, 7, 14, and 28 days. In experiment 2, control, DOC, and POC treatments were applied in microcosms at C/N ratios of 5:1, 10:1, 15:1, and 20:1. There were statistically significant effects of organic carbon amendments in experiment 1 (F2,71 = 27.1, P < 0.001) and experiment 2 (F2,53 = 39.1, P < 0.001), time (F1,71 = 14.5, P < 0.001) in experiment 1, and C/N ratio (F1,53 = 36.5, P < 0.001) in experiment 2. NO3−-N removal varied from 60 to 100 % in overlying water among all treatments. The lowest NO3−-N removals in experiment 1 were observed in the control at 14 and 28 days, which were significantly less than in DOC and POC 14- and 28-day treatments. In experiment 2, significantly less NO3−-N was removed in overlying water of the control compared to DOC and POC treatments at all C/N ratios. Amendments of DOC and POC made to drainage ditch sediment: (1) increased NO3−-N removal, especially over longer time intervals (14 to 28 days); (2) increased NO3−-N removal, regardless of C/N ratio; and (3) NO3−-N removal was best at a 5:1 C/N ratio. This study provides support for continued investigation on the use of organic carbon amendments as a best management practice for NO3−-N removal in agricultural drainage ditches.

Using Multiple Dialog Modes in a User-System Interface to Accomodate Different Levels of User Experience: An Experimental Study.

DTIC Science & Technology

1986-01-01

Chapter it Research Methodology This chapter describes the methodology and the experimental design used for this research. Prior to discussing the...50 Experimental Design ............................... 50 Task/Treatm ent ................................... 55 Task Design ...Figure 3.3 Interface Experiment Elements ............... 54 Figure 3.4 Experimental Design ....................... 55 Figure 3.5 Subject Assignment

ICRF mode conversion in three-ion species heating experiment and in flow drive experiment on the Alcator C-Mod tokamak

NASA Astrophysics Data System (ADS)

Lin, Y.; Wukitch, S. J.; Edlund, E.; Ennever, P.; Hubbard, A. E.; Porkolab, M.; Rice, J.; Wright, J.

2017-10-01

In recent three-ion species (majority D and H plus a trace level of 3He) ICRF heating experiments on Alcator C-Mod, double mode conversion on both sides of the 3He cyclotron resonance has been observed using the phase contrast imaging (PCI) system. The MC locations are used to estimate the species concentrations in the plasma. Simulation using TORIC shows that with the 3He level <1%, most RF power is absorbed by the 3He ions and the process can generate energetic 3He ions. In mode conversion (MC) flow drive experiment in D(3He) plasma at 8 T, MC waves were also monitored by PCI. The MC ion cyclotron wave (ICW) amplitude and wavenumber kR have been found to correlate with the flow drive force. The MC efficiency, wave-number k of the MC ICW and their dependence on plasma parameters like Te0 have been studied. Based on the experimental observation and numerical study of the dispersion solutions, a hypothesis of the flow drive mechanism has been proposed.

An experiment to study the effects of space flight cells of mesenchymal origin in the new model 3D-graft in vitro

NASA Astrophysics Data System (ADS)

Volova, Larissa

One of the major health problems of the astronauts are disorders of the musculoskeletal system, which determines the relevance of studies of the effect of space flight factors on osteoblastic and hondroblastic cells in vitro. An experiment to study the viability and proliferative activity of cells of mesenchymal origin on culture: chondroblasts and dermal fibroblasts was performed on SC "BION -M" No. 1 with scientific equipment " BIOKONT -B ." To study the effect of space flight conditions in vitro at the cellular level has developed a new model with 3D- graft as allogeneic demineralized spongiosa obtained on technology Lioplast ®. For space and simultaneous experiments in the laboratory of the Institute of Experimental Medicine and Biotechnology Samara State Medical University were obtained from the cell culture of hyaline cartilage and human skin, which have previously been grown, and then identified by morphological and immunohistochemical methods. In the experiment, they were seeded on the porous 3D- graft (controlled by means of scanning electron and confocal microscopy) and cultured in full growth medium. After completion of the flight of spacecraft "BION -M" No. 1 conducted studies of biological objects using a scanning electron microscope (JEOL JSM-6390A Analysis Station, Japan), confocal microscopy and LDH - test. According to the results of the experiment revealed that after a 30- day flight of the cells not only retained vitality, but also during the flight actively proliferate, and their number has increased by almost 8 times. In synchronous experiment, all the cells died by this date. The experimentally confirmed the adequacy of the proposed model 3D- graft in studying the effect of space flight on the morphological and functional characteristics of cells in vitro.

Challenges, pitfalls and surprises: development and validation of a monoclonal antibody for enzyme immunoassay of the steroid 1α-hydroxycorticosterone in elasmobranch species.

PubMed

Wheaton, Catharine J; Mylniczenko, Natalie D; Rimoldi, John M; Gadepalli, Rama S V S; Hart, R; O'Hara, Bobbi R; Evans, Andrew N

2018-01-31

Sharks and rays are popular species used in wildlife ecotourism and aquariums to educate the public on the behavior, ecology and conservation challenges of elasmobranchs. To understand long-term physiological health and welfare under varying social and husbandry conditions, we developed and validated an enzyme immunoassay (EIA) to measure stress/ionoregulatory hormones in managed and semi-free range southern rays (Hypanus americanus). Banked serum and interrenal samples from 27 female rays managed at Disney's The Seas with Nemo and Friends® and Castaway Cay were used to evaluate measurement of 1α-hydroxycorticosterone (1αOHB) relative to corticosterone (B). Although commercial EIAs are available for B, those tested exhibit only low relative cross-reactivity to 1αOHB (3-5%). To improve measurement of 1αOHB, we developed a monoclonal antibody using a synthesized 1αOHB-derivative for evaluation using high-performance liquid chromatography (HPLC) and EIA. Relative displacements of cross-reactant compounds showed that the antibody had good sensitivity for the target antigen 1αOHB, and low sensitivity to related steroids (desoxycorticosterone and B), but greater sensitivity to 11-dehydrocorticosterone. Tests of competitive vs. noncompetitive EIA formats, reagent titration, and incubation times of the antibody and conjugate were used to optimize sensitivity, repeatability and precision of measured 1αOHB in standards and samples (4 ng/ml, 90% binding). Tests of sample pre-treatment (pH adjustment) and extraction with varying solvent polarity were used to optimize measurement of 1αOHB in <1 ml (serum) or 1 g (interrenal) samples. HPLC analysis revealed the 1αOHB EIA to be superior for measurement of 1αOHB compared to use of a B EIA with or without HPLC fractioning. Results may prove useful for extrapolation to guide best practices for 1αOHB measurement in other elasmobranch species. Improved measurement of stress/ionoregulatory hormones in sharks and rays will be important for many aspects of collection, transport, medical treatment in aquaria and conservation management of these charismatic and ecologically important species. Copyright © 2018 Elsevier Inc. All rights reserved.

Caretaker's caries experience and its association with early childhood caries and children's oral health-related quality of life: A prospective two-generation study.

PubMed

Birungi, Nancy; Fadnes, Lars Thore; Nankabirwa, Victoria; Tumwine, James Kashugyera; Åstrøm, Anne Nordrehaug

2016-11-01

The first objective of this study is to examine the association between caretakers' caries experience and caries experience of their children. Second, to investigate whether children's and caretaker's caries experience is associated with oral health-related quality of life (OHRQoL) of children and their families. This study is based on the prenatal recruitment interviews and the 5-year follow-up of 417 caretaker-children pairs from the Ugandan site of the PROMISE-EBF trial conducted in Mbale, Eastern Uganda. Face-to-face interviews were conducted with caretakers at the household level. Caries experience of caretakers (DMFT >0) and children (dmft >0) were assessed in accordance with the criteria of the World Health Organization. OHRQoL was assessed using an abbreviated version of the Early Childhood Oral Health Impact Scale (ECOHIS). Adjusted negative binomial regression analysis revealed that caretaker's caries experience was positively associated with early childhood caries of their offspring (IRR 2.0, 95% confidence interval (CI) 1.3-3.0). Children's caries experience (IRR 1.8, 95% CI 1.2-3.0), but not caries experience of caretakers, was associated with worse OHRQoL of children and their families. Caretakers who perceived good child oral health were less likely to report OHRQoL impacts (IRR 0.20, 95% CI 0.12-0.35). Improving caretaker's caries experience and her perception of child's oral health status could improve children's caries experience and the OHRQoL of children and family. Such knowledge is important and should inform public oral health programs for young children.

Regret causes ego-depletion and finding benefits in the regrettable events alleviates ego-depletion.

PubMed

Gao, Hongmei; Zhang, Yan; Wang, Fang; Xu, Yan; Hong, Ying-Yi; Jiang, Jiang

2014-01-01

This study tested the hypotheses that experiencing regret would result in ego-depletion, while finding benefits (i.e., "silver linings") in the regret-eliciting events counteracted the ego-depletion effect. Using a modified gambling paradigm (Experiments 1, 2, and 4) and a retrospective method (Experiments 3 and 5), five experiments were conducted to induce regret. Results revealed that experiencing regret undermined performance on subsequent tasks, including a paper-and-pencil calculation task (Experiment 1), a Stroop task (Experiment 2), and a mental arithmetic task (Experiment 3). Furthermore, finding benefits in the regret-eliciting events improved subsequent performance (Experiments 4 and 5), and this improvement was mediated by participants' perceived vitality (Experiment 4). This study extended the depletion model of self-regulation by considering emotions with self-conscious components (in our case, regret). Moreover, it provided a comprehensive understanding of how people felt and performed after experiencing regret and after finding benefits in the events that caused the regret.

Feasibility study of ITS model experiment plan in Japan : Vehicle, Road and Traffic Intelligent Society (VERTIS)

DOT National Transportation Integrated Search

2000-11-09

In 1997, the 5 ITS ministries and the agency committee laid out the ITS model experiment plan as a strategy for the Comprehensive ITS Plan, and decided to conduct a feasibility study (FS) of the experiment plan in the 3 years from 1997 to 1999. : The...

Ocean Mixed Layer responses to intense meteorological events during HyMeX-SOP1 from a high-resolution ocean simulation

NASA Astrophysics Data System (ADS)

Lebeaupin Brossier, Cindy; Arsouze, Thomas; Béranger, Karine; Bouin, Marie-Noëlle; Bresson, Emilie; Ducrocq, Véronique; Giordani, Hervé; Nuret, Mathieu; Rainaud, Romain; Taupier-Letage, Isabelle

2014-12-01

The western Mediterranean Sea is a source of heat and humidity for the atmospheric low-levels in autumn. Large exchanges take place at the air-sea interface, especially during intense meteorological events, such as heavy precipitation and/or strong winds. The Ocean Mixed Layer (OML), which is quite thin at this time of year (∼ 20 m-depth), evolves rapidly under such intense fluxes. This study investigates the ocean responses under intense meteorological events that occurred during HyMeX SOP1 (5 September-6 November 2012). The OML conditions and tendencies are derived from a high-resolution ocean simulation using the sub-regional eddy-resolving NEMO-WMED36 model (1/36°-resolution), driven at the surface by hourly air-sea fluxes from the AROME-WMED forecasts (2.5 km-resolution). The high space-time resolution of the atmospheric forcing allows the highly variable surface fluxes, which induce rapid changes in the OML, to be well represented and linked to small-scale atmospheric processes. First, the simulation results are compared to ocean profiles from several platforms obtained during the campaign. Then, this study focuses on the short-term OML evolution during three events. In particular, we examine the OML cooling and mixing under strong wind events, potentially associated with upwelling, as well as the surface freshening under heavy precipitation events, producing low-salinity lenses. Tendencies demonstrate the major role of the surface forcing in the temperature and/or salinity anomaly formation. At the same time, mixing [restratification] rapidly occurs. As expected, the sign of this tendency term is very dependent on the local vertical stratification which varies at fine scale in the Mediterranean. It also controls [disables] the vertical propagation. In the Alboran Sea, the strong dynamics redistribute the OML anomalies, sometimes up to 7 days after their formation. Elsewhere, despite local amplitude modulations due to internal wave excitation by strong winds, the integrated effect of the horizontal advection is almost null on the anomalies' spread and decay. Finally, diffusion has a small contribution.

CSEP-Japan: The Japanese node of the collaboratory for the study of earthquake predictability

NASA Astrophysics Data System (ADS)

Yokoi, S.; Tsuruoka, H.; Nanjo, K.; Hirata, N.

2011-12-01

Collaboratory for the Study of Earthquake Predictability (CSEP) is a global project of earthquake predictability research. The final goal of this project is to have a look for the intrinsic predictability of the earthquake rupture process through forecast testing experiments. The Earthquake Research Institute, the University of Tokyo joined the CSEP and started the Japanese testing center called as CSEP-Japan. This testing center constitutes an open access to researchers contributing earthquake forecast models for applied to Japan. A total of 91 earthquake forecast models were submitted on the prospective experiment starting from 1 November 2009. The models are separated into 4 testing classes (1 day, 3 months, 1 year and 3 years) and 3 testing regions covering an area of Japan including sea area, Japanese mainland and Kanto district. We evaluate the performance of the models in the official suite of tests defined by the CSEP. The experiments of 1-day, 3-month, 1-year and 3-year forecasting classes were implemented for 92 rounds, 4 rounds, 1round and 0 round (now in progress), respectively. The results of the 3-month class gave us new knowledge concerning statistical forecasting models. All models showed a good performance for magnitude forecasting. On the other hand, observation is hardly consistent in space-distribution with most models in some cases where many earthquakes occurred at the same spot. Throughout the experiment, it has been clarified that some properties of the CSEP's evaluation tests such as the L-test show strong correlation with the N-test. We are now processing to own (cyber-) infrastructure to support the forecast experiment as follows. (1) Japanese seismicity has changed since the 2011 Tohoku earthquake. The 3rd call for forecasting models was announced in order to promote model improvement for forecasting earthquakes after this earthquake. So, we provide Japanese seismicity catalog maintained by JMA for modelers to study how seismicity changes in Japan. (2) Now we prepare the 3-D forecasting experiment with a depth range of 0 to 100 km in Kanto region. (3) The testing center improved an evaluation system for 1-day class experiment because this testing class required fast calculation ability to finish forecasting and testing results within one day. This development will make a real-time forecasting system come true. (4) The special issue of 1st part titled Earthquake Forecast Testing Experiment in Japan was published on the Earth, Planets and Space Vol. 63, No.3, 2011 on March, 2011. This issue includes papers of algorithm of statistical models participating our experiment and outline of the experiment in Japan. The 2nd part of this issue, which is now on line, will be published soon. In this presentation, we will overview CSEP-Japan and results of the experiments, and discuss direction of our activity. An outline of the experiment and activities of the Japanese Testing Center are published on our WEB site;

Advanced Alarm Systems: Revision of Guidance and Its Technical Basis

DTIC Science & Technology

2000-11-01

was required to generalize from the unique aspects of individual experiments and studies to actual applications in the workplace . This is because...types of equipment used). For example , laboratory experiments often do not involve tasks of the complexity of NPP operations, and most experiments do...Cognitive Compatibility, Situation Awareness, Task Compatibility, and Timeliness. Figure 3.3 Example of an alarm system design review guideline Each

The impact of stereo 3D sports TV broadcasts on user's depth perception and spatial presence experience

NASA Astrophysics Data System (ADS)

Weigelt, K.; Wiemeyer, J.

2014-03-01

This work examines the impact of content and presentation parameters in 2D versus 3D on depth perception and spatial presence, and provides guidelines for stereoscopic content development for 3D sports TV broadcasts and cognate subjects. Under consideration of depth perception and spatial presence experience, a preliminary study with 8 participants (sports: soccer and boxing) and a main study with 31 participants (sports: soccer and BMX-Miniramp) were performed. The dimension (2D vs. 3D) and camera position (near vs. far) were manipulated for soccer and boxing. In addition for soccer, the field of view (small vs. large) was examined. Moreover, the direction of motion (horizontal vs. depth) was considered for BMX-Miniramp. Subjective assessments, behavioural tests and qualitative interviews were implemented. The results confirm a strong effect of 3D on both depth perception and spatial presence experience as well as selective influences of camera distance and field of view. The results can improve understanding of the perception and experience of 3D TV as a medium. Finally, recommendations are derived on how to use various 3D sports ideally as content for TV broadcasts.

National Survey of Sensory Features in Children with ASD: Factor Structure of the Sensory Experience Questionnaire (3.0)

ERIC Educational Resources Information Center

Ausderau, Karla; Sideris, John; Furlong, Melissa; Little, Lauren M.; Bulluck, John; Baranek, Grace T.

2014-01-01

This national online survey study characterized sensory features in 1,307 children with autism spectrum disorder (ASD) ages 2-12 years using the Sensory Experiences Questionnaire Version 3.0 (SEQ-3.0). Using the SEQ-3.0, a confirmatory factor analytic model with four substantive factors of hypothesized sensory response patterns (i.e.,…

A shape-based account for holistic face processing.

PubMed

Zhao, Mintao; Bülthoff, Heinrich H; Bülthoff, Isabelle

2016-04-01

Faces are processed holistically, so selective attention to 1 face part without any influence of the others often fails. In this study, 3 experiments investigated what type of facial information (shape or surface) underlies holistic face processing and whether generalization of holistic processing to nonexperienced faces requires extensive discrimination experience. Results show that facial shape information alone is sufficient to elicit the composite face effect (CFE), 1 of the most convincing demonstrations of holistic processing, whereas facial surface information is unnecessary (Experiment 1). The CFE is eliminated when faces differ only in surface but not shape information, suggesting that variation of facial shape information is necessary to observe holistic face processing (Experiment 2). Removing 3-dimensional (3D) facial shape information also eliminates the CFE, indicating the necessity of 3D shape information for holistic face processing (Experiment 3). Moreover, participants show similar holistic processing for faces with and without extensive discrimination experience (i.e., own- and other-race faces), suggesting that generalization of holistic processing to nonexperienced faces requires facial shape information, but does not necessarily require further individuation experience. These results provide compelling evidence that facial shape information underlies holistic face processing. This shape-based account not only offers a consistent explanation for previous studies of holistic face processing, but also suggests a new ground-in addition to expertise-for the generalization of holistic processing to different types of faces and to nonface objects. (c) 2016 APA, all rights reserved).

Project Explorer's unique experiments: Get Away Special #007

NASA Technical Reports Server (NTRS)

Henderson, A. J., Jr.

1986-01-01

The Project Explorer payload represents the first attempt at broadcasting digitized voice signals via a Space Shuttle flight on amateur radio frequencies. These amateur ham-radio frequencies will be transmitting real time data while the experiments are operating. Experiments 1, 2, and 3 represent the work of students ranging from materials processing to the science of biology. Experiment 1 will study the solidification of two hypereutectic alloys, lead-antimony and aluminum-copper. Experiment 2 will investigate the examination and growth of radish seeds in space. Experiment 3 will examine the electrochemical growth process of potassium tetrocyonoplatinate hydrate crystals and Experiment 4 involves amateur radio transmissions, monitoring and support of the entire Get Away Special (GAS) 007 payload.

Microgravity combustion experiment using high altitude balloon.

NASA Astrophysics Data System (ADS)

Kan, Yuji

In JAXA, microgravity experiment system using a high altitude balloon was developed , for good microgravity environment and short turn-around time. In this publication, I give an account of themicrogravity experiment system and a combustion experiment to utilize the system. The balloon operated vehicle (BOV) as a microgravity experiment system was developed from 2004 to 2009. Features of the BOV are (1) BOV has double capsule structure. Outside-capsule and inside-capsule are kept the non-contact state by 3-axis drag-free control. (2) The payload is spherical shape and itsdiameter is about 300 mm. (3) Keep 10-4 G level microgravity environment for about 30 seconds However, BOV’s payload was small, and could not mount large experiment module. In this study, inherits the results of past, we established a new experimental system called “iBOV” in order toaccommodate larger payload. Features of the iBOV are (1) Drag-free control use for only vertical direction. (2) The payload is a cylindrical shape and its size is about 300 mm in diameter and 700 mm in height. (3) Keep 10-3-10-4 G level microgravity environment for about 30 seconds We have "Observation experiment of flame propagation behavior of the droplets column" as experiment using iBOV. This experiment is a theme that was selected first for technical demonstration of iBOV. We are conducting the flame propagation mechanism elucidation study of fuel droplets array was placed at regular intervals. We conducted a microgravity experiments using TEXUS rocket ESA and drop tower. For this microgravity combustion experiment using high altitude balloon, we use the Engineering Model (EM) for TEXUS rocket experiment. The EM (This payload) consists of combustion vessel, droplets supporter, droplets generator, fuel syringe, igniter, digital camera, high-speed camera. And, This payload was improved from the EM as follows. 1. Add a control unit. 2. Add inside batteries for control unit and heater of combustion vessel. 3. Update of the cameras for the observation. In this experiment, we heat air in the combustion vessel to 500K, before microgravity. And during microgravity, we conduct to the follows. (1) Generate five droplets on the droplets supporter. (2) Moving droplets into combustion vessel. (3) Ignition of an edge droplet of the array using igniter. And during combustion experiment, cameras take movies of combustion phenomena. We plan to conduct this experiment in May 2014.

Three-Month-Olds' Visual Preference for Faces and Its Underlying Visual Processing Mechanisms

ERIC Educational Resources Information Center

Turati, C.; Valenza, E.; Leo, I.; Simion, F.

2005-01-01

This study was aimed at investigating the face preference phenomenon and its underlying mechanisms at 3 months of age. Using an eye-tracker apparatus, Experiment 1 demonstrated that 3-month-olds prefer natural face images to unnatural ones, replicating and extending previous evidence obtained with schematic facelike stimuli. Experiments 2 and 3…

Containerless solidification of BiFeO3 oxide under microgravity

NASA Astrophysics Data System (ADS)

Yu, Jianding; Arai, Yasutomo; Koshikawa, Naokiyo; Ishikawa, Takehito; Yoda, Shinichi

1999-07-01

Containerless solidification of BiFeO3 oxide has been carried out under microgravity with Electrostatic Levitation Furnace (ELF) aboard on the sounding rocket (TR-IA). It is a first containerless experiment using ELF under microgravity for studying the solidification of oxide insulator material. Spherical BiFeO3 sample with diameter of 5mm was heated by two lasers in oxygen and nitrogen mixing atmosphere, and the sample position by electrostatic force under pinpoint model and free drift model. In order to compare the solidification behavior in microgravity with on ground, solidification experiments of BiFeO3 in crucible and drop tube were carried out. In crucible experiment, it was very difficult to get single BiFeO3 phase, because segregation of Fe2O3 occured very fast and easily. In drop tube experiment, fine homogeneous BiFeO3 microstructure was obtained in a droplet about 300 μm. It implies that containerless processing can promote the phase selection in solidification. In microgravity experiment, because the heating temperature was lower than that of estimated, the sample was heated into Fe2O3+liquid phase region. Fe2O3 single crystal grew on the surface of the spherical sample, whose sample was clearly different from that observed in ground experiments.

Two-and 3-Year-Olds Know What Others Have and Have Not Heard

ERIC Educational Resources Information Center

Moll, Henrike; Carpenter, Malinda; Tomasello, Michael

2014-01-01

Recent studies have established that even infants can determine what others know based on previous visual experience. In the current study, we investigated whether 2-and 3-year-olds know what others know based on previous auditory experience. A child and an adult heard the sound of one object together, but only the child heard the sound of another…

Effects of environmental context on temporal perception bias in apparent motion.

PubMed

Masuda, Tomohiro; Kimura, Atsushi; Dan, Ippeita; Wada, Yuji

2011-08-01

We investigated whether the directional effect on the kappa effect can be attributed to the directional anisotropy of retinotopical space or to the representation of forces provided by environmental contexts (e.g., gravity) in an observed event. We examined whether different contexts with similar directional changes (straight vs. reversed motion) influence the kappa effect in four experiments. The object's motion appeared to depict only forces under the natural laws of physics on a slope (Experiment 1) or on a horizontal plane (Experiment 2) in virtual 3D space. In Experiments 3 and 4, the motion appeared to be subjected to external or self-driving forces additionally influenced by internal forces on a slope (Experiment 3) or a horizontal plane (Experiment 4). The results demonstrated that the directional effect on the kappa effect was observed only in Experiment 1, and not in Experiments 2 and 3, while the kappa effect was preserved. Furthermore, not even the kappa effect was observed in the reversed motion of Experiment 4. The results of the present study suggest that the determining factor of direction in the kappa effect is not a simple anisotropy, but rather the context of observed events. Copyright © 2011 Elsevier Ltd. All rights reserved.

A KINE-CHEMICAL INVESTIGATION OF THE AB DOR MOVING GROUP 'STREAM'

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

Barenfeld, Scott A.; Bubar, Eric J.; Mamajek, Eric E.

2013-03-20

The AB Dor Moving Group consists of a 'nucleus' of {approx}10 stars at d {approx_equal} 20 pc, along with dozens of purported 'stream' members distributed across the sky. We perform a chemical and kinematic analysis of a subsample of AB Dor stream stars to test whether they constitute a physical stellar group. We use the NEMO Galactic kinematic code to investigate the orbits of the stream members, and perform a chemical abundance analysis using high resolution spectra taken with the Magellan Clay 6.5 m telescope. Using a {chi}{sup 2} test with the measured abundances for 10 different elements, we findmore » that only half of the purported AB Dor stream members could possibly constitute a statistically chemically homogeneous sample. Some stream members with three-dimensional velocities were hundreds of parsecs from the AB Dor nucleus {approx}10{sup 8} yr ago, and hence were unlikely to share a common origin. We conclude that the published lists of AB Dor moving group stream members are unlikely to represent the dispersed remnant of a single star formation episode. A subsample of the stream stars appears to be both statistically chemically homogeneous and in the vicinity of the AB Dor nucleus at birth. Their mean metallicity is [Fe/H] = 0.02 {+-} 0.02 dex, which we consider representative for the AB Dor group. Finally, we report a strong lower limit on the age of the AB Dor nucleus of >110 Myr based on the pre-main sequence contraction times for K-type members which have reached the main sequence.« less

A Kine-chemical Investigation of the AB Dor Moving Group "Stream"

NASA Astrophysics Data System (ADS)

Barenfeld, Scott A.; Bubar, Eric J.; Mamajek, Eric E.; Young, Patrick A.

2013-03-01

The AB Dor Moving Group consists of a "nucleus" of ~10 stars at d ~= 20 pc, along with dozens of purported "stream" members distributed across the sky. We perform a chemical and kinematic analysis of a subsample of AB Dor stream stars to test whether they constitute a physical stellar group. We use the NEMO Galactic kinematic code to investigate the orbits of the stream members, and perform a chemical abundance analysis using high resolution spectra taken with the Magellan Clay 6.5 m telescope. Using a χ2 test with the measured abundances for 10 different elements, we find that only half of the purported AB Dor stream members could possibly constitute a statistically chemically homogeneous sample. Some stream members with three-dimensional velocities were hundreds of parsecs from the AB Dor nucleus ~108 yr ago, and hence were unlikely to share a common origin. We conclude that the published lists of AB Dor moving group stream members are unlikely to represent the dispersed remnant of a single star formation episode. A subsample of the stream stars appears to be both statistically chemically homogeneous and in the vicinity of the AB Dor nucleus at birth. Their mean metallicity is [Fe/H] = 0.02 ± 0.02 dex, which we consider representative for the AB Dor group. Finally, we report a strong lower limit on the age of the AB Dor nucleus of >110 Myr based on the pre-main sequence contraction times for K-type members which have reached the main sequence.

Al-Awadi-Raas-Rothschild syndrome with dental anomalies and a novel WNT7A mutation.

PubMed

Kantaputra, Piranit Nik; Kapoor, Seema; Verma, Prashant; Kaewgahya, Massupa; Kawasaki, Katsushige; Ohazama, Atsushi; Ketudat Cairns, James R

2017-12-01

Al-Awadi-Raas-Rothschild syndrome (AARRS; OMIM 276820) is a very rare autosomal recessive limb malformation syndrome caused by WNT7A mutations. AARRS is characterized by various degrees of limb aplasia and hypoplasia. Normal intelligence and malformations of urogenital system are frequent findings. Complete loss of WNT7A function has been shown to cause AARRS, however, its partial loss leads to the milder malformation, Fuhrmann syndrome. An Indian boy affected with AARRS is reported. A novel homozygous base substitution mutation c.550A > C (p.Asn184Asp) is identified in the patient. Parents were heterozygous for the mutation. In addition to the typical features of AARRS, the patient had agenesis of the mandibular left deciduous lateral incisor. The heterozygous parents had microdontia of the maxillary left permanent third molar and taurodontism (enlarged dental pulp chamber at the expense of root) in a number of their permanent molars. Whole exome sequencing of the patient and his parents ruled out mutations in 11 known hypodontia-associated genes including WNT10A, MSX1, EDA, EDAR, EDARADD, PAX9, AXIN2, GREM2, NEMO, KRT17, and TFAP2B. In situ hybridization during tooth development showed Wnt7a expression in wild-type tooth epithelium at E14.5. All lines of evidence suggest that WNT7A has important role in tooth development and its mutation may lead to tooth agenesis, microdontia, and taurodontism. Oral examination of patients with AARRS and Fuhrmann syndromes is highly recommended. Copyright © 2017 Elsevier Masson SAS. All rights reserved.

On the impact of the resolution on the surface and subsurface Eastern Tropical Atlantic warm bias

NASA Astrophysics Data System (ADS)

Martín-Rey, Marta; Lazar, Alban

2016-04-01

The tropical variability has a great importance for the climate of adjacent areas. Its sea surface temperature anomalies (SSTA) affect in particular the Brazilian Nordeste and the Sahelian region, as well as the tropical Pacific or the Euro-Atlantic sector. Nevertheless, the state-of the art climate models exhibits very large systematic errors in reproducing the seasonal cycle and inter-annual variability in the equatorial and coastal Africa upwelling zones (up to several °C for SST). Theses biases exist already, in smaller proportions though, in forced ocean models (several 1/10th of °C), and affect not only the mixed layer but also the whole thermocline. Here, we present an analysis of the impact of horizontal and vertical resolution changes on these biases. Three different DRAKKAR NEMO OGCM simulations have been analysed, associated to the same forcing set (DFS4.4) with different grid resolutions: "REF" for reference (1/4°, 46 vertical levels), "HH" with a finer horizontal grid (1/12°, 46 v.l.) and "HV" with a finer vertical grid (1/4°, 75 v.l.). At the surface, a more realistic seasonal SST cycle is produced in HH in the three upwellings, where the warm bias decreases (by 10% - 20%) during boreal spring and summer. A notable result is that increasing vertical resolution in HV causes a shift (in advance) of the upwelling SST seasonal cycles. In order to better understand these results, we estimate the three upwelling subsurface temperature errors, using various in-situ datasets, and provide thus a three-dimensional view of the biases.

Fluid shear stress regulates vascular remodeling via VEGFR-3 activation, although independently of its ligand, VEGF-C, in the uterus during pregnancy

PubMed Central

Park, Yang-Gyu; Choi, Jawun; Jung, Hye-Kang; Song, In Kyu; Shin, Yongwhan; Park, Sang-Youel; Seol, Jae-Won

2017-01-01

Early pregnancy is characterized by an increase in the blood volume of the uterus for embryonic development, thereby exerting fluid shear stress (FSS) on the vascular walls. The uterus experiences vascular remodeling to accommodate the increased blood flow. The blood flow-induced FSS elevates the expression of vascular endothelial growth factors (VEGFs) and their receptors, and regulates vascular remodeling through the activation of VEGF receptor-3 (VEGFR-3). However, the mechanisms responsible for FSS-induced VEGFR-3 expression in the uterus during pregnancy are unclear. In this study, we demonstrate that vascular remodeling in the uterus during pregnancy is regulated by FSS-induced VEGFR-3 expression. We examined the association between VEGFR-3 and FSS through in vivo and in vitro experiments. In vivo experiments revealed VEGFR-3 expression in the CD31-positive region of the uterus of pregnant mice; VEGF-C (ligand for VEGFR-3) was undetected in the uterus. These results confirmed that VEGFR-3 expression in the endometrium is independent of its ligand. In vitro studies experiments revealed that FSS induced morphological changes and increased VEGFR-3 expression in human uterine microvascular endothelial cells. Thus, VEGFR-3 activation by FSS is associated with vascular remodeling to allow increased blood flow in the uterus during pregnancy. PMID:28849193

Fluid shear stress regulates vascular remodeling via VEGFR-3 activation, although independently of its ligand, VEGF-C, in the uterus during pregnancy.

PubMed

Park, Yang-Gyu; Choi, Jawun; Jung, Hye-Kang; Song, In Kyu; Shin, Yongwhan; Park, Sang-Youel; Seol, Jae-Won

2017-10-01

Early pregnancy is characterized by an increase in the blood volume of the uterus for embryonic development, thereby exerting fluid shear stress (FSS) on the vascular walls. The uterus experiences vascular remodeling to accommodate the increased blood flow. The blood flow‑induced FSS elevates the expression of vascular endothelial growth factors (VEGFs) and their receptors, and regulates vascular remodeling through the activation of VEGF receptor-3 (VEGFR-3). However, the mechanisms responsible for FSS-induced VEGFR-3 expression in the uterus during pregnancy are unclear. In this study, we demonstrate that vascular remodeling in the uterus during pregnancy is regulated by FSS-induced VEGFR-3 expression. We examined the association between VEGFR-3 and FSS through in vivo and in vitro experiments. In vivo experiments revealed VEGFR-3 expression in the CD31-positive region of the uterus of pregnant mice; VEGF-C (ligand for VEGFR‑3) was undetected in the uterus. These results confirmed that VEGFR-3 expression in the endometrium is independent of its ligand. In vitro studies experiments revealed that FSS induced morphological changes and increased VEGFR-3 expression in human uterine microvascular endothelial cells. Thus, VEGFR-3 activation by FSS is associated with vascular remodeling to allow increased blood flow in the uterus during pregnancy.

Diving into Science. Hands-On Water-Related Experiments. Grades 2-4.

ERIC Educational Resources Information Center

Perdue, Peggy K.

This book contains hands-on ocean-related laboratory activities. Major chapter hearings are: (1) "Water Experiments" (dealing with the physical nature of water and listing 10 activities); (2) "Ocean-Going Vessels" (studying the principles of boats, with three experiments); (3) "Experiments Using Shells" (containing four activities); (4) "Sand…

Payload Specialist Charles Walker with handheld protein growth experiment

NASA Image and Video Library

1985-11-26

61B-02-014 (26 Nov-3 Dec 1985) --- Payload Specialist Charles D. Walker works with the handheld protein growth experiment -- one of a series of tests being flown to study the possibility of crystallizing biological materials. Walker rests the experiment against the larger continuous flow electrophoresis systems experiment.

The Experience of Creating Community: An Intrinsic Case Study of Four Midwestern Public School Choral Teachers

ERIC Educational Resources Information Center

Parker, Elizabeth Cassidy

2016-01-01

The purpose of this intrinsic case study was to explore four midwestern choral teachers' experiences of creating and sustaining community within their public school choirs. Research questions included (1) how choral teachers describe their experiences of creating choral communities, (2) how the teacher-student relationship is experienced, and (3)…

Early and Later Experience with One Younger Sibling Affects Face Processing Abilities of 6-Year-Old Children

ERIC Educational Resources Information Center

Cassia, Viola Macchi; Proietti, Valentina; Pisacane, Antonella

2013-01-01

Available evidence indicates that experience with one face from a specific age group improves face-processing abilities if acquired within the first 3 years of life but not in adulthood. In the current study, we tested whether the effects of early experience endure at age 6 and whether the first 3 years of life are a sensitive period for the…

Contextual cueing in 3D visual search depends on representations in planar-, not depth-defined space.

PubMed

Zang, Xuelian; Shi, Zhuanghua; Müller, Hermann J; Conci, Markus

2017-05-01

Learning of spatial inter-item associations can speed up visual search in everyday life, an effect referred to as contextual cueing (Chun & Jiang, 1998). Whereas previous studies investigated contextual cueing primarily using 2D layouts, the current study examined how 3D depth influences contextual learning in visual search. In two experiments, the search items were presented evenly distributed across front and back planes in an initial training session. In the subsequent test session, the search items were either swapped between the front and back planes (Experiment 1) or between the left and right halves (Experiment 2) of the displays. The results showed that repeated spatial contexts were learned efficiently under 3D viewing conditions, facilitating search in the training sessions, in both experiments. Importantly, contextual cueing remained robust and virtually unaffected following the swap of depth planes in Experiment 1, but it was substantially reduced (to nonsignificant levels) following the left-right side swap in Experiment 2. This result pattern indicates that spatial, but not depth, inter-item variations limit effective contextual guidance. Restated, contextual cueing (even under 3D viewing conditions) is primarily based on 2D inter-item associations, while depth-defined spatial regularities are probably not encoded during contextual learning. Hence, changing the depth relations does not impact the cueing effect.

Students' Experience of External Studies. Student Diary Project.

ERIC Educational Resources Information Center

Parer, Michael S.

This study examined students' experiences of external study at Gippsland Institute through the method of student self-report study diaries. Questions which were addressed include: (1) Why are external students taking courses at Gippsland? (2) What do they hope to gain? (3) How do they handle particular study guides and assignment materials? (4)…

High-temperature shock tube and modeling studies on the reactions of methanol with D-atoms and CH3-radicals.

PubMed

Peukert, S L; Michael, J V

2013-10-10

The shock tube technique has been used to study the hydrogen abstraction reactions D + CH3OH → CH2O + H + HD (A) and CH3 + CH3OH → CH2O + H + CH4 (B). For reaction A, the experiments span a T-range of 1016 K ≤ T ≤ 1325 K, at pressures 0.25 bar ≤ P ≤ 0.46 bar. The experiments on reaction B, CH3 + CH3OH, cover a T-range of 1138 K ≤ T ≤ 1270 K, at pressures around 0.40 bar. Reflected shock tube experiments, monitoring the depletion of D-atoms by applying D-atom atomic resonance absorption spectrometry (ARAS), were performed on reaction A using gas mixtures of C2D5I and CH3OH in Kr bath gas. C2D5I was used as precursor for D-atoms. For reaction B, reflected shock tube experiments monitoring H-atom formation with H-ARAS, were carried out using gas mixtures of diacetyl ((CH3CO)2) and CH3OH in Kr bath gas. (CH3CO)2 was used as the source of CH3-radicals. Detailed reaction models were assembled to fit the D-atom and H-atom time profiles in order to obtain experimental rate constants for reactions A and B. Total rate constants from the present experiments on D + CH3OH and CH3 + CH3OH can be represented by the Arrhenius equations kA(T) = 1.51 × 10(-10) exp(-3843 K/T) cm(3) molecules(-1) s(-1) (1016 K ≤ T ≤ 1325 K) and kB(T) = 9.62 × 10(-12) exp(-7477 K/T) cm(3) molecules(-1) s(-1) (1138 K ≤ T ≤ 1270 K). The experimentally obtained rate constants were compared with available rate data from the literature. The results from quantum chemical studies on reaction A were found to be in good agreement with the present results. The present work represents the first direct experimental study on these bimolecular reactions at combustion temperatures and is important to the high-temperature oxidation of CH3OH.

3D micro-mapping: Towards assessing the quality of crowdsourcing to support 3D point cloud analysis

NASA Astrophysics Data System (ADS)

Herfort, Benjamin; Höfle, Bernhard; Klonner, Carolin

2018-03-01

In this paper, we propose a method to crowdsource the task of complex three-dimensional information extraction from 3D point clouds. We design web-based 3D micro tasks tailored to assess segmented LiDAR point clouds of urban trees and investigate the quality of the approach in an empirical user study. Our results for three different experiments with increasing complexity indicate that a single crowdsourcing task can be solved in a very short time of less than five seconds on average. Furthermore, the results of our empirical case study reveal that the accuracy, sensitivity and precision of 3D crowdsourcing are high for most information extraction problems. For our first experiment (binary classification with single answer) we obtain an accuracy of 91%, a sensitivity of 95% and a precision of 92%. For the more complex tasks of the second Experiment 2 (multiple answer classification) the accuracy ranges from 65% to 99% depending on the label class. Regarding the third experiment - the determination of the crown base height of individual trees - our study highlights that crowdsourcing can be a tool to obtain values with even higher accuracy in comparison to an automated computer-based approach. Finally, we found out that the accuracy of the crowdsourced results for all experiments is hardly influenced by characteristics of the input point cloud data and of the users. Importantly, the results' accuracy can be estimated using agreement among volunteers as an intrinsic indicator, which makes a broad application of 3D micro-mapping very promising.

Word-identification priming for ignored and attended words

NASA Technical Reports Server (NTRS)

Stone, M.; Ladd, S. L.; Vaidya, C. J.; Gabrieli, J. D.

1998-01-01

Three experiments examined contributions of study phase awareness of word identity to subsequent word-identification priming by manipulating visual attention to words at study. In Experiment 1, word-identification priming was reduced for ignored relative to attended words, even though ignored words were identified sufficiently to produce negative priming in the study phase. Word-identification priming was also reduced after color naming relative to emotional valence rating (Experiment 2) or word reading (Experiment 3), even though an effect of emotional valence upon color naming (Experiment 2) indicated that words were identified at study. Thus, word-identification priming was reduced even when word identification occurred at study. Word-identification priming may depend on awareness of word identity at the time of study.

Influence of previous experience on resistance training on reliability of one-repetition maximum test.

PubMed

Ritti-Dias, Raphael Mendes; Avelar, Ademar; Salvador, Emanuel Péricles; Cyrino, Edilson Serpeloni

2011-05-01

The 1-repetition maximum test (1RM) has been widely used to assess maximal strength. However, to improve accuracy in assessing maximal strength, several sessions of the 1RM test are recommended. The aim of this study was to analyze the influence of previous resistance training experience on the reliability of 1RM test. Thirty men were assigned to the following 2 groups according to their previous resistance training experience: no previous resistance training experience (NOEXP) and more than 24 months of resistance training experience (EXP). All subjects performed the 1RM tests in bench press and squat in 4 sessions on distinct days. There was a significant session × group effect in bench press (F = 3.09; p < 0.03) and squat (F = 2.76; p < 0.05) showing that only the NOEXP increased maximal strength between the sessions. Significant increases (p < 0.05) in maximal strength occurred in the NOEXP between session 1 and the other sessions in bench press (session 1 vs. 2 = +3.8%; session 1 vs. 3 = +7.4%; session 1 vs. 4 = +10.1%), and squat (session 1 vs. 2 = +7.6%; session 1 vs. 3 = +10.1%; session 1 vs. 4 = +11.2%). Moreover, in bench press, maximal strength in sessions 3 and 4 were significantly higher than in session 2. The results of the present study suggest that the reliability of the 1RM test is influenced by the subject's previous experience in resistance training. Subjects without experience in resistance training require more practice and familiarization and show greater increases in maximal strength between sessions than subjects with previous experience in resistance training.

Effect of holding technique and culture drop size in individual or group culture on blastocyst development after ICSI of equine oocytes with low meiotic competence.

PubMed

Choi, Y H; Love, L B; Varner, D D; Hinrichs, K

2007-11-01

The effect of medium-to-embryo ratio on blastocyst development of equine embryos from oocytes with compact cumuli was evaluated in the present experiment. In addition, two methods for holding oocytes before in vitro maturation were compared. In Experiment 1, oocytes cultured with roscovitine for 16-18h before maturation were fertilized by intracytoplasmic sperm injection and cultured individually in 2.5, 5, 10 or 50microl droplets. In Experiment 2, oocytes were either cultured with roscovitine or held in a modified M199 with 20% serum at room temperature (EH treatment) for 16-18h, then matured, fertilized and cultured in groups at 5microl medium per embryo. In Experiment 3, oocytes were held in the EH treatment, then were matured and fertilized. In Study 3.1, injected oocytes were cultured individually in drop sizes as for Experiment 1; in Study 3.2, groups of 2-7 oocytes were cultured in fixed drop sizes of 5 or 50microl. Blastocyst development rates of individually-cultured embryos were not significantly different among drop sizes in either Experiment 1 or 3 (15-29%). In Experiment 2, blastocyst rates were not significantly different between holding treatments (17-23%). In Experiment 3, for group-cultured oocytes, blastocyst development was not significantly different between 5 and 50microl drops (39 and 27%, respectively). In conclusion, compact-cumulus oocytes may be effectively held in the EH treatment before maturation, and single culture of equine embryos yields acceptable blastocyst development. The greatest blastocyst rate (39%) was obtained with group culture in a 5microl droplet.

How does ytterbium chloride interact with DMPC bilayers? A computational and experimental study.

PubMed

Gonzalez, Miguel A; Barriga, Hanna M G; Richens, Joanna L; Law, Robert V; O'Shea, Paul; Bresme, Fernando

2017-03-29

Lanthanide salts have been studied for many years, primarily in Nuclear Magnetic Resonance (NMR) experiments of mixed lipid-protein systems and more recently to study lipid flip-flop in model membrane systems. It is well recognised that lanthanide salts can influence the behaviour of both lipid and protein systems, however a full molecular level description of lipid-lanthanide interactions is still outstanding. Here we present a study of lanthanide-bilayer interactions, using molecular dynamics computer simulations, fluorescence electrostatic potential experiments and nuclear magnetic resonance. Computer simulations reveal the microscopic structure of DMPC lipid bilayers in the presence of Yb 3+ , and a surprising ability of the membranes to adsorb significant concentrations of Yb 3+ without disrupting the overall membrane structure. At concentrations commonly used in NMR experiments, Yb 3+ ions bind strongly to 5 lipids, inducing a small decrease of the area per lipid and a slight increase of the ordering of the aliphatic chains and the bilayer thickness. The area compressibility modulus increases by a factor of two, with respect to the free-salt case, showing that Yb 3+ ions make the bilayer more rigid. These modifications of the bilayer properties should be taken into account in the interpretation of NMR experiments.

Nested high resolution models for the coastal areas of the North Indian Ocean

NASA Astrophysics Data System (ADS)

Wobus, Fred; Shapiro, Georgy

2017-04-01

Oceanographic processes at coastal scales require much higher horizontal resolution from both ocean models and observations as compared to deep water oceanography. Aside from a few exceptions such as land-locked seas, the hydrodynamics of coastal shallow waters is strongly influenced by the tides, which in turn control the mixing, formation of temperature fronts and other phenomena. The numerical modelling of the coastal domains requires good knowledge of the lateral boundary conditions. The application of lateral boundary conditions to ocean models is a notoriously tricky task, but can only be avoided with global ocean models. Smaller scale regional ocean models are typically nested within global models, and even smaller-scale coastal models may be nested within regional models, creating a nesting chain. However a direct nesting of a very high resolution coastal model into a coarse resolution global model results in degrading of the accuracy of the outputs due to the large difference between the model resolutions. This is why a nesting chain has to be applied, so that every increase in resolution is kept within a reasonable minimum (typically by a factor of 3 to 5 at each step). Global models are traditionally non-tidal, so at some stage of the nesting chain the tides need to be introduced. This is typically done by calculating the tidal constituents from a dedicated tidal model (e.g. TPXO) for all boundary points of a nested model. The tidal elevation at each boundary location can then be calculated from the harmonics at every model time step and the added to the parent model non-tidal SSH. This combination of harmonics-derived tidal SSH and non-tidal parent model SSH is typically applied to the nested domain using the Flather condition, together with the baroclinic velocities from the parent model. The harmonics-derived SSH cannot be added to an SSH signal that is already tidal, so the parent model SSH has to be either detided or taken from a non-tidal model. Due to the lack of effective detiding methods and the prevailing view that harmonics-derived SSH provide a cleaner tidal signal over the SSH taken from a tidal parent model it has traditionally only been the last model in a nesting chain that is tidal. But to our knowledge these assumptions haven't been sufficiently tested and need to be re-visited. Furthermore, the lack of tides in the larger-scale regional models limits their capability and we would like to push for a nesting chain where all regional models (including the intermediate ones) are tidal. In this study we have conducted a number of numerical experiments where we have tested whether a tidal regional model can effectively force a tidal nested model without resorting to detiding techniques and the use of a dedicated tidal model such as TPXO. We have tested whether it's possible to use a tidal parent model and use the total SSH (combined geostrophic SSH and tidal component) to force the child model at the boundary. We call this strategy "tidal nesting" as opposed to TPXO tidal forcing which is used in "traditional nesting". For our experiments we have developed 2 models based on the same NEMO 3.6 codebase. The medium resolution AS20 model covers the Arabian Sea at 1/20 ̊ with 50 layers using a hybrid s-on-top-of-z vertical discretisation scheme (Shapiro et al., 2013); and the high resolution AG60 model covers the Arabian/Persian Gulf at 1/60 ̊ with 50 layers. The AS20 model is "traditionally" nested within the UK Met Office non-tidal large-scale Indian Ocean model at 1/12 ̊ resolution and tidal constituents at the boundary are taken from the TPXO7.2 Global Tidal Solution. Our "tidal nesting" experiments use different forcing frequencies at which the tidal SSH is fed from the larger-scale AS20 into the smaller-scale AG60 model. These strategies are compared with "traditional nesting" where the inner AG60 uses boundary conditions from a non-tidal AS20 parent model and tides are computed from TPXO harmonics. The results reveal an optimal tidal nesting strategy which forces tidal SSH from the parent model at 1-hourly intervals whilst non-tidal parameters are forced at 24-hourly intervals. The analysis includes comparisons with tidal gauges in the Gulf of Oman and inside the Arabian Gulf. The accuracy of tides inside the Gulf is inhibited by the narrow Straits of Hormuz, and tidal nesting doesn't achieve the same level of agreement with observation as traditional nesting. We also found that a further increase in the SSH forcing frequency to 30 minutes does not further improve the results. The forcing at intervals of 1h/24h for tidal/non-tidal parameters shows that a 2-step tidal nesting chain is viable and thus tides can be represented in more than just the last model of a nesting chain. References: Shapiro, G., Luneva, M., Pickering, J., and Storkey, D.: The effect of various vertical discretization schemes and horizontal diffusion parameterization on the performance of a 3-D ocean model: the Black Sea case study, Ocean Sci., 9, 377-390, doi:10.5194/os-9-377-2013, 2013.

Retrieval-Induced Forgetting of Arithmetic Facts

ERIC Educational Resources Information Center

Campbell, Jamie I. D.; Thompson, Valerie A.

2012-01-01

Retrieval-induced forgetting (RIF) is a widely studied phenomenon of human memory, but RIF of arithmetic facts remains relatively unexplored. In 2 experiments, we investigated RIF of simple addition facts (2 + 3 = 5) from practice of their multiplication counterparts (2 x 3 = 6). In both experiments, robust RIF expressed in response times occurred…

Skylab-3 Mission Onboard Photograph - Astronaut Bean working on Experiment S019

NASA Technical Reports Server (NTRS)

1973-01-01

This Skylab-3 mission onboard photograph shows Astronaut Alan Bean operating the Ultraviolet (UV) Stellar Astronomy experiment (S019) in the Skylab Airlock Module. The S019, a camera with a prism for UV star photography, studied the UV spectra of early-type stars and galaxies.

The Use of Mobile Health Applications to Improve Patient Experience: Cross-Sectional Study in Chinese Public Hospitals.

PubMed

Lu, Chuntao; Hu, Yinhuan; Xie, Jinzhu; Fu, Qiang; Leigh, Isabella; Governor, Samuel; Wang, Guanping

2018-05-23

The proliferation of mobile health apps has greatly changed the way society accesses the health care industry. However, despite the widespread use of mobile health apps by patients in China, there has been little research that evaluates the effect of mobile health apps on patient experience during hospital visits. The purpose of our study was to examine whether the use of mobile health apps improves patient experience and to find out the difference in patient experience between users and nonusers and the characteristics associated with the users of these apps. We used the Chinese Outpatient Experience Questionnaire to survey patient experience. A sample of 300 outpatients was randomly selected from 3 comprehensive public hospitals (3 tertiary hospitals) in Hubei province, China. Each hospital randomly selected 50 respondents from mobile health app users and 50 from nonusers. A chi-square test was employed to compare the different categorical characteristics between mobile health app users and nonusers. A t test was used to test the significance in continuous variables between user scores and nonuser scores. Multiple linear regression was conducted to determine whether the use of mobile health apps during hospital visits was associated with patient experience. The users and nonusers differed in age (χ 2 2 =12.2, P=.002), education (χ 2 3 =9.3, P=.03), living place (χ 2 1 =7.7, P=.006), and the need for specialists (χ 2 4 =11.0, P=.03). Compared with nonusers, mobile health app users in China were younger, better educated, living in urban areas, and had higher demands for specialists. In addition, mobile health app users gave significantly higher scores than nonusers in total patient experience scores (t 298 =3.919, P<.001), the 18 items and the 5 dimensions of physician-patient communication (t 298 =2.93, P=.004), health information (t 298 =3.556, P<.001), medical service fees (t 298 =3.991, P<.001), short-term outcome (t 298 =4.533, P<.001), and general satisfaction (t 298 =4.304, P<.001). Multiple linear regression results showed that the use of mobile health apps during hospital visits influenced patient experience (t 289 =3.143, P=.002). After controlling for other factors, it was shown that the use of mobile health apps increased the outpatient experience scores by 17.7%. Additional results from the study found that the self-rated health status (t 289 =3.746, P<.001) and monthly income of patients (t 289 =2.416, P=.02) influenced the patient experience as well. The use of mobile health apps could improve patient experience, especially with regard to accessing health information, making physician-patient communication more convenient, ensuring transparency in medical charge, and ameliorating short-term outcomes. All of these may contribute to positive health outcomes. Therefore, we should encourage the adoption of mobile health apps in health care settings so as to improve patient experience. ©Chuntao Lu, Yinhuan Hu, Jinzhu Xie, Qiang Fu, Isabella Leigh, Samuel Governor, Guanping Wang. Originally published in JMIR Mhealth and Uhealth (http://mhealth.jmir.org), 23.05.2018.

Paced mating behavior is affected by clitoral-vaginocervical lidocaine application in combination with sexual experience.

PubMed

Meerts, Sarah H; Strnad, Helen K; Schairer, Rosemary S

2015-03-01

The present study tested the effects of lidocaine anesthetic ointment applied to the vaginocervical (Experiment 1) or clitoral-vaginocervical (Experiment 2) areas on the display of paced mating behavior over the course of five weekly tests in ovariectomized, hormone-primed, Long-Evans rats. Experiment 3 tested whether rats that acquired sexual experience without ointment application would exhibit altered paced mating behavior on a fifth test under clitoral-vaginocervical lidocaine or vehicle application. Although rats in Experiment 1 and Experiment 2 exhibited shorter contact-return latencies after intromission and reduced likelihood of leaving the male compartment following mounts and intromissions after gaining sexual experience, only rats that received clitoral-vaginocervical lidocaine exhibited altered paced mating behavior relative to vehicle. Specifically, clitoral-vaginocervical lidocaine resulted in shorter contact-return latency to ejaculation and greater percentage of time with the male. Paced mating behavior of sexually experienced rats in Experiment 3 was not disrupted when tested after clitoral-vaginocervical lidocaine treatment. Together, these studies suggest that the sensory input during repeated mating encounters affects the pattern of paced mating behavior that develops with sexual experience. Copyright © 2014 Elsevier Inc. All rights reserved.

In-Situ Monitoring of a Bismuth-Tin Alloy Solidification Using MEPHISTO

NASA Technical Reports Server (NTRS)

Abbaschian, Reza; Beatty, Kirk M.; Chen, Fuwang; deGroh, Henry, III; Cambon, Gerard

1999-01-01

Experiments were carried out to study the morphological stability of Bi- 1 atomic % Sn alloys using the MEPHISTO directional solidification apparatus aboard Space Shuttle Columbia (STS-87, launched Nov. 19, 1997) and in ground-based studies. The Seebeck signal and temperature measurements indicate that convection was significant for ground-based studies. In the space-based experiments, interface breakdown was observed at growth velocities of 6.7, 27, and 40 microns/sec, but not at 1.8 and 3.3 microns/sec.

Peer Acceptance and Facial Recognition.

ERIC Educational Resources Information Center

Kafer, Norman F.

1981-01-01

Developmental changes in the encoding of unfamiliar faces was studied in three experiments with Australian 7- to 12-year-old children (N=24 in experiment 1, N=48 in experiment 2, and N=32 in experiment 3). Results showed that younger children encoded unfamiliar faces in terms of striking isolated features and that avoidant children made more…

Effects of Learning Experience on Forgetting Rates of Item and Associative Memories

ERIC Educational Resources Information Center

Yang, Jiongjiong; Zhan, Lexia; Wang, Yingying; Du, Xiaoya; Zhou, Wenxi; Ning, Xueling; Sun, Qing; Moscovitch, Morris

2016-01-01

Are associative memories forgotten more quickly than item memories, and does the level of original learning differentially influence forgetting rates? In this study, we addressed these questions by having participants learn single words and word pairs once (Experiment 1), three times (Experiment 2), and six times (Experiment 3) in a massed…

Predicting the Arctic Ocean Environment in the 21st century

NASA Astrophysics Data System (ADS)

Aksenov, Yevgeny; Popova, Ekaterina; Yool, Andrew; Nurser, George

2015-04-01

Recent environmental changes in the Arctic have clearly demonstrated that climate change is faster and more vigorously in the Polar Regions than anywhere else. Significantly, change in the Arctic Ocean (AO) environment presents a variety of impacts, from ecological to social-economic and political. Mitigation of this change and adaptation to it requires detailed and robust environmental predictions. Here we present a detailed projection of ocean circulation and sea ice from the present until 2099, based on an eddy-permitting high-resolution global simulation of the NEMO ¼ degree ocean model. The model is forced at the surface with HadGEM2-ES atmosphere model output from the UK Met. Office IPCC Assessment Report 5 (AR5) Representative Concentration Pathways 8.5 (RCP8.5) scenario. The HadGEM2-ES simulations span 1860-2099 and are one of an ensemble of runs performed for the Coupled Model Intercomparison Project 5 (CMIP5) and IPCC AR5. Between 2000-2009 and 2090-2099 the AO experiences a significant warming, with sea surface temperature increasing on average by about 4° C, particularly in the Barents and Kara Seas, and in the Greenland Sea and Hudson Bay. By the end of the simulation, Arctic sea ice has an average annual thickness of less than 10 cm in the central AO, and less than 0.5 m in the East-Siberian Sea and Canadian Archipelago, and disappears entirely during the Arctic summer. In summer, opening of large areas of the Arctic Ocean to the wind and surface waves leads to the Arctic pack ice cover evolving into the Marginal Ice Zone (MIZ). In winter, sea ice persists until the 2030s; then it sharply declines and disappears from the Central Arctic Ocean by the end of the 21st century, with MIZ provinces remaining in winter along the Siberian, Alaskan coasts and in the Canadian Arctic Archipelago. Analysis of the AO circulation reveals evidence of (i) the reversal of the Arctic boundary currents in the Canadian Basin, from a weak cyclonic current in 2040-2049 to a strong anti-cyclonic current in 2090-2099, and (ii) increased anti-cyclonic surface ocean circulation in the eastern part of the AO, while the surface circulation in the western Arctic becomes more cyclonic. We relate the shift in the circulation to changes in the winds and reduction of sea ice cover, which modify momentum transfer from atmosphere to the ocean. Our simulation suggests a potentially complex picture of future AO change, and highlights the importance of high resolution modelling in forecasting it.

Chemical transformations of complex mixtures relevant to atmospheric processes: Laboratory and ambient studies

NASA Astrophysics Data System (ADS)

Samy, Shahryar (Shar)

The study of atmospheric chemistry and chemical transformations, which are relevant to conditions in the ambient atmosphere require the investigation of complex mixtures. In the atmosphere, complex mixtures (e.g. diesel emissions) are continually evolving as a result of physical and chemical transformations. This dissertation examines the transformations of modern diesel emissions (DE) in a series of experiments conducted at the European Outdoor Simulation Chamber (EUPHORE) in Valencia, Spain. Experimental design challenges are addressed, and the development of a NOx removal technology (denuder) is described with results from the application of the newly developed NOx denuder in the most recent EUPHORE campaign (2006). In addition, the data from an ambient aerosol study that examines atmospheric transformation products is presented and discussed. Atmospheric transformations of DE and associated secondary organic aerosol (SOA) production, along with chemical characterization of polar organic compounds (POC) in the EUPHORE experiments, provides a valuable insight on the tranformations of modern DE in environmentally relevant atmospheres. The greatest SOA production occurred in DE with toluene addition experiments (>40%), followed by DE with HCHO (for OH radical generation) experiments. A small amount of SOA (3%) was observed for DE in dark with N2O5 (for NO3 radical production) experiments. Distinct POC formation in light versus dark experiments suggests the role of OH initiated reactions in these chamber atmospheres. A trend of increasing concentrations of dicarboxylic acids in light versus dark experiments was observed when evaluated on a compound group basis. The production of diacids (as a compound group) demonstrates a consistent indicator for photochemical transformation in relation to studies in the ambient atmosphere. The four toluene addition experiments in this study were performed at different [tol]o/[NOx]o ratios and displayed an average SOA %yield (in relation to toluene) of 5.3+/-1.6%, which is compared to past chamber studies that evaluated the impact of [tol]o/[NO x]o on SOA production in more simplified mixtures. Characterization of nitrated polycyclic aromatic hydrocarbons (NPAH, nitroarenes), which have been shown to be mutagenic and/or carcinogenic, was performed on time-intergrated samples from the EUPHORE experiments. NPAH concentrations indicated significant formation and/or degradation was taking place. An inter-experimental comparison showed that distinct gas (2-nitronaphthalene) and particle (2-nitrofluoranthene, 4-nitropyrene) phase NPAH production resulted in light versus dark experiments, and degradation most likely due to photolysis was observed for one of the most abundant NPAH (1-nitropyrene) in the ambient atmosphere. The evaluation of dark experiments in high and low NOx conditions, revealed a significantly higher concentration of gas phase NPAH (mostly due to 1-nitronaphthalene) in high NOx experiments. Electrophilic nitration on chamber surfaces or sampling media can not be ruled out as a possible mechanism for the elevated NPAH concentrations. Chapter 5 presents results from an aerosol sampling study at the Storm Peak Laboratory (SPL) (3210 MSL, 40.45° N, 106.74° W) in the winter of 2007. The unique geographical character of SPL allows for extended observations/sampling of the free tropospheric interface. Of 84 analytes included in the GC-MS method, over 50 individual water extractable POC were present at concentrations greater than 0.1 ngm-3. Diurnal averages over the sampling period revealed a higher total concentration of POC at night, 211 ngm-3 (105-265 ngm-3), versus day, 160 ngm-3 (137-205 ngm -3), which suggests a more aged nighttime aerosol character. During a snow event (Jan. 11-13, 2007), the concentrations of daytime dicarboxylic acids, which may be considered as atmospheric transformation products, were reduced. Lower actinic flux, reduced transport distance, and ice crystal scavenging may explain this variability. Further evaluation of compound ratios (e.g. diacids to monoacids/levoglucosan) and the sampling period dynamics was performed to delineate diurnal aerosol character.

Dental hygiene students' perceptions of older adults.

PubMed

Wiener, R Constance; Shockey, Alcinda Trickett; Long, D Leann

2014-12-01

Geriatric education is an important component of the dental hygiene curriculum because, in it, students acquire skills and attitudes to help provide quality care to older adults. The purpose of this study was to determine if off-site exposure to nursing home residents with supervised oversight had the potential to improve dental hygiene students' attitudes toward older adults. Senior dental hygiene students at one school completed a pre-nursing home experience questionnaire. A series of geriatric lectures and discussions, which included discussions about students' anxieties of working with institutionalized older adults, were held prior to the nursing home experience. The students then participated in two supervised four-hour nursing home experiences, were debriefed after the experiences, and completed a second questionnaire. Of thirty-nine potential participants in the study, thirty-two took part in the pre-nursing home experience questionnaire (82.1 percent). They had a mean split Fabroni score of 34.2 (95 percent confidence interval: 32.2, 36.3). The thirty participants in the post-experience questionnaire (76.9 percent of total) had a mean split score of 32.7 (95 percent confidence interval: 30.1, 35.3). This study failed to reject the null hypothesis of no mean difference between the pre- and post-nursing home experience; however, the post-experience mean score was lower than the pre-nursing home experience mean score, indicating a more positive attitude toward older adults after the experience.

Dental Hygiene Students’ Perceptions of Older Adults

PubMed Central

Wiener, R. Constance; Shockey, Alcinda Trickett; Long, D. Leann

2015-01-01

Geriatric education is an important component of the dental hygiene curriculum because, in it, students acquire skills and attitudes to help provide quality care to older adults. The purpose of this study was to determine if off-site exposure to nursing home residents with supervised oversight had the potential to improve dental hygiene students’ attitudes toward older adults. Senior dental hygiene students at one school completed a pre-nursing home experience questionnaire. A series of geriatric lectures and discussions, which included discussions about students’ anxieties of working with institutionalized older adults, were held prior to the nursing home experience. The students then participated in two supervised four-hour nursing home experiences, were debriefed after the experiences, and completed a second questionnaire. Of thirty-nine potential participants in the study, thirty-two took part in the pre-nursing home experience questionnaire (82.1 percent). They had a mean split Fabroni score of 34.2 (95 percent confidence interval: 32.2, 36.3). The thirty participants in the post-experience questionnaire (76.9 percent of total) had a mean split score of 32.7 (95 percent confidence interval: 30.1, 35.3). This study failed to reject the null hypothesis of no mean difference between the pre- and post-nursing home experience; however, the post-experience mean score was lower than the pre-nursing home experience mean score, indicating a more positive attitude toward older adults after the experience. PMID:25480277

Comparative study on neutron data in integral experiments of MYRRHA mockup critical cores in the VENUS-F reactor

NASA Astrophysics Data System (ADS)

Krása, Antonín; Kochetkov, Anatoly; Baeten, Peter; Vittiglio, Guido; Wagemans, Jan; Bécares, Vicente

2017-09-01

VENUS-F is a fast, zero-power reactor with 30% wt. metallic uranium fuel and solid lead as coolant simulator. It serves as a mockup of the MYRRHA reactor core. This paper describes integral experiments performed in two critical VENUS-F core configurations (with and without graphite reflector). Discrepancies between experiments and Monte Carlo calculations (MCNP5) of keff, fission rate spatial distribution and reactivity effects (lead void and fuel Doppler) depending on a nuclear data library used (JENDL-4.0, ENDF-B-VII.1, JEFF-3.1.2, 3.2, 3.3T2) are presented.

Analysis of Data Acquired During Shallow Water Experiments Conducted in 2006 and 2011

DTIC Science & Technology

2012-07-01

5  FIGURE 3.2.1.  THE PROPAGATION OF A TRAIN OF SOLITONS AND SOUND SPEED PROFILES ..............6  FIGURE 3.2.2.  THE EXPERIMENTAL...CONFIGURATION USED FOR THE SIMULATION STUDY ...............7  FIGURE 3.2.3.  THE RECONSTRUCTED PROFILE FOR THE SOUND SPEED WITHIN THE SOLITON FOR THE...THE SOLITON REGION ..........................................9  FIGURE 4.1.1.  SCHEMATIC OF MODAL MAPPING EXPERIMENT

Seasonal variability and degradation investigation of iodocarbons in a coastal fjord

NASA Astrophysics Data System (ADS)

Shi, Qiang; Wallace, Douglas

2016-04-01

Methyl iodide (CH3I) is considered an important carrier of iodine atoms from sea to air. The importance of other volatile iodinated compounds, such as very short-lived iodocarbons (e.g. CH2ClI, CH2I2), has also been demonstrated [McFiggans, 2005; O'Dowd and Hoffmann, 2005; Carpenter et al., 2013]. The production pathways of iodocarbons, and controls on their sea-to-air flux can be investigated by in-situ studies (e.g. surface layer mass balance from time-series studies) and by incubation experiments. Shi et al., [2014] reported previously unrecognised large, night-time losses of CH3I observed during incubation experiments with coastal waters. These losses were significant for controlling the sea-to-air flux but are not yet understood. As part of a study to further investigate sources and sinks of CH3I and other iodocarbons in coastal waters, samples have been analysed weekly since April 2015 at 4 depths (5 to 60 m) in the Bedford Basin, Halifax, Canada. The time-series study was part of a broader study that included measurement of other, potentially related parameters (temperature, salinity, Chlorophyll a etc.). A set of repeated degradation experiments was conducted, in the context of this time-series, including incubations within a solar simulator using 13C labelled CH3I. Results of the time-series sampling and incubation experiments will be presented.

Anger, frustration, boredom and the Department of Motor Vehicles: Can negative emotions impede organ donor registration?

PubMed

Siegel, Jason T; Tan, Cara N; Rosenberg, Benjamin D; Navarro, Mario A; Thomson, Andrew L; Lyrintzis, Elena A; Alvaro, Eusebio M; Jones, Natalie D

2016-03-01

The IIFF Model (Information, Immediate and Complete Registration Mechanism, Focused Engagement, Favorable Activation) offers a checklist of considerations for interventions seeking to influence organ donor registration behavior. One aspect of the model, favorable activation, recommends considering the emotional and motivational state of a potential donor registrant. Given that most donor registrations occur at the Department of Motor Vehicles (DMV), we considered whether emotions experienced while at the DMV could influence registration rates. The current research effort investigated the emotions people experience while visiting the DMV, explored whether these emotions are associated with donor registration intentions, and experimentally assessed whether DMV experiences influence donor registration. Three studies were conducted through Amazon's Mechanical Turk. In Study 1, we randomly assigned participants to either recall a prior DMV experience or to a comparison condition. Emotions associated with the recalled experiences were the dependent variable. Study 2 assessed the correlations between nine different emotions and donor registration intentions. Study 3 randomly assigned participants to recall a prior frustrating DMV experience or to a comparison condition. Intention to register to donate was the dependent variable. Study 1 found that recalling a prior DMV experience was associated with more negative and less positive emotions than the comparison condition. Study 2 found that increased levels of negative emotion could be problematic, as negative emotions were associated with decreased donor intentions. Study 3 found that recalling a frustrating DMV experience resulted in significantly lower intentions to register as an organ donor (vs. a control condition). Although not all DMV experiences are negative, these data indicated a relationship between the DMV and negative emotions; an association between negative emotions and lower donor registration intentions; and, a causal relationship between negative DMV experiences and decreased registration intentions. Copyright © 2016 Elsevier Ltd. All rights reserved.

Does the Spine Surgeon’s Experience Affect Fracture Classification, Assessment of Stability, and Treatment Plan in Thoracolumbar Injuries?

PubMed Central

Kanna, Rishi Mugesh; Schroeder, Gregory D.; Oner, Frank Cumhur; Vialle, Luiz; Chapman, Jens; Dvorak, Marcel; Fehlings, Michael; Shetty, Ajoy Prasad; Schnake, Klaus; Kandziora, Frank; Vaccaro, Alexander R.

2017-01-01

Study Design: Prospective survey-based study. Objectives: The AO Spine thoracolumbar injury classification has been shown to have good reproducibility among clinicians. However, the influence of spine surgeons’ clinical experience on fracture classification, stability assessment, and decision on management based on this classification has not been studied. Furthermore, the usefulness of varying imaging modalities including radiographs, computed tomography (CT) and magnetic resonance imaging (MRI) in the decision process was also studied. Methods: Forty-one spine surgeons from different regions, acquainted with the AOSpine classification system, were provided with 30 thoracolumbar fractures in a 3-step assessment: first radiographs, followed by CT and MRI. Surgeons classified the fracture, evaluated stability, chose management, and identified reasons for any changes. The surgeons were divided into 2 groups based on years of clinical experience as <10 years (n = 12) and >10 years (n = 29). Results: There were no significant differences between the 2 groups in correctly classifying A1, B2, and C type fractures. Surgeons with less experience had more correct diagnosis in classifying A3 (47.2% vs 38.5% in step 1, 73.6% vs 60.3% in step 2 and 77.8% vs 65.5% in step 3), A4 (16.7% vs 24.1% in step 1, 72.9% vs 57.8% in step 2 and 70.8% vs 56.0% in step3) and B1 injuries (31.9% vs 20.7% in step 1, 41.7% vs 36.8% in step 2 and 38.9% vs 33.9% in step 3). In the assessment of fracture stability and decision on treatment, the less and more experienced surgeons performed equally. The selection of a particular treatment plan varied in all subtypes except in A1 and C type injuries. Conclusion: Surgeons’ experience did not significantly affect overall fracture classification, evaluating stability and planning the treatment. Surgeons with less experience had a higher percentage of correct classification in A3 and A4 injuries. Despite variations between them in classification, the assessment of overall stability and management decisions were similar between the 2 groups. PMID:28815158

Communication: Direct comparison between theory and experiment for correlated angular and product-state distributions of the ground-state and stretching-excited O(3P) + CH4 reactions

NASA Astrophysics Data System (ADS)

Czakó, Gábor

2014-06-01

Motivated by a recent experiment [H. Pan and K. Liu, J. Chem. Phys. 140, 191101 (2014)], we report a quasiclassical trajectory study of the O(3P) + CH4(vk = 0, 1) → OH + CH3 [k = 1 and 3] reactions on an ab initio potential energy surface. The computed angular distributions and cross sections correlated to the OH(v = 0, 1) + CH3(v = 0) coincident product states can be directly compared to experiment for O + CH4(v3 = 0, 1). Both theory and experiment show that the ground-state reaction is backward scattered, whereas the angular distributions shift toward sideways and forward directions upon antisymmetric stretching (v3) excitation of the reactant. Theory predicts similar behavior for the O + CH4(v1 = 1) reaction. The simulations show that stretching excitation enhances the reaction up to about 15 kcal/mol collision energy, whereas the O + CH4(vk = 1) reactions produce smaller cross sections for OH(v = 1) + CH3(v = 0) than those of O + CH4(v = 0) → OH(v = 0) + CH3(v = 0). The former finding agrees with experiment and the latter awaits for confirmation. The computed cold OH rotational distributions of O + CH4(v = 0) are in good agreement with experiment.

Communication: direct comparison between theory and experiment for correlated angular and product-state distributions of the ground-state and stretching-excited O((3)P) + CH4 reactions.

PubMed

Czakó, Gábor

2014-06-21

Motivated by a recent experiment [H. Pan and K. Liu, J. Chem. Phys. 140, 191101 (2014)], we report a quasiclassical trajectory study of the O((3)P) + CH4(vk = 0, 1) → OH + CH3 [k = 1 and 3] reactions on an ab initio potential energy surface. The computed angular distributions and cross sections correlated to the OH(v = 0, 1) + CH3(v = 0) coincident product states can be directly compared to experiment for O + CH4(v3 = 0, 1). Both theory and experiment show that the ground-state reaction is backward scattered, whereas the angular distributions shift toward sideways and forward directions upon antisymmetric stretching (v3) excitation of the reactant. Theory predicts similar behavior for the O + CH4(v1 = 1) reaction. The simulations show that stretching excitation enhances the reaction up to about 15 kcal/mol collision energy, whereas the O + CH4(vk = 1) reactions produce smaller cross sections for OH(v = 1) + CH3(v = 0) than those of O + CH4(v = 0) → OH(v = 0) + CH3(v = 0). The former finding agrees with experiment and the latter awaits for confirmation. The computed cold OH rotational distributions of O + CH4(v = 0) are in good agreement with experiment.

Psychophysical experiments on the PicHunter image retrieval system

NASA Astrophysics Data System (ADS)

Papathomas, Thomas V.; Cox, Ingemar J.; Yianilos, Peter N.; Miller, Matt L.; Minka, Thomas P.; Conway, Tiffany E.; Ghosn, Joumana

2001-01-01

Psychophysical experiments were conducted on PicHunter, a content-based image retrieval (CBIR) experimental prototype with the following properties: (1) Based on a model of how users respond, it uses Bayes's rule to predict what target users want, given their actions. (2) It possesses an extremely simple user interface. (3) It employs an entropy- based scheme to improve convergence. (4) It introduces a paradigm for assessing the performance of CBIR systems. Experiments 1-3 studied human judgment of image similarity to obtain data for the model. Experiment 4 studied the importance of using: (a) semantic information, (b) memory of earlier input, and (c) relative and absolute judgments of similarity. Experiment 5 tested an approach that we propose for comparing performances of CBIR systems objectively. Finally, experiment 6 evaluated the most informative display-updating scheme that is based on entropy minimization, and confirmed earlier simulation results. These experiments represent one of the first attempts to quantify CBIR performance based on psychophysical studies, and they provide valuable data for improving CBIR algorithms. Even though they were designed with PicHunter in mind, their results can be applied to any CBIR system and, more generally, to any system that involves judgment of image similarity by humans.

Space Construction Experiment Definition Study (SCEDS), part 3. Volume 2: Study results

NASA Technical Reports Server (NTRS)

1983-01-01

The essential controls and dynamics community needs for a large space structures is addressed by the basic Space Construction Experiments (SCE)/MAST configuration and enhanced configurations for follow-on flights. The SCE/MAST can be integrated on a single structures technology experiments platform (STEP). The experiment objectives can be accomplished without the need for EVA and it is anticipated that further design refinements will eliminate the requirement to use the remote manipulator system.

Solid shape discrimination from vision and haptics: natural objects (Capsicum annuum) and Gibson's "feelies".

PubMed

Norman, J Farley; Phillips, Flip; Holmin, Jessica S; Norman, Hideko F; Beers, Amanda M; Boswell, Alexandria M; Cheeseman, Jacob R; Stethen, Angela G; Ronning, Cecilia

2012-10-01

A set of three experiments evaluated 96 participants' ability to visually and haptically discriminate solid object shape. In the past, some researchers have found haptic shape discrimination to be substantially inferior to visual shape discrimination, while other researchers have found haptics and vision to be essentially equivalent. A primary goal of the present study was to understand these discrepant past findings and to determine the true capabilities of the haptic system. All experiments used the same task (same vs. different shape discrimination) and stimulus objects (James Gibson's "feelies" and a set of naturally shaped objects--bell peppers). However, the methodology varied across experiments. Experiment 1 used random 3-dimensional (3-D) orientations of the stimulus objects, and the conditions were full-cue (active manipulation of objects and rotation of the visual objects in depth). Experiment 2 restricted the 3-D orientations of the stimulus objects and limited the haptic and visual information available to the participants. Experiment 3 compared restricted and full-cue conditions using random 3-D orientations. We replicated both previous findings in the current study. When we restricted visual and haptic information (and placed the stimulus objects in the same orientation on every trial), the participants' visual performance was superior to that obtained for haptics (replicating the earlier findings of Davidson et al. in Percept Psychophys 15(3):539-543, 1974). When the circumstances resembled those of ordinary life (e.g., participants able to actively manipulate objects and see them from a variety of perspectives), we found no significant difference between visual and haptic solid shape discrimination.

Earthquake forecasting test for Kanto district to reduce vulnerability of urban mega earthquake disasters

NASA Astrophysics Data System (ADS)

Yokoi, S.; Tsuruoka, H.; Nanjo, K.; Hirata, N.

2012-12-01

Collaboratory for the Study of Earthquake Predictability (CSEP) is a global project on earthquake predictability research. The final goal of this project is to search for the intrinsic predictability of the earthquake rupture process through forecast testing experiments. The Earthquake Research Institute, the University of Tokyo joined CSEP and started the Japanese testing center called as CSEP-Japan. This testing center provides an open access to researchers contributing earthquake forecast models applied to Japan. Now more than 100 earthquake forecast models were submitted on the prospective experiment. The models are separated into 4 testing classes (1 day, 3 months, 1 year and 3 years) and 3 testing regions covering an area of Japan including sea area, Japanese mainland and Kanto district. We evaluate the performance of the models in the official suite of tests defined by CSEP. The total number of experiments was implemented for approximately 300 rounds. These results provide new knowledge concerning statistical forecasting models. We started a study for constructing a 3-dimensional earthquake forecasting model for Kanto district in Japan based on CSEP experiments under the Special Project for Reducing Vulnerability for Urban Mega Earthquake Disasters. Because seismicity of the area ranges from shallower part to a depth of 80 km due to subducting Philippine Sea plate and Pacific plate, we need to study effect of depth distribution. We will develop models for forecasting based on the results of 2-D modeling. We defined the 3D - forecasting area in the Kanto region with test classes of 1 day, 3 months, 1 year and 3 years, and magnitudes from 4.0 to 9.0 as in CSEP-Japan. In the first step of the study, we will install RI10K model (Nanjo, 2011) and the HISTETAS models (Ogata, 2011) to know if those models have good performance as in the 3 months 2-D CSEP-Japan experiments in the Kanto region before the 2011 Tohoku event (Yokoi et al., in preparation). We use CSEP-Japan experiments as a starting model of non-divided column in a depth. In the presentation, we will discuss the performance of the models comparing results of the Kanto district with those obtained in all over Japan by CSEP-Japan and also add to discuss the results of the 3-month experiments after the 2011 Tohoku earthquake to understand the learning ability of the models associated with recent seismicity of the area.

Proceedings of the Workshop on the Assessment of Crew Workload Measurement Methods, Techniques and Procedures. Volume 2. Library References.

DTIC Science & Technology

1987-06-01

OHIO 45433-6553 0. % NOTICE When Government drawings, specifications, or other data are used for any purpose other than in connection with a definitely...have formulated or in any way supplied the said drawings, specifications, or other data , is not to be regarded by implication, or otherwise in any...Formal Review 2= Informal Review 3= No Reviewer C. Quality of Data (If not 1-3 QUIT) 1= Experiment(s) 2= Case Study(s) 3= Theory/Review (Skip to F.) (Skip

Bios-3: Siberian experiments in bioregenerative life support

NASA Technical Reports Server (NTRS)

Salisbury, F. B.; Gitelson, J. I.; Lisovsky, G. M.

1997-01-01

The Russian experience with the bioregenerative life support system Bios-3 at Krasnoyarsk, Siberia, is reviewed. A brief review of other bioregenerative systems examines Biosphere 2 in Oracle, Arizona, and the Bios-1 and Bios-2 systems that preceded Bios-3. Physical details of the Bios-3 facility are provided. The use of Chlorella and higher plants for gas exchange is examined. Long-term studies of human habitation are discussed. Other topics include microflora in Bios-3, the theory of closed systems, and problems for the future.

Experiment study on sediment erosion of Pelton turbine flow passage component material

NASA Astrophysics Data System (ADS)

Liu, J.; Lu, L.; Zhu, L.

2012-11-01

A rotating and jet experiment system with high flow velocity is designed to study the anti-erosion performance of materials. The resultant velocity of the experiment system is high to 120 m/s. The anti-erosion performance of materials used in needle and nozzle and bucket of Pelton turbine, which is widely used in power station with high head and little discharge, was studied in detail by this experiment system. The experimental studies were carried with different resultant velocities and sediment concentrations. Multiple linear regression analysis method was applied to get the exponents of velocity and sediment concentration. The exponents for different materials are different. The exponents of velocity ranged from 3 to 3.5 for three kinds of material. And the exponents of sediment concentration ranged from 0.97 to 1.03 in this experiment. The SEM analysis on the erosion surface of different materials was also carried. On the erosion condition with high resultant impact velocity, the selective cutting loss of material is the mainly erosion mechanism for metal material.

A micropuncture study of the effect of parathyroid hormone on renal bicarbonate reabsorption.

PubMed Central

Bank, N; Aynediian, H S

1976-01-01

Renal micropuncture and clearance experiments were carried out in rats to study the effect of parathyroid hormone (PTH) on renal tubular HCO-/3 reabsorption. The rats were studied during an initial period of parathyroid deficiency (acute thyroidparathyroidectomy, TPTX) and during infusion of large amounts of bovine PTH. Under normal acid-base conditions, PTH administration to TPTX rats caused a significant rise in proximal tubular fluid HCO-/3 concentration (TFHCO-/3), a decrease in fluid reabsorption, and a fall in proximal HCO-/3 reabsorption from 94.0 to 88.2% (P less than 0.01). In control experiments with mannitol infusion, a comparable reduction in proximal fluid reabsorption occurred without any significant effect on intraluminal HCO-/3 concentration. During acute intravenous HCO-/3 loading, PTH inhibited proximal HCO-/3 reabsorption. However, no change in whole kidney HCO-/3 reabsorption was observed in these experiments or in the animals studied under normal acid-base conditions. The findings are consistent with the view that PTH inhibits proximal tubular HCO-/3 reabsorption with normal or high filtered loads of HCO-/3, but distal segments of the nephron are able to reabsorb the excess delivered from the proximal tubule. Measurements of urinary ammonium and titratable acid indicate that net acid excretion (NH+/4 + TA -- HCO-/3) increases significantly after PTH administration. These results do not provide support for the view that PTH excess causes metabolic acidosis by reducing renal acid excretion. PMID:956369

JET (3He)-D scenarios relying on RF heating: survey of selected recent experiments

NASA Astrophysics Data System (ADS)

Van Eester, D.; Lerche, E.; Andrew, Y.; Biewer, T. M.; Casati, A.; Crombé, K.; de la Luna, E.; Ericsson, G.; Felton, R.; Giacomelli, L.; Giroud, C.; Hawkes, N.; Hellesen, C.; Hjalmarsson, A.; Joffrin, E.; Källne, J.; Kiptily, V.; Lomas, P.; Mantica, P.; Marinoni, A.; Mayoral, M.-L.; Ongena, J.; Puiatti, M.-E.; Santala, M.; Sharapov, S.; Valisa, M.; JET EFDA contributors

2009-04-01

Recent JET experiments have been devoted to the study of (3He)-D plasmas involving radio frequency (RF) heating. This paper starts by discussing the RF heating efficiency theoretically expected in such plasmas, covering both relevant aspects of wave and of particle dynamics. Then it gives a concise summary of the main conclusions drawn from recent experiments that were either focusing on studying RF heating physics aspects or that were adopting RF heating as a tool to study plasma behavior. Depending on the minority concentration chosen, different physical phenomena are observed. At very low concentration (X[3He] < 1%), energetic tails are formed which trigger MHD activity and result in loss of fast particles. Alfvén cascades were observed and gamma ray tomography indirectly shows the impact of sawtooth crashes on the fast particle orbits. Low concentration (X[3He] < 10%) favors minority heating while for X[3He] Gt 10% electron mode conversion damping becomes dominant. Evidence for the Fuchs et al standing wave effect (Fuchs et al 1995 Phys. Plasmas 2 1637-47) on the absorption is presented. RF induced deuterium tails were observed in mode conversion experiments with large X[3He] (≈18%). As tentative modeling shows, the formation of these tails can be explained as a consequence of wave power absorption by neutral beam particles that efficiently interact with the waves well away from the cold D cyclotron resonance position as a result of their substantial Doppler shift. As both ion and electron RF power deposition profiles in (3He)-D plasmas are fairly narrow—giving rise to localized heat sources—the RF heating method is an ideal tool for performing transport studies. Various of the experiments discussed here were done in plasmas with internal transport barriers (ITBs). ITBs are identified as regions with locally reduced diffusivity, where poloidal spinning up of the plasma is observed. The present know-how on the role of RF heating for impurity transport is also briefly summarized.

In search of the emotional face: anger versus happiness superiority in visual search.

PubMed

Savage, Ruth A; Lipp, Ottmar V; Craig, Belinda M; Becker, Stefanie I; Horstmann, Gernot

2013-08-01

Previous research has provided inconsistent results regarding visual search for emotional faces, yielding evidence for either anger superiority (i.e., more efficient search for angry faces) or happiness superiority effects (i.e., more efficient search for happy faces), suggesting that these results do not reflect on emotional expression, but on emotion (un-)related low-level perceptual features. The present study investigated possible factors mediating anger/happiness superiority effects; specifically search strategy (fixed vs. variable target search; Experiment 1), stimulus choice (Nimstim database vs. Ekman & Friesen database; Experiments 1 and 2), and emotional intensity (Experiment 3 and 3a). Angry faces were found faster than happy faces regardless of search strategy using faces from the Nimstim database (Experiment 1). By contrast, a happiness superiority effect was evident in Experiment 2 when using faces from the Ekman and Friesen database. Experiment 3 employed angry, happy, and exuberant expressions (Nimstim database) and yielded anger and happiness superiority effects, respectively, highlighting the importance of the choice of stimulus materials. Ratings of the stimulus materials collected in Experiment 3a indicate that differences in perceived emotional intensity, pleasantness, or arousal do not account for differences in search efficiency. Across three studies, the current investigation indicates that prior reports of anger or happiness superiority effects in visual search are likely to reflect on low-level visual features associated with the stimulus materials used, rather than on emotion. PsycINFO Database Record (c) 2013 APA, all rights reserved.

Eliciting positive, negative and mixed emotional states: A film library for affective scientists.

PubMed

Samson, Andrea C; Kreibig, Sylvia D; Soderstrom, Blake; Wade, A Ayanna; Gross, James J

2016-08-01

We describe the creation of a film library designed for researchers interested in positive (amusing), negative (repulsive), mixed (amusing and repulsive) and neutral emotional states. Three hundred 20- to 33-second film clips videotaped by amateurs were selected from video-hosting websites and screened in laboratory studies by 75 female participants on self-reported amusement and repulsion (Experiments 1 and 2). On the basis of pre-defined cut-off values, 51 positive, 39 negative, 59 mixed and 50 neutral film clips were selected. These film clips were then presented to 411 male and female participants in a large online study to identify film clips that reliably induced the target emotions (Experiment 3). Depending on the goal of the study, researchers may choose positive, negative, mixed or neutral emotional film clips on the basis of Experiments 1 and 2 or Experiment 3 ratings.

Environmental context effects of background color in free recall.

PubMed

Isarida, Taeo; Isarin, Tosmko K

2007-10-01

In four experiments, we investigated background-color context effects in free recall. A total of 194 undergraduates studied words presented one by one against a background color, and oral free recall was tested after a 30-sec filled retention interval. A signal for recall was presented against a background color throughout the test. Recalled items were classified as same- and different-context items according to whether the background colors at study and test were the same or different. Significant context effects were found in Experiments I and 2, in which two background colors were randomly alternated word by word. No context effects were found in Experiments 3 and 4, in which a common background color was presented for all items (Experiment 3) or for a number of successive items (Experiment 4). The results indicate that a change in background colors is necessary and sufficient to produce context effects. Implications of the present findings are discussed.

A preliminary study of a cryogenic equivalence principle experiment on Shuttle

NASA Technical Reports Server (NTRS)

Everitt, C. W. F.; Worden, P. W., Jr.

1985-01-01

The Weak Equivalence Principle is the hypothesis that all test bodies fall with the same acceleration in the same gravitational field. The current limit on violations of the Weak Equivalence Principle, measured by the ratio of the difference in acceleration of two test masses to their average acceleration, is about 3 parts in one-hundred billion. It is anticipated that this can be improved in a shuttle experiment to a part in one quadrillion. Topics covered include: (1) studies of the shuttle environment, including interference with the experiment, interfacing to the experiment, and possible alternatives; (2) numerical simulations of the proposed experiment, including analytic solutions for special cases of the mass motion and preliminary estimates of sensitivity and time required; (3) error analysis of several noise sources such as thermal distortion, gas and radiation pressure effects, and mechanical distortion; and (4) development and performance tests of a laboratory version of the instrument.

Psychotic-like Experiences and Substance Use in College Students.

PubMed

Fonseca-Pedrero, Eduardo; Ortuño-Sierra, Javier; Paino, Mercedes; Muñiz, José

2016-03-02

Psychotic disorders, as well as psychotic-like experiences and substance use, have been found to be associated. The main goal of the present study was to analyse the relationship between psychoticlike experiences and substance use in college students. The simple comprised a total of 660 participants (M = 20.3 years, SD = 2.6). The results showed that 96% of the sample reported some delusional experience, while 20.3% reported at least one positive psychotic-like experience. Some substance use was reported by 41.1% of the sample, differing in terms of gender. Substance users reported more psychoticlike experiences than non-users, especially in the positive dimension. Also, alcohol consumption predicted in most cases extreme scores on measures of delusional ideation and psychotic experiences. The association between these two variables showed a differentiated pattern, with a stronger relationship between substance use and cognitive-perceptual psychotic-like experiences. To some extent, these findings support the dimensional models of the psychosis phenotype and contribute a better understanding of the links between psychoticlike experiences and substance use in young adults. Future studies should further explore the role of different risk factors for psychotic disorders and include models of the gene-environment interaction.

CFE-2 ICF-9 Experiment

NASA Image and Video Library

2014-01-03

ISS038-E-025016 (3 Jan. 2014) --- NASA astronaut Rick Mastracchio, Expedition 38 flight engineer, conducts a session with the Capillary Flow Experiment (CFE-2) in the Harmony node of the International Space Station. CFE is a suite of fluid physics experiments that investigate how fluids behave in microgravity which could benefit water and fuel delivery systems on future spacecraft. Scientists designed the CFE-2 to study properties of fluids and bubbles inside containers with a specific 3-D geometry.

Surface electrical properties experiment study phase, volume 3

NASA Technical Reports Server (NTRS)

1973-01-01

The reliability and quality assurance system and procedures used in developing test equipment for the Lunar Experiment projects are described. The subjects discussed include the following: (1) documentation control, (2) design review, (3) parts and materials selection, (4) material procurement, (5) inspection procedures, (6) qualification and special testing, and failure modes and effects analysis.

Experiment E89-044 on the Quasielastic 3He(e,e'p) Reaction at Jefferson Laboratory

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

Penel-Nottaris, Emilie

The Jefferson Lab Hall A E89-044 experiment has measured the 3He(e,e'p) reaction cross-sections. The extraction of the longitudinal and transverse response functions for the two-body break-up 3He(e,e'p)d reaction in parallel kinematics allows the study of the bound proton electromagnetic properties inside the 3He nucleus and the involved nuclear mechanisms beyond plane wave approximations.

Development of flight experiment task requirements. Volume 2: Technical Report. Part 1: Program report and Appendices A-G

NASA Technical Reports Server (NTRS)

Hatterick, G. R.

1972-01-01

Activities are documented of the study to determine skills required of on-orbit crew personnel of the space shuttle. The material is presented in four sections that include: (1) methodology for identifying flight experiment task-skill requirements, (2) task-skill analysis of selected flight experiments, (3) study results and conclusions, and (4) new technology.

Experience Is the Best Teacher...Or Is It? An Analysis of the Role of Experience in Learning To Teach.

ERIC Educational Resources Information Center

Johnston, Sue

This study was conducted to analyze the process of learning to teach from the perspective of the student teacher. Issues associated with how student teachers perceive experiences contributing to their learning process form the basis of the analysis. Data referred to come from a larger study conducted over 3 years which explored the perceptions of…

Study of the effects of oil on marine turtles. Volume 3. Appendices. Final report, 30 September 1983-1 October 1985

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

Vargo, S.; Lutz, P.; Odell, D.

1986-09-15

The objective of the study was to determine the effects of oil on marine turtles. An experimental program was carried out on 3-20 month old loggerhead and 3-16 month old green turtles to determine behavioral and physiological effects of oil using South Louisiana Crude Oil (SLCO) preweathered for 48 hrs. The behavioral experiments indicated that both species of marine turtles had a limited ability to avoid oil slicks, but experiments to determine avoidance/attraction to floating tar balls were inconclusive. The physiological experiments showed that the respiration, skin, some aspects of blood chemistry and composition, and salt gland function of 15-18more » month old loggerhead sea turtles were significantly affected.« less

Convection Effects During Bulk Transparent Alloy Solidification in DECLIC-DSI and Phase-Field Simulations in Diffusive Conditions

NASA Astrophysics Data System (ADS)

Mota, F. L.; Song, Y.; Pereda, J.; Billia, B.; Tourret, D.; Debierre, J.-M.; Trivedi, R.; Karma, A.; Bergeon, N.

2017-08-01

To study the dynamical formation and evolution of cellular and dendritic arrays under diffusive growth conditions, three-dimensional (3D) directional solidification experiments were conducted in microgravity on a model transparent alloy onboard the International Space Station using the Directional Solidification Insert in the DEvice for the study of Critical LIquids and Crystallization. Selected experiments were repeated on Earth under gravity-driven fluid flow to evidence convection effects. Both radial and axial macrosegregation resulting from convection are observed in ground experiments, and primary spacings measured on Earth and microgravity experiments are noticeably different. The microgravity experiments provide unique benchmark data for numerical simulations of spatially extended pattern formation under diffusive growth conditions. The results of 3D phase-field simulations highlight the importance of accurately modeling thermal conditions that strongly influence the front recoil of the interface and the selection of the primary spacing. The modeling predictions are in good quantitative agreements with the microgravity experiments.

Learning from Graduates and Interns: Examining Graduate and Student Experiences in the Education Administration Internship

ERIC Educational Resources Information Center

Clayton, Jennifer; Thessin, Rebecca

2016-01-01

The purpose of this study was to more fully understand: (1) the degree to which administrative interns are provided with the opportunity to lead administrative experiences; (2) the types of administrative experiences in which interns engage during the administrative internship experience; and (3) the value of the administrative internship to…

Intestinal mucin dynamics: response of broiler chicks and White Pekin ducklings to dietary threonine.

PubMed

Horn, N L; Donkin, S S; Applegate, T J; Adeola, O

2009-09-01

Mucin dynamics may be particularly sensitive to a Thr deficiency due to the high concentration and structural importance of Thr in the mucin protein backbone. Intestinal mucin secretion, expression of mucin gene (MUC2), and histological characteristics were investigated in male broilers and White Pekin ducklings offered diets containing 3.3, 5.8, or 8.2 g of Thr/kg in 4 studies. Seventy-two birds of each species were fed a standard broiler starter diet from 1 to 14 d of age followed by assignment to 3 dietary treatments in a randomized complete block design for a 7-d feeding trial in experiment 1 (broilers) and experiment 2 (ducklings). The dietary treatments consisted of an isonitrogenous corn-soybean meal-based diet with the addition of crystalline amino acids and graded levels of Thr. Dietary treatments contained 3.3, 5.8, or 8.2 g of Thr/kg. Dietary formulation and experimental design for experiments 3 (broilers) and 4 (ducklings) were similar to experiments 1 and 2 except that birds were fed 3.3 or 8.2 g of Thr/kg for durations of 7 or 14 d. For chicks, increased dietary Thr resulted in higher levels of intestinal crude mucin excretion in experiment 1 (P=0.04) but not in experiment 3, whereas intestinal sialic acid excretion increased in experiment 3 (P=0.02) but not in experiment 1. Furthermore, there was no effect of Thr on intestinal goblet cell density or MUC2 mRNA abundance for broilers. For ducklings, there was an increase in intestinal crude mucin excretion in both experiments (P<0.05) as dietary Thr increased, although there was no effect of Thr on intestinal sialic acid excretion. There was a tendency for an increase in intestinal goblet cell density (cells/microm of villus length; P=0.09) as dietary Thr increased in experiment 2. For experiment 4, intestinal MUC2 mRNA abundance increased (P=0.03) as dietary Thr increased for the 14-d feeding trial but not for the 7-d feeding trial. The data establish a link between dietary Thr and intestinal crude mucin dynamics in chicks for experiment 1 and ducklings for both experiments.