Use of shear horizontal waves to distinguish adhesive thickness variation from reduction in bonding strength.

PubMed

Predoi, Mihai Valentin; Ech Cherif El Kettani, Mounsif; Leduc, Damien; Pareige, Pascal; Coné, Khadidiatou

2015-08-01

The capability of shear horizontal (SH) guided waves, to evaluate geometrical imperfections in a bonding layer, is investigated. SH waves are used in a three-layer structure in which the adhesive layer has variable thickness. It is proven that the SH waves are adapting to the local thickness of the adhesive layer (adiabatic waves). This is particularly useful in case of small thickness variations, which is of technical interest. The influence of thickness and stiffness of the adhesive layer on the wavenumbers are investigated. The selected SH2 mode is proven to be very sensitive to the adhesive layer thickness variation in the given frequency range and considerably less sensitive to the adhesive stiffness variation. This property is due to its specific displacement field and is important in practical applications, such as inspection techniques based on SH waves, in order to avoid false alarms.

Energy in elastic fiber embedded in elastic matrix containing incident SH wave

NASA Technical Reports Server (NTRS)

Williams, James H., Jr.; Nagem, Raymond J.

1989-01-01

A single elastic fiber embedded in an infinite elastic matrix is considered. An incident plane SH wave is assumed in the infinite matrix, and an expression is derived for the total energy in the fiber due to the incident SH wave. A nondimensional form of the fiber energy is plotted as a function of the nondimensional wavenumber of the SH wave. It is shown that the fiber energy attains maximum values at specific values of the wavenumber of the incident wave. The results obtained here are interpreted in the context of phenomena observed in acousto-ultrasonic experiments on fiber reinforced composite materials.

Asymptotic dynamics of the exceptional Bianchi cosmologies

NASA Astrophysics Data System (ADS)

Hewitt, C. G.; Horwood, J. T.; Wainwright, J.

2003-05-01

In this paper we give, for the first time, a qualitative description of the asymptotic dynamics of a class of non-tilted spatially homogeneous (SH) cosmologies, the so-called exceptional Bianchi cosmologies, which are of Bianchi type VI$_{-1/9}$. This class is of interest for two reasons. Firstly, it is generic within the class of non-tilted SH cosmologies, being of the same generality as the models of Bianchi types VIII and IX. Secondly, it is the SH limit of a generic class of spatially inhomogeneous $G_{2}$ cosmologies. Using the orthonormal frame formalism and Hubble-normalized variables, we show that the exceptional Bianchi cosmologies differ from the non-exceptional Bianchi cosmologies of type VI$_{h}$ in two significant ways. Firstly, the models exhibit an oscillatory approach to the initial singularity and hence are not asymptotically self-similar. Secondly, at late times, although the models are asymptotically self-similar, the future attractor for the vacuum-dominated models is the so-called Robinson-Trautman SH model instead of the vacuum SH plane wave models.

SH3BP1-induced Rac-Wave2 pathway activation regulates cervical cancer cell migration, invasion, and chemoresistance to cisplatin.

PubMed

Wang, Jingjing; Feng, Yeqian; Chen, Xishan; Du, Zheng; Jiang, Shaijun; Ma, Shuyun; Zou, Wen

2018-02-01

Cervical cancer still remains the fourth most common cancer, affecting women worldwide with large geographic variations in cervical cancer incidence and mortality rates. SH3-domain binding protein-1 (SH3BP1) specifically inactivating Rac1 and its target Wave2 is required for cell motility, thus regarded as an essential regulator of cancer cell metastasis. However, the exact effects and molecular mechanisms of SH3BP1 in cervical cancer progression are still unknown. The present study is aimed to investigate the mechanism of SH3BP1 in regulation of cervical cancer cell metastasis and chemoresistance. In the present study, we demonstrated a high SH3BP1 expression in cervical cancer tissues; a higher SH3BP1 expression is also correlated with a shorter overall survival of patients with cervical cancer. Further, we revealed that SH3BP1 overexpression promoted the invasion, migration, and chemoresistance of cervical cancer cell through increasing Rac1 activity and Wave2 protein level. The promotive effect of SH3BP1 could be partially reversed by a Rac1 inhibitor, NSC 23766. In cisplatin-resistant cervical cancer tissues, SH3BP1, Rac1, and Wave2 mRNA expression was significantly up-regulated compared to that of the cisplatin-sensitive cervical cancer tissues. Taken together, SH3BP1/Rac1/Wave2 pathway may potentially act as an effective therapeutic target combined with traditional cisplatin-based chemotherapy for cervical cancer. © 2017 Wiley Periodicals, Inc.

Development of a high-sensitivity strain measurement system based on a SH SAW sensor

NASA Astrophysics Data System (ADS)

Oh, Haekwan; Lee, Keekeun; Eun, Kyoungtae; Choa, Sung-Hoon; Yang, Sang Sik

2012-02-01

A strain measurement system based on a shear horizontal surface acoustic wave (SH SAW) was developed. The developed system is composed of a SAW microsensor, a printed circuit board (PCB), an adhesive and a strain gauge. When a compression force is applied to the PCB by the strain gauge, the PCB is bent so that external strain energy can be evenly delivered to the microsensor without any detachment of the sensor from the board. When a stretching force is applied to the PCB under the condition that one side of the PCB is fixed and the other side is modulated, the actual length of the SAW delay line between the two interdigital transducers (IDTs) is increased. The increase in the delay line length causes a change in the time for the propagating SAW to reach the output IDT. If strain energy is applied to the piezoelectric substrate, the substrate density is changed, which then changes the propagation velocity of the SAW. Coupling-of-modes modeling was conducted prior to fabrication to determine the optimal device parameters. Depending on the strain, the frequency difference was linearly modulated. The obtained sensitivity for stretching was 17.3 kHz/% for the SH wave mode and split electrode. And the obtained sensitivity for bending was 46.1 kHz/% for the SH wave mode and split electrode. The SH wave showed about 15% higher sensitivity than the Rayleigh wave, and the dog-bone PCB showed about 8% higher sensitivity than the rectangular PCB. The obtained sensitivity was about five times higher than that of existing SAW-based strain sensors.

The effects of core-reflected waves on finite fault inversion with teleseismic body wave data

NASA Astrophysics Data System (ADS)

Qian, Y.; Ni, S.; Wei, S.

2016-12-01

Reliable estimation of rupture processes for a large earthquake is valuable for post-seismic rescue, tsunami alert, seismotectonic studies, as well as earthquake physics. Finite-fault inversion has been widely accepted to reconstruct the spatial-temporal distribution of rupture processes, which can be obtained by individual or jointly inversion of seismic, geodetic and tsunami data sets. Among the above observations, teleseismic (30° 90°) body waves, usually P and SH waves, have been used extensively in such inversions because their propagation are well understood and readily available for large earthquakes with good coverages of slowness and azimuth. However, finite fault inversion methods usually assume turning P and SH waves without inclusion of core-reflected waves when calculating the synthetic waveforms, which may result in systematic error in finite-fault inversions. For the core-reflected SH wave ScS, it is expected to be strong due to total reflection from Core-Mantle-Boundary. Moreover, the time interval between direct S and ScS could be smaller than the duration of large earthquakes for large epicentral distances. In order to improve the accuracy of finite fault inversion with teleseismic body waves, we develop a procedure named multitel3 to compute Greens' functions that contain both turning waves (P, pP, sP, S, sS et al.) and core-reflected phases (PcP and ScS) and apply it to finite fault inversions. This ray-based method can rapidly calculate teleseismic body wave synthetics with flexibility for path calibration of 3D mantle structure. The new Green's function is plugged into finite fault inversion package to replace the original Green's function with only turning P and SH waves. With the 2008 Mw7.9 Wenchuan earthquake as example, a series of numerical tests conducted on synthetic data are used to assess the performance of our approach. We also explore this new procedure's stability when there are discrepancies between the parameters of input model and the priori information of inverse model, such as strike, dip of finite fault and so on. With the quantified code, we apply it to study rupture process of the 2016 Mw7.8 Sumatra earthquake.

Steering of SH wave propagation in electrorheological elastomer with a structured meta-slab by tunable phase discontinuities

NASA Astrophysics Data System (ADS)

Xu, Yanlong; Li, Yi; Cao, Liyun; Yang, Zhichun; Zhou, Xiaoling

2017-09-01

The generalized Snell's law (GSL) with phase discontinuity proposed based on the concept of a metasurface, which can be used to control arbitrarily the reflection and refraction of waves, attracts a growing attention in these years. The concept of abnormally deflecting the incident wave has been applied to the elastic field very recently. However, most of the studies on metasurfaces are based on passive materials, which restricts the frequency or the deflected angles always working in a single state. Here, we steer elastic SH wave propagation in an electrorheological (ER) elastomer with a structured meta-slab composed of geometrically periodic wave guides by exposing the slab to the programmed electric fields. The dependence of phase velocities of SH waves on the applied electric fields can make the phase shift under the form of a special function along the slab, which will control the refraction angles of the transmitted SH waves by the GSL. Accordingly we design the meta-slab theoretically and conduct corresponding numerical simulations. The results demonstrate that the structured meta-slab under the programmed external electric fields can deflect SH wave flexibly with tunable refraction angles and working frequencies, and can focus SH wave with tunable focal lengths. The present study will broaden the scope of applying adaptive materials to design metasurfaces with tunability.

Optimization of a Focusable and Rotatable Shear-Wave Periodic Permanent Magnet Electromagnetic Acoustic Transducers for Plates Inspection

PubMed Central

Qiu, Gongzhe

2017-01-01

Due to the symmetry of conventional periodic-permanent-magnet electromagnetic acoustic transducers (PPM EMATs), two shear (SH) waves can be generated and propagated simultaneously in opposite directions, which makes the signal recognition and interpretation complicatedly. Thus, this work presents a new SH wave PPM EMAT design, rotating the parallel line sources to realize the wave beam focusing in a single-direction. The theoretical model of distributed line sources was deduced firstly, and the effects of some parameters, such as the inner coil width, adjacent line sources spacing and the angle between parallel line sources, on SH wave focusing and directivity were studied mainly with the help of 3D FEM. Employing the proposed PPM EMATs, some experiments are carried out to verify the reliability of FEM simulation. The results indicate that rotating the parallel line sources can strength the wave on the closing side of line sources, decreasing the inner coil width and the adjacent line sources spacing can improve the amplitude and directivity of signals excited by transducers. Compared with traditional PPM EMATs, both the capacity of unidirectional excitation and directivity of the proposed PPM EMATs are improved significantly. PMID:29186790

Optimization of a Focusable and Rotatable Shear-Wave Periodic Permanent Magnet Electromagnetic Acoustic Transducers for Plates Inspection.

PubMed

Song, Xiaochun; Qiu, Gongzhe

2017-11-24

Due to the symmetry of conventional periodic-permanent-magnet electromagnetic acoustic transducers (PPM EMATs), two shear (SH) waves can be generated and propagated simultaneously in opposite directions, which makes the signal recognition and interpretation complicatedly. Thus, this work presents a new SH wave PPM EMAT design, rotating the parallel line sources to realize the wave beam focusing in a single-direction. The theoretical model of distributed line sources was deduced firstly, and the effects of some parameters, such as the inner coil width, adjacent line sources spacing and the angle between parallel line sources, on SH wave focusing and directivity were studied mainly with the help of 3D FEM. Employing the proposed PPM EMATs, some experiments are carried out to verify the reliability of FEM simulation. The results indicate that rotating the parallel line sources can strength the wave on the closing side of line sources, decreasing the inner coil width and the adjacent line sources spacing can improve the amplitude and directivity of signals excited by transducers. Compared with traditional PPM EMATs, both the capacity of unidirectional excitation and directivity of the proposed PPM EMATs are improved significantly.

Mode Conversion Behavior of Guided Wave in a Pipe Inspection System Based on a Long Waveguide.

PubMed

Sun, Feiran; Sun, Zhenguo; Chen, Qiang; Murayama, Riichi; Nishino, Hideo

2016-10-19

To make clear the mode conversion behavior of S0-mode lamb wave and SH0-plate wave converting to the longitudinal mode guided wave and torsional mode guided wave in a pipe, respectively, the experiments were performed based on a previous built pipe inspection system. The pipe was wound with an L-shaped plate or a T-shaped plate as the waveguide, and the S0-wave and SH0-wave were excited separately in the waveguide. To carry out the objective, a meander-line coil electromagnetic acoustic transducer (EMAT) for S0-wave and a periodic permanent magnet (PPM) EMAT for SH0-wave were developed and optimized. Then, several comparison experiments were conducted to compare the efficiency of mode conversion. Experimental results showed that the T(0,1) mode, L(0,1) mode, and L(0,2) mode guided waves can be successfully detected when converted from the S0-wave or SH0-wave with different shaped waveguides. It can also be inferred that the S0-wave has a better ability to convert to the T(0,1) mode, while the SH0-wave is easier to convert to the L(0,1) mode and L(0,2) mode, and the L-shaped waveguide has a better efficiency than T-shaped waveguide.

Near-surface, SH-wave surveys in unconsolidated, alluvial sediments

USGS Publications Warehouse

Young, Roger A.; Hoyos, Jorge

2001-01-01

The past decade of hydrocarbon exploration has been marked by sweeping technological innovations that have greatly advanced methods for exploration and development of oil and gas reserves. An example of major importance is the use of shear waves in marine oil and gas exploration to image reflectors beneath gas chimneys. This technology grew from infancy to maturity in the 1990s, is now incorporated into commercial processing packages, and is being used with success in a number of situations. Recent SEG Annual Meetings and the Special Section of this issue of TLE have had many documented case histories about the use of converted (P-SV) waves.The SH-wave (another type of shear wave), however, has been of less interest to the energy industry during the past decade. Near-surface applications of SH-waves, in contrast, have received increasing attention. The present article briefly reviews shear-wave technology advances made in the energy industry over the past decade that prepared the way for the present near-surface application of SH-waves. The article concludes with a near-surface case study using combined P- and SH-wave interpretation in an unconsolidated, alluvial setting.

Improving the shear wave velocity structure beneath Bucharest (Romania) using ambient vibrations

NASA Astrophysics Data System (ADS)

Manea, Elena Florinela; Michel, Clotaire; Poggi, Valerio; Fäh, Donat; Radulian, Mircea; Balan, Florin Stefan

2016-11-01

Large earthquakes from the intermediate-depth Vrancea seismic zone are known to produce in Bucharest ground motion characterized by predominant long periods. This phenomenon has been interpreted as the combined effect of both seismic source properties and site response of the large sedimentary basin. The thickness of the unconsolidated Quaternary deposits beneath the city is more than 200 m, the total depth of sediments is more than 1000 m. Complex basin geometry and the low seismic wave velocities of the sediments are primarily responsible for the large amplification and long duration experienced during earthquakes. For a better understanding of the geological structure under Bucharest, a number of investigations using non-invasive methods have been carried out. With the goal to analyse and extract the polarization and dispersion characteristics of the surface waves, ambient vibrations and low-magnitude earthquakes have been investigated using single station and array techniques. Love and Rayleigh dispersion curves (including higher modes), Rayleigh waves ellipticity and SH-wave fundamental frequency of resonance (f0SH) have been inverted simultaneously to estimate the shear wave velocity structure under Bucharest down to a depth of about 8 km. Information from existing borehole logs was used as prior to reduce the non-uniqueness of the inversion and to constrain the shallow part of the velocity model (<300 m). In this study, we use data from a 35-km diameter array (the URS experiment) installed by the National Institute for Earth Physics and by the Karlsruhe Institute of Technology during 10 months in the period 2003-2004. The array consisted of 32 three-component seismological stations, deployed in the urban area of Bucharest and adjacent zones. The large size of the array and the broad-band nature of the available sensors gave us the possibility to characterize the surface wave dispersion at very low frequencies (0.05-1 Hz) using frequency-wavenumber techniques. This is essential to explore and resolve the deeper portions of the basin. The horizontal to vertical spectral ratio (H/V) curves provide important additional information about the structure and are here characterized by two major peaks. The first is attributed to the fundamental frequency of the basin, while the second can be interpreted as a mixture of the second higher mode of Rayleigh waves and other types of waves such as SH waves. This hypothesis has been verified by comparing the H/V curves with the SH-wave transfer function from the retrieved velocity structure. We could also approximate the SH transfer function with H/V ratios of earthquake recordings, providing additional verification of the robustness of the proposed velocity model. The Cretaceous bedrock depth was then inverted at each URS station from the fundamental frequency of resonance and using this model. A 3-D geophysical model for Bucharest has been constructed based on the integration of the inverted velocity profiles and the available geological information using a geographic information system.

CMIP5-based global wave climate projections including the entire Arctic Ocean

NASA Astrophysics Data System (ADS)

Casas-Prat, M.; Wang, X. L.; Swart, N.

2018-03-01

This study presents simulations of the global ocean wave climate corresponding to the surface winds and sea ice concentrations as simulated by five CMIP5 (Coupled Model Intercomparison Project Phase 5) climate models for the historical (1979-2005) and RCP8.5 scenario future (2081-2100) periods. To tackle the numerical complexities associated with the inclusion of the North Pole, the WAVEWATCH III (WW3) wave model was used with a customized unstructured Spherical Multi-Cell grid of ∼100 km offshore and ∼50 km along coastlines. The climate model simulated wind and sea ice data, and the corresponding WW3 simulated wave data, were evaluated against reanalysis and hindcast data. The results show that all the five sets of wave simulations projected lower waves in the North Atlantic, corresponding to decreased surface wind speeds there in the warmer climate. The selected CMIP5 models also consistently projected an increase in the surface wind speed in the Southern Hemisphere (SH) mid-high latitudes, which translates in an increase in the WW3 simulated significant wave height (Hs) there. The higher waves are accompanied with increased peak wave period and increased wave age in the East Pacific and Indian Oceans, and a significant counterclockwise rotation in the mean wave direction in the Southern Oceans. The latter is caused by more intense waves from the SH traveling equatorward and developing into swells. Future wave climate in the Arctic Ocean in summer is projected to be predominantly of mixed sea states, with the climatological mean of September maximum Hs ranging mostly 3-4 m. The new waves approaching Arctic coasts will be less fetch-limited as ice retreats since a predominantly southwards mean wave direction is projected in the surrounding seas.

A Guided Wave Sensor Enabling Simultaneous Wavenumber-Frequency Analysis for Both Lamb and Shear-Horizontal Waves.

PubMed

Ren, Baiyang; Cho, Hwanjeong; Lissenden, Cliff J

2017-03-01

Guided waves in plate-like structures have been widely investigated for structural health monitoring. Lamb waves and shear horizontal (SH) waves, two commonly used types of waves in plates, provide different benefits for the detection of various types of defects and material degradation. However, there are few sensors that can detect both Lamb and SH waves and also resolve their modal content, namely the wavenumber-frequency spectrum. A sensor that can detect both waves is desirable to take full advantage of both types of waves in order to improve sensitivity to different discontinuity geometries. We demonstrate that polyvinylidene difluoride (PVDF) film provides the basis for a multi-element array sensor that detects both Lamb and SH waves and also measures their modal content, i.e., the wavenumber-frequency spectrum.

A guided wave sensor enabling simultaneous wavenumber-frequency analysis for both lamb and shear-horizontal waves

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

Ren, Baiyang; Cho, Hwanjeong; Lissenden, Cliff J.

Guided waves in plate-like structures have been widely investigated for structural health monitoring. Lamb waves and shear horizontal (SH) waves, two commonly used types of waves in plates, provide different benefits for the detection of various types of defects and material degradation. However, there are few sensors that can detect both Lamb and SH waves and also resolve their modal content, namely the wavenumber-frequency spectrum. A sensor that can detect both waves is desirable to take full advantage of both types of waves in order to improve sensitivity to different discontinuity geometries. As a result, we demonstrate that polyvinylidene difluoridemore » (PVDF) film provides the basis for a multi-element array sensor that detects both Lamb and SH waves and also measures their modal content, i.e., the wavenumber-frequency spectrum.« less

A guided wave sensor enabling simultaneous wavenumber-frequency analysis for both lamb and shear-horizontal waves

DOE PAGES

Ren, Baiyang; Cho, Hwanjeong; Lissenden, Cliff J.

2017-03-01

Guided waves in plate-like structures have been widely investigated for structural health monitoring. Lamb waves and shear horizontal (SH) waves, two commonly used types of waves in plates, provide different benefits for the detection of various types of defects and material degradation. However, there are few sensors that can detect both Lamb and SH waves and also resolve their modal content, namely the wavenumber-frequency spectrum. A sensor that can detect both waves is desirable to take full advantage of both types of waves in order to improve sensitivity to different discontinuity geometries. As a result, we demonstrate that polyvinylidene difluoridemore » (PVDF) film provides the basis for a multi-element array sensor that detects both Lamb and SH waves and also measures their modal content, i.e., the wavenumber-frequency spectrum.« less

NEHRP soil classifications for estimating site-dependent seismic coefficients in the Upper Mississippi Embayment

USGS Publications Warehouse

Street, R.; Woolery, E.W.; Wang, Z.; Harris, J.B.

2001-01-01

Local soil conditions have a profound influence on the characteristics of ground shaking during an earthquake. Exceptionally deep soil deposits, on the order of 100-1000 m deep, are found in the Upper Mississippi Embayment of the central United States. Shear waves (SH) from earthquakes in the New Madrid seismic zone are expected to be strongly affected by the sharp impedance contrasts at the bedrock/sediment interface, attenuation of seismic waves in the soil column, and the SH-wave velocities of the more poorly consolidated near-surface (???50 m) soils. SH-wave velocities of the near-surface soils at nearly 400 sites in the Upper Mississippi Embayment were determined using conventional seismic SH-wave refraction and reflection techniques. Based on the average SH-wave velocities of the upper 30 m of the soils, sites in the Mississippi River floodplain portion of the study area are predominantly classified as Site Class D (180-360 m/s) in accordance with the 1997 NEHRP provisions. Sites away from the active floodplains in western Kentucky and western Tennessee, the SH-wave velocities of the upper 30 m of soils typically ranged from mid-200 to mid-300 m/s. Several sites in western Kentucky had averaged SH-wave velocities greater than 360 m/s, thereby qualifying them as Site Class C (360-760 m/s) in accordance with the 1997 NEHRP provisions. One dimensional site effects, including amplification and dynamic site period, were calculated for a representative suite of sites across the Upper Mississippi Embayment at latitude ?? 38.5??. Although seismic attenuation is greater in the Mississippi River floodplain (i.e. thicker, lower velocity material), the site effects tend to be greater than in the uplands of western Tennessee because of larger impedance contrasts within the near-surface soils. ?? 2001 Elsevier Science B.V. All rights reserved.

Characterization of an Explosion Source in a Complex Medium by Modeling and Wavelet Domain Inversion

DTIC Science & Technology

2006-06-01

1 2. Mechanisms on Scattering due to an Explosive Source...the S wave at the tunnel. TRA has great potential for determining the seismic source properties. 2 2. Mechanisms on Scattering due to an Explosive...and prominent SH and Love waves. Various mechanisms have been proposed to explain the generation of these transverse waves. 2.2 Objectives of This

Anisotropy beneath the Southern Pacific - real or apparent?

NASA Astrophysics Data System (ADS)

Prasse, Philipp; Thomas, Christine

2016-04-01

Anisotropy of the lowermost mantle beneath the South- to Central Pacific is investigated using US-Array receivers and events located near the Tonga-Fiji subduction zones. Differential splitting in three different distance ranges (65° -85° , 90° -110° and >110°) of S-ScS, SKS-S, SKS-Sdiff phases is used. By utilizing differential splitting technique, it was possible to correct for upper mantle, as well as source- and receiver side anisotropy and effectively quantify shear wave splitting originating in the lowermost mantle. Delay times of horizontal (SH) and vertical polarized (SV) shear waves show that predominantly the SH wave is delayed relative to the SV wave. Motivated by the discrepancy in previous Pacific studies investigating the lowermost mantle beneath the Pacific the possibility of isotropic structure producing the observed splitting is tested. Synthetic seismograms are computed, based on various isotropic models and the resulting synthetics are analysed in the same way as the real data. While simple layered models do not produce splitting and therefore apparent anisotropy, models in which the lowermost mantle is represented as a negative gradient in P- and S-wave velocity, produce clear apparent anisotropy. Thus, this study presents a possible alternative way of explaining the structure of the D" region.

Three-dimensional site response at KiK-net downhole arrays

USGS Publications Warehouse

Thompson, Eric M.; Tanaka, Yasuo; Baise, Laurie G.; Kayen, Robert E.

2010-01-01

Ground motions at two Kiban-Kyoshin Network (KiK-net) strong motion downhole array sites in Hokkaido, Japan (TKCH08 in Taiki and TKCH05 in Honbetsu) illustrate the importance of three-dimensional (3D) site effects. These sites recorded the M8.0 2003 Tokachi-Oki earthquake, with recorded accelerations above 0.4 g at both sites as well as numerous ground motions from smaller events. Weak ground motions indicate that site TKCH08 is well modeled with the assumption of plane SH waves traveling through a 1D medium (SH1D), while TKCH05 is characteristic of a poor fit to the SH1D theoretical response. We hypothesized that the misfit at TKCH05results from the heterogeneity of the subsurface. To test this hypothesis, we measured four S-wave velocity profiles in the vicinity (< 300 m) of each site with the spectral analysis of surface waves (SASW) method. This KiK-net site pair is ideal for assessing the relative importance of 3D site effects and nonlinear site effects. The linear ground motions at TKCH05 isolate the 3D site effects, as we hypothesized from the linear ground motions and confirmed with our subsequent SASW surveys. The Tokachi-Oki time history at TKCH08 isolates the effects of nonlinearity from spatial heterogeneity because the 3D effects are negligible. The Tokachi-Oki time history at TKCH05 includes both nonlinear and 3D site effects. Comparisons of the accuracy of the SH1D model predictions of these surface time histories from the downhole time histories indicates that the 3D site effects are at least as important as nonlinear effects in this case. The errors associated with the assumption of a 1D medium and 1D wave propagation will be carried into a nonlinear analysis that relies on these same assumptions. Thus, the presence of 3D effects should be ruled out prior to a 1D nonlinear analysis. The SH1D residuals show that 3D effects can be mistaken for nonlinear effects.

Studying the Effects of Transparent vs. Opaque Shallow Thrust Faults Using Synthetic P and SH Seismograms

NASA Astrophysics Data System (ADS)

Smith, D. E.; Aagaard, B. T.; Heaton, T. H.

2001-12-01

It has been hypothesized (Brune, 1996) that teleseismic inversions may underestimate the moment of shallow thrust fault earthquakes if energy becomes trapped in the hanging wall of the fault, i.e. if the fault boundary becomes opaque. We address this by creating and analyzing synthetic P and SH seismograms for a variety of friction models. There are a total of five models: (1) crack model (slip weakening) with instantaneous healing (2) crack model without healing (3) crack model with zero sliding friction (4) pulse model (slip and rate weakening) (5) prescribed model (Haskell-like rupture with the same final slip and peak slip-rate as model 4). Models 1-4 are all dynamic models where fault friction laws determine the rupture history. This allows feedback between the ongoing rupture and waves from the beginning of the rupture that hit the surface and reflect downwards. Hence, models 1-4 can exhibit opaque fault characteristics. Model 5, a prescribed rupture, allows for no interaction between the rupture and reflected waves, therefore, it is a transparent fault. We first produce source time functions for the different friction models by rupturing shallow thrust faults in 3-D dynamic finite-element simulations. The source time functions are used as point dislocations in a teleseismic body-wave code. We examine the P and SH waves for different azimuths and epicentral distances. The peak P and S first arrival displacement amplitudes for the crack, crack with healing and pulse models are all very similar. These dynamic models with opaque faults produce smaller peak P and S first arrivals than the prescribed, transparent fault. For example, a fault with strike = 90 degrees, azimuth = 45 degrees has P arrivals smaller by about 30% and S arrivals smaller by about 15%. The only dynamic model that doesn't fit this pattern is the crack model with zero sliding friction. It oscillates around its equilibrium position; therefore, it overshoots and yields an excessively large peak first arrival. In general, it appears that the dynamic, opaque faults have smaller peak teleseismic displacements that would lead to lower moment estimates by a modest amount.

Very small IF resonator filters using reflection of shear horizontal wave at free edges of substrate.

PubMed

Kadota, Michio; Ago, Junya; Horiuchi, Hideya; Ikeura, Mamoru

2002-09-01

A shear horizontal (SH) wave has the characteristic of complete reflection at the free edges of a substrate with a large dielectric constant. A conventional surface acoustic wave (SAW) resonator filter requires reflectors consisting of numerous grating fingers on both sides of interdigital transducers (IDTs). On the contrary, it is considered that small-sized and low loss resonator filters without reflectors consisting of grating fingers can be realized by exploiting this characteristic of the SH wave or the Bleustein-Gulyaev-Shimizu (BGS) wave. There are two types of resonator filters: transversely coupled and longitudinally coupled. No transversely coupled filters (neither conventional nor edge-reflection) using the SH wave on a single-crystal substrate have been realized until now, because two transverse modes (symmetrical and asymmetrical modes) are not easily coupled. However, the authors have realized small low loss transversely coupled resonator filters in the range of 25 to 52 MHz using edge reflections of the BGS wave on piezoelectric ceramic (PZT: Pb(Zr,Ti)O3) substrates for the first time by developing methods by which the two transverse modes could be coupled. On the other hand, longitudinally coupled resonator filters using edge reflection of the SH or BGS wave always have large spurious responses because of the even modes in the out-of-band range, because the frequencies of even modes do not coincide with the nulls of the frequency spectra of the IDTs. Consequently, longitudinally coupled resonator filters using the edge reflection of the SH wave have not been realized. By developing a method of reducing the spurious responses without increasing of the insertion loss, the authors have realized small low loss longitudinally coupled resonator filters in the range of 40 to 190 MHz using edge reflection of BGS or SH waves on PZT or 36 degrees-rotated-Y X-propagation LiTaO3 substrates for the first time. Despite being intermediate frequency (IF) filters, their package (3 x 3 x 1.03 mm3) sizes are as small as those of radio frequency (RF) SAW filters.

A variable-frequency structural health monitoring system based on omnidirectional shear horizontal wave piezoelectric transducers

NASA Astrophysics Data System (ADS)

Huan, Qiang; Miao, Hongchen; Li, Faxin

2018-02-01

Structural health monitoring (SHM) is of great importance for engineering structures as it may detect the early degradation and thus avoid life and financial loss. Guided wave based inspection is very useful in SHM due to its capability for long distance and wide range monitoring. The fundamental shear horizontal (SH0) wave based method should be most promising since SH0 is the unique non-dispersive wave mode in plate-like structures. In this work, a sparse array SHM system based on omnidirectional SH wave piezoelectric transducers (OSH-PT) was proposed and the multi data fusion method was used for defect inspection in a 2 mm thick aluminum plate. Firstly, the performances of three types OSH-PTs was comprehensively compared and the thickness-poled d15 mode OSH-PT used in this work was demonstrated obviously superior to the other two. Then, the signal processing method and imaging algorithm for this SHM system was presented. Finally, experiments were carried out to examine the performance of the proposed SHM system in defect localization and imaging. Results indicated that this SHM system can locate a through hole as small as 0.12λ (4 mm) in diameter (where λ is the wavelength corresponding to the central operation frequency) under frequencies from 90 to 150 kHz. It can also locate multiple defects accurately based on the baseline subtraction method. Obviously, this SHM system can detect larger areas with sparse sensors because of the adopted single mode, non-dispersive and low frequency SH0 wave which can propagate long distance with small attenuation. Considering its good performances, simple data processing and sparse array, this SH0 wave-based SHM system is expected to greatly promote the applications of guided wave inspection.

Teleseismic body waves from dynamically rupturing shallow thrust faults: Are they opaque for surface-reflected phases?

USGS Publications Warehouse

Smith, D.E.; Aagaard, Brad T.; Heaton, T.H.

2005-01-01

We investigate whether a shallow-dipping thrust fault is prone to waveslip interactions via surface-reflected waves affecting the dynamic slip. If so, can these interactions create faults that are opaque to radiated energy? Furthermore, in this case of a shallow-dipping thrust fault, can incorrectly assuming a transparent fault while using dislocation theory lead to underestimates of seismic moment? Slip time histories are generated in three-dimensional dynamic rupture simulations while allowing for varying degrees of wave-slip interaction controlled by fault-friction models. Based on the slip time histories, P and SH seismograms are calculated for stations at teleseismic distances. The overburdening pressure caused by gravity eliminates mode I opening except at the tip of the fault near the surface; hence, mode I opening has no effect on the teleseismic signal. Normalizing by a Haskell-like traditional kinematic rupture, we find teleseismic peak-to-peak displacement amplitudes are approximately 1.0 for both P and SH waves, except for the unrealistic case of zero sliding friction. Zero sliding friction has peak-to-peak amplitudes of 1.6 for P and 2.0 for SH waves; the fault slip oscillates about its equilibrium value, resulting in a large nonzero (0.08 Hz) spectral peak not seen in other ruptures. These results indicate wave-slip interactions associated with surface-reflected phases in real earthquakes should have little to no effect on teleseismic motions. Thus, Haskell-like kinematic dislocation theory (transparent fault conditions) can be safety used to simulate teleseismic waveforms in the Earth.

Strength/Brittleness Classification of Igneous Intact Rocks Based on Basic Physical and Dynamic Properties

NASA Astrophysics Data System (ADS)

Aligholi, Saeed; Lashkaripour, Gholam Reza; Ghafoori, Mohammad

2017-01-01

This paper sheds further light on the fundamental relationships between simple methods, rock strength, and brittleness of igneous rocks. In particular, the relationship between mechanical (point load strength index I s(50) and brittleness value S 20), basic physical (dry density and porosity), and dynamic properties (P-wave velocity and Schmidt rebound values) for a wide range of Iranian igneous rocks is investigated. First, 30 statistical models (including simple and multiple linear regression analyses) were built to identify the relationships between mechanical properties and simple methods. The results imply that rocks with different Schmidt hardness (SH) rebound values have different physicomechanical properties or relations. Second, using these results, it was proved that dry density, P-wave velocity, and SH rebound value provide a fine complement to mechanical properties classification of rock materials. Further, a detailed investigation was conducted on the relationships between mechanical and simple tests, which are established with limited ranges of P-wave velocity and dry density. The results show that strength values decrease with the SH rebound value. In addition, there is a systematic trend between dry density, P-wave velocity, rebound hardness, and brittleness value of the studied rocks, and rocks with medium hardness have a higher brittleness value. Finally, a strength classification chart and a brittleness classification table are presented, providing reliable and low-cost methods for the classification of igneous rocks.

Reflection coefficient of qP, qS and SH at a plane boundary between viscoelastic TTI media

NASA Astrophysics Data System (ADS)

Wang, Hongwei; Peng, Suping

2016-01-01

This paper introduces a calculation method for the effective elastic stiffness tensor matrix of the viscous-elastic TTI medium based on the Chapman theory. We then obtain the phase velocity formula and seismic wave polarization formula of the viscous-elastic TTI medium, by solving the Christoffel equation; solve the phase angle of reflection and transmission wave through the numerical method in accordance with the wave slowness ellipsoid; on the basis of this assumption, and assuming that qP, qS and SH waves occurred simultaneously at the viscous-elastic anisotropic interface, establish the sixth-order Zoeppritz equation in accordance with the boundary conditions; establish the models for the upper and lower media which are viscous-elastic HTI, TTI, etc., on the basis of the sixth-order Zoeppritz equation; and study the impact of fracture dip angle, azimuth angle and frequency on the reflection coefficient. From this we obtain the following conclusions: the reflection coefficient can identify the fracture strike and dip when any information pertaining to the media is unknown; dispersion phenomenon is obvious on the axial plane of symmetry and weakened in the plane vertical to the axial plane of symmetry; the vertical-incidence longitudinal wave can stimulate the qS wave when the dip angle is not 0° or 90° under the condition of coincidence between the symmetry planes of the upper and lower media; when the symmetry planes of the upper and lower media do not coincide and the dip angle is not 0° or 90°, then the vertical-incidence qP will stimulate the qS and SH waves at the same time; the dip angle can cause the reflection coefficient curve to have a more obvious dispersion phenomenon, while the included angle between the symmetry planes of the upper and lower media will weaken the dispersion except SH; and the intercept of reflection coefficient is affected by the fracture dip and included angle between the symmetry planes of the upper and lower media.

Shear horizontal guided wave modes to infer the shear stiffness of adhesive bond layers.

PubMed

Le Crom, Bénédicte; Castaings, Michel

2010-04-01

This paper presents a non-destructive, ultrasonic technique to evaluate the quality of bonds between substrates. Shear-horizontally polarized (SH) wave modes are investigated to infer the shear stiffness of bonds, which is necessarily linked to the shear resistance that is a critical parameter for bonded structures. Numerical simulations are run for selecting the most appropriate SH wave modes, i.e., with higher sensitivity to the bond than to other components, and experiments are made for generating-detecting pre-selected SH wave modes and for measuring their phase velocities. An inverse problem is finally solved, consisting of the evaluation of the shear stiffness modulus of a bond layer at different curing times between a metallic plate and a composite patch, such assembly being investigated in the context of repair of aeronautical structures.

The origin of SH-wave resonance frequencies in sedimentary layers

NASA Astrophysics Data System (ADS)

van der Baan, Mirko

2009-09-01

Resonance frequencies are often analysed in geo-engineering studies to evaluate seismic risk and microzonation in urban areas. The Nakamura technique constitutes a popular approach that computes the spectral ratio of horizontal-to-vertical ground motion in ambient noise recordings to reveal the existence of any site resonance frequencies. Its theoretical basis remains however unclear with some authors arguing that the method de-emphasizes any Rayleigh-wave contributions and that the resonance frequencies are solely caused by vertically incident SH waves. Other authors explain the same resonance frequencies by the ellipticity of the fundamental Rayleigh wave. Recent numerical simulations reveal that the magnitude of the peak frequency is proportional to the relative portion of Love waves present. This study demonstrates that Love waves alone can be responsible for any observed resonance frequencies in sedimentary layers. Yet sharp SH-wave resonance frequencies are only excited by a source in the bedrock. These resonance frequencies are caused by inhomogeneous waves excited by the bedrock source that tunnel through the high-velocity bedrock to emerge in the low-velocity sediments with a very reduced range of slownesses. The resulting SH waves are then free to interfere constructively thereby creating the observed resonance frequencies. This general trigger mechanism leads to resonances that are almost offset independent. The resulting resonance frequencies map onto points of maximum curvature in the Love-wave phase-velocity dispersion curves at or just beyond the critical horizontal slowness. They can be analysed with the quarter-wavelength law if a large velocity contrast exists between the unconsolidated sediments and the bedrock. A minor modification of the quarter-wavelength law provides more accurate predictions, also for smaller velocity contrasts. Multisource simulations show that site amplification factors as determined by horizontal-over-vertical (H/V) spectral ratios would not only depend on the relative portion of Love waves in the total wavefield but also on the depth distribution and the relative strength of the SH sources inside the bedrock compared with those in the sediments. An accurate interpretation of site amplification factors by means of H/V peak frequencies would thus require in-depth knowledge of the causes and origins of the local microseismic noise field.

Superconducting properties of the s ± -wave state: Fe-based superconductors

DOE PAGES

Bang, Yunkyu; Stewart, G. R.

2017-02-13

Although the pairing mechanism of Fe-based superconductors (FeSCs) has not yet been settled with consensus with regard to the pairing symmetry and the superconducting (SC) gap function, the vast majority of experiments support the existence of spin-singlet signchanging s-wave SC gaps on multi-bands (s±-wave state). This multi-band s±-wave state is a very unique gap state per se and displays numerous unexpected novel SC properties, such as a strong reduction of the coherence peak, non-trivial impurity effects, nodal-gap-like nuclear magnetic resonance signals, various Volovik effects in the specific heat (SH) and thermal conductivity, and anomalous scaling behaviors with a SH jumpmore » and condensation energy versus Tc, etc. In particular, many of these non-trivial SC properties can easily be mistaken as evidence for a nodal-gap state such as a d-wave gap. In this review, we provide detailed explanations of the theoretical principles for the various non-trivial SC properties of the s±-wave pairing state, and then critically compare the theoretical predictions with experiments on FeSCs. This will provide a pedagogical overview of to what extent we can coherently understand the wide range of different experiments on FeSCs within the s±-wave gap model.« less

SH-wave reflection seismic and VSP as tools for the investigation of sinkhole areas in Germany

NASA Astrophysics Data System (ADS)

Wadas, Sonja; Tschache, Saskia; Polom, Ulrich; Buness, Hermann; Krawczyk, Charlotte M.

2017-04-01

Sinkholes can lead to damage of buildings and infrastructure and they can cause life-threatening situations, if they occur in urban areas. The process behind this phenomenon is called subrosion. Subrosion is the underground leaching of soluble rocks, e.g. anhydrite and gypsum, due to the contact with ground- and meteoric water. Depending on the leached material, and especially the dissolution rate, different kinds of subrosion structures evolve in the subsurface. The two end members are collapse and depression structures. For a better understanding of the subrosion processes a detailed characterization of the resulting structures is necessary. In Germany sinkholes are a problem in many areas. In northern Germany salt and in central and southern Germany sulfate and carbonate deposits are affected by subrosion. The study areas described here are located in Thuringia in central Germany and the underground is characterized by soluble Permian deposits. The occurrence of 20 to 50 sinkholes is reported per year. Two regions, Bad Frankenhausen and Schmalkalden, are investigated, showing a leaning church tower and a sinkhole of 30 m diameter and 20 m depth, respectively. In Bad Frankenhausen four P-wave and 16 SH-wave reflection seismic profiles were carried out, supplemented by three zero-offset VSPs. In Schmalkalden five SH-wave reflection seismic profiles and one zero-offset VSP were acquired. The 2-D seismic sections, in particular the SH-wave profiles, showed known and unknown near-surface faults in the vicinity of sinkholes and depressions. For imaging the near-surface (< 100 m depth) high-resolution SH-waves are advantageous in order to detect subrosion structures at different stages. The reflection patterns of the 2-D seismic sections indicate a heterogeneous underground with lateral and vertical variations in forms of discontinuous reflectors, depressions, small-scale fractures and near-surface faults. Probably the faults and fractures serve as pathways for groundwater, forming cavities due to the increase in rock permeability. Besides these structures, anomalies of the seismic velocities and the attenuation of seismic waves are visible, especially in the SH-wave profiles. Low velocities < 200 m/s and high attenuation may indicate areas affected by subrosion. Other parameters characterizing the underground stability are the shear modulus, derived from shear-wave interval velocities and density, and the Vp-Vs ratio. The 1-D and the 2-D data revealed zones of low shear modulus < 100 MPa and high Vp-Vs ratios > 2,5, probably indicating unstable areas due to subrosion. We conclude, that SH-wave reflection seismic offer an important tool for the imaging and characterization of near-surface subrosion structures and the identification of unstable zones, especially in combination with P-wave reflection seismic and zero-offset VSP with P- and S-waves. Presumably there is a connection between the presence of large fluid pathways, like faults, and the occurrence of widespread subrosion.

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

Chadid, M.; Vernin, J.; Zalian, C.

We present the first detection of multi-shocks propagating through the atmosphere of the Blazhko star S Arae using uninterrupted, accurate optical photometric data collected during one polar night, 150 days from Antarctica at Dome C, with the Photometer AntarctIca eXtinction (PAIX). We acquired 89,736 CCD frames during 323 pulsation cycles and 3 Blazhko cycles. We detected two new light curve properties in the PAIX light curve, jump and rump, which we associated with two new post-maximum shock waves Sh{sub PM1} and Sh{sub PM2}. jump, lump, rump, bump, and hump are induced by five shock waves, with different amplitudes and origins,more » Sh{sub PM1}, Sh{sub PM}, Sh{sub PM2}, Sh{sub PM3}, and the main shock Sh{sub H+He}. Correlations between the length of rise time and light amplitude and Sh{sub PM3} are monotonous during three Blazhko cycles, but the pulsation curve is double peaked. We discuss the physical mechanisms driving the modulation of these quantities. Finally, we hypothesize that the origin of the Blazhko effect is a dynamical interaction between a multi-shock structure and an outflowing wind in a coronal structure.« less

Dependence of shear wave seismoelectrics on soil textures: a numerical study in the vadose zone

NASA Astrophysics Data System (ADS)

Zyserman, F. I.; Monachesi, L. B.; Jouniaux, L.

2017-02-01

In this work, we study seismoelectric conversions generated in the vadose zone, when this region is traversed by a pure SH wave. We assume that the soil is a 1-D partially saturated lossy porous medium and we use the van Genuchten's constitutive model to describe the water saturation profile. Correspondingly, we extend Pride's formulation to deal with partially saturated media. In order to evaluate the influence of different soil textures we perform a numerical analysis considering, among other relevant properties, the electrokinetic coupling, coseismic responses and interface responses (IRs). We propose new analytical transfer functions for the electric and magnetic field as a function of the water saturation, modifying those of Bordes et al. and Garambois & Dietrich, respectively. Further, we introduce two substantially different saturation-dependent functions into the electrokinetic (EK) coupling linking the poroelastic and the electromagnetic wave equations. The numerical results show that the electric field IRs markedly depend on the soil texture and the chosen EK coupling model, and are several orders of magnitude stronger than the electric field coseismic ones. We also found that the IRs of the water table for the silty and clayey soils are stronger than those for the sandy soils, assuming a non-monotonous saturation dependence of the EK coupling, which takes into account the charged air-water interface. These IRs have been interpreted as the result of the jump in the viscous electric current density at the water table. The amplitude of the IR is obtained using a plane SH wave, neglecting both the spherical spreading and the restriction of its origin to the first Fresnel zone, effects that could lower the predicted values. However, we made an estimation of the expected electric field IR amplitudes detectable in the field by means of the analytical transfer functions, accounting for spherical spreading of the SH seismic waves. This prediction yields a value of 15 μV m-1, which is compatible with reported values.

FEM/BEM impedance and power analysis for measured LGS SH-SAW devices.

PubMed

Kenny, Thomas D; Pollard, Thomas B; Berkenpas, Eric; da Cunha, Mauricio Pereira

2006-02-01

Pure shear horizontal piezoelectrically active surface and bulk acoustic waves (SH-SAW and SH-BAW) exist along rotated Y-cuts, Euler angles (0 degrees, theta, 90 degrees), of trigonal class 32 group crystals, which include the LGX family of crystals (langasite, langatate, and langanite). In this paper both SH-SAW and SH-BAW generated by finite-length, interdigital transducers (IDTs) on langasite, Euler angles (0 degrees, 22 degrees, 90 degrees), are simulated using combined finite- and boundary-element methods (FEM/BEM). Aluminum and gold IDT electrodes ranging in thickness from 600 A to 2000 A have been simulated, fabricated, and tested, with both free and metalized surfaces outside the IDT regions considered. Around the device's operating frequency, the percent difference between the calculated IDT impedance magnitude using the FEM/BEM model and the measurements is better than 5% for the different metal layers and thicknesses considered. The proportioning of SH-SAW and SH-BAW power is analyzed as a function of the number of IDT electrodes; type of electrode metal; and relative thickness of the electrode film, h/wavelength, where wavelength is the SH-SAW wavelength. Simulation results show that moderate mechanical loading by gold electrodes increases the proportion of input power converted to SH-SAW. For example, with a split-electrode IDT, comprising 238 electrodes with a relative thickness h/wavelength = 0.63% and surrounded by an infinitesimally thin conducting film, nearly 9% more input power is radiated as SH-SAW when gold instead of aluminum electrodes are used.

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

Bang, Yunkyu; Stewart, G. R.

Although the pairing mechanism of Fe-based superconductors (FeSCs) has not yet been settled with consensus with regard to the pairing symmetry and the superconducting (SC) gap function, the vast majority of experiments support the existence of spin-singlet signchanging s-wave SC gaps on multi-bands (s±-wave state). This multi-band s±-wave state is a very unique gap state per se and displays numerous unexpected novel SC properties, such as a strong reduction of the coherence peak, non-trivial impurity effects, nodal-gap-like nuclear magnetic resonance signals, various Volovik effects in the specific heat (SH) and thermal conductivity, and anomalous scaling behaviors with a SH jumpmore » and condensation energy versus Tc, etc. In particular, many of these non-trivial SC properties can easily be mistaken as evidence for a nodal-gap state such as a d-wave gap. In this review, we provide detailed explanations of the theoretical principles for the various non-trivial SC properties of the s±-wave pairing state, and then critically compare the theoretical predictions with experiments on FeSCs. This will provide a pedagogical overview of to what extent we can coherently understand the wide range of different experiments on FeSCs within the s±-wave gap model.« less

Shear-wave reflection imaging using a MEMS-based 3C landstreamer and a vertical impact source - an esker study in SW Finland

NASA Astrophysics Data System (ADS)

Brodic, Bojan; Malehmir, Alireza; Maries, Georgiana; Ahokangas, Elina; Mäkinen, Joni; Pasanen, Antti

2017-04-01

Higher resolution of S-wave seismic data compared to the P-wave ones are attractive for the researches working with the seismic methods. This is particularly true for near-surface applications due to significantly lower shear-wave velocities of unconsolidated sediments. Shear-wave imaging, however, poses certain restrictions on both source and receiver selections and also processing strategies. With three component (3C) seismic receivers becoming more affordable and used, shear-wave imaging from vertical sources is attracting more attention for near-surface applications. Theoretically, a vertical impact source will always excite both P- and S-waves although the excited S-waves are radially polarized (SV). There is an exchange of seismic energy between the vertical and radial component of the seismic wavefield. Additionally, it is theoretically accepted that there is no energy conversion or exchange from vertical into the transverse (or SH) component of the seismic wavefield, and the SH-waves can only be generated using SH sources. With the objectives of imaging esker structure (glacial sediments), water table and depth to bedrock, we conducted a seismic survey in Virttaankangas, in southwestern Finland. A bobcat-mounted vertical drop hammer (500 kg) was used as the seismic source. To obtain better source coupling, a 75×75×1.5 cm steel plate was mounted at the bottom of the hammer casing and all the hits made on this plate after placing it firmly on the ground at every shot point. For the data recording, we used a state-of-the-art comprising of 100 units, 240 m-long, 3C MEMS (micro electro-mechanical system) based seismic landstreamer developed at Uppsala University. Although the focus of the study was on the vertical component data, careful inspection of the transverse (SH) component of the raw data revealed clear shear wave reflections (normal moveout velocities ranging from 280-350 m/s at 50 m depth) on several shot gathers. This indicated potential for their analysis, hence shear-wave reflection imaging was carried out. Results show an excellent correspondence between the drilled depth to bedrock and the one independently obtained using P-wave first arrivals traveltime tomography with a reflection imaged on the stacked section of the SH component data. Aside from this reflection that follows the undulating bedrock topography, additional reflections are also observed on the stacked section that might be related to the sedimentary structures at the site. The section shows much finer resolution compared to the P-wave stacked section processed independently and reported earlier this year. This study illustrates the importance of 3C data recording and shows the potential of the landstreamer in imaging shallow subsurface using both P- and SH-waves generated from a vertical impact source. Whether the strong SH-wave energy observed is generated immediately at the source-ground contact, possible sliding of the base plate on which the impacts were made, an effect of near-surface heterogeneities or other factors remains to be carefully investigated. Acknowledgments: A contribution from Trust 2.2 project (http://trust-geoinfra.se) sponsored by Formas, BeFo, SBUF, SGU, Skanska, Tyréns, FQM, and NGI. We thank Turku Water Company, GTK and University of Turku, Department of Geography and Geology for supporting the data acquisition.

Quantitative evaluation of thickness reduction in corroded steel plates using surface SH waves

NASA Astrophysics Data System (ADS)

Suzuki, Keigo; Ha, Nguyen Phuong; Otobe, Yuichi; Tamura, Hiroshi; Sasaki, Eiichi

2018-04-01

This study evaluates the effect of reduction in plate thickness for a steel plate existing in concrete on guided ultrasonic SH (g-SH) waves. It has been found that the time of flight (TOF) increases if the plate thickness is reduced. The parameter investigated in this study is a delay time obtained from a TOF comparison between a healthy and a damaged plate. The wave propagation is simulated by dynamic Finite Element Analysis (FEA). The resulting data are then used to propose a theoretical equation for predicting TOF. The prediction of delay time obtained from the proposed equation is found to be in general agreement, with an error of 10% (or less), when compared with the experiment results, if the thickness reduction is over 3.65mm.

Climate Prediction Center - Stratosphere: Stratosphere-Troposphere

Science.gov Websites

Wave 2 Wave 3 - NH EQ SH NH EQ SH NH EQ SH NH EQ SH NH SH NH SH NH SH NH SH Annual N E S N E S N E S N E S N S N S N S N S JFM N E S N E S N E S N E S N S N S N S N S AMJ N E S N E S N E S N E S N S N S N S N S JAS N E S N E S N E S N E S N S N S N S N S OND N E S N E S N E S N E S N S N S N S N S Past

A pitfall in shallow shear-wave refraction surveying

USGS Publications Warehouse

Xia, J.; Miller, R.D.; Park, C.B.; Wightman, E.; Nigbor, R.

2002-01-01

The shallow shear-wave refraction method works successfully in an area with a series of horizontal layers. However, complex near-surface geology may not fit into the assumption of a series of horizontal layers. That a plane SH-wave undergoes wave-type conversion along an interface in an area of nonhorizontal layers is theoretically inevitable. One real example shows that the shallow shear-wave refraction method provides velocities of a converted wave rather than an SH- wave. Moreover, it is impossible to identify the converted wave by refraction data itself. As most geophysical engineering firms have limited resources, an additional P-wave refraction survey is necessary to verify if velocities calculated from a shear-wave refraction survey are velocities of converted waves. The alternative at this time may be the surface wave method, which can provide reliable S-wave velocities, even in an area of velocity inversion (a higher velocity layer underlain by a lower velocity layer). ?? 2002 Elsevier Science B.V. All rights reserved.

Horizontal shear wave scattering from a nonwelded interface observed by magnetic resonance elastography

NASA Astrophysics Data System (ADS)

Papazoglou, S.; Hamhaber, U.; Braun, J.; Sack, I.

2007-02-01

A method based on magnetic resonance elastography is presented that allows measuring the weldedness of interfaces between soft tissue layers. The technique exploits the dependence of shear wave scattering at elastic interfaces on the frequency of vibration. Experiments were performed on gel phantoms including differently welded interfaces. Plane wave excitation parallel to the planar interface with corresponding motion sensitization enabled the observation of only shear-horizontal (SH) wave scattering. Spatio-temporal filtering was applied to calculate scattering coefficients from the amplitudes of the incident, transmitted and reflected SH-waves in the vicinity of the interface. The results illustrate that acoustic wave scattering in soft tissues is largely dependent on the connectivity of interfaces, which is potentially interesting for imaging tissue mechanics in medicine and biology.

AVO analysis of BSR to assess free gas within fine-grained sediments in the Shenhu area, South China Sea

NASA Astrophysics Data System (ADS)

Qian, Jin; Wang, Xiu-Juan; Wu, Shi-Guo; Wang, Zhen-zhen; Yang, Sheng-Xiong

2014-06-01

Gas hydrates have been identified from two-dimensional (2D) seismic data and logging data above bottom simulating reflector (BSR) during China's first gas hydrate drilling expedition in 2007. The multichannel reflection seismic data were processed to be preserved amplitudes for quantitatively analyzing amplitude variation with offset (AVO) at BSRs. Low P-wave velocity anomaly below BSR, coinciding with high amplitude reflections in 2D seismic data, indicates the presence of free gas. The absolute values of reflection coefficient versus incidence angles for BSR range from 0 to 0.12 at different CMPs near Site SH2. According to logging data and gas hydrate saturations estimated from resistivity of Site SH2, P-wave velocities calculated from effective media theory (EMT) fit the measured sonic velocities well and we choose EMT to calculate elastic velocities for AVO. The rock-physics modeling and AVO analysis were combined to quantitatively assess free gas saturations and distribution by the reflection coefficients variation of the BSRs in Shenhu area, South China Sea. AVO estimation indicates that free gas saturations immediately beneath BSRs may be about 0.2 % (uniform distribution) and up to about 10 % (patchy distribution) at Site SH2.

Self-demodulation effect on subharmonic response of ultrasound contrast agent

NASA Astrophysics Data System (ADS)

Daeichin, V.; Faez, T.; Needles, A.; Renaud, G.; Bosch, J. G.; van der Steen, A. F. W.; de Jong, N.

2012-03-01

In this work the use of the self-demodulation (S-D) signal as a mean of microbubble excitation at the subharmonic (SH) frequency to enhance the SH emission of ultrasound contrast agent (UCA) is studied. SH emission from the UCA is of interest since it is produced only by the UCA and is free of the artifacts produced in harmonic imaging modes. The S-D wave is a low-frequency signal produced by nonlinear propagation of an ultrasound wave in the medium. Single element transducer experiments and numerical simulations were conducted at 10 MHz to study the effect of the S-D signal on the SH response of the UCA by modifying the envelope of the excitation bursts. For 6 and 20 transmitted cycles, the SH response is increased up to 25 dB and 22 dB because of the S-D stimulation for a burst with a rectangular envelope compared with a Gaussian envelope burst. Such optimized excitations were used in an array-based micro-ultrasound system (Vevo 2100, VisualSonics Inc., Toronto, ON, Canada) at 18 MHz for in vitro validation of SH imaging. This study suggests that a suitable design of the envelope of the transmit excitation to generate a S-D signal at the SH frequency can enhance the SH emission of UCA and real-time SH imaging is feasible with shorter transmit burst (6- cycle) and low acoustic pressure (~150 KPa) at high frequencies (>15 MHz).

Parameter extraction of coupling-of-modes equations including coupling between two surface acoustic waves on SiO2/Cu/LiNbO3 structures

NASA Astrophysics Data System (ADS)

Huang, Yulin; Bao, Jingfu; Li, Xinyi; Zhang, Benfeng; Omori, Tatsuya; Hashimoto, Ken-ya

2018-07-01

This paper describes extraction of parameters of an extended coupling-of-modes (COM) model including coupling between Rayleigh and shear-horizontal (SH) surface acoustic waves (SAW) on the SiO2-overlay/Cu-grating/LiNbO3-substrate structure. First, dispersion characteristics of two SAWs are calculated by the finite element method (FEM), and are fitted with those given by the extended COM. Then variation of COM parameters is expressed in polynomials in terms of the SiO2 and Cu thicknesses and the rotation angle Θ of LiNbO3. Then it is shown how the optimal Θ giving the SH SAW suppression changes with the thicknesses. The result agrees well with that obtained directly by FEM. It is also shown the optimal Θ changes abruptly at certain Cu thickness, and is due to decoupling between two SAW modes.

Electrophysiological Rotor Ablation in In-Silico Modeling of Atrial Fibrillation: Comparisons with Dominant Frequency, Shannon Entropy, and Phase Singularity.

PubMed

Hwang, Minki; Song, Jun-Seop; Lee, Young-Seon; Li, Changyong; Shim, Eun Bo; Pak, Hui-Nam

2016-01-01

Although rotors have been considered among the drivers of atrial fibrillation (AF), the rotor definition is inconsistent. We evaluated the nature of rotors in 2D and 3D in- silico models of persistent AF (PeAF) by analyzing phase singularity (PS), dominant frequency (DF), Shannon entropy (ShEn), and complex fractionated atrial electrogram cycle length (CFAE-CL) and their ablation. Mother rotor was spatiotemporally defined as stationary reentries with a meandering tip remaining within half the wavelength and lasting longer than 5 s. We generated 2D- and 3D-maps of the PS, DF, ShEn, and CFAE-CL during AF. The spatial correlations and ablation outcomes targeting each parameter were analyzed. 1. In the 2D PeAF model, we observed a mother rotor that matched relatively well with DF (>9 Hz, 71.0%, p<0.001), ShEn (upper 2.5%, 33.2%, p<0.001), and CFAE-CL (lower 2.5%, 23.7%, p<0.001). 2. The 3D-PeAF model also showed mother rotors that had spatial correlations with DF (>5.5 Hz, 39.7%, p<0.001), ShEn (upper 8.5%, 15.1%, p <0.001), and CFAE (lower 8.5%, 8.0%, p = 0.002). 3. In both the 2D and 3D models, virtual ablation targeting the upper 5% of the DF terminated AF within 20 s, but not the ablations based on long-lasting PS, high ShEn area, or lower CFAE-CL area. Mother rotors were observed in both 2D and 3D human AF models. Rotor locations were well represented by DF, and their virtual ablation altered wave dynamics and terminated AF.

Electrophysiological Rotor Ablation in In-Silico Modeling of Atrial Fibrillation: Comparisons with Dominant Frequency, Shannon Entropy, and Phase Singularity

PubMed Central

Hwang, Minki; Song, Jun-Seop; Lee, Young-Seon; Li, Changyong; Shim, Eun Bo; Pak, Hui-Nam

2016-01-01

Background Although rotors have been considered among the drivers of atrial fibrillation (AF), the rotor definition is inconsistent. We evaluated the nature of rotors in 2D and 3D in- silico models of persistent AF (PeAF) by analyzing phase singularity (PS), dominant frequency (DF), Shannon entropy (ShEn), and complex fractionated atrial electrogram cycle length (CFAE-CL) and their ablation. Methods Mother rotor was spatiotemporally defined as stationary reentries with a meandering tip remaining within half the wavelength and lasting longer than 5 s. We generated 2D- and 3D-maps of the PS, DF, ShEn, and CFAE-CL during AF. The spatial correlations and ablation outcomes targeting each parameter were analyzed. Results 1. In the 2D PeAF model, we observed a mother rotor that matched relatively well with DF (>9 Hz, 71.0%, p<0.001), ShEn (upper 2.5%, 33.2%, p<0.001), and CFAE-CL (lower 2.5%, 23.7%, p<0.001). 2. The 3D-PeAF model also showed mother rotors that had spatial correlations with DF (>5.5 Hz, 39.7%, p<0.001), ShEn (upper 8.5%, 15.1%, p <0.001), and CFAE (lower 8.5%, 8.0%, p = 0.002). 3. In both the 2D and 3D models, virtual ablation targeting the upper 5% of the DF terminated AF within 20 s, but not the ablations based on long-lasting PS, high ShEn area, or lower CFAE-CL area. Conclusion Mother rotors were observed in both 2D and 3D human AF models. Rotor locations were well represented by DF, and their virtual ablation altered wave dynamics and terminated AF. PMID:26909492

Scattering of S waves diffracted at the core-mantle boundary: forward modelling

NASA Astrophysics Data System (ADS)

Emery, Valérie; Maupin, Valérie; Nataf, Henri-Claude

1999-11-01

The lowermost 200-300 km of the Earth's mantle, known as the D'' layer, is an extremely complex and heterogeneous region where transfer processes between the core and the mantle take place. Diffracted S waves propagate over large distances and are very sensitive to the velocity structure of this region. Strong variations of ampli-tudes and waveforms are observed on recordings from networks of broad-band seismic stations. We perform forward modelling of diffracted S waves in laterally heterogeneous structures in order to analyse whether or not these observations can be related to lateral inhomogeneities in D''. We combine the diffraction due to the core and the scattering due to small-scale volumetric heterogeneities (10-100 km) by coupling single scattering (Born approximation) with the Langer approximation, which describes Sdiff wave propagation. The influence on the direct as well as on the scattered wavefields of the CMB as well as of possible tunnelling in the core or in D'' is fully accounted for. The SH and the SV components of the diffracted waves are analysed, as well as their coupling. The modelling is applied in heterogeneous models with different geometries: isolated heterogeneities, vertical cylinders, horizontal inhomogeneities and random media. Amplitudes of scattered waves are weak and only velocity perturbations of the order of 10 per cent over a volume of 240 x 240 x 300 km3 produce visible effects on seismograms. The two polarizations of Sdiff have different radial sensitivities, the SH components being more sensitive to heterogeneities closer to the CMB. However, we do not observe significant time-shifts between the two components similar to those produced by anisotropy. The long-period Sdiff have a poor lateral resolution and average the velocity perturbations in their Fresnel zone. Random small-scale heterogeneities with +/- 10 per cent velocity contrast in the layer therefore have little effect on Sdiff, in contrast to their effect on PKIKP.

Supersonic Love waves in strong piezoelectrics of symmetry mm2

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

Darinskii, A. N.; Weihnacht, M.

A study has been made of the Love wave propagation on piezoelectric substrates of symmetry mm2. It has been shown that under certain conditions the velocity of the Love wave exceeds that of shear horizontal (SH) bulk waves in the substrate. This occurs when the slowness curve of SH bulk waves in the substrate either has a concavity or is convex with nearly zero curvature. For such {open_quotes}supersonic{close_quotes} Love waves to appear, it is also required that the substrate as well as the layer be specially oriented and that their material constants fulfill a number of inequalities. Numerical computations havemore » been carried out for a number of structures. The results of numerical computations have been compared with approximate analytical estimations. {copyright} 2001 American Institute of Physics.« less

Time-domain full-waveform inversion of Rayleigh and Love waves in presence of free-surface topography

NASA Astrophysics Data System (ADS)

Pan, Yudi; Gao, Lingli; Bohlen, Thomas

2018-05-01

Correct estimation of near-surface seismic-wave velocity when encountering lateral heterogeneity and free surface topography is one of the challenges to current shallow seismic. We propose to use time-domain full-waveform inversion (FWI) of surface waves, including both Rayleigh and Love waves, to solve this problem. We adopt a 2D time-domain finite-difference method with an improved vacuum formulation (IVF) to simulate shallow-seismic Rayleigh wave in presence of free-surface topography. We modify the IVF for SH-wave equation for the simulation of Love wave in presence of topographic free surface and prove its accuracy by benchmark tests. Checkboard model tests are performed in both cases when free-surface topography is included or neglected in FWI. Synthetic model containing a dipping planar free surface and lateral heterogeneity was then tested, in both cases of considering and neglecting free-surface topography. Both checkerboard and synthetic models show that Rayleigh- and Love-wave FWI have similar ability of reconstructing near-surface structures when free-surface topography is considered, while Love-wave FWI could reconstruct near-surface structures better than Rayleigh-wave when free-surface topography is neglected.

Surface Acoustic Waves (SAW)-Based Biosensing for Quantification of Cell Growth in 2D and 3D Cultures.

PubMed

Wang, Tao; Green, Ryan; Nair, Rajesh Ramakrishnan; Howell, Mark; Mohapatra, Subhra; Guldiken, Rasim; Mohapatra, Shyam Sundar

2015-12-19

Detection and quantification of cell viability and growth in two-dimensional (2D) and three-dimensional (3D) cell cultures commonly involve harvesting of cells and therefore requires a parallel set-up of several replicates for time-lapse or dose-response studies. Thus, developing a non-invasive and touch-free detection of cell growth in longitudinal studies of 3D tumor spheroid cultures or of stem cell regeneration remains a major unmet need. Since surface acoustic waves (SAWs) permit mass loading-based biosensing and have been touted due to their many advantages including low cost, small size and ease of assembly, we examined the potential of SAW-biosensing to detect and quantify cell growth. Herein, we demonstrate that a shear horizontal-surface acoustic waves (SH-SAW) device comprising two pairs of resonators consisting of interdigital transducers and reflecting fingers can be used to quantify mass loading by the cells in suspension as well as within a 3D cell culture platform. A 3D COMSOL model was built to simulate the mass loading response of increasing concentrations of cells in suspension in the polydimethylsiloxane (PDMS) well in order to predict the characteristics and optimize the design of the SH-SAW biosensor. The simulated relative frequency shift from the two oscillatory circuit systems (one of which functions as control) were found to be concordant to experimental data generated with RAW264.7 macrophage and A549 cancer cells. In addition, results showed that SAW measurements per se did not affect viability of cells. Further, SH-SAW biosensing was applied to A549 cells cultured on a 3D electrospun nanofiber scaffold that generate tumor spheroids (tumoroids) and the results showed the device's ability to detect changes in tumor spheroid growth over the course of eight days. Taken together, these results demonstrate the use of SH-SAW device for detection and quantification of cell growth changes over time in 2D suspension cultures and in 3D cell culture models, which may have potential applications in both longitudinal 3D cell cultures in cancer biology and in regenerative medicine.

Directional nonlinear guided wave mixing: Case study of counter-propagating shear horizontal waves

NASA Astrophysics Data System (ADS)

Hasanian, Mostafa; Lissenden, Cliff J.

2018-04-01

While much nonlinear ultrasonics research has been conducted on higher harmonic generation, wave mixing provides the potential for sensitive measurements of incipient damage unencumbered by instrumentation nonlinearity. Studies of nonlinear ultrasonic wave mixing, both collinear and noncollinear, for bulk waves have shown the robust capability of wave mixing for early damage detection. One merit of bulk wave mixing lies in their non-dispersive nature, but guided waves enable inspection of otherwise inaccessible material and a variety of mixing options. Co-directional guided wave mixing was studied previously, but arbitrary direction guided wave mixing has not been addressed until recently. Wave vector analysis is applied to study variable mixing angles to find wave mode triplets (two primary waves and a secondary wave) resulting in the phase matching condition. As a case study, counter-propagating Shear Horizontal (SH) guided wave mixing is analyzed. SH wave interactions generate a secondary Lamb wave mode that is readily receivable. Reception of the secondary Lamb wave mode is compared for an angle beam transducer, an air coupled transducer, and a laser Doppler vibrometer (LDV). Results from the angle beam and air coupled transducers are quite consistent, while the LDV measurement is plagued by variability issues.

Seismic velocities to characterize the soil-aquifer continuum on the Orgeval experimental basin (France)

NASA Astrophysics Data System (ADS)

Pasquet, S.; Ludovic, B.; Dhemaied, A.; Flipo, N.; Guérin, R.; Mouhri, A.; Faycal, R.; Vitale, Q.

2013-12-01

Among geophysical methods applied to hydrogeology, seismic prospecting is frequently confined to the characterization of aquifers geometry. The combined study of pressure- (P) and shear- (SH) wave velocities (respectively Vp and Vs) can however provide information about the aquifer parameters, as it is commonly done for most fluids in hydrocarbon exploration. This approach has recently been proposed in sandy aquifers with the estimation of Vp/Vs ratio. In order to address such issues in more complex aquifer systems (e.g. unconsolidated, heterogeneous or low-permeability media) we carried out P- and SH-wave seismic surveys on the Orgeval experimental basin (70 km east from Paris, France). This basin drains a multi-layer aquifer system monitored by a network of piezometers. The upper part of the aquifer system is characterized by tabular layers well delineated all over the basin thanks to Electrical Resistivity Tomography (ERT), Time Domain ElectroMagnetic (TDEM) soundings and wells. But the lateral variability of the intrinsic properties in each layer raises questions regarding the hydrodynamics of the upper aquifer and the validity of interpolations between piezometers. A simple interpretation of P- and SH-wave first arrivals for tabular models provides 1D velocity structures in very good agreement with the stratification anticipated from ERT and nearby geological logs. Vp/Vs ratios show a strong contrast at a depth consistent with the observed water table level, reinforcing the assumption of a free upper aquifer in the area. Similar experiments have to be conducted under different hydrological conditions to validate these observations. Anticipating the need to propose lateral applications of the method, we additionally performed tomographic inversions of the recorded data to retrieve 2D Vp and Vs models. If interpreted independently, both models fail to depict the stratification of the medium and the water table level cannot be straightforwardly identified. However, the computation of Vp/Vs ratios and derived parameters helps enhancing lithological contrasts.

The effective propagation constants of SH wave in composites reinforced by dispersive parallel nanofibers

NASA Astrophysics Data System (ADS)

Qiang, FangWei; Wei, PeiJun; Li, Li

2012-07-01

In the present paper, the effective propagation constants of elastic SH waves in composites with randomly distributed parallel cylindrical nanofibers are studied. The surface stress effects are considered based on the surface elasticity theory and non-classical interfacial conditions between the nanofiber and the host are derived. The scattering waves from individual nanofibers embedded in an infinite elastic host are obtained by the plane wave expansion method. The scattering waves from all fibers are summed up to obtain the multiple scattering waves. The interactions among random dispersive nanofibers are taken into account by the effective field approximation. The effective propagation constants are obtained by the configurational average of the multiple scattering waves. The effective speed and attenuation of the averaged wave and the associated dynamical effective shear modulus of composites are numerically calculated. Based on the numerical results, the size effects of the nanofibers on the effective propagation constants and the effective modulus are discussed.

Acoustic Velocity Log Numerical Simulation and Saturation Estimation of Gas Hydrate Reservoir in Shenhu Area, South China Sea

PubMed Central

Xiao, Kun; Zou, Changchun; Xiang, Biao; Liu, Jieqiong

2013-01-01

Gas hydrate model and free gas model are established, and two-phase theory (TPT) for numerical simulation of elastic wave velocity is adopted to investigate the unconsolidated deep-water sedimentary strata in Shenhu area, South China Sea. The relationships between compression wave (P wave) velocity and gas hydrate saturation, free gas saturation, and sediment porosity at site SH2 are studied, respectively, and gas hydrate saturation of research area is estimated by gas hydrate model. In depth of 50 to 245 m below seafloor (mbsf), as sediment porosity decreases, P wave velocity increases gradually; as gas hydrate saturation increases, P wave velocity increases gradually; as free gas saturation increases, P wave velocity decreases. This rule is almost consistent with the previous research result. In depth of 195 to 220 mbsf, the actual measurement of P wave velocity increases significantly relative to the P wave velocity of saturated water modeling, and this layer is determined to be rich in gas hydrate. The average value of gas hydrate saturation estimated from the TPT model is 23.2%, and the maximum saturation is 31.5%, which is basically in accordance with simplified three-phase equation (STPE), effective medium theory (EMT), resistivity log (Rt), and chloride anomaly method. PMID:23935407

Interannual Variability and Trends of Extratropical Ozone, Part II: Southern Hemisphere. Part 2; Southern Hemisphere

NASA Technical Reports Server (NTRS)

Yung, Y. L.

2008-01-01

A principal component analysis (PCA) is applied to the Southern Hemisphere (SH) total column ozone following the method established for analyzing the data in the Northern Hemisphere (NH) in a companion paper. The interannual variability (IAV) of extratropical O-3 in the SH is characterized by four main modes, which account for 75% of the total variance. The first two leading modes are approximately zonally symmetric and relate to the Southern Hemisphere annular mode and the quasi-biennial oscillation. The third and fourth modes exhibit wavenumber-1 structures. Contrary to the Northern Hemisphere, the third and fourth are nor related to stationary waves. Similar results obtained for the 30 100-hPa geopotential thickness.The decreasing O3 trend in the SH is captured in the first mode. The largest trend is at the South Pole, with value similar to-2 Dobson Units (DU)/yr. Both the spatial pattern and trends in the column ozone are captured by the Goddard Earth Observation System chemistry-climate model (GEOS-CCM) in the SH.

Excitation of secondary Love and Rayleigh waves in athree-dimensional sedimentary basin evaluated by the direct boundary element method with normal modes

NASA Astrophysics Data System (ADS)

Hatayama, Ken; Fujiwara, Hiroyuki

1998-05-01

This paper aims to present a new method to calculate surface waves in 3-D sedimentary basin models, based on the direct boundary element method (BEM) with vertical boundaries and normal modes, and to evaluate the excitation of secondary surface waves observed remarkably in basins. Many authors have so far developed numerical techniques to calculate the total 3-D wavefield. However, the calculation of the total wavefield does not match our purpose, because the secondary surface waves excited on the basin boundaries will be contaminated by other undesirable waves. In this paper, we prove that, in principle, it is possible to extract surface waves excited on part of the basin boundaries from the total 3-D wavefield with a formulation that uses the reflection and transmission operators defined in the space domain. In realizing this extraction in the BEM algorithm, we encounter the problem arising from the lateral and vertical truncations of boundary surfaces extending infinitely in the half-space. To compensate the truncations, we first introduce an approximate algorithm using 2.5-D and 1-D wavefields for reference media, where a 2.5-D wavefield means a 3-D wavefield with a 2-D subsurface structure, and we then demonstrate the extraction. Finally, we calculate the secondary surface waves excited on the arc shape (horizontal section) of a vertical basin boundary subject to incident SH and SV plane waves propagating perpendicularly to the chord of the arc. As a result, we find that in the SH-incident case the Love waves are predominantly excited, rather than the Rayleigh waves and that in the SV-wave incident case the Love waves as well as the Rayleigh waves are excited. This suggests that the Love waves are more detectable than the Rayleigh waves in the horizontal components of observed recordings.

Measurement of tidal and residual currents in the Strait of Hormuz

NASA Astrophysics Data System (ADS)

Azizpour, Jafar; Siadatmousavi, Seyed Mostafa; Chegini, Vahid

2016-09-01

Quantifying the current in the Strait of Hormuz (SH) is vital for understanding the circulation in the Persian Gulf. To measure the current in the strait, four subsurface moorings were deployed at four different stations close to SH from early November 2012 to the end of January 2013. Tidal current were dominant in the SH. The tides in the SH were complex partially standing waves and the dominant pattern varied from being primarily semi-diurnal to diurnal. The phase difference between tidal constituents of current and sea level elevation time series was used as an index to show the partially progressive wave pattern inside the study area. At mooring positions 3 and 4, located to the left of SH, the phase differences were close to 160° and 100°, respectively. It indicates partially progressive waves in opposite direction at these stations. K1 and M2 were the two main constituents at all stations inside the study area. At surface, the magnitude of semi-major axis of ellipses for M2 constituent was larger than corresponding value for K1 whereas at the bottom layer, the opposite pattern was observed. The M2 rotary coefficients at mooring 1 illustrated that current vector at the bottom layer rotated in opposite direction compared to current vectors at the middle and surface layers. The rotation was counterclockwise in the bottom layer, while it was clockwise in the surface and middle layers.

Effects of induced stress on seismic forward modelling and inversion

NASA Astrophysics Data System (ADS)

Tromp, Jeroen; Trampert, Jeannot

2018-05-01

We demonstrate how effects of induced stress may be incorporated in seismic modelling and inversion. Our approach is motivated by the accommodation of pre-stress in global seismology. Induced stress modifies both the equation of motion and the constitutive relationship. The theory predicts that induced pressure linearly affects the unstressed isotropic moduli with a slope determined by their adiabatic pressure derivatives. The induced deviatoric stress produces anisotropic compressional and shear wave speeds; the latter result in shear wave splitting. For forward modelling purposes, we determine the weak form of the equation of motion under induced stress. In the context of the inverse problem, we determine induced stress sensitivity kernels, which may be used for adjoint tomography. The theory is illustrated by considering 2-D propagation of SH waves and related Fréchet derivatives based on a spectral-element method.

Application of SH surface acoustic waves for measuring the viscosity of liquids in function of pressure and temperature.

PubMed

Kiełczyński, P; Szalewski, M; Balcerzak, A; Rostocki, A J; Tefelski, D B

2011-12-01

Viscosity measurements were carried out on triolein at pressures from atmospheric up to 650 MPa and in the temperature range from 10°C to 40°C using ultrasonic measuring setup. Bleustein-Gulyaev SH surface acoustic waves waveguides were used as viscosity sensors. Additionally, pressure changes occurring during phase transition have been measured over the same temperature range. Application of ultrasonic SH surface acoustic waves in the liquid viscosity measurements at high pressure has many advantages. It enables viscosity measurement during phase transitions and in the high-pressure range where the classical viscosity measurement methods cannot operate. Measurements of phase transition kinetics and viscosity of liquids at high pressures and various temperatures (isotherms) is a novelty. The knowledge of changes in viscosity in function of pressure and temperature can help to obtain a deeper insight into thermodynamic properties of liquids. Copyright © 2011 Elsevier B.V. All rights reserved.

Chronicity of sexual harassment and generalized work-place abuse: effects on drinking outcomes.

PubMed

Rospenda, K M; Richman, J A; Wislar, J S; Flaherty, J A

2000-12-01

This study examined the impact of two forms of interpersonal conflict in the work-place, sexual harassment (SH) and generalized work-place abuse (GWA), on drinking outcomes. We hypothesized that SH and GWA would be associated more strongly with negative outcomes than task-related work stressors, especially when SH and GWA were chronic problems. This was a two-wave panel study. The study was conducted at an urban university in the United States. Participants were 2038 university employees in four occupational groups (faculty, student, clerical and service workers) who responded to both waves of the survey. Data on SH, GWA, task-related stressors and drinking outcomes were gathered from self-report mail questionnaires. Data from 1880 non-abstaining respondents were included in the analyses. SH and GWA experiences were widespread, typically chronic, and tended to co-occur. In regression analyses controlling for demographics, occupational group, prior drinking and task-related stress, GWA chronicity was linked to increased odds of reporting one or more indicators of problem drinking at time 2, in contrast to onset and remission. SH chronicity coupled with no GWA experiences was also significantly related to increased drinking variability. Task-related stressors generally did not explain significant variance in drinking outcomes. SH and GWA may be better predictors of drinking behavior compared to task-related stressors, particularly when harassment is chronic. Increased attention to conflictual relationships in the work-place, the relationship between SH and GWA and the dynamic nature of stressors in general is necessary in future research on drinking behavior.

Magnetization-induced second- and third-harmonic generation in transparent magnetic films

NASA Astrophysics Data System (ADS)

Ohkoshi, Shin-Ichi; Shimura, Jusuke; Ikeda, Katsuyoshi; Hashimoto, Kazuhito

2005-01-01

We describe the magnetization-induced second-harmonic (SH) generation in (FeIIxCrII1-x)1.5[CrIII(CN)6]. 7.5H2O and the magnetization-induced third-harmonic (TH) generation in Y1.5Bi1.5Fe3.8Al1.2O12 (Bi, Al:YIG). The polarization plane of a SH wave from a (FeIIxCrII1-x)1.5[CrIII(CN)6].7.5H2O film was rotated by an applied external magnetic field. This SH rotation is ascribed to the interaction between the electric polarization along the out-of-plane and spontaneous magnetizations. In particular, the magnetic linear term χijkLmagn(1) contributed to the SH rotation. Applying a longitudinal external magnetic field to a Bi,Al:YIG magnetic film rotated the polarization plane of the TH wave. This TH rotation is understood by the contribution of the magnetic term of χyxxxZmagn(1) in a third-order nonlinear optical susceptibility.

Measuring seeing with a Shack-Hartmann wave-front sensor during an active-optics experiment.

PubMed

Zhang, Yong; Yang, Dehua; Cui, Xiangqun

2004-02-01

We describe the measurement of atmospheric enclosure seeing along a 120-m light path by use of a Shack-Hartmann wave-front sensor (S-H WFS) for the first time to our knowledge in the Large Sky Area Multi-Object Fiber Spectroscopic Telescope (LAMOST) outdoor active-optics experiment system, based on the differential image motion method and a S-H WFS. Seeing estimates that were gained with the S-H WFS were analyzed and found to be in close agreement with the actual seeing conditions, the estimates of refractive-index structure constant, and the thin-mirror active optics results, which usually include the shape sensing precision and the active correction precision of the experimental system. Finally, some countermeasures against poor seeing conditions were considered and adopted.

The Exponent of High-frequency Source Spectral Falloff and Contribution to Source Parameter Estimates

NASA Astrophysics Data System (ADS)

Kiuchi, R.; Mori, J. J.

2015-12-01

As a way to understand the characteristics of the earthquake source, studies of source parameters (such as radiated energy and stress drop) and their scaling are important. In order to estimate source parameters reliably, often we must use appropriate source spectrum models and the omega-square model is most frequently used. In this model, the spectrum is flat in lower frequencies and the falloff is proportional to the angular frequency squared. However, Some studies (e.g. Allmann and Shearer, 2009; Yagi et al., 2012) reported that the exponent of the high frequency falloff is other than -2. Therefore, in this study we estimate the source parameters using a spectral model for which the falloff exponent is not fixed. We analyze the mainshock and larger aftershocks of the 2008 Iwate-Miyagi Nairiku earthquake. Firstly, we calculate the P wave and SH wave spectra using empirical Green functions (EGF) to remove the path effect (such as attenuation) and site effect. For the EGF event, we select a smaller earthquake that is highly-correlated with the target event. In order to obtain the stable results, we calculate the spectral ratios using a multitaper spectrum analysis (Prieto et al., 2009). Then we take a geometric mean from multiple stations. Finally, using the obtained spectra ratios, we perform a grid search to determine the high frequency falloffs, as well as corner frequency of both of events. Our results indicate the high frequency falloff exponent is often less than 2.0. We do not observe any regional, focal mechanism, or depth dependencies for the falloff exponent. In addition, our estimated corner frequencies and falloff exponents are consistent between the P wave and SH wave analysis. In our presentation, we show differences in estimated source parameters using a fixed omega-square model and a model allowing variable high-frequency falloff.

Teleconnections between Low and High-Latitude MLT regions during the Southern Hemisphere (SH) Sudden Stratospheric Warmings (SSWs)

NASA Astrophysics Data System (ADS)

Kim, Y.; Lee, J.; Eswaraiah, S.; Ratnam, M. V.

2017-12-01

In the present study, we study the teleconnections between the tropical and polar region during the Southern Hemisphere (SH) Sudden Stratospheric Warmings (SSWs) as well as the effect of SH SSWs on the modification of global mean atmospheric circulation. By analyzing the European Center for Medium-range Weather Forecasts (ECMWF) data and Earth Observing System (EOS) Microwave Limb Sounder (MLS) measurements both at the equatorial and polar region during the SH SSW events of 2002 and 2010, we find that; (i) the zero-wind line in the stratosphere appeared over the tropics ˜90 days prior to the 2002 SSW and progressed toward the south pole, thus satisfying the preconditioning for planetary wave (PW) propagation as suggested in the model study; (ii) an enhanced 16-day PW activity, along with the zero-wind line, is noted from the equator to the south pole, and (iii) during the 2010 SSW strong anti-correlation between the polar and equatorial temperatures occurred both in the stratosphere and the mesosphere. We interpret these characteristics as a possible teleconnection between the two regions through the intensification of 16-day PW. This is the first observational study over SH that reveals some novel features of the SSW and its connection to the equatorial region.

Characteristics of fundamental acoustic wave modes in thin piezoelectric plates.

PubMed

Joshi, S G; Zaitsev, B D; Kuznetsova, I E; Teplykh, A A; Pasachhe, A

2006-12-22

The characteristics of the three lowest order plate waves (A(0), S(0), and SH(0)) propagating in piezoelectric plates whose thickness h is much less than the acoustic wavelength lambda are theoretically analyzed. It is found that these waves can provide much higher values of electromechanical coupling coefficient K(2) and lower values of temperature coefficient of delay (TCD) than is possible with surface acoustic waves (SAWs). For example, in 30Y-X lithium niobate, the SH(0) mode has K(2)=0.46 and TCD=55 ppm/degrees C. The corresponding values for SAW in the widely used, strong coupling material of 128Y-X lithium niobate are K(2)=0.053 and TCD=75 ppm/degrees C. Another important advantage of plate waves is that, unlike the case of SAWs, they can operate satisfactorily in contact with a liquid medium, thus making possible their use in liquid phase sensors.

Gas hydrate distribution identified from wireline logging data and seismic data in the Pearl River Mouth Basin,northern slope of South China Sea

NASA Astrophysics Data System (ADS)

Wang, X.; Wu, S.; Yang, S.

2012-12-01

Wireline logging data acquired during China's first gas hydrate drilling expedition (GMGS-1) in April-June of 2007 and seismic data indicate the occurrences of gas hydrate above the base of gas hydrate stability (BGHS). Bottom simulating reflectors (BSRs) are widespread in the drilling zone, predominantly occurring beneath the ridges of migrating submarine canyons. Higher P-wave velocities and higher resistivity above BGHS at sites SH3, SH2 and SH7 indicate the presence of gas hydrate in the thickness range from 10 to 25 meters below seafloor. However, the measured compressional (P-wave) velocities at site SH3 show there are three abnormal P-wave velocities zones above the BGHS, which are lower than those of water-saturated sediments, indicating the presence of free gas in the pore space. The P-wave velocities drop as low as 1.0 m/s at the depth of 125 m. While the recovered core at 100 bars degassed show that methane was under unsaturated. Below the BSR, seismic data show enhanced reflections and the P-impedances have lower values, which inferred these reflections to be caused by free gas. To determine whether the low well-log P-wave velocity is caused by in-situ gas, synthetic seismograms were generated using the measured well-log P-wave velocity and calculated assuming water-saturated in the pore space. Comparing the surface seismic data with synthetic seismograms suggests that low P-wave velocities are likely caused by migrating gas due to borehole drilling. Three dimensional (3D) multi-channel seismic (MCS) data, inverted P-wave velocity, and RMS amplitude are used to study the detailed distribution and occurrences of the BSR and associated with the migration of gas in this basin. Three types of BSR and amplitude anomalies zones are identified from 3D seismic data. Gas hydrate in this basin are linked to and associated with gas accumulation below gas hydrate stability zone, which has a closerelationship with focused fluid flow features such as gas chimneys, faults, diapir, pipe.

The power flow angle of acoustic waves in thin piezoelectric plates.

PubMed

Kuznetsova, Iren E; Zaitsev, Boris D; Teplykh, Andrei A; Joshi, Shrinivas G; Kuznetsova, Anastasia S

2008-09-01

The curves of slowness and power flow angle (PFA) of quasi-antisymmetric (A(0)) and quasi-symmetric (S(0)) Lamb waves as well as quasi-shear-horizontal (SH(0)) acoustic waves in thin plates of lithium niobate and potassium niobate of X-,Y-, and Z-cuts for various propagation directions and the influence of electrical shorting of one plate surface on these curves and PFA have been theoretically investigated. It has been found that the group velocity of such waves does not coincide with the phase velocity for the most directions of propagation. It has been also shown that S(0) and SH(0) wave are characterized by record high values of PFA and its change due to electrical shorting of the plate surface in comparison with surface and bulk acoustic waves in the same material. The most interesting results have been verified by experiment. As a whole, the results obtained may be useful for development of various devices for signal processing, for example, electrically controlled acoustic switchers.

Sentinel-5/UVNS instrument: the principle ability of a slit homogenizer to reduce scene contrast for earth observation spectrometer

NASA Astrophysics Data System (ADS)

Meister, Ch.; Keim, C.; Irizar, J.; Bauer, M.

2017-09-01

Sentinel-5/UVNS 1 is an Earth observation spectrometer system that is operating in nadir looking push broom mode from a low Earth orbit. While having a wide across-track field of view (≈ 2700 km) it covers approximately 7 km at nadir in flight direction during one dwell. However a high contrast in the scene in along track may lead to disturbance of the Instrument Spectral Response Function (ISRF) and with this a variation of measured spectrum. In order to reduce the effect of scene contrast along track, instead of a spectrometer slit two mirrors are introduced, in between which the light path is extended such as a one dimensional wave guide. The entrance length across track however is wide enough to let light pass unchanged. This new concept is called Slit Homogenizer (SH) within theSentinel-5 project. The entrance of the SH is placed on the image plane of the preceding op- tics. The exit of the SH represents the object plane of the subsequent spectrometer in the along track (spectral) direction. This article proposes a simulation model of a SH together with a preced- ing generic optics based on scalar diffraction theory. The model is used to evaluate quantitatively the homogenizing ability of the device. Some parameters in the discussed examples are taken from Sentinel-5/UVNS instrument but the model and its application is not limited to that mission.

Study on the Before Cavity Interaction in a Second Harmonic Gyrotron Using 3D CFDTD PIC Simulations

NASA Astrophysics Data System (ADS)

Lin, M. C.; Illy, S.; Thumm, M.; Jelonnek, J.

2016-10-01

A computational study on before cavity interaction (BCI) in a 28 GHz second harmonic (SH) gryotron for industrial applications has been performed using a 3-D conformal finite-difference time-domain (CFDTD) particle-in-cell (PIC) method. On the contrary to the after cavity interaction (ACI), i.e. beam wave interaction in the non-linear uptaper after the cavity, which has been widely investigated, the BCI, i.e. beam wave interaction in the non-linear downtaper before the cavity connected to the beam tunnel with an entrance, is less noticed and discussed. Usually the BCI might be considered easy to be eliminated. However, this is not always the case. As the SH gyrotron had been designed for SH TE12 mode operation, the first harmonic (FH) plays the main competition. In the 3-D CFDTD PIC simulations, a port boundary has been employed for the gyro-beam entrance of the gyrotron cavity instead of a metallic short one which is not reflecting a realistic situation as an FH backward wave oscillation (BWO) is competing with the desired SH generation. A numerical instability has been found and identified as a failure of the entrance port boundary caused by an evanescent wave or mode conversion. This indicates the entrance and downtaper are not fully cut-off for some oscillations. A further study shows that the undesired oscillation is the FH TE11 BWO mode concentrated around the beam tunnel entrance and downtaper. A mitigation strategy has been found to suppress this undesired BCI and avoid possible damage to the gun region.

Regional seismic wavefield computation on a 3-D heterogeneous Earth model by means of coupled traveling wave synthesis

USGS Publications Warehouse

Pollitz, F.F.

2002-01-01

I present a new algorithm for calculating seismic wave propagation through a three-dimensional heterogeneous medium using the framework of mode coupling theory originally developed to perform very low frequency (f < ???0.01-0.05 Hz) seismic wavefield computation. It is a Greens function approach for multiple scattering within a defined volume and employs a truncated traveling wave basis set using the locked mode approximation. Interactions between incident and scattered wavefields are prescribed by mode coupling theory and account for the coupling among surface waves, body waves, and evanescent waves. The described algorithm is, in principle, applicable to global and regional wave propagation problems, but I focus on higher frequency (typically f ??????0.25 Hz) applications at regional and local distances where the locked mode approximation is best utilized and which involve wavefields strongly shaped by propagation through a highly heterogeneous crust. Synthetic examples are shown for P-SV-wave propagation through a semi-ellipsoidal basin and SH-wave propagation through a fault zone.

The Effect of the Divergent Circulation on Some Aspects of the 1978/79 Southern Hemisphere Monsoon.

NASA Astrophysics Data System (ADS)

Chen, Tsing-Chang; Yen, Ming-Cheng; van Loon, Harry

1989-11-01

Two aspects of the 1978/79 Southern Hemisphere (SH) monsoon are examined: (i) A double-low (double-high) structure in the lower (upper) levels of the troposphere, which appears over the region adjacent to Australia; and (ii) the poleward shift in the Australian jet after the monsoon onset. Emphasis is given to the effect of the divergent circulation on these two aspects of the SH monsoon. The data generated by the FGGE IIIb analyses at the European Centre for Medium Range Weather Forecasts and the Geophysical Fluid Dynamics Laboratory are used in this study.The three-dimensional structure of the SH monsoon circulation after the monsoon onset matches well with Gill's solution based upon a heat source symmetric with respect to the equator. His solution contains the coupling of an eastward-propagating Kelvin wave and a westward-propagating mixed gravity-Rossby wave over the heat source region. Water vapor and heat budget analyses for the SH monsoon were performed to show how this heat source is maintained by the monsoon circulation. The contrast between the theories of Gill and Silva Dias et al. is discussed in order to explain the presence of the SH monsoon over the region adjacent to Australia. The poleward shift of the Australian subtropical jet stream following the SH monsoon onset is illustrated by an analysis of the energetics of the divergent and rotational flows; namely, the interaction between these two flow components and the possible adjustment of the ageostrophic circulation caused by the thermal field change after the SH monsoon onset.

High second-harmonic generation of antiferromagnetic/ionic-crystal composite medium with negative refraction

NASA Astrophysics Data System (ADS)

Song, Yu-Ling; Ta, Jin-Xing; Wang, Xuan-Zhang

2012-03-01

Second harmonic generation (SHG) from a short-period structure composed of alternating antiferromagnetic (AF) and ionic-crystal layers is investigated, where the generated harmonic waves are situated in the far-infrared range and attributed to the magnetically nonlinear interaction in AF layers. The presence of a kind of appropriate ionic-crystal layers in the structure can support negative refraction for the pumping wave and positive refraction for the SH wave, so the SHG is greatly amplified in the vicinity of each AF resonant frequency. For the composite structure FeF2/TlBr, we found that the SH output is about 8 times higher than that of the FeF2 bulk in the same frequency range.

Inference of stress and texture from angular dependence of ultrasonic plate mode velocities

NASA Technical Reports Server (NTRS)

Thompson, R. B.; Smith, J. F.; Lee, S. S.

1986-01-01

The theory for the angular dependence of the ultrasonic wave velocity in a symmetry plane of an orthorhombic, stressed material is presented. The two waves having polarizations in this plane are shown to have velocities which can be estimated from measurements of the SH sub 0 and S sub 0 guided modes of a thin plate: the relationship being exact for the SH sub 0 mode and requiring a 10% correction for the S sub 0 mode at long wavelength. It is then shown how stress and texture can be independently inferred from various features of the angular dependence of these two velocities. From the SH sub 0 data, the ability to determine the directions and differences in magnitudes of principal stresses is described and supported by experimental data on several materials. From a combination of the SH sub 0 and S sub 0 data, a procedure is proposed for determining the coefficients W sub 400, W sub 420 and W sub 440 of an expansion of the crystallite orientation distribution function in terms of generalized Legendre functions. Possible applications in process control are indicated.

Real-time monitoring of methanol concentration using a shear horizontal surface acoustic wave sensor for direct methanol fuel cell without reference liquid measurement

NASA Astrophysics Data System (ADS)

Tada, Kyosuke; Nozawa, Takuya; Kondoh, Jun

2017-07-01

In recent years, there has been an increasing demand for sensors that continuously measure liquid concentrations and detect abnormalities in liquid environments. In this study, a shear horizontal surface acoustic wave (SH-SAW) sensor is applied for the continuous monitoring of liquid concentrations. As the SH-SAW sensor functions using the relative measurement method, it normally needs a reference at each measurement. However, if the sensor is installed in a liquid flow cell, it is difficult to measure a reference liquid. Therefore, it is important to establish an estimation method for liquid concentrations using the SH-SAW sensor without requiring a reference measurement. In this study, the SH-SAW sensor is installed in a direct methanol fuel cell to monitor the methanol concentration. The estimated concentration is compared with a conventional density meter. Moreover, the effect of formic acid is examined. When the fuel temperature is higher than 70 °C, it is necessary to consider the influence of liquid conductivity. Here, an estimation method for these cases is also proposed.

Anisotropy in the lowermost mantle beneath the circum-Pacific: observations and modelling

NASA Astrophysics Data System (ADS)

Walpole, J.; Wookey, J. M.; Nowacki, A.; Walker, A.; Kendall, J. M.; Masters, G.; Forte, A. M.

2014-12-01

The lowermost 300 km of mantle (D'') acts as the lower boundary layer to mantle convection. Numerous observations find that this layer is anisotropic, unlike the bulk of the lower mantle above, which is isotropic. The causal mechanism for this anisotropy remains elusive, though its organisation is likely to be imposed by deformation associated with mantle convection. The subduction of the Tethys ocean (since 180 Ma) is predicted to have deposited slab material in D'' in circum-Pacific regions, making these regions cold, encouraging the phase transformation in the MgSiO3 polymorph bridgmanite to a post-perovskite (ppv) structure. These regions are probably rich in ppv. Here we present new observations of anisotropy from shear wave splitting of ScS phases recorded in the epicentral distance range 50-85 degrees. These observations are corrected for anisotropy in the upper mantle beneath source and receiver. Due to the layout of events and receivers we primarily sample D'' beneath the landward side of the circum-Pacific. A detailed pattern of anisotropy is revealed. Anisotropy predominantly leads to SH fast wave propagation with an inferred average strength of 0.9%. This is consistent with many previous observations. However, we do not limit our observations to the SH/SV system. Many observations show non SH/SV fast polarisation. We interpret these data for tilted transverse isotropy (TTI) style anisotropy. We resolve non-radial anisotropy at unprecedented global scale, in turn placing new constraints on the D'' flow field. We test the ability of the flow model TX2008 (Simmons et al., 2009) to fit our observations. This is achieved by modelling the development of a lattice preferred orientation texture of a ppv layer subject to this flow field using a visco-plastic self consistent theory (Walker et al., 2011). Due to uncertainty in the slip system of ppv three candidate glide planes are trialled: (100)/{110}, (010), and (001). The seismic anisotropy of these models is probed using the full wave field simulation code SPECFEM3D_GLOBE (Tromp et al., 2008). Using these synthetic seismograms we assess the ability of flow model TX2008 (assuming a ppv D'') to explain our observations, and determine which slip system fits the data best.

Investigation of sinkhole areas in Germany using 2D shear wave reflection seismics and zero-offset VSP

NASA Astrophysics Data System (ADS)

Tschache, Saskia; Wadas, Sonja; Polom, Ulrich; Krawczyk, Charlotte M.

2017-04-01

Sinkholes pose a serious geohazard for humans and infrastructure in populated areas. The Junior Research Group Subrosion within the Leibniz Institute for Applied Geophysics and the joint project SIMULTAN work on the multi-scale investigation of subrosion processes in the subsurface, which cause natural sinkholes. In two case studies in sinkhole areas of Thuringia in Germany, we applied 2D shear wave reflection seismics using SH-waves with the aim to detect suitable parameters for the characterisation of critical zones. This method has the potential to image near-surface collapse and faulting structures in improved resolution compared to P-wave surveys resulting from the shorter wavelength of shear waves. Additionally, the shear wave velocity field derived by NMO velocity analysis is a basis to calculate further physical parameters, as e.g. the dynamic shear modulus. In both investigation areas, vertical seismic profiles (VSP) were acquired by generating P- and SH-waves (6 component VSP) directly next to a borehole equipped with a 3C downhole sensor. They provide shear and compressional wave velocity profiles, which are used to improve the 2D shear wave velocity field from surface seismics, to perform a depth calibration of the seismic image and to calculate the Vp/Vs ratio. The signals in the VSP data are analysed with respect to changes in polarisation and attenuation with depth and/or azimuth. The VSP data reveal low shear wave velocities of 200-300 m/s in rock layers known to be heavily affected by subrosion and confirm the low velocities calculated from the surface seismic data. A discrepancy of the shear wave velocities is observed in other intervals probably due to unsymmetrical travel paths in the surface seismics. In some VSP data dominant conversion of the direct SH-wave to P-wave is observed that is assumed to be caused by an increased presence of cavities. A potential fault distorting the vertical travel paths was detected by abnormal P-wave first arrivals in the VSP dataset of a borehole located near the city of Bad Frankenhausen. In addition, a strong attenuation of the source signals may indicate areas influenced by subrosion.

The effects of core-reflected waves on finite fault inversions with teleseismic body wave data

NASA Astrophysics Data System (ADS)

Qian, Yunyi; Ni, Sidao; Wei, Shengji; Almeida, Rafael; Zhang, Han

2017-11-01

Teleseismic body waves are essential for imaging rupture processes of large earthquakes. Earthquake source parameters are usually characterized by waveform analyses such as finite fault inversions using only turning (direct) P and SH waves without considering the reflected phases from the core-mantle boundary (CMB). However, core-reflected waves such as ScS usually have amplitudes comparable to direct S waves due to the total reflection from the CMB and might interfere with the S waves used for inversion, especially at large epicentral distances for long duration earthquakes. In order to understand how core-reflected waves affect teleseismic body wave inversion results, we develop a procedure named Multitel3 to compute Green's functions that contain turning waves (direct P, pP, sP, direct S, sS and reverberations in the crust) and core-reflected waves (PcP, pPcP, sPcP, ScS, sScS and associated reflected phases from the CMB). This ray-based method can efficiently generate synthetic seismograms for turning and core-reflected waves independently, with the flexibility to take into account the 3-D Earth structure effect on the timing between these phases. The performance of this approach is assessed through a series of numerical inversion tests on synthetic waveforms of the 2008 Mw7.9 Wenchuan earthquake and the 2015 Mw7.8 Nepal earthquake. We also compare this improved method with the turning-wave only inversions and explore the stability of the new procedure when there are uncertainties in a priori information (such as fault geometry and epicentre location) or arrival time of core-reflected phases. Finally, a finite fault inversion of the 2005 Mw8.7 Nias-Simeulue earthquake is carried out using the improved Green's functions. Using enhanced Green's functions yields better inversion results as expected. While the finite source inversion with conventional P and SH waves is able to recover large-scale characteristics of the earthquake source, by adding PcP and ScS phases, the inverted slip model and moment rate function better match previous results incorporating field observations, geodetic and seismic data.

Centroid — moment tensor solutions for July-September 2000

NASA Astrophysics Data System (ADS)

Dziewonski, A. M.; Ekström, G.; Maternovskaya, N. N.

2001-06-01

Centroid-moment tensor (CMT) solutions are presented for 308 earthquakes that occurred during the third quarter of 2000. The solutions are obtained using corrections for aspherical earth structure represented by a whole mantle shear velocity model SH8/U4L8 of Dziewonski and Woodward [Acoustical Imaging, Vol. 19, Plenum Press, New York, 1992, p. 785]. A model of anelastic attenuation of Durek and Ekström [Bull. Seism. Soc. Am. 86 (1996) 144] is used to predict the decay of the wave forms.

Effect of self-demodulation on the subharmonic response of contrast agent microbubbles

NASA Astrophysics Data System (ADS)

Daeichin, V.; Faez, T.; Renaud, G.; Bosch, J. G.; van der Steen, A. F. W.; de Jong, N.

2012-06-01

Subharmonic (SH) emission from the ultrasound contrast agent (UCA) is of interest since it is produced only by the UCA and not by tissue, opposite to harmonic imaging modes where both tissue and microbubble show harmonics. In this work, the use of the self-demodulation (S-D) signal as a means of microbubble excitation at the SH frequency to enhance the SH emission of UCA is studied. The S-D wave is a low-frequency signal produced by the weak nonlinear propagation of an ultrasound wave. It is proportional to the second time derivative of the squared envelope of the transmitted signal. A diluted population of BR14 UCA (Bracco Research SA, Geneva, Switzerland) was insonified by a 10 MHz transducer focused at 76 mm firing bursts with different envelopes, durations and peak pressure amplitudes. The center frequency of the S-D signal changes from low frequencies (around 0.5 MHz) toward the transmitted frequency (10 MHz) by modifying the envelope function from Gaussian to rectangular. For 6 and 20 transmitted cycles, the SH response is enhanced up to 25 and 22 dB, respectively, when using a rectangular envelope instead of a Gaussian one. The experimental results are confirmed by the numerical simulation. The effects of the excitation duration and pressure amplitude are also studied. This study shows that a suitable design of the envelope of the transmit excitation to generate a S-D signal at the SH frequency can enhance the SH emission of UCA, and the SH imaging is feasible at high frequencies with a shorter transmit burst (six-cycle) and low acoustic pressure (∼100 KPa).

Evidence for strong lateral seismic velocity variation in the lower crust and upper mantle beneath the California margin

USGS Publications Warehouse

Lai, Voon; Graves, Robert; Wei, Shengji; Helmberger, Don

2017-01-01

Regional seismograms from earthquakes in Northern California show a systematic difference in arrival times across Southern California where long period (30–50 seconds) SH waves arrive up to 15 seconds earlier at stations near the coast compared with sites towards the east at similar epicentral distances. We attribute this time difference to heterogeneity of the velocity structure at the crust-mantle interface beneath the California margin. To model these observations, we propose a fast seismic layer, with thickness growing westward from the San Andreas along with a thicker and slower continental crust to the east. Synthetics generated from such a model are able to match the observed timing of SH waveforms better than existing 3D models. The presence of a strong upper mantle buttressed against a weaker crust has a major influence in how the boundary between the Pacific plate and North American plate deforms and may explain the observed asymmetric strain rate across the boundary.

Structure of the Los Angeles Basin from Ambient Noise and Receiver Function Analysis

NASA Astrophysics Data System (ADS)

Clayton, R. W.; Ma, Y.; Cochran, E. S.

2015-12-01

We show the results from the LASSIE seismic experiment, which consists of a dense (1-km spacing) linear array of broadband stations deployed across the LA basin for approximately two months. Two common methods - ambient noise and receiver function (RF) - are applied to determine the velocity and structure of the basin. The basin RFs are complicated, however, the dense array enhances the lateral coherence of the signals and allows the structure to be imaged. The basement shape is clearly shown in the migrated image of the PpPs phase. The Ps conversion at the basement is the largest signal (including the direct wave) in the first 3 s. However, the Ps phase does not form as clear an image compared with the PpPs phase, possibly due to a requirement of more accurate velocity model. The surface wave signals from the ambient noise cross-correlations between LASSIE and surrounding SCSN stations are used for velocity inversion. A linear Dix-type inversion (Haney and Tsai, 2015, Geophysics) is applied to the extracted dispersion curves. The 1-10 s period Rayleigh wave and the 1-8 s period Love wave dispersion curves provide excellent constraints on top 5 km SV and top 3 km SH velocity structures respectively. Strong anisotropy (SV > SH) is observed for the top 1 km, and we plan to use this result to infer the fracture orientation and density of the shallow sedimentary rocks.

Scattering of elastic waves by a spheroidal inclusion

NASA Astrophysics Data System (ADS)

Johnson, Lane R.

2018-03-01

An analytical solution is presented for scattering of elastic waves by prolate and oblate spheroidal inclusions. The problem is solved in the frequency domain where separation of variables leads to a solution involving spheroidal wave functions of the angular and radial kind. Unlike the spherical problem, the boundary equations remain coupled with respect to one of the separation indices. Expanding the angular spheroidal wave functions in terms of associated Legendre functions and using their orthogonality properties leads to a set of linear equations that can be solved to simultaneously obtain solutions for all coupled modes of both scattered and interior fields. To illustrate some of the properties of the spheroidal solution, total scattering cross-sections for P, SV and SH plane waves incident at an oblique angle on a prolate spheroid, an oblate spheroid and a sphere are compared. The waveforms of the scattered field exterior to the inclusion are calculated for these same incident waves. The waveforms scattered by a spheroid are strongly dependent upon the angle of incidence, are different for incident SV and SH waves and are asymmetrical about the centre of the spheroid with the asymmetry different for prolate and oblate spheroids.

Direct Comparison of the Primary Blast Response of a Physical Head Model with Post-mortem Human Subjects

DTIC Science & Technology

2014-02-27

and brain st e made from erpart. The br ace by the me is instrumen design sleev sure transduc se of the tria f the gel duri is in intima pically...filtered usin ressure signa with the hea a 10 kHz cu ty of WSU u series. The sh section sepa p to a pressu wave down re pressure a design can be...of wave generat 5m (0 ouring of the he occipital s e comparativ hod used in t tterworth filt llowing the s d of a filterin tudy (Figure o part

A periodic mixed gaussians-plane waves DFT study on simple thiols on Au(111): adsorbate species, surface reconstruction, and thiols functionalization.

PubMed

Rajaraman, Gopalan; Caneschi, Andrea; Gatteschi, Dante; Totti, Federico

2011-03-07

Here we present DFT calculations based on a periodic mixed gaussians/plane waves approach to study the energetics, structure, bonding of SAMs of simple thiols on Au(111). Several open issues such as structure, bonding and the nature of adsorbate are taken into account. We started with methyl thiols (MeSH) on Au(111) to establish the nature of the adsorbate. We have considered several structural models embracing the reconstructed surface scenario along with the MeS˙-Au(ad)-MeS˙ type motif put forward in recent years. Our calculations suggest a clear preference for the homolytic cleavage of the S-H bond leading to a stable MeS˙ on a gold surface. In agreement with the recent literature studies, the reconstructed models of the MeS˙ species are found to be energetically preferred over unreconstructed models. Besides, our calculations reveal that the model with 1:2 Au(ad)/thiols ratio, i.e. MeS˙-Au(ad)-MeS˙, is energetically preferred compared to the clean and 1:1 ratio models, in agreement with the experimental and theoretical evidences. We have also performed Molecular Orbital/Natural Bond Orbital, MO/NBO, analysis to understand the electronic structure and bonding in different structural motifs and many useful insights have been gained. Finally, the studies have then been extended to alkyl thiols of the RSR' (R, R' = Me, Et and Ph) type and here our calculations again reveal a preference for the RS˙ type species adsorption for clean as well as for reconstructed 1:2 Au(ad)/thiols ratio models.

Patterns of workplace harassment, gender, and use of services: an update.

PubMed

Rospenda, Kathleen M; Richman, Judith A; Shannon, Candice A

2006-10-01

Using three waves of data from an ongoing study of current and former university employees (N = 1,656), the authors reexamined the roles of sexual (SH) and generalized (GWH) workplace harassment and gender in predicting use of professional services by focusing on patterning (chronic, remission, onset, intermittent, and never harassed). The authors also reexamined whether services moderated relationships between SH and GWH patterns and drinking and mental health outcomes. All patterns of SH, but only chronic GWH, predicted increased odds of services use. Services use did not moderate relationship between SH patterns and outcomes, but was associated with lower alcohol consumption for men with GWH remission or chronicity, reduced escape drinking for those with GWH remission, and reduced hostility for those with intermittent GWH.

Planetary wave-mean flow interaction in the stratosphere: A comparison between the Northern and Southern Hemispheres

NASA Technical Reports Server (NTRS)

Shiotani, M.; Hirota, I.

1985-01-01

Based on satellite-derived data supplied by the National Meteorological Center (NMC), the dynamical interaction between planetary waves and mean zonal winds in the stratosphere is investigated. Special attention is paid to the differences between the Northern Hemisphere (NH) and the Southern Hemisphere (SH). An analysis is made using Eliassen-Palm (E-P) flux diagnostics for the period from June 1981 to May 1982. In a climatological sense, different seasonal evolutions of large-scale motions between the NH and the SH in the stratosphere are demonstrated. Vertical cross-section analysis is presented to show the day-to-day variation in the mean zonal wind and wave activity, in particular, the following phenomena: (1) the poleward shifting of the westerly jet, and (2) episodes after the shifting of the westerly jet.

The Adaptor Molecule Nck Localizes the WAVE Complex to Promote Actin Polymerization during CEACAM3-Mediated Phagocytosis of Bacteria

PubMed Central

Delgado Tascón, Julia; Nyffenegger-Jann, Naja J.; Hauck, Christof R.

2012-01-01

Background CEACAM3 is a granulocyte receptor mediating the opsonin-independent recognition and phagocytosis of human-restricted CEACAM-binding bacteria. CEACAM3 function depends on an intracellular immunoreceptor tyrosine-based activation motif (ITAM)-like sequence that is tyrosine phosphorylated by Src family kinases upon receptor engagement. The phosphorylated ITAM-like sequence triggers GTP-loading of Rac by directly associating with the guanine nucleotide exchange factor (GEF) Vav. Rac stimulation in turn is critical for actin cytoskeleton rearrangements that generate lamellipodial protrusions and lead to bacterial uptake. Principal Findings In our present study we provide biochemical and microscopic evidence that the adaptor proteins Nck1 and Nck2, but not CrkL, Grb2 or SLP-76, bind to tyrosine phosphorylated CEACAM3. The association is phosphorylation-dependent and requires the Nck SH2 domain. Overexpression of the isolated Nck1 SH2 domain, RNAi-mediated knock-down of Nck1, or genetic deletion of Nck1 and Nck2 interfere with CEACAM3-mediated bacterial internalization and with the formation of lamellipodial protrusions. Nck is constitutively associated with WAVE2 and directs the actin nucleation promoting WAVE complex to tyrosine phosphorylated CEACAM3. In turn, dominant-negative WAVE2 as well as shRNA-mediated knock-down of WAVE2 or the WAVE-complex component Nap1 reduce internalization of bacteria. Conclusions Our results provide novel mechanistic insight into CEACAM3-initiated phagocytosis. We suggest that the CEACAM3 ITAM-like sequence is optimized to co-ordinate a minimal set of cellular factors needed to efficiently trigger actin-based lamellipodial protrusions and rapid pathogen engulfment. PMID:22448228

The adaptor molecule Nck localizes the WAVE complex to promote actin polymerization during CEACAM3-mediated phagocytosis of bacteria.

PubMed

Pils, Stefan; Kopp, Kathrin; Peterson, Lisa; Delgado Tascón, Julia; Nyffenegger-Jann, Naja J; Hauck, Christof R

2012-01-01

CEACAM3 is a granulocyte receptor mediating the opsonin-independent recognition and phagocytosis of human-restricted CEACAM-binding bacteria. CEACAM3 function depends on an intracellular immunoreceptor tyrosine-based activation motif (ITAM)-like sequence that is tyrosine phosphorylated by Src family kinases upon receptor engagement. The phosphorylated ITAM-like sequence triggers GTP-loading of Rac by directly associating with the guanine nucleotide exchange factor (GEF) Vav. Rac stimulation in turn is critical for actin cytoskeleton rearrangements that generate lamellipodial protrusions and lead to bacterial uptake. In our present study we provide biochemical and microscopic evidence that the adaptor proteins Nck1 and Nck2, but not CrkL, Grb2 or SLP-76, bind to tyrosine phosphorylated CEACAM3. The association is phosphorylation-dependent and requires the Nck SH2 domain. Overexpression of the isolated Nck1 SH2 domain, RNAi-mediated knock-down of Nck1, or genetic deletion of Nck1 and Nck2 interfere with CEACAM3-mediated bacterial internalization and with the formation of lamellipodial protrusions. Nck is constitutively associated with WAVE2 and directs the actin nucleation promoting WAVE complex to tyrosine phosphorylated CEACAM3. In turn, dominant-negative WAVE2 as well as shRNA-mediated knock-down of WAVE2 or the WAVE-complex component Nap1 reduce internalization of bacteria. Our results provide novel mechanistic insight into CEACAM3-initiated phagocytosis. We suggest that the CEACAM3 ITAM-like sequence is optimized to co-ordinate a minimal set of cellular factors needed to efficiently trigger actin-based lamellipodial protrusions and rapid pathogen engulfment.

Radiated energy and the rupture process of the Denali fault earthquake sequence of 2002 from broadband teleseismic body waves

USGS Publications Warehouse

Choy, G.L.; Boatwright, J.

2004-01-01

Displacement, velocity, and velocity-squared records of P and SH body waves recorded at teleseismic distances are analyzed to determine the rupture characteristics of the Denali fault, Alaska, earthquake of 3 November 2002 (MW 7.9, Me 8.1). Three episodes of rupture can be identified from broadband (???0.1-5.0 Hz) waveforms. The Denali fault earthquake started as a MW 7.3 thrust event. Subsequent right-lateral strike-slip rupture events with centroid depths of 9 km occurred about 22 and 49 sec later. The teleseismic P waves are dominated by energy at intermediate frequencies (0.1-1 Hz) radiated by the thrust event, while the SH waves are dominated by energy at lower frequencies (0.05-0.2 Hz) radiated by the strike-slip events. The strike-slip events exhibit strong directivity in the teleseismic SH waves. Correcting the recorded P-wave acceleration spectra for the effect of the free surface yields an estimate of 2.8 ?? 1015 N m for the energy radiated by the thrust event. Correcting the recorded SH-wave acceleration spectra similarly yields an estimate of 3.3 ?? 10 16 N m for the energy radiated by the two strike-slip events. The average rupture velocity for the strike-slip rupture process is 1.1??-1.2??. The strike-slip events were located 90 and 188 km east of the epicenter. The rupture length over which significant or resolvable energy is radiated is, thus, far shorter than the 340-km fault length over which surface displacements were observed. However, the seismic moment released by these three events, 4 ?? 1020 N m, was approximately half the seismic moment determined from very low-frequency analyses of the earthquake. The difference in seismic moment can be reasonably attributed to slip on fault segments that did not radiate significant or coherent seismic energy. These results suggest that very large and great strike-slip earthquakes can generate stress pulses that rapidly produce substantial slip with negligible stress drop and little discernible radiated energy on fault segments distant from the initial point of nucleation. The existence of this energy-deficient rupture mode has important implications for the evaluation of the seismic hazard of very large strike-slip earthquakes.

Phase Unwrapping in the Presence of Strong Turbulence

DTIC Science & Technology

2010-03-01

r a t i o n 49 h2=hh( IIndex ) ; 50 hhh =[(h2−de l ta4 ) (h2−de l ta3 ) h2 ( h2+de l ta3 ) ( h2+de l ta4 ) ] ; 51 121 52 f o r index=1:5 53 pha s e sh...i f t= hhh ( index ) ; 54 NonLS phase2 ( : , : , index ) = wrap wave ( w phase /(2∗ pi )−LS phase−pha s e sh i f t ) ; % wrapped waves 55 [ iwc l2...Index ] = min ( iwc l2 ) ; 60 UnwrappedPhase=LS phase+NonLS phase2 ( : , : , I Index ) ; 61 62 h= hhh ( IIndex ) ; % Get phase s h i f t from lowest

Wave scattering of complex local site in a layered half-space by using a multidomain IBEM: incident plane SH waves

NASA Astrophysics Data System (ADS)

Ba, Zhenning; Yin, Xiao

2016-06-01

A multidomain indirect boundary element method (IBEM) is proposed to study the wave scattering of plane SH waves by complex local site in a layered half-space. The new method, using both the full-space and layered half-space Green's functions as its fundamental solutions can also be regarded as a coupled method of the full-space IBEM and half-space IBEM. First, the whole model is decomposed into independent closed regions and an opened layered half-space region with all of the irregular interfaces; then, fictitious uniformly distributed loads are applied separately on the boundaries of each region, and scattered fields of the closed regions and the opened layered half-space region are constructed by calculating the full-space and layered half-space Green's functions, respectively; finally, all of the regions are assembled to establish the linear algebraic system that arises from discretization. The densities of the distributed loads are determined directly by solving the algebraic system. The accuracy and capability of the new approach are verified extensively by comparing its results with those of published approaches for a class of hills, valleys and embedded inclusions. And the capability of the new method is further displayed when it is used to investigate a hill-triple layered valley-hill coupled topography in a multilayered half-space. All of the numerical calculations presented in this paper demonstrate that the new method is very suitable for solving multidomain coupled multilayered wave scattering problems with the merits of high accuracy and representing the scattered fields in different kinds of regions more reasonably and flexibly.

Precision cleaning apparatus and method

DOEpatents

Schneider, T.W.; Frye, G.C.; Martin, S.J.

1998-01-13

A precision cleaning apparatus and method are disclosed. The precision cleaning apparatus includes a cleaning monitor further comprising an acoustic wave cleaning sensor such as a quartz crystal microbalance (QCM), a flexural plate wave (FPW) sensor, a shear horizontal acoustic plate mode (SH--APM) sensor, or a shear horizontal surface acoustic wave (SH--SAW) sensor; and measurement means connectable to the sensor for measuring in-situ one or more electrical response characteristics that vary in response to removal of one or more contaminants from the sensor and a workpiece located adjacent to the sensor during cleaning. Methods are disclosed for precision cleaning of one or more contaminants from a surface of the workpiece by means of the cleaning monitor that determines a state of cleanliness and any residual contamination that may be present after cleaning; and also for determining an effectiveness of a cleaning medium for removing one or more contaminants from a workpiece. 11 figs.

Suppression of Rayleigh wave spurious signal in ultra-wideband surface acoustic wave devices employing 0.67Pb(Mg1/3Nb2/3)O3-0.33PbTiO3 single crystals

NASA Astrophysics Data System (ADS)

Ji, Xiaojun; Xiao, Qiang; Chen, Jing; Wang, Hualei; Omori, Tatsuya; Changjun, Ahn

2017-05-01

The propagation characteristics of surface acoustic waves (SAWs) on rotated Y-cut X-propagating 0.67Pb(Mg1/3Nb2/3)O3-0.33PbTiO3(PMN-33%PT) substrate are theoretically analyzed. It is shown that besides the existence of a shear horizontal (SH) SAW with ultrahigh electromechanical coupling factor K2, a Rayleigh SAW also exists causing strong spurious response. The calculated results showed that the spurious Rayleigh SAW can be sufficiently suppressed by properly selecting electrode and its thickness with optimized rotating angle while maintaining large K2 of SH SAW. The fractional -3 dB bandwidth of 47% is achievable for the ladder type filter constructed by Au IDT/48oYX-PMN-33%PT resonators.

Precision cleaning apparatus and method

DOEpatents

Schneider, Thomas W.; Frye, Gregory C.; Martin, Stephen J.

1998-01-01

A precision cleaning apparatus and method. The precision cleaning apparatus includes a cleaning monitor further comprising an acoustic wave cleaning sensor such as a quartz crystal microbalance (QCM), a flexural plate wave (FPW) sensor, a shear horizontal acoustic plate mode (SH--APM) sensor, or a shear horizontal surface acoustic wave (SH--SAW) sensor; and measurement means connectable to the sensor for measuring in-situ one or more electrical response characteristics that vary in response to removal of one or more contaminants from the sensor and a workpiece located adjacent to the sensor during cleaning. Methods are disclosed for precision cleaning of one or more contaminants from a surface of the workpiece by means of the cleaning monitor that determines a state of cleanliness and any residual contamination that may be present after cleaning; and also for determining an effectiveness of a cleaning medium for removing one or more contaminants from a workpiece.

Gas hydrate identified in sand-rich inferred sedimentary section using downhole logging and seismic data in Shenhu area, South China Sea

USGS Publications Warehouse

Wang, Xiujuan; Lee, Myung W.; Collett, Timothy S.; Yang, Shengxiong; Guo, Yiqun; Wu, Shiguo

2014-01-01

Downhole wireline log (DWL) data was acquired from eight drill sites during China's first gas hydrate drilling expedition (GMGS-1) in 2007. Initial analyses of the acquired well log data suggested that there were no significant gas hydrate occurrences at Site SH4. However, the re-examination of the DWL data from Site SH4 indicated that there are two intervals of high resistivity, which could be indicative of gas hydrate. One interval of high resistivity at depth of 171–175 m below seafloor (mbsf) is associated with a high compressional- wave (P-wave) velocities and low gamma ray log values, which suggests the presence of gas hydrate in a potentially sand-rich (low clay content) sedimentary section. The second high resistivity interval at depth of 175–180 mbsf is associated with low P-wave velocities and low gamma values, which suggests the presence of free gas in a potentially sand-rich (low clay content) sedimentary section. Because the occurrence of free gas is much shallower than the expected from the regional depth of the bottom simulating reflector (BSR), the free gas could be from the dissociation of gas hydrate during drilling or there may be a local anomaly in the depth to the base of the gas hydrate stability zone. In order to determine whether the low P-wave velocity with high resistivity is caused by in-situ free gas or dissociated free gas from the gas hydrate, the surface seismic data were also used in this analysis. The log analysis incorporating the surface seismic data through the construction of synthetic seismograms using various models indicated the presence of free gas directly in contact with an overlying gas hydrate-bearing section. The occurrence of the anomalous base of gas hydrate stability at Site SH4 could be caused by a local heat flow conditions. This paper documents the first observation of gas hydrate in what is believed to be a sand-rich sediment in Shenhu area of the South China Sea.

2D Analytical Model for the Directivity Prediction of Ultrasonic Contact Type Transducers in the Generation of Guided Waves.

PubMed

Tiwari, Kumar Anubhav; Raisutis, Renaldas; Mazeika, Liudas; Samaitis, Vykintas

2018-03-26

In this paper, a novel 2D analytical model based on the Huygens's principle of wave propagation is proposed in order to predict the directivity patterns of contact type ultrasonic transducers in the generation of guided waves (GWs). The developed model is able to estimate the directivity patterns at any distance, at any excitation frequency and for any configuration and shape of the transducers with prior information of phase dispersive characteristics of the guided wave modes and the behavior of transducer. This, in turn, facilitates to choose the appropriate transducer or arrays of transducers, suitable guided wave modes and excitation frequency for the nondestructive testing (NDT) and structural health monitoring (SHM) applications. The model is demonstrated for P1-type macro-fiber composite (MFC) transducer glued on a 2 mm thick aluminum (Al) alloy plate. The directivity patterns of MFC transducer in the generation of fundamental guided Lamb modes (the S0 and A0) and shear horizontal mode (the SH0) are successfully obtained at 80 kHz, 5-period excitation signal. The results are verified using 3D finite element (FE) modelling and experimental investigation. The results obtained using the proposed model shows the good agreement with those obtained using numerical simulations and experimental analysis. The calculation time using the analytical model was significantly shorter as compared to the time spent in experimental analysis and FE numerical modelling.

Impact of inhomogeneity on SH-type wave propagation in an initially stressed composite structure

NASA Astrophysics Data System (ADS)

Saha, S.; Chattopadhyay, A.; Singh, A. K.

2018-02-01

The present analysis has been made on the influence of distinct form of inhomogeneity in a composite structure comprised of double superficial layers lying over a half-space, on the phase velocity of SH-type wave propagating through it. Propagation of SH-type wave in the said structure has been examined in four distinct cases of inhomogeneity viz. when inhomogeneity in double superficial layer is due to exponential variation in density only (Case I); when inhomogeneity in double superficial layers is due to exponential variation in rigidity only (Case II); when inhomogeneity in double superficial layer is due to exponential variation in rigidity, density and initial stress (Case III) and when inhomogeneity in double superficial layer is due to linear variation in rigidity, density and initial stress (Case IV). Closed-form expression of dispersion relation has been accomplished for all four aforementioned cases through extensive application of Debye asymptotic analysis. Deduced dispersion relations for all the cases are found in well-agreement to the classical Love-wave equation. Numerical computation has been carried out to graphically demonstrate the effect of inhomogeneity parameters, initial stress parameters as well as width ratio associated with double superficial layers in the composite structure for each of the four aforesaid cases on dispersion curve. Meticulous examination of distinct cases of inhomogeneity and initial stress in context of considered problem has been carried out with detailed analysis in a comparative approach.

Seasonal variation of the stratospheric circulation

NASA Technical Reports Server (NTRS)

Hirota, I.; Shiotani, M.

1985-01-01

An extensive analysis is made of the extratropical stratospheric circulation in terms of the seasonal variation of large-scale motion fields, with the aid of height and temperature data obtained from the TIROS satellite. Special attention is paid to a comparison of climatological aspects between the Northern Hemisphere (NH) and the Southern Hemisphere (SH). In order to see the general picture of the annual mach of the upper stratosphere, the zonal mean values of geopotential height of the 1 mb level at 70 deg N and 70 deg S were plotted on the daily basis throughout a year. It is observed that, during the winter, the zonal mean 1 mb height in the NH is much more variable than that in the SH. It is also notable that the SH height is rather oscillatory throughout the longer period from midwinter to early summer. Since the zonal mean height in the polar latitude is a rough measure of the mean zonal flow in extratropical latitudes, the difference of the seasonal variation between the two hemispheres mentioned above is considered to be due mainly to the planetary wave-mean flow interaction in the middle atmosphere. The wave activity in the middle atmosphere is represented more rigorously by the Eliassen-Palm flux associated with vertically propagating planetary waves forced from below. The day-to-day variation of the EP flux in the upper stratosphere shows that the wave activity varies intermittently with a characteristic time scale of about two weeks.

A teleseismic study of the 2002 Denali fault, Alaska, earthquake and implications for rapid strong-motion estimation

USGS Publications Warehouse

Ji, C.; Helmberger, D.V.; Wald, D.J.

2004-01-01

Slip histories for the 2002 M7.9 Denali fault, Alaska, earthquake are derived rapidly from global teleseismic waveform data. In phases, three models improve matching waveform data and recovery of rupture details. In the first model (Phase I), analogous to an automated solution, a simple fault plane is fixed based on the preliminary Harvard Centroid Moment Tensor mechanism and the epicenter provided by the Preliminary Determination of Epicenters. This model is then updated (Phase II) by implementing a more realistic fault geometry inferred from Digital Elevation Model topography and further (Phase III) by using the calibrated P-wave and SH-wave arrival times derived from modeling of the nearby 2002 M6.7 Nenana Mountain earthquake. These models are used to predict the peak ground velocity and the shaking intensity field in the fault vicinity. The procedure to estimate local strong motion could be automated and used for global real-time earthquake shaking and damage assessment. ?? 2004, Earthquake Engineering Research Institute.

An IBEM solution to the scattering of plane SH-waves by a lined tunnel in elastic wedge space

NASA Astrophysics Data System (ADS)

Liu, Zhongxian; Liu, Lei

2015-02-01

The indirect boundary element method (IBEM) is developed to solve the scattering of plane SH-waves by a lined tunnel in elastic wedge space. According to the theory of single-layer potential, the scattered-wave field can be constructed by applying virtual uniform loads on the surface of lined tunnel and the nearby wedge surface. The densities of virtual loads can be solved by establishing equations through the continuity conditions on the interface and zero-traction conditions on free surfaces. The total wave field is obtained by the superposition of free field and scattered-wave field in elastic wedge space. Numerical results indicate that the IBEM can solve the diffraction of elastic wave in elastic wedge space accurately and efficiently. The wave motion feature strongly depends on the wedge angle, the angle of incidence, incident frequency, the location of lined tunnel, and material parameters. The waves interference and amplification effect around the tunnel in wedge space is more significant, causing the dynamic stress concentration factor on rigid tunnel and the displacement amplitude of flexible tunnel up to 50.0 and 17.0, respectively, more than double that of the case of half-space. Hence, considerable attention should be paid to seismic resistant or anti-explosion design of the tunnel built on a slope or hillside.

Quasi-phase-matching of the dual-band nonlinear left-handed metamaterial

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

Liu, Yahong, E-mail: yhliu@nwpu.edu.cn; Song, Kun; Gu, Shuai

2014-11-17

We demonstrate a type of nonlinear meta-atom creating a dual-band nonlinear left-handed metamaterial (DNLHM). The DNLHM operates at two distinct left-handed frequency bands where there is an interval of one octave between the two center frequencies. Under the illumination of a high-power signal at the first left-handed frequency band corresponding to fundamental frequency (FF), second-harmonic generation (SHG) is observed at the second left-handed band. This means that our DNLHM supports backward-propagating waves both at FF and second-harmonic (SH) frequency. We also experimentally demonstrate quasi-phase-matching configurations for the backward SHG. This fancy parametric process can significantly transmits the SH generated bymore » an incident FF wave.« less

Ocular aberrations with ray tracing and Shack-Hartmann wave-front sensors: Does polarization play a role?

NASA Astrophysics Data System (ADS)

Marcos, Susana; Diaz-Santana, Luis; Llorente, Lourdes; Dainty, Chris

2002-06-01

Ocular aberrations were measured in 71 eyes by using two reflectometric aberrometers, employing laser ray tracing (LRT) (60 eyes) and a Shack-Hartmann wave-front sensor (S-H) (11 eyes). In both techniques a point source is imaged on the retina (through different pupil positions in the LRT or a single position in the S-H). The aberrations are estimated by measuring the deviations of the retinal spot from the reference as the pupil is sampled (in LRT) or the deviations of a wave front as it emerges from the eye by means of a lenslet array (in the S-H). In this paper we studied the effect of different polarization configurations in the aberration measurements, including linearly polarized light and circularly polarized light in the illuminating channel and sampling light in the crossed or parallel orientations. In addition, completely depolarized light in the imaging channel was obtained from retinal lipofuscin autofluorescence. The intensity distribution of the retinal spots as a function of entry (for LRT) or exit pupil (for S-H) depends on the polarization configuration. These intensity patterns show bright corners and a dark area at the pupil center for crossed polarization, an approximately Gaussian distribution for parallel polarization and a homogeneous distribution for the autofluorescence case. However, the measured aberrations are independent of the polarization states. These results indicate that the differences in retardation across the pupil imposed by corneal birefringence do not produce significant phase delays compared with those produced by aberrations, at least within the accuracy of these techniques. In addition, differences in the recorded aerial images due to changes in polarization do not affect the aberration measurements in these reflectometric aberrometers.

Model parameter extraction of lateral propagating surface acoustic waves with coupling on SiO2/grating/LiNbO3 structure

NASA Astrophysics Data System (ADS)

Zhang, Benfeng; Han, Tao; Li, Xinyi; Huang, Yulin; Omori, Tatsuya; Hashimoto, Ken-ya

2018-07-01

This paper investigates how lateral propagation of Rayleigh and shear horizontal (SH) surface acoustic waves (SAWs) changes with rotation angle θ and SiO2 and electrode thicknesses, h SiO2 and h Cu, respectively. The extended thin plate model is used for purpose. First, the extraction method is presented for determining parameters appearing in the extended thin plate model. Then, the model parameters are expressed in polynomials in terms of h SiO2, h Cu, and θ. Finally, a piston mode structure without phase shifters is designed using the extracted parameters. The possible piston mode structures can be searched automatically by use of the polynomial expression. The resonance characteristics are analyzed by both the extended thin plate model and three-dimensional (3D) finite element method (FEM). Agreement between the results of both methods confirms validity and effectiveness of the parameter extraction process and the design technique.

Surface Generated Acoustic Wave Biosensors for the Detection of Pathogens: A Review

PubMed Central

Rocha-Gaso, María-Isabel; March-Iborra, Carmen; Montoya-Baides, Ángel; Arnau-Vives, Antonio

2009-01-01

This review presents a deep insight into the Surface Generated Acoustic Wave (SGAW) technology for biosensing applications, based on more than 40 years of technological and scientific developments. In the last 20 years, SGAWs have been attracting the attention of the biochemical scientific community, due to the fact that some of these devices - Shear Horizontal Surface Acoustic Wave (SH-SAW), Surface Transverse Wave (STW), Love Wave (LW), Flexural Plate Wave (FPW), Shear Horizontal Acoustic Plate Mode (SH-APM) and Layered Guided Acoustic Plate Mode (LG-APM) - have demonstrated a high sensitivity in the detection of biorelevant molecules in liquid media. In addition, complementary efforts to improve the sensing films have been done during these years. All these developments have been made with the aim of achieving, in a future, a highly sensitive, low cost, small size, multi-channel, portable, reliable and commercially established SGAW biosensor. A setup with these features could significantly contribute to future developments in the health, food and environmental industries. The second purpose of this work is to describe the state-of-the-art of SGAW biosensors for the detection of pathogens, being this topic an issue of extremely importance for the human health. Finally, the review discuses the commercial availability, trends and future challenges of the SGAW biosensors for such applications. PMID:22346725

Self-consistent model of the interstellar pickup protons, Alfvenic turbulence, and core solar wind in the outer heliosphere

DOE PAGES

Gamayunov, Konstantin V.; Zhang, Ming; Pogorelov, Nikolai V.; ...

2012-09-05

In this study, a self-consistent model of the interstellar pickup protons, the slab component of the Alfvénic turbulence, and core solar wind (SW) protons is presented for r ≥ 1 along with the initial results of and comparison with the Voyager 2 (V2) observations. Two kinetic equations are used for the pickup proton distribution and Alfvénic power spectral density, and a third equation governs SW temperature including source due to the Alfvén wave energy dissipation. A fraction of the pickup proton free energy, fD , which is actually released in the waveform during isotropization, is taken from the quasi-linear considerationmore » without preexisting turbulence, whereas we use observations to specify the strength of the large-scale driving, C sh, for turbulence. The main conclusions of our study can be summarized as follows. (1) For C sh ≈ 1-1.5 and f D ≈ 0.7-1, the model slab component agrees well with the V2 observations of the total transverse magnetic fluctuations starting from ~8 AU. This indicates that the slab component at low-latitudes makes up a majority of the transverse magnetic fluctuations beyond 8-10 AU. (2) The model core SW temperature agrees well with the V2 observations for r ≳ 20 AU if f D ≈ 0.7-1. (3) A combined effect of the Wentzel-Kramers-Brillouin attenuation, large-scale driving, and pickup proton generated waves results in the energy sink in the region r ≲ 10 AU, while wave energy is pumped in the turbulence beyond 10 AU. Without energy pumping, the nonlinear energy cascade is suppressed for r ≲ 10 AU, supplying only a small energy fraction into the k-region of dissipation by the core SW protons. A similar situation takes place for the two-dimensional turbulence. (4) The energy source due to the resonant Alfvén wave damping by the core SW protons is small at heliocentric distances r ≲ 10 AU for both the slab and the two-dimensional turbulent components. As a result, adiabatic cooling mostly controls the model SW temperature in this region, and the model temperature disagrees with the V2 observations in the region r ≲ 20 AU.« less

Multi-scale mantle structure underneath the Americas from a new tomographic model of seismic shear velocity

NASA Astrophysics Data System (ADS)

Porritt, R. W.; Becker, T. W.; Auer, L.; Boschi, L.

2017-12-01

We present a whole-mantle, variable resolution, shear-wave tomography model based on newly available and existing seismological datasets including regional body-wave delay times and multi-mode Rayleigh and Love wave phase delays. Our body wave dataset includes 160,000 S wave delays used in the DNA13 regional tomographic model focused on the western and central US, 86,000 S and SKS delays measured on stations in western South America (Porritt et al., in prep), and 3,900,000 S+ phases measured by correlation between data observed at stations in the IRIS global networks (IU, II) and stations in the continuous US, against synthetic data generated with IRIS Syngine. The surface wave dataset includes fundamental mode and overtone Rayleigh wave data from Schaeffer and Levedev (2014), ambient noise derived Rayleigh wave and Love wave measurements from Ekstrom (2013), newly computed fundamental mode ambient noise Rayleigh wave phase delays for the continuous US up to July 2017, and other, previously published, measurements. These datasets, along with a data-adaptive parameterization utilized for the SAVANI model (Auer et al., 2014), should allow significantly finer-scale imaging than previous global models, rivaling that of regional-scale approaches, under the USArray footprint in the continuous US, while seamlessly integrating into a global model. We parameterize the model for both vertically (vSV) and horizontally (vSH) polarized shear velocities by accounting for the different sensitivities of the various phases and wave types. The resulting, radially anisotropic model should allow for a range of new geodynamic analysis, including estimates of mantle flow induced topography or seismic anisotropy, without generating artifacts due to edge effects, or requiring assumptions about the structure of the region outside the well resolved model space. Our model shows a number of features, including indications of the effects of edge-driven convection in the Cordillera and along the eastern margin and larger-scale convection due to the subduction of the Farallon slab and along the edge of the Laurentia cratonic margin.

Shear-wave seismic reflection imaging and impedance inversion for a near-surface point-bar

NASA Astrophysics Data System (ADS)

Benton, N. W.; Morrison, M.; Lorenzo, J. M.; Odom, B.; Clift, P. D.; Olson, E.; Gostic, A.

2017-12-01

Imaging and inversion of SH-waves are useful to detect, map, and quantitatively characterize near-surface point-bar strata. We conduct a horizontally-polarized (SH) reflection survey across and along a near-surface (9 - 40 m) downstream point-bar. We invert for shear-impedance profiles and correlate our interpretation to electrical conductivity (EC) logs in adjacent wells to study the internal architecture and lithology of point-bars. We acquire two common-midpoint (CMP) SH-wave seismic reflection lines at False River (Point Coupee Parish, Louisiana). A 104 m long seismic line (L1) is oriented orthogonal (NW - SE) to point-bar strike. A second line (L2) is 48 m long and set parallel to point-bar strike (NE - SW). Two EC wells lie 33 m apart. Both wells are parallel with respect to the L1 survey and offset from it by 15 m. EC log measurements range from 1 - 25 m depth. Interference of Love-waves prevents seismic imaging at depths less than 9 m. The L1 and L2 data sets are inverted for shear-impedance using a model-based band-limited impedance (BLIMP) algorithm that incorporates a low-frequency velocity model. This model is also used for the depthing processing. The L1 cross-section shows coherent dipping reflection events ( 4 - 7º) from 0.15 - 0.35 s (10 - 40 m). The corresponding shear-impedance profile also reveals coherent and dipping impedance contrasts that grow in magnitude with increasing depth. The L2 cross-section shows comparatively less dip ( 1º) as well as sharper and shallower continuity of reflection events (0.1 - 0.28 s TWT or 9 - 25 m). Depth-converted (TVD) seismic amplitudes and impedance values correlate to near-surface point-bar geology via superposition of log data. The first well (W5) shows distinct EC local maxima (+50 - 70 mS/m) at 14.5 and 15.5 m depth that correlate well with the seismic amplitudes and impedance values from both L1 and L2 data sets. The second well (W7) shows comparatively lower local maxima (+40 - 60 mS/m) but at greater depths (15.5 and 16.5 m). W5 correlates better with the seismic cross-section and impedance profile from L2 at 10, 12.5, 14.5, 15.5, and 19 m depth. EC maxima align with distinct shear-impedance values for L1 and L2 profiles. Our results provide a new and useful perspective of remotely analyzing the architecture and lithological properties of near-surface point-bars.

A Method to Retrieve the Multi-Receiver Moho Reflection Response from SH-Wave Scattering Coda in the Radiative Transfer Regime

NASA Astrophysics Data System (ADS)

Hartstra, I.; Wapenaar, C. P. A.

2015-12-01

We discuss a method to retrieve the multi-receiver Moho reflection response by interferometry from SH-wave coda in the 0.5-3 Hz frequency range. An image derived from a reflection response with a well defined virtual source would provide deterministic impedance contrasts, which can complement transmission tomography. For an accurate retrieval, cross-correlation interferometry requires the coda wave field to sample the imaging target and isotropically illuminate the receiver array. When these illumination requirements are not or only partially met, the stationary phase cannot be fully captured and artifacts will contaminate the retrieved reflection response. Here we conduct numerical scalar 2D finite difference simulations to investigate the challenging situation in which only shallow crustal earthquake sources illuminate the Moho and the response is recorded by a 2D linear array. We quantify to what extent the prevalence of scatterers in the crust can improve the illumination conditions and thus the retrieval of the Moho reflection. The accuracy of the retrieved reflection is evaluated for two physically different scattering regimes: the Rayleigh and Mie regime. We only use the earlier part of the scattering coda, because we have found that the later diffusive part does not significantly improve the retrieval. The density of the spherical scatterers is varied in order to change the scattering mean free path. This characteristic length scale is calculated for each model with the 2D radiative transfer equation, which is the governing equation in the earlier part of the scattering coda. The experiment is repeated for models of different geological settings derived from existing S-wave tomographies, which vary in Moho depth and reflectivity. The scattering mean free path can be approximated for real data if intrinsic attenuation is known, because the wavenumber-dependent scattering attenuation of the coherent wave amplitude is dependent on the scattering mean free path. This link makes it possible to determine in which spatial and temporal bandwidth retrieval is most optimal for a specific geological setting.

The January 2001, El Salvador Earthquake: A Multi-data Analysis

NASA Astrophysics Data System (ADS)

Vallee, M.; Bouchon, M.; Schwartz, S. Y.

On January 13, 2001, a large normal intermediate depth event (Mw=7.7) occured 40 km away from the Salvadorian coast (Central America). We analysed this earthquake with different sets of seismic data. Because teleseismic waves are the only data which offer a good azimuthal coverage, we first built a kinematic source model with P, SH and surface waves provided by the IRIS,GEOSCOPE and NCEDC networks. P and SH waves were used through a theoretical Green function approach whereas surface waves were used through an Empirical Green Function (EGF) approach. The ambigu- ity between the 30-dipping plane (plunging toward Pacific Ocean) and the 60-degree dipping plane (plunging toward Central America) lead us to do a parallel analysis of the two possible planes. After having relocated the hypocentral depth to 54 km, we tried to retrieve the kinematic features of the rupture. We allowed variable rupture ve- locity (through a finite difference scheme) and variable slip and solved this inverse problem with a combination of the Neighborhood algorithm of Sambridge (1999) and the Simplex method. We found for both planes an updip and northwest rupture prop- agation yielding a centroid depth around 48km. The teleseismic data give a slight preferrence for the 60-dipping plane. In the second part of the study, we tested the two possible fault models with other seismological data, that are (1) regional broad- band data and (2) near-field accelerometers provided by Universidad Centroameri- cana (UCA). Regional data do not allow to discriminate between the two models but near-field data confirm that the fault plane is the steeper one plunging toward Central America. This event initiated at a depth of about 54km on the 60-dipping plane, and rupture propagated mostly updip and to the northwest, breaking a surface of approx- imately 30km*50km with an average slip of about 3.5 m. The large amount of slip occurs updip from the hypocenter near the plate interface. This is better explained by the bending of the subducting plate rather than by a complete decoupling of the slab.

Impacts of Atmosphere-Ocean Coupling on Southern Hemisphere Climate Change

NASA Technical Reports Server (NTRS)

Li, Feng; Newman, Paul; Pawson, Steven

2013-01-01

Climate in the Southern Hemisphere (SH) has undergone significant changes in recent decades. These changes are closely linked to the shift of the Southern Annular Mode (SAM) towards its positive polarity, which is driven primarily by Antarctic ozone depletion. There is growing evidence that Antarctic ozone depletion has significant impacts on Southern Ocean circulation change. However, it is poorly understood whether and how ocean feedback might impact the SAM and climate change in the SH atmosphere. This outstanding science question is investigated using the Goddard Earth Observing System Coupled Atmosphere-Ocean-Chemistry Climate Model(GEOS-AOCCM).We perform ensemble simulations of the recent past (1960-2010) with and without the interactive ocean. For simulations without the interactive ocean, we use sea surface temperatures and sea ice concentrations produced by the interactive ocean simulations. The differences between these two ensemble simulations quantify the effects of atmosphere-ocean coupling. We will investigate the impacts of atmosphere-ocean coupling on stratospheric processes such as Antarctic ozone depletion and Antarctic polar vortex breakup. We will address whether ocean feedback affects Rossby wave generation in the troposphere and wave propagation into the stratosphere. Another focuson this study is to assess how ocean feedback might affect the tropospheric SAM response to Antarctic ozone depletion

2-dimensional triplicated waveform modeling of the mantle transition zone beneath Northeast Asia

NASA Astrophysics Data System (ADS)

Lai, Y.; Chen, L.; Wang, T.

2017-12-01

The Mantle Transition Zone (MTZ) of Northeast Asia has long been investigated by geoscientists for its critical importance where the subducted Pacific slab is stagnant above the 660km discontinuity, accompanied by complicated mantle processes. Taking advantages of the frequent occurrent deep earthquakes in subduction zone and dense seismic arrays in Northeast China, we successfully constructed the fine-scale P and SH velocity structure of a narrow azimuthal fan area based on 2-Dimensional (2D) triplicated waveform modeling for three deep close earthquakes, in which the triplicated waveforms are very sensitive to MTZ velocity structure in general, particularly the morphology of the stagnant slab in Northeast Asia. In our 2D triplication study, for the first time, we show a quite consistent feature of a high velocity layer for both Vp and Vs with the thickness of 140km and the length of 1200km just atop the 660km discontinuity, the western edge of the stagnant slab intersect with the North-South Gravity Lineament in China and has the subducting age of 30 Ma. Compared with a quite normal Vp, the Shear wave velocity reduction of -0.5% in the slab and -2.5% in the upper MTZ is required to reconcile the SH waves featured by the broad BOD. The high Vp/Vs ratio beneath Northeast Asia may imply a water-rich MTZ with the H2O content of 0.1-0.3 wt%. Particularly, a low velocity anomaly of about 150km wide was detected in the overall high-velocity stagnant slab by both P and SH triplicated waveform modeling, with the velocity anomaly value of -1% and -3%, respectively. The gap/window in the stagnant slab may provide a passage for hot deeper mantle materials to penetrate through the thick slab and feed the surface Changbaishan volcano. We also speculate that the existence of such a gap can be the manifestation of the original heterogeneity in the subducted slab and will further exacerbatethe impending gravitational instability and speed up mantle avalanche.

Phospholipase C and D regulation of Src, calcium release and membrane fusion during Xenopus laevis development

PubMed Central

Stith, Bradley J.

2015-01-01

This review emphasizes how lipids regulate membrane fusion and the proteins involved in three developmental stages: oocyte maturation to the fertilizable egg, fertilization and during first cleavage. Decades of work show that phosphatidic acid (PA) releases intracellular calcium, and recent work shows that the lipid can activate Src tyrosine kinase or phospholipase C during Xenopus fertilization. Numerous reports are summarized to show three levels of increase in lipid second messengers inositol 1,4,5-trisphosphate and sn 1,2-diacylglycerol (DAG) during the three different developmental stages. In addition, possible roles for PA, ceramide, lysophosphatidylcholine, plasmalogens, phosphatidylinositol 4-phosphate, phosphatidylinositol 5-phosphate, phosphatidylinositol 4,5-bisphosphate, membrane microdomains (rafts) and phosphatidylinositol 3,4,5-trisphosphate in regulation of membrane fusion (acrosome reaction, sperm-egg fusion, cortical granule exocytosis), inositol 1,4,5-trisphosphate receptors, and calcium release are discussed. The role of six lipases involved in generating putative lipid second messengers during fertilization is also discussed: phospholipase D, autotaxin, lipin1, sphingomyelinase, phospholipase C, and phospholipase A2. More specifically, proteins involved in developmental events and their regulation through lipid binding to SH3, SH4, PH, PX, or C2 protein domains is emphasized. New models are presented for PA activation of Src (through SH3, SH4 and a unique domain), that this may be why the SH2 domain of PLCγ is not required for Xenopus fertilization, PA activation of phospholipase C, a role for PA during the calcium wave after fertilization, and that calcium/calmodulin may be responsible for the loss of Src from rafts after fertilization. Also discussed is that the large DAG increase during fertilization derives from phospholipase D production of PA and lipin dephosphorylation to DAG. PMID:25748412

The Association of Myosin IB with Actin Waves in Dictyostelium Requires Both the Plasma Membrane-Binding Site and Actin-Binding Region in the Myosin Tail

PubMed Central

Brzeska, Hanna; Pridham, Kevin; Chery, Godefroy; Titus, Margaret A.; Korn, Edward D.

2014-01-01

F-actin structures and their distribution are important determinants of the dynamic shapes and functions of eukaryotic cells. Actin waves are F-actin formations that move along the ventral cell membrane driven by actin polymerization. Dictyostelium myosin IB is associated with actin waves but its role in the wave is unknown. Myosin IB is a monomeric, non-filamentous myosin with a globular head that binds to F-actin and has motor activity, and a non-helical tail comprising a basic region, a glycine-proline-glutamine-rich region and an SH3-domain. The basic region binds to acidic phospholipids in the plasma membrane through a short basic-hydrophobic site and the Gly-Pro-Gln region binds F-actin. In the current work we found that both the basic-hydrophobic site in the basic region and the Gly-Pro-Gln region of the tail are required for the association of myosin IB with actin waves. This is the first evidence that the Gly-Pro-Gln region is required for localization of myosin IB to a specific actin structure in situ. The head is not required for myosin IB association with actin waves but binding of the head to F-actin strengthens the association of myosin IB with waves and stabilizes waves. Neither the SH3-domain nor motor activity is required for association of myosin IB with actin waves. We conclude that myosin IB contributes to anchoring actin waves to the plasma membranes by binding of the basic-hydrophobic site to acidic phospholipids in the plasma membrane and binding of the Gly-Pro-Gln region to F-actin in the wave. PMID:24747353

Mapping the upper mantle beneath North American continent with joint inversion of surface-wave phase and amplitude

NASA Astrophysics Data System (ADS)

Yoshizawa, K.; Hamada, K.

2017-12-01

A new 3-D S-wave model of the North American upper mantle is constructed from a large number of inter-station phase and amplitude measurements of surface waves. A fully nonlinear waveform fitting method by Hamada and Yoshizawa (2015, GJI) is applied to USArray for measuring inter-station phase speeds and amplitude ratios of the fundamental-mode Rayleigh and Love waves. We employed the seismic events from 2007 - 2014 with Mw 6.0 or greater, and collected a large-number of inter-station phase speed data (about 130,000 for Rayleigh and 85,000 for Love waves) and amplitude ratio data (about 75,000 for Rayleigh waves) in a period range from 30 to 130 s for fundamental-mode surface waves. Typical inter-station distances are mostly in a range between 300 and 800 km, which can be of help in enhancing the lateral resolution of a regional tomography model. We first invert Rayleigh-wave phase speeds and amplitudes simultaneously for phase speed maps as well as local amplification factors at receiver locations. The isotropic 3-D S-wave model constructed from these phase speed maps incorporating both phase and amplitude data exhibits better recovery of the strength of velocity perturbations. In particular, local tectonic features characterized by strong velocity gradients, such as Rio Grande Rift, Colorado Plateau and New Madrid Seismic Zone, are more enhanced than conventional models derived from phase information only. The results indicate that surface-wave amplitude, which is sensitive to the second derivative of phase speeds, can be of great help in retrieving small-scale heterogeneity in the upper mantle. We also obtain a radial anisotropy model from the simultaneous inversions of Rayleigh and Love waves (without amplitude information). The model has shown faster SH wave speed anomalies than SV above the depth of 100 km, particularly in tectonically active regions in the western and central U.S., representing the effects of current and former tectonic processes on anisotropic properties in the continental lithosphere.

Exacerbated experimental autoimmune encephalomyelitis in mast-cell-deficient Kit W-sh/W-sh mice.

PubMed

Piconese, Silvia; Costanza, Massimo; Musio, Silvia; Tripodo, Claudio; Poliani, Pietro L; Gri, Giorgia; Burocchi, Alessia; Pittoni, Paola; Gorzanelli, Andrea; Colombo, Mario P; Pedotti, Rosetta

2011-04-01

Mast cell (MC)-deficient c-Kit mutant Kit(W/W-v) mice are protected against experimental autoimmune encephalomyelitis (EAE), an animal model of multiple sclerosis, suggesting a detrimental role for MCs in this disease. To further investigate the role of MCs in EAE, we took advantage of a recently characterized model of MC deficiency, Kit(W-sh/W-sh). Surprisingly, we observed that myelin oligodendrocyte glycoprotein (MOG)(35-55)-induced chronic EAE was exacerbated in Kit(W-sh/W-sh) compared with Kit(+/+) mice. Kit(W-sh/W-sh) mice showed more inflammatory foci in the central nervous system (CNS) and increased T-cell response against myelin. To understand whether the discrepant results obtained in Kit(W-sh/W-sh) and in Kit(W/W-v) mice were because of the different immunization protocols, we induced EAE in these two strains with varying doses of MOG(35-55) and adjuvants. Although Kit(W-sh/W-sh) mice exhibited exacerbated EAE under all immunization protocols, Kit(W/W-v) mice were protected from EAE only when immunized with high, but not low, doses of antigen and adjuvants. Kit(W-sh/W-sh) mice reconstituted systemically, but not in the CNS, with bone marrow-derived MCs still developed exacerbated EAE, indicating that protection from disease could be exerted by MCs mainly in the CNS, and/or by other cells possibly dysregulated in Kit(W-sh/W-sh) mice. In summary, these data suggest to reconsider MC contribution to EAE, taking into account the variables of using different experimental models and immunization protocols.

The seasonal march of the equatorial Pacific upper-ocean and its El Niño variability

NASA Astrophysics Data System (ADS)

Gasparin, Florent; Roemmich, Dean

2017-08-01

Based on two modern data sets, the climatological seasonal march of the upper-ocean is examined in the equatorial Pacific for the period 2004-2014, because of its large contribution to the total variance, its relationship to El Niño, and its unique equatorial wave phenomena. Argo provides a broadscale view of the equatorial Pacific upper-ocean based on subsurface temperature and salinity measurements for the period 2004-2015, and satellite altimetry provides synoptic observations of the sea surface height (SSH) for the period 1993-2015. Using either 11-year (1993-2003/2004-2014) time-series for averaging, the seasonal Rossby waves stands out clearly and eastward intraseasonal Kelvin wave propagation is strong enough in individual years to leave residuals in the 11-year averages, particularly but not exclusively, during El Niño onset years. The agreement of altimetric SSH minus Argo steric height (SH) residuals with GRACE ocean mass estimates confirms the scale-matching of in situ variability with that of satellite observations. Surface layer and subsurface thermohaline variations are both important in determining SH and SSH basin-wide patterns. The SH/SSH October-November maximum in the central-eastern Pacific is primarily due to a downward deflection of the thermocline (∼20 m), causing a warm subsurface anomaly (>1 °C), in response to the phasing of downwelling intraseasonal Kelvin and seasonal Rossby waves. Compared with the climatology, the stronger October-November maximum in the 2004-2014 El Niño composites is due to higher intraseasonal oscillations and interannual variability. Associated with these equatorial wave patterns along the thermocline, the western warm/fresh pool waters move zonally at interannual timescales through zonal wind stress and pressure gradient fluctuations, and cause substantial fresh (up to 0.6 psu) and warm (∼1 °C higher than the climatology) anomalies in the western-central Pacific surface-layer during the El Niño onset year, and of the opposite sign during the termination year. These El Niño-related patterns are then analyzed focusing on the case of the onset of the strong 2015/2016 episode, and are seen to be around two times larger than that in the 2004-2014 El Niño composites. The present work exploits the capabilities of Argo and altimetry to update and improve the description of the physical state of the equatorial Pacific upper-ocean, and provides a benchmark for assessing the accuracy of models in representing equatorial Pacific variability.

Wave Propagation in Discontinuous Media by the Scattering Matrix Method

NASA Astrophysics Data System (ADS)

Perino, A.; Orta, R.; Barla, G.

2012-09-01

Propagation of elastic waves in discontinuous media is studied in this paper by the scattering matrix method (SMM). An electromagnetic transmission line analogy is also used to set up the mathematical model. The SMM operates in the frequency domain and allows for all wave polarizations (P, SV and SH). Rock masses are examples of discontinuous media in which the discontinuities (fractures or joints) influence wave propagation. Both elastic and viscoelastic joints are considered and the latter are described by Kelvin-Voigt, Maxwell and Burgers models. Rock joints with Coulomb slip behavior are also analyzed, by applying the averaging principle of Caughy (J Appl Mech 27:640-643, 1960). The evaluation of the effects of periodic discontinuities in a homogeneous medium is presented by introducing the concept of Bloch waves. The dispersion curves of these waves are useful to explain the existence of frequency bands of strong attenuation, also in the case of lossless (perfectly elastic) structures. Simple expressions of transmission and reflection coefficients are obtained. Finally, the SMM results are compared with those computed via the distinct element method (DEM). The comparisons are performed on a medium with joints with Coulomb slip behavior and the agreement is satisfactory, although the SMM must be applied in conjunction with the equivalent linearization technique. Even if the DEM is much more general, the SMM in these simple cases is extremely faster and provides a higher physical insight.

Modeling and validating HL7 FHIR profiles using semantic web Shape Expressions (ShEx).

PubMed

Solbrig, Harold R; Prud'hommeaux, Eric; Grieve, Grahame; McKenzie, Lloyd; Mandel, Joshua C; Sharma, Deepak K; Jiang, Guoqian

2017-03-01

HL7 Fast Healthcare Interoperability Resources (FHIR) is an emerging open standard for the exchange of electronic healthcare information. FHIR resources are defined in a specialized modeling language. FHIR instances can currently be represented in either XML or JSON. The FHIR and Semantic Web communities are developing a third FHIR instance representation format in Resource Description Framework (RDF). Shape Expressions (ShEx), a formal RDF data constraint language, is a candidate for describing and validating the FHIR RDF representation. Create a FHIR to ShEx model transformation and assess its ability to describe and validate FHIR RDF data. We created the methods and tools that generate the ShEx schemas modeling the FHIR to RDF specification being developed by HL7 ITS/W3C RDF Task Force, and evaluated the applicability of ShEx in the description and validation of FHIR to RDF transformations. The ShEx models contributed significantly to workgroup consensus. Algorithmic transformations from the FHIR model to ShEx schemas and FHIR example data to RDF transformations were incorporated into the FHIR build process. ShEx schemas representing 109 FHIR resources were used to validate 511 FHIR RDF data examples from the Standards for Trial Use (STU 3) Ballot version. We were able to uncover unresolved issues in the FHIR to RDF specification and detect 10 types of errors and root causes in the actual implementation. The FHIR ShEx representations have been included in the official FHIR web pages for the STU 3 Ballot version since September 2016. ShEx can be used to define and validate the syntax of a FHIR resource, which is complementary to the use of RDF Schema (RDFS) and Web Ontology Language (OWL) for semantic validation. ShEx proved useful for describing a standard model of FHIR RDF data. The combination of a formal model and a succinct format enabled comprehensive review and automated validation. Copyright © 2017 Elsevier Inc. All rights reserved.

Formation and propagation of Love waves in a surface layer with a P-wave source. Technical report

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

Florence, A.L.; Miller, S.A.

The objective of this research is to investigate experimentally, and support with theoretical calculations, the formation and propagation of Love waves from a P-wave source due to scattering at material heterogeneities. The P-wave source is a spherical piezoelectric crystal cast in a surface layer of rock simulant overlaying a higher impedance granite substrate. Excitation of the piezoelectric crystal with a known voltage applies a spherical compressional pulse of known amplitude to the surrounding medium. Lateral heterogeneities cast in the surface layer convert incident P-wave energy into shear waves. The horizontally polarized shear waves (SH waves) trapped in the surface layermore » wave guide are the Love waves we will measure at the surface.« less

Influence of the May Southern annular mode on the South China Sea summer monsoon

NASA Astrophysics Data System (ADS)

Liu, Ting; Li, Jianping; Li, YanJie; Zhao, Sen; Zheng, Fei; Zheng, Jiayu; Yao, Zhixiong

2017-07-01

The possible impact of the May Southern Hemisphere (SH) annular mode (SAM) on the following South China Sea (SCS) summer monsoon (SCSSM) is examined. A close inverse relationship between the two is revealed in the observations. The simultaneous South Pacific dipole (SPD), a dipole-like sea surface temperature anomaly pattern in the South Pacific, acts as the "oceanic bridge" to preserve the May SAM signal and prolong it into June-September. Observational evidence and numerical simulations both demonstrate that the SPD communicates its large thermal inertia signal to the atmosphere, regulating the Southern Pacific Subtropical Jet (SPSJ) variability over eastern Australia. Corresponding to the adjustment of circulation associated with the SPSJ is a prominent tripolar cross-Pacific teleconnection pattern stretching from the SH middle-high latitudes into the NH East Asia coastal region, referred to as the South-North Pacific (SNP) teleconnection pattern. Wave ray tracing analysis manifests that the SNP acts as the "atmospheric bridge" to propagate the related wave energy across the equator and into the Maritime Continent and SCS monsoon region, modulating the vertical motion and middle-lower tropospheric flows, and favoring the out-of-phase variation of the SCSSM. Therefore, the "coupled oceanic-atmospheric bridge" process and the related Rossby wave energy transmission are possible mechanisms for the significant influence of the May SAM on the variability of the following SCSSM. Therefore, the May SAM provides a fresh insight into the prediction of the SCSSM from the perspective of the SH high latitudes.

The Olmsted fault zone, southernmost Illinois: A key to understanding seismic hazard in the northern new Madrid seismic zone

USGS Publications Warehouse

Bexfield, C.E.; McBride, J.H.; Pugin, Andre J.M.; Nelson, W.J.; Larson, T.H.; Sargent, S.L.

2005-01-01

Geological deformation in the northern New Madrid seismic zone, near Olmsted, Illinois (USA), is analyzed using integrated compressional-wave (P) and horizontally polarized-wave (SH) seismic reflection and regional and dedicated borehole information. Seismic hazards are of special concern because of strategic facilities (e.g., lock and dam sites and chemical plants on the Ohio River near its confluence with the Mississippi River) and because of alluvial soils subject to high amplification of earthquake shock. We use an integrated approach starting with lower resolution, but deeper penetration, P-wave reflection profiles to identify displacement of Paleozoic bedrock. Higher resolution, but shallower penetration, SH-wave images show deformation that has propagated upward from bedrock faults into Pleistocene loess. We have mapped an intricate zone more than 8 km wide of high-angle faults in Mississippi embayment sediments localized over Paleozoic bedrock faults that trend north to northeast, parallel to the Ohio River. These faults align with the pattern of epicenters in the New Madrid seismic zone. Normal and reverse offsets along with positive flower structures imply a component of strike-slip; the current stress regime favors right-lateral slip on northeast-trending faults. The largest fault, the Olmsted fault, underwent principal displacement near the end of the Cretaceous Period 65 to 70 million years ago. Strata of this age (dated via fossil pollen) thicken greatly on the downthrown side of the Olmsted fault into a locally subsiding basin. Small offsets of Tertiary and Quaternary strata are evident on high-resolution SH-wave seismic profiles. Our results imply recent reactivation and possible future seismic activity in a critical area of the New Madrid seismic zone. This integrated approach provides a strategy for evaluating shallow seismic hazard-related targets for engineering concerns. ?? 2005 Elsevier B.V. All rights reserved.

Perturbations of the seismic reflectivity of a fluid-saturated depth-dependent poroelastic medium.

PubMed

de Barros, Louis; Dietrich, Michel

2008-03-01

Analytical formulas are derived to compute the first-order effects produced by plane inhomogeneities on the point source seismic response of a fluid-filled stratified porous medium. The derivation is achieved by a perturbation analysis of the poroelastic wave equations in the plane-wave domain using the Born approximation. This approach yields the Frechet derivatives of the P-SV- and SH-wave responses in terms of the Green's functions of the unperturbed medium. The accuracy and stability of the derived operators are checked by comparing, in the time-distance domain, differential seismograms computed from these analytical expressions with complete solutions obtained by introducing discrete perturbations into the model properties. For vertical and horizontal point forces, it is found that the Frechet derivative approach is remarkably accurate for small and localized perturbations of the medium properties which are consistent with the Born approximation requirements. Furthermore, the first-order formulation appears to be stable at all source-receiver offsets. The porosity, consolidation parameter, solid density, and mineral shear modulus emerge as the most sensitive parameters in forward and inverse modeling problems. Finally, the amplitude-versus-angle response of a thin layer shows strong coupling effects between several model parameters.

OpenSWPC: an open-source integrated parallel simulation code for modeling seismic wave propagation in 3D heterogeneous viscoelastic media

NASA Astrophysics Data System (ADS)

Maeda, Takuto; Takemura, Shunsuke; Furumura, Takashi

2017-07-01

We have developed an open-source software package, Open-source Seismic Wave Propagation Code (OpenSWPC), for parallel numerical simulations of seismic wave propagation in 3D and 2D (P-SV and SH) viscoelastic media based on the finite difference method in local-to-regional scales. This code is equipped with a frequency-independent attenuation model based on the generalized Zener body and an efficient perfectly matched layer for absorbing boundary condition. A hybrid-style programming using OpenMP and the Message Passing Interface (MPI) is adopted for efficient parallel computation. OpenSWPC has wide applicability for seismological studies and great portability to allowing excellent performance from PC clusters to supercomputers. Without modifying the code, users can conduct seismic wave propagation simulations using their own velocity structure models and the necessary source representations by specifying them in an input parameter file. The code has various modes for different types of velocity structure model input and different source representations such as single force, moment tensor and plane-wave incidence, which can easily be selected via the input parameters. Widely used binary data formats, the Network Common Data Form (NetCDF) and the Seismic Analysis Code (SAC) are adopted for the input of the heterogeneous structure model and the outputs of the simulation results, so users can easily handle the input/output datasets. All codes are written in Fortran 2003 and are available with detailed documents in a public repository.[Figure not available: see fulltext.

North Atlantic Origin of Interdecadal variability of Siberian High

NASA Astrophysics Data System (ADS)

Kim, Seon-Hwa; Sung, Mi-Kyung; Kim, Baek-Min

2017-04-01

We suggest that the changes in the mean atmospheric circulation structure in the North Atlantic Ocean upstream region of Eurasian continent play an important role in the interdecadal variability of Siberian High (SH) through the modulation of Ural blocking frequency. Previous studies suggested that the interdecadal variability of SH is partly explained by the Arctic Oscillation. However, in this study, we emphasize the role of 'Warm Arctic and Cold Eurasia (WACE)', which is the second mode of winter surface air temperature variability over Eurasia. We show that the correlation between SH and WACE is high in general compared to that between SH and AO. However, the correlation between SH and WACE does not always exhibit high constant value. It shows a distinctive interdecadal fluctuation in the correlation. We found that this fluctuation in the correlation is due to the interdecadal fluctuation of the continental trough over the North Atlantic and the resultant strengthening of in-situ atmospheric baroclinicity. This accompanies changes in the transient vorticity flux divergence which leads to the downstream wave development and anomalous anticyclonic flow near Ural region. Obviously, the existence of anticyclonic flow over Ural region helps more frequent occurrence of Ural blocking and it is shown that this condition favors positive WACE event, which links to an intensified SH.

Evaluation of the tropospheric flows to a major Southern Hemisphere stratospheric warming event using NCEP/NCAR Reanalysis data with a PSU/NCAR nudging MM5V3 model

NASA Astrophysics Data System (ADS)

Wang, K.

2008-04-01

Previous studies of the exceptional 2002 Southern Hemisphere (SH) stratospheric warming event lead to some uncertainty, namely the question of whether excessive heat fluxes in the upper troposphere and lower stratosphere are a symptom or cause of the 2002 SH warming event. In this work, we use a hemispheric version of the MM5 model with nudging capability and we devised a novel approach to separately test the significance of the stratosphere and troposphere for this year. We paired the flow conditions from 2002 in the stratosphere and troposphere, respectively, against the conditions in 1998 (a year with displaced polar vortex) and in 1948 (a year with strong polar vortex that coincided with the geographical South Pole). Our experiments show that the flow conditions from below determine the stratospheric flow features over the polar region. Regardless of the initial stratospheric conditions in 1998 or 1948, when we simulated these past stratospheres with the troposphere/lower stratosphere conditions constrained to 2002 levels, the simulated middle stratospheres resemble those observed in 2002 stratosphere over the polar region. On the other hand, when the 2002 stratosphere was integrated with the troposphere/lower stratosphere conductions constrained to 1948 and 1998, respectively, the simulated middle stratospheric conditions over the polar region shift toward those of 1948 and 1998. Thus, our experiments further support the wave-forcing theory as the cause of the 2002 SH warming event.

Cold collisions of SH- with He: Potential energy surface and rate coefficients

NASA Astrophysics Data System (ADS)

Bop, C. T.; Trabelsi, T.; Hammami, K.; Mogren Al Mogren, M.; Lique, F.; Hochlaf, M.

2017-09-01

Collisional energy transfer under cold conditions is of great importance from the fundamental and applicative point of view. Here, we investigate low temperature collisions of the SH- anion with He. We have generated a three-dimensional potential energy surface (PES) for the SH-(X1Σ+)-He(1S) van der Waals complex. The ab initio multi-dimensional interaction PES was computed using the explicitly correlated coupled cluster approach with simple, double, and perturbative triple excitation in conjunction with the augmented-correlation consistent-polarized valence triple zeta Gaussian basis set. The PES presents two minima located at linear geometries. Then, the PES was averaged over the ground vibrational wave function of the SH- molecule and the resulting two-dimensional PES was incorporated into exact quantum mechanical close coupling calculations to study the collisional excitation of SH- by He. We have computed inelastic cross sections among the 11 first rotational levels of SH- for energies up to 2500 cm-1. (De-)excitation rate coefficients were deduced for temperatures ranging from 1 to 300 K by thermally averaging the cross sections. We also performed calculations using the new PES for a fixed internuclear SH- distance. Both sets of results were found to be in reasonable agreement despite differences existing at low temperatures confirming that accurate predictions require the consideration of all internal degrees of freedom in the case of molecular hydrides. The rate coefficients presented here may be useful in interpreting future experimental work on the SH- negative ion colliding with He as those recently done for the OH--He collisional system as well as for possible astrophysical applications in case SH- would be detected in the interstellar medium.

Simulation Model for DVB-SH Systems Based on OFDM for Analyzing Quasi-error-free Communication over Different Channel Models

NASA Astrophysics Data System (ADS)

Bačić, Iva; Malarić, Krešimir; Dumić, Emil

2014-05-01

Mobile users today expect wide range of multimedia services to be available in different mobility scenarios, and among the others is mobile TV service. The Digital Video Broadcasting - Satellite services to Handheld (DVB-SH) is designed to provide mobile TV services, supporting a wide range of mobile multimedia services, like audio and data broadcasting as well as file downloading services. In this paper we present our simulation model for the performance evaluation of the DVB-SH system following the ETSI standard EN 302 583. Simulation model includes complete DVB-SH system, supporting all standardized system modes and parameters. From transmitter to receiver, the information may be sent over different channel models, thus simulating real case scenarios. To the best of authors' knowledge, this is the first complete model of DVB-SH system that includes all standardized system parameters and may be used for examining real DVB-SH communication as well as for educational purposes.

Plant distributions in the southwestern United States; a scenario assessment of the modern-day and future distribution ranges of 166 Species

USGS Publications Warehouse

Thomas, Kathryn A.; Guertin, Patricia P.; Gass, Leila

2012-01-01

The authors developed spatial models of the predicted modern-day suitable habitat (SH) of 166 dominant and indicator plant species of the southwestern United States (herein referred to as the Southwest) and then conducted a coarse assessment of potential future changes in the distribution of their suitable habitat under three climate-change scenarios for two time periods. We used Maxent-based spatial modeling to predict the modern-day and future scenarios of SH for each species in an over 342-million-acre area encompassing all or parts of six states in the Southwest--Arizona, California, Colorado, Nevada, New Mexico, and Utah. Modern-day SH models were predicted by our using 26 annual and monthly average temperature and precipitation variables, averaged for the years 1971-2000. Future SH models were predicted for each species by our using six climate models based on application of the average of 16 General Circulation Models to Intergovernmental Panel on Climate Change emission scenarios B1, A1B, and A2 for two time periods, 2040 to 2069 and 2070 and 2100, referred to respectively as the 2050 and 2100 time periods. The assessment examined each species' vulnerability to loss of modern-day SH under future climate scenarios, potential to gain SH under future climate scenarios, and each species' estimated risk as a function of both vulnerability and potential gains. All 166 species were predicted to lose modern-day SH in the future climate change scenarios. In the 2050 time period, nearly 30 percent of the species lost 75 percent or more of their modern-day suitable habitat, 21 species gained more new SH than their modern-day SH, and 30 species gained less new SH than 25 percent of their modern-day SH. In the 2100 time period, nearly half of the species lost 75 percent or more of their modern-day SH, 28 species gained more new SH than their modern-day SH, and 34 gained less new SH than 25 percent of their modern-day SH. Using nine risk categories we found only two species were in the least risk category, while 20 species were in the highest risk category. The assessment showed that species respond independently to predicted climate change, suggesting that current plant assemblages may disassemble under predicted climate change scenarios. This report presents the results for each species in tables (Appendix A) and maps (14 for each species) in Appendix B.

Novel Shear-horizontal Surface Acoustic Wave Based Immunosensors Using SiO2Waveguiding Layers And Flow Injection Analysis.

PubMed

Guo, X S; Chen, Y Q; Yang, X L; Wang, L R

2005-01-01

Surface acoustic wave (SAW) devices based on shear-horizontal (SH) waves can be used as mass-sensitive immunosensors. This paper presents a novel SH-SAW sensor to detect anti-immunoglobulin (IgG) molecules by means of the antibody-antigen binding mechanism. The sensor system comprising dual delay lines was fabricated on 36° Y-X LiTaO3substrate. A SiO2layer was used as love mode waveguiding layers, well as insulating and chemically resistant protective layer. Moreover, flow injection analysis (FIA) method was used for continuous detection the protein molecules. The protein A was immobilized on the optional surface of the gold layer, then coupled with IgG to adsorb the antigens to be measured in the protein solution. The operational frequency of the system changed due to the interaction of antibody-antigen binding. The experimental result demonstrates the sensor has stable frequency response to the mass loading effect of the various anti-IgG concentrations with the sensitivity up to 3.3ng/ml/Hz.

Exploring Sources of Uncertainties in Global Radial Anisotropy Models

NASA Astrophysics Data System (ADS)

Xing, Z.; Beghein, C.; Yuan, K.

2013-12-01

We investigate sources of uncertainties in radial anisotropy models with a focus on the transition zone (TZ). Radial anisotropy describes the velocity difference between horizontally (SH) and vertically (SV) polarized shear waves. Its presence in the top 200 km of the mantle is well documented and thought of as an indicator of deformation by dislocation creep due to mantle shear. There is however no consensus regarding its presence at larger depths, which affects our understanding of deep upper mantle deformation. Several of the models that display radial anisotropy in the TZ are characterized by SH waves faster than SV waves (VSH>VSV) at these depths. Model VTLK08 (Visser et al., 2008) is however characterized by VSV>VSH in the TZ. The first part of this study aims at determining the origin of this discrepancy and the robustness of the VSV>VSH TZ signal in VTLK08. We used the global phase velocity maps of Visser et al (2008) for fundamental and higher mode Love and Rayleigh waves, which provide sensitivity to structure well below the TZ. We first tested the effect of imposing prior crustal corrections instead of inverting for the Moho depth as in VTLK08. We applied non-linear crustal corrections to the data on a 5 by 5 degree grid using CRUST2.0, and calculated laterally varying sensitivity kernels to account for the effect of the crust on the partial derivatives. We employed a depth parametrization in terms of cubic splines of varying depth spacing defined between the local Moho and 1400 km depth. We applied similar prior relationships between P- and S-wave elastic parameters as in VTLK08, and solved the problem using both a traditional inversion method and the same Neighbourhod Algorithm (NA) forward modeling approach as in VTLK08. The first stage of the NA enables us to randomly sample the model space, including the null space. The second stage describes each model parameter with probability density functions, thereby providing quantitative model uncertainties. Our preliminary results show that the TZ signal in VTLK08 is not strongly dependent on crustal corrections or on the inversion method employed. In both cases, we obtained average anisotropy and velocity profiles consistent with VTLK08, with 2% VSV>VSH anisotropy in the TZ for the best fitting model obtained with NA. The 3-D anisotropy anomalies are in agreement with VTLK08 at most depths. However the models differ in the TZ under the central Pacific where we found a positive anisotropy signal that does not appear in VTLK08. With the model uncertainties provided by the second stage of the NA, we will be able to determine whether the significance of this positive signal. The next phase of our work will consist in analyzing the effect of assuming that P- and S-wave anisotropies are proportional, an assumption often made to deal with model non-uniqueness. These prior constraints do not strongly affect the most likely model in the uppermost 200km of the mantle (Beghein, 2010) but they may affect mantle models at greater depths. The use of the NA will enable us to determine whether the introduction of such prior significantly affects the range of models compatible with the data, which in turn will enable us to determine whether the TZ signal of VTLK08 is well constrained by the data.

Silencing Intersectin 1 Slows Orthotopic Neuroblastoma Growth in Mice.

PubMed

Harris, Jamie; Herrero-Garcia, Erika; Russo, Angela; Kajdacsy-Balla, Andre; O'Bryan, John P; Chiu, Bill

2017-11-01

Neuroblastoma accounts for 15% of all pediatric cancer deaths. Intersectin 1 (ITSN1), a scaffold protein involved in phosphoinositide 3-kinase (PI3K) signaling, regulates neuroblastoma cells independent of MYCN status. We hypothesize that by silencing ITSN1 in neuroblastoma cells, tumor growth will be decreased in an orthotopic mouse tumor model. SK-N-AS neuroblastoma cells transfected with empty vector (pSR), vectors expressing scrambled shRNA (pSCR), or shRNAs targeting ITSN1 (sh#1 and sh#2) were used to create orthotopic neuroblastoma tumors in mice. Volume was monitored weekly with ultrasound. End-point was tumor volume >1000 mm. Tumor cell lysates were analyzed with anti-ITSN1 antibody by Western blot. Orthotopic tumors were created in all cell lines. Twenty-five days post injection, pSR tumor size was 917.6±247.7 mm, pSCR was 1180±159.9 mm, sh#1 was 526.3±212.8 mm, and sh#2 was 589.2±74.91 mm. sh#1-tumors and sh#2-tumors were smaller than pSCR (P=0.02), no difference between sh#1 and sh#2. Survival was superior in sh#2-tumors (P=0.02), trended towards improved survival in sh#1-tumors (P=0.09), compared with pSCR-tumors, no difference in pSR tumors. Western blot showed decreased ITSN1 expression in sh#1 and sh#2 compared with pSR and pSCR. Silencing ITSN1 in neuroblastoma cells led to decreased tumor growth in an orthotopic mouse model. Orthotopic animal models can provide insight into the role of ITSN1 pathways in neuroblastoma tumorigenesis.

Improving the accurate assessment of a layered shear-wave velocity model using joint inversion of the effective Rayleigh wave and Love wave dispersion curves

NASA Astrophysics Data System (ADS)

Yin, X.; Xia, J.; Xu, H.

2016-12-01

Rayleigh and Love waves are two types of surface waves that travel along a free surface.Based on the assumption of horizontal layered homogenous media, Rayleigh-wave phase velocity can be defined as a function of frequency and four groups of earth parameters: P-wave velocity, SV-wave velocity, density and thickness of each layer. Unlike Rayleigh waves, Love-wave phase velocities of a layered homogenous earth model could be calculated using frequency and three groups of earth properties: SH-wave velocity, density, and thickness of each layer. Because the dispersion of Love waves is independent of P-wave velocities, Love-wave dispersion curves are much simpler than Rayleigh wave. The research of joint inversion methods of Rayleigh and Love dispersion curves is necessary. (1) This dissertation adopts the combinations of theoretical analysis and practical applications. In both lateral homogenous media and radial anisotropic media, joint inversion approaches of Rayleigh and Love waves are proposed to improve the accuracy of S-wave velocities.A 10% random white noise and a 20% random white noise are added to the synthetic dispersion curves to check out anti-noise ability of the proposed joint inversion method.Considering the influences of the anomalous layer, Rayleigh and Love waves are insensitive to those layers beneath the high-velocity layer or low-velocity layer and the high-velocity layer itself. Low sensitivities will give rise to high degree of uncertainties of the inverted S-wave velocities of these layers. Considering that sensitivity peaks of Rayleigh and Love waves separate at different frequency ranges, the theoretical analyses have demonstrated that joint inversion of these two types of waves would probably ameliorate the inverted model.The lack of surface-wave (Rayleigh or Love waves) dispersion data may lead to inaccuracy S-wave velocities through the single inversion of Rayleigh or Love waves, so this dissertation presents the joint inversion method of Rayleigh and Love waves which will improve the accuracy of S-wave velocities. Finally, a real-world example is applied to verify the accuracy and stability of the proposed joint inversion method. Keywords: Rayleigh wave; Love wave; Sensitivity analysis; Joint inversion method.

Tyrosine Phosphorylation of the Lyn Src Homology 2 (SH2) Domain Modulates Its Binding Affinity and Specificity*

PubMed Central

Jin, Lily L.; Wybenga-Groot, Leanne E.; Tong, Jiefei; Taylor, Paul; Minden, Mark D.; Trudel, Suzanne; McGlade, C. Jane; Moran, Michael F.

2015-01-01

Src homology 2 (SH2) domains are modular protein structures that bind phosphotyrosine (pY)-containing polypeptides and regulate cellular functions through protein-protein interactions. Proteomics analysis showed that the SH2 domains of Src family kinases are themselves tyrosine phosphorylated in blood system cancers, including acute myeloid leukemia, chronic lymphocytic leukemia, and multiple myeloma. Using the Src family kinase Lyn SH2 domain as a model, we found that phosphorylation at the conserved SH2 domain residue Y194 impacts the affinity and specificity of SH2 domain binding to pY-containing peptides and proteins. Analysis of the Lyn SH2 domain crystal structure supports a model wherein phosphorylation of Y194 on the EF loop modulates the binding pocket that engages amino acid side chains at the pY+2/+3 position. These data indicate another level of regulation wherein SH2-mediated protein-protein interactions are modulated by SH2 kinases and phosphatases. PMID:25587033

Gravity Wave Variances and Propagation Derived from AIRS Radiances

DTIC Science & Technology

2011-04-15

synoptically warm condition and susequently affect ozone depletion (Hamill and Toon, 1991). The importance of gravity waves on climate and weather... troposphere to upper stratosphere can those GWs grow into significant strengths. Locations of high occurrence of convectively generated GWs are also...maximum comes in one month later. A close look at the vertical config- uration of the zonal wind reveals that tropospheric westerlies in the SH high

Q-values for P and S waves in Southern Sinai and Southern Gulf of Suez Region, Egypt

NASA Astrophysics Data System (ADS)

Mohamed, Gad-Elkareem A.

2014-05-01

The quality factor Q has been estimated using spectral amplitudes of P and S waves from earthquakes recorded by the seismic network of the Egyptian National Seismological Network (ENSN) in southern Sinai and southern Gulf of Suez region. The earthquakes recorded at nine stations - DHA, NUB, TR1, TR2, KAT, SH2, GRB, HRG and SFG have been used in this study. The spectral amplitude ratios have been calculated between 2 - 20 Hz and single station spectral ratio method has been applied for this purpose. The results show that the quality factors for both P and S waves (Qp and Qs) increase as a function of frequency according to law the Q = Q0fn. By averaging the estimated Q- Value obtained at all stations we calculated the average attenuation laws: Qp = (13.15± 0.76) f0.95± 0.19 and Qs = (20.05± 0.79) f1.03±0.04 for P and S waves respectively. These relations are useful for the estimation of source parameters of earthquakes and simulation of earthquake strong ground motions. The QS /QP ratio for KAT station is less than 1 at lower frequencies, whereas at HRG and SH2 stations QS /QP ratio is are greater than 1.

Alfvenic turbulence generated by the interstellar pickup protons in the outer heliosphere

DOE PAGES

Gamayunov, K.; Zhang, M.; Pogorelov, N.; ...

2013-06-13

Here a self-consistent model of the interstellar pickup protons, slab component of the Alfvénic turbulence, and core solar wind protons is presented for r ≤ 1 AU along with the initial results and comparison with the Voyager 2 (V2) observations. A fraction of the pickup proton free energy, f D, which is actually released in the wave form during isotropization, is taken from the quasi-linear consideration without preexisting turbulence. Whereas we use observations to specify a strength of the large scale driving, C sh, for turbulence. Our results show that for C sh ≈ 1 - 1.5 and f Dmore » ≈ 0.7 - 1, the model slab component agrees well with the V2 observations of the total transverse magnetic fluctuations starting from ~8 AU. Finally, this finding agrees with the result by Oughton et al. [17] where they also showed that the slab component dominates the two-dimensional component at the heliocentric distances beyond ~ 10 AU. So it is likely that the slab component at low-latitudes makes up a majority of the transverse magnetic fluctuations beyond 8 - 10 AU.« less

Wave Overtopping of a Barrier Beach

DTIC Science & Technology

2009-09-01

but can result in increased dune erosion along Scenic Road as occurred in 1993, 1997, and 2005 (James, 2005). Field data and observations for...factors are equal to 1. The equations for these run-up formulas are parameterized on significant wave height at the toe of the structure as measured in...3 exp C r SS RQ C D HgH γ ⎛ ⎞ = −⎜ ⎟ ⎝ ⎠ 2pξ > where the significant wave height at the toe of the structure, SH and pT are used. Again the

Characteristics of Southern Hemisphere 200 mb flow as determined from satellite data

NASA Technical Reports Server (NTRS)

Adler, R. F.

1976-01-01

Characteristics of Southern Hemisphere 200 mb flow are examined using geopotential height fields constructed with the aid of satellite based thermal structure. Similar Northern Hemisphere, satellite based fields are developed in order to make interhemispheric comparisons. Results indicate that both the zonal and meridional components of the S.H. eddy kinetic energy are as large as their N.H. counterparts. In winter the principal interhemispheric difference with respect to eddy kinetic energy is that the S.H. standing eddies are much less important only to the meridional component. Zonal component standing energy is about equal in the two hemispheres. In summer the S.H. has larger zonal eddy kinetic energy than the N.H. and smaller standing eddy contributions in both components. The meridional spectra show a preference for intermediate size transient waves.

Comprehensive Prediction of Large-height Swell-like Waves in East Coast of Korea

NASA Astrophysics Data System (ADS)

Kwon, S. J.; Lee, C.; Ahn, S. J.; Kim, H. K.

2014-12-01

There have been growing interests in the large-height swell-like wave (LSW) in the east coast of Korea because such big waves have caused human victims as well as damages to facilities such as breakwaters in the coast. The LSW was found to be generated due to an atmospherically great valley in the north area of the East Sea and then propagate long distance to the east coast of Korea in prominently southwest direction (Oh et al., 2010).In this study, we will perform two methods, real-time data based and numerical-model based predictions in order to predict the LSW in the east coast of Korea. First, the real-time data based prediction method uses information which is collected by the directional wave gauge installed near Sokcho. Using the wave model SWAN (Booij et al., 1999) and the wave ray method (Munk and Arthur, 1952), we will estimate wave data in open sea from the real-time data and predict the travel time of LSW from the measurement site (near Sokcho) to several target points in the east coast of Korea. Second, the numerical-model based method uses three different numerical models; WW3 in deep water, SWAN in shallow water, and CADMAS-SURF for wave run-up (CDIT). The surface winds from the 72 hours prediction system of NCEP (National Centers for Environmental Prediction) GFS (Global Forecast System) will be inputted in finer grids after interpolating these in certain domains of WW3 and SWAN models. The significant wave heights and peak wave directions predicted by the two methods will be compared to the measured data of LSW at several target points near the coasts. Further, the prediction method will be improved using more measurement sites which will be installed in the future. ReferencesBooij, N., Ris, R.C., and Holthuijsen, L.H. (1999). A third-generation wave model for coastal regions 1. Model description and validation. J. of Geophysical Research, 103(C4), 7649-7666.Munk, W.H. and Arthur, R.S. (1952). Gravity Waves. 13. Wave Intensity along a Refracted Ray. National Bureau of Standards Circular 521, Washington D.C., 95-108.Oh, S.-H., Jeong, W.-M., Lee, D.Y. and Kim, S.I. (2010). Analysis of the reason for occurrence of large-height swell-like waves in the east coast of Korea. J. of Korean Society of Coastal and Ocean Engineers, 22(2), 101-111 (in Korean).

Tyrosine phosphorylation of the Lyn Src homology 2 (SH2) domain modulates its binding affinity and specificity.

PubMed

Jin, Lily L; Wybenga-Groot, Leanne E; Tong, Jiefei; Taylor, Paul; Minden, Mark D; Trudel, Suzanne; McGlade, C Jane; Moran, Michael F

2015-03-01

Src homology 2 (SH2) domains are modular protein structures that bind phosphotyrosine (pY)-containing polypeptides and regulate cellular functions through protein-protein interactions. Proteomics analysis showed that the SH2 domains of Src family kinases are themselves tyrosine phosphorylated in blood system cancers, including acute myeloid leukemia, chronic lymphocytic leukemia, and multiple myeloma. Using the Src family kinase Lyn SH2 domain as a model, we found that phosphorylation at the conserved SH2 domain residue Y(194) impacts the affinity and specificity of SH2 domain binding to pY-containing peptides and proteins. Analysis of the Lyn SH2 domain crystal structure supports a model wherein phosphorylation of Y(194) on the EF loop modulates the binding pocket that engages amino acid side chains at the pY+2/+3 position. These data indicate another level of regulation wherein SH2-mediated protein-protein interactions are modulated by SH2 kinases and phosphatases. © 2015 by The American Society for Biochemistry and Molecular Biology, Inc.

Anisotropic full waveform ambient noise and earthquake tomography of the Ontong Java Plateau and surrounding Pacific upper mantle

NASA Astrophysics Data System (ADS)

Hirsch, A. C.; Savage, B.; Shen, Y.

2017-12-01

The Ontong Java (OJP) and Manihiki plateau (MP) large igneous provinces (LIP) of the Southwest Pacific took shape from a complicated, but poorly understood geological history. Unraveling the formation and deformation of these Pacific LIPs is not straightforward due to limited available data, remote location, and atypical geology. Origin hypotheses include melting of a plume or a fast-spreading triple junction, but distinguishing between these requires a further understanding of 120 Ma of deformation of each LIP. A previous tomographic model of OJP observed highly abnormal Rayleigh shear wave speeds, >4.75km/s, and attributed these to an unusual composition, garnet and clinopyroxene residual from melting pyroxenite entrained within a rising plume. Unfortunately, this model lacks constraints on the horizontally polarized shear wave speeds, SH or Love waves, anisotropy, and attenuation. We therefore perform a transverse-isotropic, scattering-integral, full-waveform tomography between periods of 25 and 200 seconds utilizing both ambient noise empirical Green's functions and seismic data from regional earthquakes. Our tomographic model improves upon previous work using permanent and temporary seismic stations, increased model space, and utilizing three components of seismic data (vertical, radial, and tangential). Included is also an assessment of the anelastic attenuation in the western Pacific using both surface waves and multiple core reflections. Our results will improve the tomographic resolution around OJP and the Pacific upper mantle between 35 and 300 km depth. This improved model will enhance our understanding of the tectonic history of the OJP and MP regions, and the Pacific Indo-Australian plate boundary.

Seismic Technology Adapted to Analyzing and Developing Geothermal Systems Below Surface-Exposed High-Velocity Rocks Final Report

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

Hardage, Bob A.; DeAngelo, Michael V.; Ermolaeva, Elena

The objective of our research was to develop and demonstrate seismic data-acquisition and data-processing technologies that allow geothermal prospects below high-velocity rock outcrops to be evaluated. To do this, we acquired a 3-component seismic test line across an area of exposed high-velocity rocks in Brewster County, Texas, where there is high heat flow and surface conditions mimic those found at numerous geothermal prospects. Seismic contractors have not succeeded in creating good-quality seismic data in this area for companies who have acquired data for oil and gas exploitation purposes. Our test profile traversed an area where high-velocity rocks and low-velocity sedimentmore » were exposed on the surface in alternating patterns that repeated along the test line. We verified that these surface conditions cause non-ending reverberations of Love waves, Rayleigh waves, and shallow critical refractions to travel across the earth surface between the boundaries of the fast-velocity and slow-velocity material exposed on the surface. These reverberating surface waves form the high level of noise in this area that does not allow reflections from deep interfaces to be seen and utilized. Our data-acquisition method of deploying a box array of closely spaced geophones allowed us to recognize and evaluate these surface-wave noise modes regardless of the azimuth direction to the surface anomaly that backscattered the waves and caused them to return to the test-line profile. With this knowledge of the surface-wave noise, we were able to process these test-line data to create P-P and SH-SH images that were superior to those produced by a skilled seismic data-processing contractor. Compared to the P-P data acquired along the test line, the SH-SH data provided a better detection of faults and could be used to trace these faults upward to the boundaries of exposed surface rocks. We expanded our comparison of the relative value of S-wave and P-wave seismic data for geothermal applications by inserting into this report a small part of the interpretation we have done with 3C3D data across Wister geothermal field in the Imperial Valley of California. This interpretation shows that P-SV data reveal faults (and by inference, also fractures) that cannot be easily, or confidently, seen with P-P data, and that the combination of P-P and P-SV data allows VP/VS velocity ratios to be estimated across a targeted reservoir interval to show where an interval has more sandstone (the preferred reservoir facies). The conclusion reached from this investigation is that S-wave seismic technology can be invaluable to geothermal operators. Thus we developed a strong interest in understanding the direct-S modes produced by vertical-force sources, particularly vertical vibrators, because if it can be demonstrated that direct-S modes produced by vertical-force sources can be used as effectively as the direct-S modes produced by horizontal-force sources, geothermal operators can acquire direct-S data across many more prospect areas than can be done with horizontal-force sources, which presently are limited to horizontal vibrators. We include some of our preliminary work in evaluating direct-S modes produced by vertical-force sources.« less

Characterization of the Vajont landslide (North-Eastern Italy) by means of reflection and surface wave seismics

NASA Astrophysics Data System (ADS)

Petronio, Lorenzo; Boaga, Jacopo; Cassiani, Giorgio

2016-05-01

The mechanisms of the disastrous Vajont rockslide (North-Eastern Italy, October 9, 1963) have been studied in great detail over the past five decades. Nevertheless, the reconstruction of the rockslide dynamics still presents several uncertainties, including those related to the accurate estimation of the actual landslide mass. This work presents the results of a geophysical characterization of the Vajont landslide body in terms of material properties and buried geometry. Both aspects add new information to the existing dataset and will help a better understanding of the rockslide failure mechanisms and dynamics. In addition, some general considerations concerning the intricacies of landslide characterization can be drawn, with due attention to potential pitfalls. The employed techniques are: (i) high resolution P-wave reflection, (ii) high resolution SH-wave reflection, (iii) controlled source surface wave analysis. We adopted as a seismic source a vibrator both for P waves and SH waves, using vertical and horizontal geophones respectively. For the surface wave seismic survey we used a heavy drop-weight source and low frequency receivers. Despite the high noise level caused by the fractured conditions of the large rock body, a common situation in landslide studies, we managed to achieve a satisfying imaging quality of the landslide structure thanks to the large number of active channels, the short receiver interval and the test of appropriate seismic sources. The joint use of different seismic techniques help focus the investigation on the rock mass mechanical properties. Results are in good agreement with the available borehole data, the geological sections and the mechanical properties of the rockmass estimated by other studies. In general the proposed approach is likely to be applicable successfully to similar situations where scattering and other noise sources are a typical bottleneck to geophysical data acquisition on landslide bodies.

Detecting seismic anisotropy across the 410 km discontinuity through polarity and amplitude variations of the underside reflections

NASA Astrophysics Data System (ADS)

Saki, Morvarid; Thomas, Christine; Merkel, Sebastien; Wookey, James

2017-04-01

We investigate the effect of various types of deformation mechanisms on the reflection coefficients of P and S waves underside reflections off the 410 km discontinuity, to find a diagnostic tool to detect the style of deformation at boundary layers. We calculate the reflection coefficient for P and SH underside reflections depending on the variation in velocity perturbations across the 410 km discontinuity for two deformation scenarios, compression and shear for different azimuths and angles of incidence at the interface. The results show that in the case of an anisotropic olivine layer above an isotropic wadsleyite layer, the P wave reflection coefficient amplitudes are only slightly influenced by the joint effect of angle of incidence and the strength of imposed deformation, without any polarity reversal and for all deformation styles. For the SH wave underside reflections a more complicated behaviour is visible: In compressional deformation, a polarity reversal occurs at distances depending on the incidence angle and the intensity of applied deformation without any azimuthal dependency. However, for shear geometry the azimuth to the direction of deformation appears as an important factor which strongly affects the incidence angle at which the polarity reversal of the reflected S wave occurs. These differences in amplitude and polarity patterns of reflection coefficients of different deformation geometries, especially for S wave at shorter distances allow to detect the style of deformation mechanisms at a boundary layer.

Risk factors and outcomes of chronic sexual harassment during the transition to college: Examination of a two-part growth mixture model

PubMed Central

McGinley, Meredith; Wolff, Jennifer M.; Rospenda, Kathleen M.; Liu, Li; Richman, Judith A.

2016-01-01

A two-part latent growth mixture model was implemented in order to examine heterogeneity in the growth of sexual harassment (SH) victimization in college and university students, and the extent to which SH class membership explains substance use and mental health outcomes for certain groups of students. Demographic risk factors, mental health, and substance use were examined as they related to chronically experienced SH victimization. Incoming freshmen students (N = 2855; 58% female; 54% White) completed a survey at five time points. In addition to self-reporting gender, race, and sexual orientation, students completed measures of sexual harassment, anxiety, depression, binge drinking, and marijuana use. Overall, self-reported SH declined upon college entry, although levels rebounded by the third year of college. Results also supported a two-class solution (Infrequent and Chronic) for SH victimization. Being female, White, and a sexual minority were linked to being classified into the Chronic (relative to the Infrequent) SH class. In turn, Chronic SH class membership predicted greater anxiety, depression, and substance use, supporting a mediational model. PMID:27712687

Site-specific Microzonation Study in Delhi Metropolitan City by 2-D Modelling of SH and P-SV Waves

NASA Astrophysics Data System (ADS)

Parvez, Imtiyaz A.; Vaccari, F.; Panza, G. F.

Delhi - the capital of India lies on a severe earthquake hazard threat not only from local earthquakes but also from Himalayan events just 200-250 km apart. The seismic ground motion in a part of Delhi City is computed with a hybrid technique based on the modal summation and the finite-difference scheme for site-specific strong ground motion modelling. Complete realistic SH and #E5/E5#-SV wave seismograms are computed along two geological cross sections, (1) north-south, from Inter State Bus Terminal (ISBT) to Sewanagar and (2) east-west, from Tilak Bridge to Punjabi Bagh. Two real earthquake sources of July 15, 1720 (MMI=IX, M=7.4) and August 27, 1960 (M=6.0) have been used in modelling. The response spectra ratio (RSR), i.e. the response spectra computed from the signals synthesized along the laterally varying section and normalized by the response spectra computed from the corresponding signals, synthesized for the bedrock reference regional model, have been determined. As expected, the sedimentary cover causes an increase of the signal amplitude, particularly in the radial and transverse components. To further check the site-effects, we reversed the source location to the other side of the cross section and recomputed the site amplifications. There are only a few sites where a large amplification is invariant with respect to the two source locations considered. The RSR ranges between 5 to 10 in the frequency range from 2.8 to 3.7 Hz for the radial and transverse components of motion along the NS cross section. Along the EW cross section RSR varies between 3.5 to 7.5 in the frequency range from 3.5 to 4.1 Hz. The amplification of the vertical component is considerable at high frequency (>4 Hz.) whereas it is negligible in lower frequency range.

Systematic characterization of the specificity of the SH2 domains of cytoplasmic tyrosine kinases.

PubMed

Zhao, Bing; Tan, Pauline H; Li, Shawn S C; Pei, Dehua

2013-04-09

Cytoplasmic tyrosine kinases (CTK) generally contain a Src-homology 2 (SH2) domain, whose role in the CTK family is not fully understood. Here we report the determination of the specificity of 25 CTK SH2 domains by screening one-bead-one-compound (OBOC) peptide libraries. Based on the peptide sequences selected by the SH2 domains, we built Support Vector Machine (SVM) models for the prediction of binding ligands for the SH2 domains. These models yielded support for the progressive phosphorylation model for CTKs in which the overlapping specificity of the CTK SH2 and kinase domains has been proposed to facilitate targeting of the CTK substrates with at least two potential phosphotyrosine (pTyr) sites. We curated 93 CTK substrates with at least two pTyr sites catalyzed by the same CTK, and showed that 71% of these substrates had at least two pTyr sites predicted to bind a common CTK SH2 domain. More importantly, we found 34 instances where there was at least one pTyr site predicted to be recognized by the SH2 domain of the same CTK, suggesting that the SH2 and kinase domains of the CTKs may cooperate to achieve progressive phosphorylation of a protein substrate. This article is part of a Special Issue entitled: From protein structures to clinical applications. Copyright © 2012 Elsevier B.V. All rights reserved.

Full Waveform Inversion for Seismic Velocity And Anelastic Losses in Heterogeneous Structures

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

Askan, A.; /Carnegie Mellon U.; Akcelik, V.

2009-04-30

We present a least-squares optimization method for solving the nonlinear full waveform inverse problem of determining the crustal velocity and intrinsic attenuation properties of sedimentary valleys in earthquake-prone regions. Given a known earthquake source and a set of seismograms generated by the source, the inverse problem is to reconstruct the anelastic properties of a heterogeneous medium with possibly discontinuous wave velocities. The inverse problem is formulated as a constrained optimization problem, where the constraints are the partial and ordinary differential equations governing the anelastic wave propagation from the source to the receivers in the time domain. This leads to amore » variational formulation in terms of the material model plus the state variables and their adjoints. We employ a wave propagation model in which the intrinsic energy-dissipating nature of the soil medium is modeled by a set of standard linear solids. The least-squares optimization approach to inverse wave propagation presents the well-known difficulties of ill posedness and multiple minima. To overcome ill posedness, we include a total variation regularization functional in the objective function, which annihilates highly oscillatory material property components while preserving discontinuities in the medium. To treat multiple minima, we use a multilevel algorithm that solves a sequence of subproblems on increasingly finer grids with increasingly higher frequency source components to remain within the basin of attraction of the global minimum. We illustrate the methodology with high-resolution inversions for two-dimensional sedimentary models of the San Fernando Valley, under SH-wave excitation. We perform inversions for both the seismic velocity and the intrinsic attenuation using synthetic waveforms at the observer locations as pseudoobserved data.« less

Petrophysical constraints on the seismic properties of the Kaapvaal craton mantle root

NASA Astrophysics Data System (ADS)

Baptiste, V.; Tommasi, A.

2014-01-01

We calculated the seismic properties of 47 mantle xenoliths from 9 kimberlitic pipes in the Kaapvaal craton based on their modal composition, the crystal-preferred orientations (CPO) of olivine, ortho- and clinopyroxene, and garnet, the Fe content of olivine, and the pressures and temperatures at which the rocks were equilibrated. These data allow constraining the variation of seismic anisotropy and velocities within the cratonic mantle. The fastest P and S2 wave propagation directions and the polarization of fast split shear waves (S1) are always subparallel to olivine [100] axes of maximum concentration, which marks the lineation (fossil flow direction). Seismic anisotropy is higher for high olivine contents and stronger CPO. Maximum P wave azimuthal anisotropy (AVp) ranges between 2.5 and 10.2% and the maximum S wave polarization anisotropy (AVs), between 2.7 and 8%. Changes in olivine CPO symmetry result in minor variations in the seismic anisotropy patterns, mainly in the apparent isotropy directions for shear wave splitting. Seismic properties averaged over 20 km-thick depth sections are, therefore, very homogeneous. Based on these data, we predict the anisotropy that would be measured by SKS, Rayleigh (SV) and Love (SH) waves for five endmember orientations of the foliation and lineation. Comparison to seismic anisotropy data from the Kaapvaal shows that the coherent fast directions, but low delay times imaged by SKS studies, and the low azimuthal anisotropy with with the horizontally polarized S waves (SH) faster than the vertically polarized S wave (SV) measured using surface waves are best explained by homogeneously dipping (45°) foliations and lineations in the cratonic mantle lithosphere. Laterally or vertically varying foliation and lineation orientations with a dominantly NW-SE trend might also explain the low measured anisotropies, but this model should also result in backazimuthal variability of the SKS splitting data, not reported in the seismological data. The strong compositional heterogeneity of the Kaapvaal peridotite xenoliths results in up to 3% variation in density and in up to 2.3% variation of Vp, Vs, and Vp / Vs ratio. Fe depletion by melt extraction increases Vp and Vs, but decreases the Vp / Vs ratio and density. Orthopyroxene enrichment due to metasomatism decreases the density and Vp, strongly reducing the Vp / Vs ratio. Garnet enrichment, which was also attributed to metasomatism, increases the density, and in a lesser extent Vp and the Vp / Vs ratio. Comparison of density and seismic velocity profiles calculated using the xenoliths' compositions and equilibration conditions to seismological data in the Kaapvaal highlights that (i) the thickness of the craton is underestimated in some seismic studies and reaches at least 180 km, (ii) the deep sheared peridotites represent very local modifications caused and oversampled by kimberlites, and (iii) seismological models probably underestimate the compositional heterogeneity in the Kaapvaal mantle root, which occurs at a scale much smaller than the one that may be sampled seismologically.

Sensitivity of southern hemisphere westerly wind to boundary conditions for the last glacial maximum

NASA Astrophysics Data System (ADS)

Jun, S. Y.; Kim, S. J.; Kim, B. M.

2017-12-01

To examine the change in SH westerly wind in the LGM, we performed LGM simulation with sensitivity experiments by specifying the LGM sea ice in the Southern Ocean (SO), ice sheet over Antarctica, and tropical pacific sea surface temperature to CAM5 atmosphere general circulation model (GCM). The SH westerly response to LGM boundary conditions in the CAM5 was compared with those from CMIP5 LGM simulations. In the CAM5 LGM simulation, the SH westerly wind substantially increases between 40°S and 65°S, while the zonal-mean zonal wind decreases at latitudes higher than 65°S. The position of the SH maximum westerly wind moves poleward by about 8° in the LGM simulation. Sensitivity experiments suggest that the increase in SH westerly winds is mainly due to the increase in sea ice in the SO that accounts for 60% of total wind change. In the CMIP5-PMIP3 LGM experiments, most of the models show the slight increase and poleward shift of the SH westerly wind as in the CAM5 experiment. The increased and poleward shifted westerly wind in the LGM obtained in the current model result is consistent with previous model results and some lines of proxy evidence, though opposite model responses and proxy evidence exist for the SH westerly wind change.

Topological valley-chiral edge states of Lamb waves in elastic thin plates

NASA Astrophysics Data System (ADS)

Wang, Jian; Mei, Jun

2018-05-01

We investigate the nontrivial topology of the band structure of Lamb waves in a thin phononic crystal plate. When inversion symmetry is broken, a valley pseudospin degree of freedom is formed around K and K‧ valleys for the A0 Lamb mode, which is decoupled from the S0 and SH0 modes in the low-frequency regime. Chiral edge states are explicitly demonstrated, which are immune to defects and exhibit unidirectional transport behaviors when intervalley scattering is weak. The quantum valley Hall effect is thus simulated in a simple way in the context of Lamb waves.

Inhibition of the Rac1-WAVE2-Arp2/3 signaling pathway promotes radiosensitivity via downregulation of cofilin-1 in U251 human glioma cells.

PubMed

Zhou, Tao; Wang, Chen-Han; Yan, Hua; Zhang, Rui; Zhao, Jin-Bing; Qian, Chun-Fa; Xiao, Hong; Liu, Hong-Yi

2016-05-01

The Ras-related C3 botulinum toxin substrate 1 (Rac1)-WASP-family verprolin-homologous protein-2 (WAVE2)-actin-related protein 2/3 (Arp2/3) signaling pathway has been identified to be involved in cell migration and invasion in various types of cancer cell. Cofilin‑1 (CFL‑1), which is regulated by the Rac1‑WAVE2‑Arp2/3 signaling pathway, may promote radioresistance in glioma. Therefore, the present study aimed to investigate the potential role of the Rac1‑WAVE2‑Arp2/3 signaling pathway in radioresistance in U251 human glioma cells and elucidate its affect on CFL‑1 expression. Western blot analysis was performed to evaluate the protein expression of CFL‑1. In the present study, Rac1 was inhibited by NSC 23766, WAVE2 was inhibited by transfection with short hairpin (sh)RNA‑WAVE2 using Lipofectamine™ 2000 and Arp2/3 was inhibited by CK‑666. Cell viability was measured using the 3‑(4,5‑dimethylthiazol‑2‑yl)-2,5‑diphenyltetrazolium bromide assay, the cell migration ability was examined by a wound‑healing assay, and the cell invasion ability was assessed using a Transwell culture chamber system. The results showed that inhibition of the Rac1‑WAVE2‑Arp2/3 signaling pathway using NSC 23766, shRNA‑WAVE2 or CK‑666 reduced the cell viability, migration and invasion abilities in U251 human glioma cells, concordant with a reduced expression of CFL‑1. Furthermore, the expression of CFL‑1 was significantly increased in radioresistant U251 glioma cells when compared with normal U251 human glioma cells. These findings indicate that inhibition of the Rac1‑WAVE2‑Arp2/3 signaling pathway may promote radiosensitivity, which may partially result from the downregulation of CFL‑1 in U251 human glioma cells.

Development of an ultrasonic inspection robot using an electromagnetic acoustic transducer for a Lamb wave and an SH-plate wave.

PubMed

Murayama, Riichi; Makiyama, Shunnichi; Kodama, Mitutoshi; Taniguchi, Yasutoshi

2004-04-01

For inspection of a storage tank and pipeline in service, the application of an automatic inspection system (nondestructive inspection robot) is desirable, because manual inspection is difficult to perfectly and exactly perform due to the enormous amount of inspection needed. However, an ultrasonic nondestructive inspection robot with a piezoelectric oscillator needs to touch only the material surface to be directly inspected using a coupling medium. That is, the material surface and the sensor must always be held by constant pressure in the vertical direction on the material side. Actually, it is difficult to overcome these problems; thus an ultrasonic inspection robot could not be widely applied. We then tried to develop an ultrasonic inspection robot with an electromagnetic acoustic transducer (EMAT) which did not require a coupling medium to inspect the circumferential pipe parts. We developed a special EMAT that could transmit and receive alternately a Lamb wave with high sensitivity and a SH-plate wave without influence by the welded part. The method by which the inspection robot turned around the direction of the steel pipe surroundings was executed by observing the tape pasted in the direction of the steel pipe surroundings with an installed CCD camera. In this report, the basic mechanism of this inspection robot and an examination of results are described.

Petrophysical constraints on the seismic properties of the Kaapvaal craton mantle root

NASA Astrophysics Data System (ADS)

Baptiste, V.; Tommasi, A.

2013-07-01

We calculated the seismic properties of 47 mantle xenoliths from 9 kimberlitic pipes in the Kaapvaal craton based on their modal composition, the crystal preferred orientations (CPO) of olivine, ortho- and clinopyroxene, and garnet, the Fe content of olivine, and the pressures and temperatures at which the rocks were equilibrated. These data allow constraining the variation of seismic anisotropy and velocities with depth. The fastest P wave and fast split shear wave (S1) polarization direction is always close to olivine [100] maximum. Changes in olivine CPO symmetry result in minor variations in the seismic anisotropy patterns. Seismic anisotropy is higher for high olivine contents and stronger CPO. Maximum P waves azimuthal anisotropy (AVp) ranges between 2.5 and 10.2% and S waves polarization anisotropy (AVs) between 2.7 and 8%. Seismic properties averaged in 20 km thick intervals depth are, however, very homogeneous. Based on these data, we predict the anisotropy that would be measured by SKS, Rayleigh (SV) and Love (SH) waves for 5 end-member orientations of the foliation and lineation. Comparison to seismic anisotropy data in the Kaapvaal shows that the coherent fast directions, but low delay times imaged by SKS studies and the low azimuthal anisotropy and SH faster than SV measured using surface waves may only be consistently explained by dipping foliations and lineations. The strong compositional heterogeneity of the Kaapvaal peridotite xenoliths results in up to 3% variation in density and in up to 2.3% of variation Vp, Vs and the Vp/Vs ratio. Fe depletion by melt extraction increases Vp and Vs, but decreases the Vp/Vs ratio and density. Orthopyroxene enrichment decreases the density and Vp, but increases Vs, strongly reducing the Vp/Vs ratio. Garnet enrichment increases the density, and in a lesser manner Vp and the Vp/Vs ratio, but it has little to no effect on Vs. These compositionally-induced variations are slightly higher than the velocity perturbations imaged by body-wave tomography, but cannot explain the strong velocity anomalies reported by surface wave studies. Comparison of density and seismic velocity profiles calculated using the xenoliths' compositions and equilibrium conditions to seismological data in the Kaapvaal highlights that: (i) the thickness of the craton is underestimated in some seismic studies and reaches at least 180 km, (ii) the deep sheared peridotites represent very local modifications caused and oversampled by kimberlites, and (iii) seismological models probably underestimate the compositional heterogeneity in the Kaapvaal mantle root, which occurs at a scale much smaller than the one that may be sampled seismologically.

The response of Antarctica MLT region for the recent Sudden Stratospheric Warming (SSW) over Southern Hemisphere (SH): An overview

NASA Astrophysics Data System (ADS)

Eswaraiah, S.; Kim, Y.; Lee, J.; Kim, J. H.; Venkat Ratnam, M.; Riggin, D. M.; Vijaya Bhaskara Rao, S.

2017-12-01

A minor Sudden Stratospheric Warming (SSW) was noticed in the southern hemisphere (SH) during the September (day 259) 2010 along with two episodic warmings in early August (day 212) and late October (day 300) 2010. The signature of the mesosphere and lower thermosphere (MLT) response was detected using the ground based and space borne observations along with the model predictions. The changes in the mesosphere wind field were studied from the observations of both meteor radar and MF radar located at King Sejong Station (62.22°S, 58.78°W) and Rothera (68oS, 68oW), Antarctica, respectively. The zonal winds in the mesosphere reversed approximately a week before the September SSW occurrence. We have also analyzed the MLT tides using both the radars and noticed strong enhancement of semi-diurnal tide (SDT) a few days later the cessation of 2010 SSW. We note the similar enhancement during the 2002 major SSW. Specifically, the SDT amplitude enhancement is greater for the 2010 SSW than 2002 SSW. We found that strong 14-16 day PWs prevailed prior to the 2010 minor SSW and disappeared suddenly after the SSW in the mesosphere by generating the quasi-secondary waves of periodicity 3-9 days. The mesosphere wind reversal is also noticed in "Specified Dynamics" version of Whole Atmosphere Community Climate Model (SD-WACCM) and Ground-to-topside model of Atmosphere and Ionosphere for Aeronomy (GAIA) simulations. The similar zonal wind weakening/reversal in the lower thermosphere between 100 and 140 km are simulated by GAIA. Further, we observed the mesospheric cooling in consistency with SSWs using Microwave Limb Sounder (MLS) data. However, the GAIA simulations showed warming between 130 and 140 km after few days of SSW. Thus, the observation and model simulation indicate for the first time that the 2010 minor SSW also affects dynamics of the MLT region over SH in a manner similar to the 2002 major SSW.

Risk factors and outcomes of chronic sexual harassment during the transition to college: Examination of a two-part growth mixture model.

PubMed

McGinley, Meredith; Wolff, Jennifer M; Rospenda, Kathleen M; Liu, Li; Richman, Judith A

2016-11-01

A two-part latent growth mixture model was implemented in order to examine heterogeneity in the growth of sexual harassment (SH) victimization in college and university students, and the extent to which SH class membership explains substance use and mental health outcomes for certain groups of students. Demographic risk factors, mental health, and substance use were examined as they related to chronically experienced SH victimization. Incoming freshmen students (N = 2855; 58% female; 54% White) completed a survey at five time points. In addition to self-reporting gender, race, and sexual orientation, students completed measures of sexual harassment, anxiety, depression, binge drinking, and marijuana use. Overall, self-reported SH declined upon college entry, although levels rebounded by the third year of college. Results also supported a two-class solution (Infrequent and Chronic) for SH victimization. Being female, White, and a sexual minority were linked to being classified into the Chronic (relative to the Infrequent) SH class. In turn, Chronic SH class membership predicted greater anxiety, depression, and substance use, supporting a mediational model. Copyright © 2016 Elsevier Inc. All rights reserved.

Evaluation of P-Wave Dispersion, Diastolic Function, and Atrial Electromechanical Conduction in Pediatric Patients with Subclinical Hypothyroidism.

PubMed

Irdem, Ahmet; Aydın Sahin, Derya; Kervancioglu, Mehmet; Baspinar, Osman; Sucu, Murat; Keskin, Mehmet; Kilinc, Metin

2016-09-01

This study aimed to evaluate ventricular diastolic dysfunction, inter- and intraatrial conduction delay, and P-wave dispersion in pediatric patients with subclinical hypothyroidism. The study comprised a total of 30 pediatric patients with subclinical hypothyroidism (SH) (mean age 7.8 ± 3.2 years) and 30 healthy children (mean age 8.4 ± 3.6 years) as the control group. A SH diagnosis was made in the event of increased serum thyroid-stimulating hormone (TSH) and decreased serum free triiodothyronine (T3 ) and free thyroxine (T4 ) concentrations. Conventional Doppler imaging (TDI) showed low mitral early diastolic E-wave velocity and E/A ratio (P < 0.001) and significantly higher mitral late diastolic A-wave velocity (P = 0.001) in hypothyroidism patients. Moreover, patients with hypothyroidism had significantly lower left ventricular (LV) septal Em velocity and Em /Am ratios compared with the control group (P < 0.001), whereas Am velocity was higher in hypothyroidism patients (P = 0.018). LV lateral Em velocity and Em /Am ratio were significantly lower in patients with hypothyroidism compared with the control group (P < 0.001). With regard to atrial electromechanical conduction, atrial electromechanical delay (PA) lateral, PA septum, PA tricuspid, and each of interatrial and intraatrial conduction delay were significantly prolonged in hypothyroidism patients as compared with the control group (P < 0.001, P < 0.001, P = 0.023, P = 0.002, and P = 0.003, respectively). P-wave dispersion was significantly different in the pediatric patients with hypothyroidism (P < 0.001). This study demonstrated atrial electromechanical conduction delay, abnormal P-wave dispersion, and ventricle diastolic dysfunction in pediatric patients with hypothyroidism. © 2016, Wiley Periodicals, Inc.

SH-SY5Y human neuroblastoma cell line: in vitro cell model of dopaminergic neurons in Parkinson's disease.

PubMed

Xie, Hong-rong; Hu, Lin-sen; Li, Guo-yi

2010-04-20

To evaluate the human neuroblastoma SH-SY5Y cell line as an in vitro model of dopaminergic (DAergic) neurons for Parkinson's disease (PD) research and to determine the effect of differentiation on this cell model. The data of this review were selected from the original reports and reviews related to SH-SY5Y cells published in Chinese and foreign journals (Pubmed 1973 to 2009). After searching the literature, 60 articles were selected to address this review. The SH-SY5Y cell line has become a popular cell model for PD research because this cell line posses many characteristics of DAergic neurons. For example, these cells express tyrosine hydroxylase and dopamine-beta-hydroxylase, as well as the dopamine transporter. Moreover, this cell line can be differentiated into a functionally mature neuronal phenotype in the presence of various agents. Upon differentiation, SH-SY5Y cells stop proliferating and a constant cell number is subsequently maintained. However, different differentiating agents induce different neuronal phenotypes and biochemical changes. For example, retinoic acid induces differentiation toward a cholinergic neuronal phenotype and increases the susceptibility of SH-SY5Y cells to neurotoxins and neuroprotective agents, whereas treatment with retinoic acid followed by phorbol ester 12-O-tetradecanoylphorbol-13-acetate results in a DAergic neuronal phenotype and decreases the susceptibility of cells to neurotoxins and neuroprotective agents. Some differentiating agents also alter kinetics of 1-methyl-4-phenyl-pyridinium (MPP(+)) uptake, making SH-SY5Y cells more similar to primary mesencephalic neurons. Differentiated and undifferentiated SH-SY5Y cells have been widely used as a cell model of DAergic neurons for PD research. Some differentiating agents afford SH-SY5Y cells with more potential for studying neurotoxicity and neuroprotection and are thus more relevant to experimental PD research.

Anisotropy in the Australasian upper mantle from Love and Rayleigh waveform inversion

NASA Astrophysics Data System (ADS)

Debayle, Eric; Kennett, B. L. N.

2000-12-01

Records of both Rayleigh and Love waves have been analyzed to determine the pattern of anisotropy in the Australasian region. The approach is based on a two-stage inversion. Starting from a smooth PREM model with transverse isotropy about a vertical symmetry axis, the first step is an inversion of the waveforms of surface waves to produce path specific one-dimensional (1-D) upper mantle models. Under the assumption that the 1-D models represent averages along the paths, the results from 1584 Love and Rayleigh wave seismograms are combined in a tomographic inversion to provide a representation of three-dimensional structure for wavespeed heterogeneities and anisotropy. Polarization anisotropy with SH faster than SV is retrieved in the upper 200-250 km of the mantle for most of Precambrian Australia. In this depth interval, significant lateral variations in the level of polarization anisotropy are present. Locally, the anisotropy can be large, reaching an extreme value of 9% that is difficult to reconcile with current mineralogical models. However, the discrepancy may be explained in part by the presence of strong lateral heterogeneities along the path, or by effects introduced by the simplifying assumption of transverse isotropy for each path. The consistency between the location of polarization and azimuthal anisotropy in depth suggests that both observations share a common origin. The observation of polarization anisotropy down to at least 200 km supports a two-layered anisotropic model as constrained by the azimuthal anisotropy of SV waves. In the upper layer, 150 km thick, anisotropy would be related to past deformation frozen in the lithosphere while in the lower layer, anisotropy would reflect present day deformation due to plate motion.

Development of a pseudo phased array technique using EMATs for DM weld testing

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

Cobb, Adam C., E-mail: adam.cobb@swri.org; Fisher, Jay L., E-mail: adam.cobb@swri.org; Shiokawa, Nobuyuki

2015-03-31

Ultrasonic inspection of dissimilar metal (DM) welds in piping with cast austenitic stainless steel (CASS) has been an area ongoing research for many years given its prevalence in the petrochemical and nuclear industries. A typical inspection strategy for pipe welds is to use an ultrasonic phased array system to scan the weld from a sensor located on the outer surface of the pipe. These inspection systems generally refract either longitudinal or shear vertical (SV) waves at varying angles to inspect the weld radially. In DM welds, however, the welding process can produce a columnar grain structure in the CASS materialmore » in a specific orientation. This columnar grain structure can skew ultrasonic waves away from their intended path, especially for SV and longitudinal wave modes. Studies have shown that inspection using the shear horizontal (SH) wave mode significantly reduces the effect of skewing. Electromagnetic acoustic transducers (EMATs) are known to be effective for producing SH waves in field settings. This paper presents an inspection strategy that seeks to reproduce the scanning and imaging capabilities of a commercial phase array system using EMATs. A custom-built EMAT was used to collect data at multiple propagation angles, and a processing strategy known as the synthetic aperture focusing technique (SAFT) was used to combine the data to produce an image. Results are shown using this pseudo phased array technique to inspect samples with a DM weld and artificial defects, demonstrating the potential of this approach in a laboratory setting. Recommendations for future work to transition the technique to the field are also provided.« less

Reflection of Lamb waves obliquely incident on the free edge of a plate.

PubMed

Santhanam, Sridhar; Demirli, Ramazan

2013-01-01

The reflection of obliquely incident symmetric and anti-symmetric Lamb wave modes at the edge of a plate is studied. Both in-plane and Shear-Horizontal (SH) reflected wave modes are spawned by an obliquely incident in-plane Lamb wave mode. Energy reflection coefficients are calculated for the reflected wave modes as a function of frequency and angle of incidence. This is done by using the method of orthogonal mode decomposition and by enforcing traction free conditions at the plate edge using the method of collocation. A PZT sensor network, affixed to an Aluminum plate, is used to experimentally verify the predictions of the analysis. Experimental results provide support for the analytically determined results. Copyright © 2012 Elsevier B.V. All rights reserved.

The January 2001, El Salvador event: a multi-data analysis

NASA Astrophysics Data System (ADS)

Vallee, M.; Bouchon, M.; Schwartz, S. Y.

2001-12-01

On January 13, 2001, a large normal event (Mw=7.6) occured 100 kilometers away from the Salvadorian coast (Central America) with a centroid depth of about 50km. The size of this event is surprising according to the classical idea that such events have to be much weaker than thrust events in subduction zones. We analysed this earthquake with different types of data: because teleseismic waves are the only data which offer a good azimuthal coverage, we first built a kinematic source model with P and SH waves provided by the IRIS-GEOSCOPE networks. The ambiguity between the 30o plane (plunging toward Pacific Ocean) and the 60o degree plane (plunging toward Central America) leaded us to do a parallel analysis of the two possible planes. We used a simple point-source modelling in order to define the main characteristics of the event and then used an extended source to retrieve the kinematic features of the rupture. For the 2 possible planes, this analysis reveals a downdip and northwest rupture propagation but the difference of fit remains subtle even when using the extended source. In a second part we confronted our models for the two planes with other seismological data, which are (1) regional data, (2) surface wave data through an Empirical Green Function given by a similar but much weaker earthquake which occured in July 1996 and lastly (3) nearfield data provided by Universidad Centroamericana (UCA) and Centro de Investigationes Geotecnicas (CIG). Regional data do not allow to discriminate the 2 planes neither but surface waves and especially near field data confirm that the fault plane is the steepest one plunging toward Central America. Moreover, the slight directivity toward North is confirmed by surface waves.

Efficient green light generation by Q-switched Nd: YAG laser in periodically poled potassium titanyl phosphate crystal

NASA Astrophysics Data System (ADS)

Zhang, Shuanggen; Guo, Wengang; Lv, Fuyun

2014-07-01

A PPKTP crystal was used to efficient green emission. Spectrum characteristics of FF and SH wave was analyzed, and phase-matching wavelength shift results from thermally-induced poling period shift. A conversion efficiency of 26.1% can be achieved.

Introduction: History of SH2 Domains and Their Applications.

PubMed

Liu, Bernard A; Machida, Kazuya

2017-01-01

The Src Homology 2 (SH2) domain is the prototypical protein interaction module that lies at the heart of phosphotyrosine signaling. Since its serendipitous discovery, there has been a tremendous advancement in technologies and an array of techniques available for studying SH2 domains and phosphotyrosine signaling. In this chapter, we provide a glimpse of the history of SH2 domains and describe many of the tools and techniques that have been developed along the way and discuss future directions for SH2 domain studies. We highlight the gist of each chapter in this volume in the context of: the structural biology and phosphotyrosine binding; characterizing SH2 specificity and generating prediction models; systems biology and proteomics; SH2 domains in signal transduction; and SH2 domains in disease, diagnostics, and therapeutics. Many of the individual chapters provide an in-depth approach that will allow scientists to interrogate the function and role of SH2 domains.

Scattering of SH wave by a semi-cylindrical salient near vertical interface in the bi-material half space

NASA Astrophysics Data System (ADS)

Qi, Hui; Zhang, Xi-meng

2017-10-01

With the aid of the Green function method and image method, the problem of scattering of SH-wave by a semi-cylindrical salient near vertical interface in bi-material half-space is considered to obtain its steady state response. Firstly, by the means of the image method, Green function which is the essential solution of displacement field is constructed to satisfy the stress-free condition on the horizontal boundary in a right-angle space including a semi-cylindrical salient and bearing a harmonic out-of-plane line source force at any point on the vertical boundary. Secondly, the bi-material is separated into two parts along the vertical interface, then unknown anti-plane forces are applied on the vertical interface, and according to the continuity condition, the first kind of Fredholm integral equations is established to determine unknown anti-plane forces by "the conjunction method", then the integral equations are reduced to the linear algebraic equations by effective truncation. Finally, the dynamic stress concentration factor (DSCF) around the edge of semi-cylindrical salient is calculated, and the influences of incident wave number, incident angle, effect of interface and different combination of material parameters, etc. on DSCF are discussed.

6-C polarization analysis using point measurements of translational and rotational ground-motion: theory and applications

NASA Astrophysics Data System (ADS)

Sollberger, David; Greenhalgh, Stewart A.; Schmelzbach, Cedric; Van Renterghem, Cédéric; Robertsson, Johan O. A.

2018-04-01

We provide a six-component (6-C) polarization model for P-, SV-, SH-, Rayleigh-, and Love-waves both inside an elastic medium as well as at the free surface. It is shown that single-station 6-C data comprised of three components of rotational motion and three components of translational motion provide the opportunity to unambiguously identify the wave type, propagation direction, and local P- and S-wave velocities at the receiver location by use of polarization analysis. To extract such information by conventional processing of three-component (3-C) translational data would require large and dense receiver arrays. The additional rotational components allow the extension of the rank of the coherency matrix used for polarization analysis. This enables us to accurately determine the wave type and wave parameters (propagation direction and velocity) of seismic phases, even if more than one wave is present in the analysis time window. This is not possible with standard, pure-translational 3-C recordings. In order to identify modes of vibration and to extract the accompanying wave parameters, we adapt the multiple signal classification algorithm (MUSIC). Due to the strong nonlinearity of the MUSIC estimator function, it can be used to detect the presence of specific wave types within the analysis time window at very high resolution. We show how the extracted wavefield properties can be used, in a fully automated way, to separate the wavefield into its different wave modes using only a single 6-C recording station. As an example, we apply the method to remove surface wave energy while preserving the underlying reflection signal and to suppress energy originating from undesired directions, such as side-scattered waves.

Modeling of the Earth's gravity field using the New Global Earth Model (NEWGEM)

NASA Technical Reports Server (NTRS)

Kim, Yeong E.; Braswell, W. Danny

1989-01-01

Traditionally, the global gravity field was described by representations based on the spherical harmonics (SH) expansion of the geopotential. The SH expansion coefficients were determined by fitting the Earth's gravity data as measured by many different methods including the use of artificial satellites. As gravity data have accumulated with increasingly better accuracies, more of the higher order SH expansion coefficients were determined. The SH representation is useful for describing the gravity field exterior to the Earth but is theoretically invalid on the Earth's surface and in the Earth's interior. A new global Earth model (NEWGEM) (KIM, 1987 and 1988a) was recently proposed to provide a unified description of the Earth's gravity field inside, on, and outside the Earth's surface using the Earth's mass density profile as deduced from seismic studies, elevation and bathymetric information, and local and global gravity data. Using NEWGEM, it is possible to determine the constraints on the mass distribution of the Earth imposed by gravity, topography, and seismic data. NEWGEM is useful in investigating a variety of geophysical phenomena. It is currently being utilized to develop a geophysical interpretation of Kaula's rule. The zeroth order NEWGEM is being used to numerically integrate spherical harmonic expansion coefficients and simultaneously determine the contribution of each layer in the model to a given coefficient. The numerically determined SH expansion coefficients are also being used to test the validity of SH expansions at the surface of the Earth by comparing the resulting SH expansion gravity model with exact calculations of the gravity at the Earth's surface.

SH2 Ligand Prediction-Guidance for In-Silico Screening.

PubMed

Li, Shawn S C; Li, Lei

2017-01-01

Systematic identification of binding partners for SH2 domains is important for understanding the biological function of the corresponding SH2 domain-containing proteins. Here, we describe two different web-accessible computer programs, SMALI and DomPep, for predicting binding ligands for SH2 domains. The former was developed using a Scoring Matrix method and the latter based on the Support Vector Machine model.

Second-order non-linear optical studies on CdS microcrystallite-doped alkali borosilicate glasses

NASA Astrophysics Data System (ADS)

Liu, Hao; Liu, Qiming; Wang, Mingliang; Zhao, Xiujian

2007-05-01

CdS microcrystal-doped alkali borosilicate glasses were prepared by conventional fusion and heat-treatment method. Utilizing Maker fringe method, second-harmonic generation (SHG) was both observed from CdS-doped glasses before and after certain thermal/electrical poling. While because the direction of polarization axes of CdS crystals formed in the samples is random or insufficient interferences of generated SH waves occur, the fringe patterns obtained in samples without poling treatments showed no fine structures. For the poled samples, larger SH intensity has been obtained than that of the samples without any poling treatments. It was considered that the increase of an amount of hexagonal CdS in the anode surface layer caused by the applied dc field increased the SH intensity. The second-order non-linearity χ(2) was estimated to be 1.23 pm/V for the sample poled with 2.5 kV at 360 °C for 30 min.

Development of an omni-directional shear horizontal mode magnetostrictive patch transducer

NASA Astrophysics Data System (ADS)

Liu, Zenghua; Hu, Yanan; Xie, Muwen; Fan, Junwei; He, Cunfu; Wu, Bin

2018-04-01

The fundamental shear horizontal wave, SH0 mode, has great potential in defect detection and on-line monitoring with large scale and high efficiency in plate-like structures because of its non-dispersive characteristics. Aiming at consistently exciting single SH0 mode in plate-like structures, an omni-directional shear horizontal mode magnetostrictive patch transducer (OSHM-MPT) is developed on the basis of magnetostrictive effect. It consists of four fan-shaped array elements and corresponding plane solenoid array (PSA) coils, four fan-shaped permanent magnets and a circular nickel patch. The experimental results verify that the developed transducer can effectively produce the single SH0 mode in an aluminum plate. The frequency response characteristics of this developed transducer are tested. The results demonstrate that the proposed OSHM-MPT has a center frequency of 300kHz related to the distance between adjacent arc-shaped steps of the PSA coils. Furthermore, omni-directivity of this developed transducer is tested. The results demonstrate that the developed transducer has a high omnidirectional consistency.

Rotational motions from the 2016, Central Italy seismic sequence, as observed by an underground ring laser gyroscope

NASA Astrophysics Data System (ADS)

Simonelli, Andreino; Belfi, Jacopo; Beverini, Nicolò; Di Virgilio, Angela; Maccioni, Enrico; De Luca, Gaetano; Saccorotti, Gilberto; Wassermann, Joachim; Igel, Heiner

2017-04-01

We present analyses of rotational and translational ground motions from earthquakes recorded during October-November, 2016, in association with the Central Italy seismic-sequence. We use co-located measurements of the vertical ground rotation rate from a large ring laser gyroscope (RLG), and the three components of ground velocity from a broadband seismometer. Both instruments are positioned in a deep underground environment, within the Gran Sasso National Laboratories (LNGS) of the Istituto Nazionale di Fisica Nucleare (INFN). We collected dozen of events spanning the 3.5-5.9 Magnitude range, and epicentral distances between 40 km and 80 km. This data set constitutes an unprecedented observation of the vertical rotational motions associated with an intense seismic sequence at local distance. In theory - assuming plane wave propagation - the ratio between the vertical rotation rate and the transverse acceleration permits, in a single station approach, the estimation of apparent phase velocity in the case of SH arrivals or real phase velocity in the case of Love surface waves. This is a standard approach for the analysis of earthquakes at teleseismic distances, and the results reported by the literature are compatible with the expected phase velocities from the PREM model. Here we extend the application of the same approach to local events, thus exploring higher frequency ranges and larger rotation rate amplitudes. We use a novel approach to joint rotation/acceleration analysis based on the continuous wavelet transform (CWT). Wavelet coherence (WTC) is used as a filter for identifying those regions of the time-period plane where the rotation rate and transverse acceleration signals exhibit significant coherence. This allows retrieving estimates of phase velocities over the period range spanned by correlated arrivals. Coherency among ground rotation and translation is also observed throughout the coda of the P-wave arrival, an observation which is interpreted in terms of near-receiver P-SH converted energy due to 3D effects. Those particular coda waves, however, do exhibit a large variability in the rotation/acceleration ratio, as a likely consequence of differences in the wavepath and/or source mechanism.

Ozone and stratospheric height waves for opposite phases of the QBO

NASA Technical Reports Server (NTRS)

Mo, Kingtse C.; Nogues-Paegle, Julia

1994-01-01

The stratospheric quasi-biennial oscillation (QBO) provides an important source of interannual variations in the Northern Hemisphere. O'sullivan and Salby (1990) related extra-tropical eddy transport with the phase of the tropical QBO. When the tropical wind is easterly, the zero wind line is shifted into the winter hemisphere. Enhanced wave activity in middle latitudes acts to weaken the polar vortex. When the tropical wind is in the westerly phase the situation reverses. Heights at 30 mb and ozone configurations are contrasted in this paper for these two QBO phases. When the winter vortex deforms due to the amplification of planetary waves 1 and 2, extends westward and equatorward, the complementary band of low vorticity air spirals in toward the pole from lower latitudes. Sometimes, these planetary waves break (Juckes and McIntyre, 1987) and an irreversible mixing of air takes place between high and mid-latitudes. Global ozone patterns, as obtained form satellite observations, appear to be affected by planetary wave breaking (Leovy et al. 1985). This mixing results on regions with uniform ozone and potential vorticity. In the Southern Hemisphere (SH), Newman and Randel (1988) using Total Ozone Mapping Spectrometer (TOMS) data and the NMC analyses have found strong spatial correlation between the October mean temperature in the lower stratosphere and total ozone for the 1979 through 1986 years. Recently Nogues-Paegle et al.(1992) analyzed SH ozone and height data from 1986 to 1989. They found that leading empirical orthogonal functions (EOFs) for both ozone and 50 mb heights exhibit zonal wave 1 and 2 and that the correlations between ozone and 50 mb principal components (PCs) are high. The results were found to be consistent with a linear planetary wave advecting a passive tracer. In this paper, the dominant patterns of variability for 30 mb NMC heights and TOMS total ozone are obtained for the winter to summer transition (January to May) in the Northern Hemisphere (NH) for the years 1987-1990.

Contributions of poroelastic-wave potentials to seismoelectromagnetic wavefields and validity of the quasi-static calculation: a view from a borehole model

NASA Astrophysics Data System (ADS)

Guan, Wei; Shi, Peng; Hu, Hengshan

2018-01-01

In this study, we theoretically analyse the contributions of the four poroelastic-wave potentials to seismoelectromagnetic (SEM) wavefields, verify the validity of the quasi-static calculation of the electric field and provide a method to calculate the magnetic field by using the curl-free electric field. Calculations show that both the fast and slow P waves and the SH and SV waves have non-negligible contributions to the SEM fields. The S waves have indirect contribution to the electric field through the EM conversion from the magnetic field, although the direct contribution due to streaming current is negligible if EM wavenumbers are much smaller than those of the S waves. The P waves have indirect contribution to the magnetic field through EM conversion from the electric field, although the direct contribution is absent. The quasi-static calculation of the electric field is practicable since it is normally satisfied in reality that the EM wavenumbers are much smaller than those of poroelastic waves. While the direct contribution of the S waves and the higher-order EM conversions are ignored, the first-order EM conversion from the S-wave-induced magnetic field is reserved through the continuity of the electric-current density. To calculate the magnetic field on this basis, we separate the quasi-static electric field into a rotational and an irrotational part. The magnetic-field solutions are derived through Hertz vectors in which the coefficients of the magnetic Hertz vector are determined from the magnetic-field continuities and those of the electric Hertz vector originate from the irrotational part of the quasi-static electric field.

TODS BioCast User Manual, Forecasting 3D Satellite Derived Optical Properties Using Eulerian Advection Procedure, Version 1.0

DTIC Science & Technology

2015-06-17

Example 2: OpCast_cron.sh #!/bin/sh # # # # # Cron helper script This script may be called with the appropriate arguments to reproduce what the...testing. Example 3: OpCast.sh #!/bin/sh # # helper script to set up environment for call to make_merged_product.sh # # This script can be called stand...ecosystem model skill assessment, Journal of Marine Systems, 76(1-2), 64-82, doi:10.1016/j.jmarsys.2008.05.014. Jolliff, J. K., S. Ladner, R. Crout, P

High-resolution shear-wave reflection profiling to image offset in unconsolidated near-surface sediments

NASA Astrophysics Data System (ADS)

Bailey, Bevin L.

S-wave reflection profiling has many theoretical advantages, when compared to P-wave profiling, such as high-resolution potential, greater sensitivities to lithologic changes and insensitivity to the water table and pore fluids, and could be particularly useful in near-surface settings. However, S-wave surveys can be plagued by processing pitfalls unique to near-surface studies such as interference of Love waves with reflections, and the stacking of Love waves as coherent noise, leading to possible misinterpretations of the subsurface. Two lines of S-wave data are processed and used to locate previously unknown faults in Quaternary sediments in a region where earthquake activity poses a threat to surface structures. This study provides clear examples of processing pitfalls such as Love waves with hyperbolic appearances on shot gathers, and a CMP section with coherent noise that is easily misinterpreted as reflections. This study demonstrates pros and cons of using SH reflection data in the near surface.

Petrophysical constraints on the seismic properties of the Kaapvaal craton mantle root

NASA Astrophysics Data System (ADS)

Virginie, Baptiste; Andrea, Tommasi

2014-05-01

We calculated the seismic properties of 47 mantle xenoliths from 9 kimberlitic pipes in the Kaapvaal craton based on their modal composition, the crystal preferred orientations (CPO) of olivine, ortho- and clinopyroxene, and garnet, the Fe content of olivine, and the pressures and temperatures at which the rocks were equilibrated. These data allow constraining the variation of seismic anisotropy and velocities within the cratonic mantle. The fastest P and S2 waves propagation direction and the polarization of fast split shear wave (S1) are always subparallel to olivine [100] axes maximum concentration, which marks the lineation (fossil flow direction). Seismic anisotropy is higher for high olivine contents and stronger CPO. Maximum P-wave azimuthal anisotropy (AVp) ranges between 2.5 and 10.2% and the maximum S-wave polarization anisotropy (AVs), between 2.7 and 8%. Changes in olivine CPO symmetry result in minor variations in the seismic anisotropy patterns, mainly in the apparent isotropy directions for shear wave splitting. Seismic properties averaged over 20 km thick depth sections are, therefore, very homogeneous. Based on these data, we predict the anisotropy that would be measured by SKS, Rayleigh (SV) and Love (SH) waves for 5 end-member orientations of the foliation and lineation. Comparison to seismic anisotropy data in the Kaapvaal shows that the coherent fast directions, but low delay times imaged by SKS studies and the low azimuthal anisotropy with SH faster than SV measured using surface waves are best explained by a homogeneously dipping (45°) foliation and lineation in the cratonic mantle lithosphere. Laterally or vertically varying foliation and lineation orientations with a dominantly NW-SE trend might also explain the low measured anisotropies, but this model should also result in backazimuthal variability of the SKS splitting data, not reported in the seismological data. The strong compositional heterogeneity of the Kaapvaal peridotite xenoliths results in up to 3% variation in density and in up to 2.3% variation of Vp, Vs, and Vp/Vs ratio. Fe depletion by melt extraction increases Vp and Vs, but decreases the Vp/Vs ratio and density. Orthopyroxene enrichment due to metasomatism decreases the density and Vp, strongly reducing the Vp/Vs ratio. Garnet enrichment, which was also attributed to metasomatism, increases the density, and in a lesser extent Vp and the Vp/Vs ratio. Comparison of density and seismic velocity profiles calculated using the xenoliths' compositions and equilibration conditions to seismological data in the Kaapvaal highlights that: (i) the thickness of the craton is underestimated in some seismic studies and reaches at least 180 km, (ii) the deep sheared peridotites represent very local modifications caused and oversampled by kimberlites, and (iii) seismological models probably underestimate the compositional heterogeneity in the Kaapvaal mantle root, which occurs at a scale much smaller than the one that may be sampled seismologically.

Sh3pxd2b Mice Are a Model for Craniofacial Dysmorphology and Otitis Media

PubMed Central

Yang, Bin; Tian, Cong; Zhang, Zhi-guang; Han, Feng-chan; Azem, Rami; Yu, Heping; Zheng, Ye; Jin, Ge; Arnold, James E.; Zheng, Qing Y.

2011-01-01

Craniofacial defects that occur through gene mutation during development increase vulnerability to eustachian tube dysfunction. These defects can lead to an increased incidence of otitis media. We examined the effects of a mutation in the Sh3pxd2b gene (Sh3pxd2bnee) on the progression of otitis media and hearing impairment at various developmental stages. We found that all mice that had the Sh3pxd2bnee mutation went on to develop craniofacial dysmorphologies and subsequently otitis media, by as early as 11 days of age. We found noteworthy changes in cilia and goblet cells of the middle ear mucosa in Sh3pxd2bnee mutant mice using scanning electronic microscopy. By measuring craniofacial dimensions, we determined for the first time in an animal model that this mouse has altered eustachian tube morphology consistent with a more horizontal position of the eustachian tube. All mutants were found to have hearing impairment. Expression of TNF-α and TLR2, which correlates with inflammation in otitis media, was up-regulated in the ears of mutant mice when examined by immunohistochemistry and semi-quantitative RT-PCR. The mouse model with a mutation in the Sh3pxd2b gene (Sh3pxd2bnee) mirrors craniofacial dysmorphology and otitis media in humans. PMID:21818352

SH3 interactome conserves general function over specific form

PubMed Central

Xin, Xiaofeng; Gfeller, David; Cheng, Jackie; Tonikian, Raffi; Sun, Lin; Guo, Ailan; Lopez, Lianet; Pavlenco, Alevtina; Akintobi, Adenrele; Zhang, Yingnan; Rual, Jean-François; Currell, Bridget; Seshagiri, Somasekar; Hao, Tong; Yang, Xinping; Shen, Yun A; Salehi-Ashtiani, Kourosh; Li, Jingjing; Cheng, Aaron T; Bouamalay, Dryden; Lugari, Adrien; Hill, David E; Grimes, Mark L; Drubin, David G; Grant, Barth D; Vidal, Marc; Boone, Charles; Sidhu, Sachdev S; Bader, Gary D

2013-01-01

Src homology 3 (SH3) domains bind peptides to mediate protein–protein interactions that assemble and regulate dynamic biological processes. We surveyed the repertoire of SH3 binding specificity using peptide phage display in a metazoan, the worm Caenorhabditis elegans, and discovered that it structurally mirrors that of the budding yeast Saccharomyces cerevisiae. We then mapped the worm SH3 interactome using stringent yeast two-hybrid and compared it with the equivalent map for yeast. We found that the worm SH3 interactome resembles the analogous yeast network because it is significantly enriched for proteins with roles in endocytosis. Nevertheless, orthologous SH3 domain-mediated interactions are highly rewired. Our results suggest a model of network evolution where general function of the SH3 domain network is conserved over its specific form. PMID:23549480

SH003 represses tumor angiogenesis by blocking VEGF binding to VEGFR2

PubMed Central

Choi, Hyeong Sim; Kim, Min Kyoung; Lee, Kangwook; Lee, Kang Min; Choi, Youn Kyung; Shin, Yong Cheol; Cho, Sung-Gook; Ko, Seong-Gyu

2016-01-01

Tumor angiogenesis is a key feature of cancer progression, because a tumor requires abundant oxygen and nutrition to grow. Here, we demonstrate that SH003, a mixed herbal extract containing Astragalus membranaceus (Am), Angelica gigas (Ag) and Trichosanthes Kirilowii Maximowicz (Tk), represses VEGF-induced tumor angiogenesis both in vitro and in vivo. SH003 inhibited VEGF-induced migration, invasion and tube formation in human umbilical vein endothelial cells (HUVEC) with no effect on the proliferation. SH003 reduced CD31-positive vessel numbers in tumor tissues and retarded tumor growth in our xenograft mouse tumor model, while SH003 did not affect pancreatic tumor cell viability. Consistently, SH003 inhibited VEGF-stimulated vascular permeability in ears and back skins. Moreover, SH003 inhibited VEGF-induced VEGFR2-dependent signaling by blocking VEGF binding to VEGFR2. Therefore, our data conclude that SH003 represses tumor angiogenesis by inhibiting VEGF-induced VEGFR2 activation, and suggest that SH003 may be useful for treating cancer. PMID:27105528

Comparison of earthquake source characteristics in the Kachchh Rift Basin and Saurashtra horst, Deccan Volcanic Province, western India

NASA Astrophysics Data System (ADS)

Sairam, B.; Singh, A. P.; Ravi Kumar, M.

2018-06-01

Seismic source parameters of small to moderate sized intraplate earthquakes that occurred during 2002-2009 in the tectonic blocks of Kachchh Rift Basin (KRB) and the Saurashtra Horst (SH), in the stable continental region of western peninsular India, are studied through spectral analysis of shear waves. The data of aftershock sequence of the 2001 Bhuj earthquake (Mw 7.7) in the KRB and the 2007 Talala earthquake (Mw 5.0) in the SH are used for this study. In the SH, the seismic moment (Mo), corner frequency (fc), stress drop (Δ σ ) and source radius ( r) vary from 7.8× 10^{11} to 4.0× 10^{16} N-m, 1.0-8.9 Hz, 4.8-10.2 MPa and 195-1480 m, respectively. While in the KRB, these parameters vary from Mo ˜ 1.24 × 10^{11} to 4.1 × 10^{16} N-m, f_{c }˜ 1.6 to 13.1 Hz, Δ σ ˜ 0.06 to 16.62 MPa and r ˜ 100 to 840 m. The kappa ( K) value in the KRB (0.025-0.03) is slightly larger than that in the SH region (0.02), probably due to thick sedimentary layers. The estimated stress drops of earthquakes in the KRB are relatively higher than those in SH, due to large crustal stress concentration associated with mafic/ultramafic rocks at the hypocentral depths. The results also suggest that the stress drop value of intraplate earthquakes is larger than the interplate earthquakes. In addition, it is observed that the strike-slip events in the SH have lower stress drops, compared to the thrust and strike-slip events.

Velocity sensitivity of seismic body waves to the anisotropic parameters of a TTI-medium

NASA Astrophysics Data System (ADS)

Zhou, Bing; Greenhalgh, Stewart

2008-09-01

We formulate the derivatives of the phase and group velocities for each of the anisotropic parameters in a tilted transversely isotropic medium (TTI-medium). This is a common geological model in seismic exploration and has five elastic moduli or related Thomsen parameters and two orientation angles defining the axis of symmetry of the rock. We present two independent methods to compute the derivatives and examine the formulae with real anisotropic rocks. The formulations and numerical computations do not encounter any singularity problem when applied to the two quasi shear waves, which is a problem with other approaches. The two methods yield the same results, which show in a quantitative way the sensitivity behaviour of the phase and the group velocities to all of the elastic moduli or Thomsen's anisotropic parameters as well as the orientation angles in the 2D and 3D cases. One can recognize the dominant (strong effect) and weak (or 'dummy') parameters for the three seismic body-wave modes (qP, qSV, qSH) and their effective domains over the whole range of phase-slowness directions. These sensitivity patterns indicate the possibility of nonlinear kinematic inversion with the three wave modes for determining the anisotropic parameters and imaging an anisotropic medium.

Groundwater exploration in a Quaternary sediment body by shear-wave reflection seismics

NASA Astrophysics Data System (ADS)

Pirrung, M.; Polom, U.; Krawczyk, C. M.

2008-12-01

The detailed investigation of a shallow aquifer structure is the prerequisite for choosing a proper well location for groundwater exploration drilling for human drinking water supply and subsequent managing of the aquifer system. In the case of shallow aquifers of some 10 m in depth, this task is still a challenge for high-resolution geophysical methods, especially in populated areas. In areas of paved surfaces, shallow shear-wave reflection seismics is advantageous compared to conventional P-wave seismic methods. The sediment body of the Alfbach valley within the Vulkaneifel region in Germany, partly covered by the village Gillenfeld, was estimated to have a maximum thickness of nearly 60 m. It lies on top of a complicated basement structure, constituted by an incorporated lava flow near the basement. For the positioning of new well locations, a combination of a SH-wave land streamer receiver system and a small, wheelbarrow-mounted SH-wave source was used for the seismic investigations. This equipment can be easily applied also in residential areas without notable trouble for the inhabitants. The results of the 2.5D profiling show a clear image of the sediment body down to the bedrock with high resolution. Along a 1 km seismic profile, the sediment thickness varies between 20 to more than 60 m in the centre of the valley. The reflection behaviour from the bedrock surface corroborates the hypothesis of a basement structure with distinct topography, including strong dipping events from the flanks of the valley and strong diffractions from subsurface discontinuities. The reflection seismic imaging leads to an estimation of the former shape of the valley and a reconstruction of the flow conditions at the beginning of the sedimentation process.

Depth determination and source characteristics of the North Korean Nuclear Tests (2006, 2009, 2013 and 2016) using local and teleseismic arrays

NASA Astrophysics Data System (ADS)

Kim, S. G.

2016-12-01

Depth determination and source characteristics of the North Korea Nuclear tests (2006, 2009, 2013 and 2016) using seismic arrays with azimuthal optium coverage So Gu Kim1,*, Yefim Gitterman2, Václav Vavryčuk3 and Seoung-kyu Lee1 1Korea Seismological Institute, Goyang 10332, Republic of Korea 2Seismology Division, Geophysical Institute of Israel, P.O.B. 182, Lod 71100, Israel 3Institute of Geophysics, Academy of Sciences, Prague 14100, Czech Republic Abstract The source depths for the North Korean nuclear tests (2006, 2009, 2013 and 2016) were determined using depth phases (pP, sP, pPn and sPn) and Rayleigh wave spectra from local and global arrays. The emplacement depths were estimated at 2.21, 2.10, 2.10 and 2.08 km for the 2006, 2009. 2013 and 2016 nuclear tests respectively. It was also found that the mechanism of the 2006 test generated roughly a reverse faulting accompanying mostly Rayleigh waves, whereas the 2009 and 2013 tests were an oblique-reverse faulting generating SH and Love waves as well as Rayleigh waves. The generation of SH and Love waves for the 2009 and 2013 nuclear tests was attributed to not only release of tectonic stress but also other factors such as relaxation of cavity fractures, source configuration and source mechanism. We infer that the 2009, 2013 and 2016 tests must have well contained nuclear debris through long winding horizontal drifts in the light of the absence of radioisotopes to the atmosphere compared with 2006 test which may have been conducted in the vertical shift as a vertically distributed source. ______________________________________________ *Corresponding author: So Gu Kim (sogukim@hanmail.net)

Shear velocity structure of central Eurasia from inversion of surface wave velocities

NASA Astrophysics Data System (ADS)

Villaseñor, A.; Ritzwoller, M. H.; Levshin, A. L.; Barmin, M. P.; Engdahl, E. R.; Spakman, W.; Trampert, J.

2001-04-01

We present a shear velocity model of the crust and upper mantle beneath central Eurasia by simultaneous inversion of broadband group and phase velocity maps of fundamental-mode Love and Rayleigh waves. The model is parameterized in terms of velocity depth profiles on a discrete 2°×2° grid. The model is isotropic for the crust and for the upper mantle below 220 km but, to fit simultaneously long period Love and Rayleigh waves, the model is transversely isotropic in the uppermost mantle, from the Moho discontinuity to 220 km depth. We have used newly available a priori models for the crust and sedimentary cover as starting models for the inversion. Therefore, the crustal part of the estimated model shows good correlation with known surface features such as sedimentary basins and mountain ranges. The velocity anomalies in the upper mantle are related to differences between tectonic and stable regions. Old, stable regions such as the East European, Siberian, and Indian cratons are characterized by high upper-mantle shear velocities. Other large high velocity anomalies occur beneath the Persian Gulf and the Tarim block. Slow shear velocity anomalies are related to regions of current extension (Red Sea and Andaman ridges) and are also found beneath the Tibetan and Turkish-Iranian Plateaus, structures originated by continent-continent collision. A large low velocity anomaly beneath western Mongolia corresponds to the location of a hypothesized mantle plume. A clear low velocity zone in vSH between Moho and 220 km exists across most of Eurasia, but is absent for vSV. The character and magnitude of anisotropy in the model is on average similar to PREM, with the most prominent anisotropic region occurring beneath the Tibetan Plateau.

Effects of C-myc gene silencing on interleukin-1β-induced rat chondrocyte cell proliferation, apoptosis and cytokine expression.

PubMed

Zou, Jian; Li, Xiao-Lin; Shi, Zhong-Min; Xue, Jian-Feng

2018-05-01

This study explores the effects of C-myc gene silencing on cell proliferation, apoptosis and cytokine expression in interleukin (IL)-1β-induced rat chondrocytes. Primary chondrocytes were obtained from 40 Sprague-Dawley rats. For in vitro C-myc3-shRNA transfection, chondrocytes were assigned to a blank 1, model 1, IL-1β + C-myc3-shRNA, C-myc3-shRNA, (IL-1β + C-myc3-shRNA) + C-myc overexpression, C-myc3-shRNA + C-myc overexpression or IL-1β + C-myc-Con group. Western blotting and quantitative real-time polymerase chain reaction (qRT-PCR) were performed to detect C-myc, PCNA and cyclin D1 mRNA and protein expression. Cell proliferation was analyzed via CCK-8 assay and cell cycle while apoptosis was measured through flow cytometry. ELISA was utilized to assess the levels of metallopeptidase 13 (MMP-13), IL-6 and tumor necrosis factor-α (TNF-α). Both the qRT-PCR and Western blotting results demonstrated that C-myc3-shRNA transfection inhibits C-myc expression and promotes PCNA and cyclin D1 expression. In comparison to the model 1 group, all groups except the (IL-1β + C-myc3-shRNA) + C-myc overexpression and IL-1β + C-myc-Con groups showed increases in cell proliferation and S phase cell count and decreases in G 0 /G 1 phase cell count, cell apoptosis and MMP-13, IL-6 and TNF-α levels. The model 1, C-myc3-shRNA and C-myc3-shRNA + C-myc overexpression groups displayed higher cell proliferation and S phase cell count and reduced G 0 /G 1 phase cell count, cell apoptosis and MMP-13, IL-6 and TNF-α levels than the IL-1β + C-myc3-shRNA group. In comparison to the model 1 and C-myc3-shRNA + C-myc overexpression groups, the C-myc3-shRNA group promoted cell proliferation and S phase cell counts but suppressed G 0 /G 1 phase cell count, cell apoptosis and MMP-13, IL-6 and TNF-α levels. In conclusion, the study demonstrates that C-myc gene silencing can promote cell proliferation and inhibit cell apoptosis and cytokine expression in IL-1β-induced rat chondrocytes.

Molecular dissection of the interaction between the SH3 domain and the SH2-Kinase Linker region in PTK6.

PubMed

Kim, Han Ie; Jung, Jinwon; Lee, Eun-Saem; Kim, Yong-Chul; Lee, Weontae; Lee, Seung-Taek

2007-11-03

PTK6 (also known as Brk) is an intracellular tyrosine kinase that contains SH3, SH2, and tyrosine kinase catalytic (Kinase) domains. The SH3 domain of PTK6 interacts with the N-terminal half of the linker (Linker) region between the SH2 and Kinase domains. Site-directed mutagenesis and surface plasmon resonance studies showed that a tryptophan residue (Trp44) in the SH3 domain and proline residues in the Linker region, in the order of Pro177, Pro175, and Pro179, contribute to the interaction. The three-dimensional modeled structure of the SH3-Linker complex was in agreement with the biochemical data. Disruption of the intramolecular interaction between the SH3 domain and the Linker region by mutation of Trp44, Pro175, Pro177, and Pro179 markedly increased the catalytic activity of PTK6 in HEK 293 cells. These results demonstrate that Trp44 in the SH3 domain and Pro177, Pro175, and Pro179 in the N-terminal half of the Linker region play important roles in the SH3-Linker interaction to maintain the protein in an inactive conformation along with the phosphorylated Tyr447-SH2 interaction.

Imaging the complex Farallon subduction system with USArray derived joint inversion of body waves and surface waves

NASA Astrophysics Data System (ADS)

Porritt, R. W.; Allen, R. M.; Pollitz, F. F.; Hung, S.

2012-12-01

The 150 million year history of subduction of the Farallon plate is being well elucidated by the passage of USArray. In this study, we use body wave relative delay times to generate independent P, SV, and SH relative velocity models for the USArray footprint. In addition, we use Rayleigh wave phase velocities derived from teleseismic earthquakes and ambient seismic noise to constrain the lithospheric structure where body waves have limited crossing ray information to form the SV-joint velocity model. The model volume contains a complex series of high velocities mostly along a planar front representing the remnants of the Farallon plate system. This feature has significant lateral and radial extent; beginning off the western coast of the US and terminating east of the model resolution, which goes to the Mississippi river. The bottom of the slab is well imaged through the mantle transition zone to at least 1000km. However, low velocity anomalies within this plane show the slab is far from a continuous sheet. Low velocities break up the slab into several major provinces, relating to different ages of orogens and an episode of flat slab subduction. Additionally, high velocities are often imaged well above the trace of the top of the slab with similar anomaly amplitude and dip as the main slab. While many of these anomalies have been interpreted as mantle drips, the similarity to the slab suggests a possible subduction origin for the features. However, the relatively shallow depths of these features require some mechanism of differentiation to develop neutral buoyancy. The prevalence of these high velocities, such as the Siletzia Curtain, Isabella Anomaly, Nevada Anomaly, and a newly imaged feature under southwest Texas, suggests a differentiation mechanism is fairly common among plates subducting under North America allowing for the observation of widespread shallow high velocity anomalies.

A Steric-inhibition model for regulation of nucleotide exchange via the Dock180 family of GEFs.

PubMed

Lu, Mingjian; Kinchen, Jason M; Rossman, Kent L; Grimsley, Cynthia; Hall, Matthew; Sondek, John; Hengartner, Michael O; Yajnik, Vijay; Ravichandran, Kodi S

2005-02-22

CDM (CED-5, Dock180, Myoblast city) family members have been recently identified as novel, evolutionarily conserved guanine nucleotide exchange factors (GEFs) for Rho-family GTPases . They regulate multiple processes, including embryonic development, cell migration, apoptotic-cell engulfment, tumor invasion, and HIV-1 infection, in diverse model systems . However, the mechanism(s) of regulation of CDM proteins has not been well understood. Here, our studies on the prototype member Dock180 reveal a steric-inhibition model for regulating the Dock180 family of GEFs. At basal state, the N-terminal SH3 domain of Dock180 binds to the distant catalytic Docker domain and negatively regulates the function of Dock180. Further studies revealed that the SH3:Docker interaction sterically blocks Rac access to the Docker domain. Interestingly, ELMO binding to the SH3 domain of Dock180 disrupted the SH3:Docker interaction, facilitated Rac access to the Docker domain, and contributed to the GEF activity of the Dock180/ELMO complex. Additional genetic rescue studies in C. elegans suggested that the regulation of the Docker-domain-mediated GEF activity by the SH3 domain and its adjoining region is evolutionarily conserved. This steric-inhibition model may be a general mechanism for regulating multiple SH3-domain-containing Dock180 family members and may have implications for a variety of biological processes.

Classification and Lineage Tracing of SH2 Domains Throughout Eukaryotes.

PubMed

Liu, Bernard A

2017-01-01

Today there exists a rapidly expanding number of sequenced genomes. Cataloging protein interaction domains such as the Src Homology 2 (SH2) domain across these various genomes can be accomplished with ease due to existing algorithms and predictions models. An evolutionary analysis of SH2 domains provides a step towards understanding how SH2 proteins integrated with existing signaling networks to position phosphotyrosine signaling as a crucial driver of robust cellular communication networks in metazoans. However organizing and tracing SH2 domain across organisms and understanding their evolutionary trajectory remains a challenge. This chapter describes several methodologies towards analyzing the evolutionary trajectory of SH2 domains including a global SH2 domain classification system, which facilitates annotation of new SH2 sequences essential for tracing the lineage of SH2 domains throughout eukaryote evolution. This classification utilizes a combination of sequence homology, protein domain architecture and the boundary positions between introns and exons within the SH2 domain or genes encoding these domains. Discrete SH2 families can then be traced across various genomes to provide insight into its origins. Furthermore, additional methods for examining potential mechanisms for divergence of SH2 domains from structural changes to alterations in the protein domain content and genome duplication will be discussed. Therefore a better understanding of SH2 domain evolution may enhance our insight into the emergence of phosphotyrosine signaling and the expansion of protein interaction domains.

Kinase activation through dimerization by human SH2-B.

PubMed

Nishi, Masahiro; Werner, Eric D; Oh, Byung-Chul; Frantz, J Daniel; Dhe-Paganon, Sirano; Hansen, Lone; Lee, Jongsoon; Shoelson, Steven E

2005-04-01

The isoforms of SH2-B, APS, and Lnk form a family of signaling proteins that have been described as activators, mediators, or inhibitors of cytokine and growth factor signaling. We now show that the three alternatively spliced isoforms of human SH2-B readily homodimerize in yeast two-hybrid and cellular transfections assays, and this is mediated specifically by a unique domain in its amino terminus. Consistent with previous reports, we further show that the SH2 domains of SH2-B and APS bind JAK2 at Tyr813. These findings suggested a model in which two molecules of SH2-B or APS homodimerize with their SH2 domains bound to two JAK2 molecules, creating heterotetrameric JAK2-(SH2-B)2-JAK2 or JAK2-(APS)2-JAK2 complexes. We further show that APS and SH2-B isoforms heterodimerize. At lower levels of SH2-B or APS expression, dimerization approximates two JAK2 molecules to induce transactivation. At higher relative concentrations of SH2-B or APS, kinase activation is blocked. SH2-B or APS homodimerization and SH2-B/APS heterodimerization thus provide direct mechanisms for activating and inhibiting JAK2 and other kinases from the inside of the cell and for potentiating or attenuating cytokine and growth factor receptor signaling when ligands are present.

Semi-supervised prediction of SH2-peptide interactions from imbalanced high-throughput data.

PubMed

Kundu, Kousik; Costa, Fabrizio; Huber, Michael; Reth, Michael; Backofen, Rolf

2013-01-01

Src homology 2 (SH2) domains are the largest family of the peptide-recognition modules (PRMs) that bind to phosphotyrosine containing peptides. Knowledge about binding partners of SH2-domains is key for a deeper understanding of different cellular processes. Given the high binding specificity of SH2, in-silico ligand peptide prediction is of great interest. Currently however, only a few approaches have been published for the prediction of SH2-peptide interactions. Their main shortcomings range from limited coverage, to restrictive modeling assumptions (they are mainly based on position specific scoring matrices and do not take into consideration complex amino acids inter-dependencies) and high computational complexity. We propose a simple yet effective machine learning approach for a large set of known human SH2 domains. We used comprehensive data from micro-array and peptide-array experiments on 51 human SH2 domains. In order to deal with the high data imbalance problem and the high signal-to-noise ration, we casted the problem in a semi-supervised setting. We report competitive predictive performance w.r.t. state-of-the-art. Specifically we obtain 0.83 AUC ROC and 0.93 AUC PR in comparison to 0.71 AUC ROC and 0.87 AUC PR previously achieved by the position specific scoring matrices (PSSMs) based SMALI approach. Our work provides three main contributions. First, we showed that better models can be obtained when the information on the non-interacting peptides (negative examples) is also used. Second, we improve performance when considering high order correlations between the ligand positions employing regularization techniques to effectively avoid overfitting issues. Third, we developed an approach to tackle the data imbalance problem using a semi-supervised strategy. Finally, we performed a genome-wide prediction of human SH2-peptide binding, uncovering several findings of biological relevance. We make our models and genome-wide predictions, for all the 51 SH2-domains, freely available to the scientific community under the following URLs: http://www.bioinf.uni-freiburg.de/Software/SH2PepInt/SH2PepInt.tar.gz and http://www.bioinf.uni-freiburg.de/Software/SH2PepInt/Genome-wide-predictions.tar.gz, respectively.

Joint Inversion of Earthquake Source Parameters with local and teleseismic body waves

NASA Astrophysics Data System (ADS)

Chen, W.; Ni, S.; Wang, Z.

2011-12-01

In the classical source parameter inversion algorithm of CAP (Cut and Paste method, by Zhao and Helmberger), waveform data at near distances (typically less than 500km) are partitioned into Pnl and surface waves to account for uncertainties in the crustal models and different amplitude weight of body and surface waves. The classical CAP algorithms have proven effective for resolving source parameters (focal mechanisms, depth and moment) for earthquakes well recorded on relatively dense seismic network. However for regions covered with sparse stations, it is challenging to achieve precise source parameters . In this case, a moderate earthquake of ~M6 is usually recorded on only one or two local stations with epicentral distances less than 500 km. Fortunately, an earthquake of ~M6 can be well recorded on global seismic networks. Since the ray paths for teleseismic and local body waves sample different portions of the focal sphere, combination of teleseismic and local body wave data helps constrain source parameters better. Here we present a new CAP mothod (CAPjoint), which emploits both teleseismic body waveforms (P and SH waves) and local waveforms (Pnl, Rayleigh and Love waves) to determine source parameters. For an earthquake in Nevada that is well recorded with dense local network (USArray stations), we compare the results from CAPjoint with those from the traditional CAP method involving only of local waveforms , and explore the efficiency with bootstraping statistics to prove the results derived by CAPjoint are stable and reliable. Even with one local station included in joint inversion, accuracy of source parameters such as moment and strike can be much better improved.

Dispersion Energy Analysis of Rayleigh and Love Waves in the Presence of Low-Velocity Layers in Near-Surface Seismic Surveys

NASA Astrophysics Data System (ADS)

Mi, Binbin; Xia, Jianghai; Shen, Chao; Wang, Limin

2018-03-01

High-frequency surface-wave analysis methods have been effectively and widely used to determine near-surface shear (S) wave velocity. To image the dispersion energy and identify different dispersive modes of surface waves accurately is one of key steps of using surface-wave methods. We analyzed the dispersion energy characteristics of Rayleigh and Love waves in near-surface layered models based on numerical simulations. It has been found that if there is a low-velocity layer (LVL) in the half-space, the dispersion energy of Rayleigh or Love waves is discontinuous and ``jumping'' appears from the fundamental mode to higher modes on dispersive images. We introduce the guided waves generated in an LVL (LVL-guided waves, a trapped wave mode) to clarify the complexity of the dispersion energy. We confirm the LVL-guided waves by analyzing the snapshots of SH and P-SV wavefield and comparing the dispersive energy with theoretical values of phase velocities. Results demonstrate that LVL-guided waves possess energy on dispersive images, which can interfere with the normal dispersion energy of Rayleigh or Love waves. Each mode of LVL-guided waves having lack of energy at the free surface in some high frequency range causes the discontinuity of dispersive energy on dispersive images, which is because shorter wavelengths (generally with lower phase velocities and higher frequencies) of LVL-guided waves cannot penetrate to the free surface. If the S wave velocity of the LVL is higher than that of the surface layer, the energy of LVL-guided waves only contaminates higher mode energy of surface waves and there is no interlacement with the fundamental mode of surface waves, while if the S wave velocity of the LVL is lower than that of the surface layer, the energy of LVL-guided waves may interlace with the fundamental mode of surface waves. Both of the interlacements with the fundamental mode or higher mode energy may cause misidentification for the dispersion curves of surface waves.

Structure and ion channel activity of the human respiratory syncytial virus (hRSV) small hydrophobic protein transmembrane domain

PubMed Central

Gan, Siok Wan; Ng, Lifang; Lin, Xin; Gong, Xiandi; Torres, Jaume

2008-01-01

The small hydrophobic (SH) protein from the human respiratory syncytial virus (hRSV) is a glycoprotein of ∼64 amino acids with one putative α-helical transmembrane domain. Although SH protein is important for viral infectivity, its exact role during viral infection is not clear. Herein, we have studied the secondary structure, orientation, and oligomerization of the transmembrane domain of SH (SH-TM) in the presence of lipid bilayers. Only one oligomer, a pentamer, was observed in PFO-PAGE. Using polarized attenuated total reflection-Fourier transform infrared (PATR-FTIR) spectroscopy, we show that the SH-TM is α-helical. The rotational orientation of SH-TM was determined by site-specific infrared dichroism (SSID) at two consecutive isotopically labeled residues. This orientation is consistent with that of an evolutionary conserved pentameric model obtained from a global search protocol using 13 homologous sequences of RSV. Conductance studies of SH-TM indicate ion channel activity, which is cation selective, and inactive below the predicted pKa of histidine. Thus, our results provide experimental evidence that the transmembrane domain of SH protein forms pentameric α-helical bundles that form cation-selective ion channels in planar lipid bilayers. We provide a model for this pore, which should be useful in mutagenesis studies to elucidate its role during the virus cycle. PMID:18369195

Workplace harassment, stress, and drinking behavior over time: gender differences in a national sample.

PubMed

Rospenda, Kathleen M; Fujishiro, Kaori; Shannon, Candice A; Richman, Judith A

2008-07-01

Research suggests that workplace harassment (WH) significantly predicts alcohol use and problem drinking behavior, but has generally failed to consider concurrent effects of other sources of stress. This two-wave study (n=1418) is the first to explore whether sexual harassment (SH) and generalized workplace harassment (GWH) predict increased drinking independently of the effects of job and life stress, and whether effects differ by gender, in a nationally representative sample. SH and GWH predicted increases in problem drinking one year later for men but not women, while life stress was associated with increased problem drinking for women but not men. This study confirms the importance of examining the associations between different types of stressors and drinking-related outcomes in gendered contexts.

Neuroadaptation in Nicotine Addiction: Update on the Sensitization-Homeostasis Model

PubMed Central

DiFranza, Joseph R.; Huang, Wei; King, Jean

2012-01-01

The role of neuronal plasticity in supporting the addictive state has generated much research and some conceptual theories. One such theory, the sensitization-homeostasis (SH) model, postulates that nicotine suppresses craving circuits, and this triggers the development of homeostatic adaptations that autonomously support craving. Based on clinical studies, the SH model predicts the existence of three distinct forms of neuroplasticity that are responsible for withdrawal, tolerance and the resolution of withdrawal. Over the past decade, many controversial aspects of the SH model have become well established by the literature, while some details have been disproven. Here we update the model based on new studies showing that nicotine dependence develops through a set sequence of symptoms in all smokers, and that the latency to withdrawal, the time it takes for withdrawal symptoms to appear during abstinence, is initially very long but shortens by several orders of magnitude over time. We conclude by outlining directions for future research based on the updated model, and commenting on how new experimental studies can gain from the framework put forth in the SH model. PMID:24961259

Structure and functional dynamics characterization of the ion channel of the human respiratory syncytial virus (hRSV) small hydrophobic protein (SH) transmembrane domain by combining molecular dynamics with excited normal modes.

PubMed

Araujo, Gabriela C; Silva, Ricardo H T; Scott, Luis P B; Araujo, Alexandre S; Souza, Fatima P; de Oliveira, Ronaldo Junio

2016-12-01

The human respiratory syncytial virus (hRSV) is the major cause of lower respiratory tract infection in children and elderly people worldwide. Its genome encodes 11 proteins including SH protein, whose functions are not well known. Studies show that SH protein increases RSV virulence degree and permeability to small compounds, suggesting it is involved in the formation of ion channels. The knowledge of SH structure and function is fundamental for a better understanding of its infection mechanism. The aim of this study was to model, characterize, and analyze the structural behavior of SH protein in the phospholipids bilayer environment. Molecular modeling of SH pentameric structure was performed, followed by traditional molecular dynamics (MD) simulations of the protein immersed in the lipid bilayer. Molecular dynamics with excited normal modes (MDeNM) was applied in the resulting system in order to investigate long time scale pore dynamics. MD simulations support that SH protein is stable in its pentameric form. Simulations also showed the presence of water molecules within the bilayer by density distribution, thus confirming that SH protein is a viroporin. This water transport was also observed in MDeNM studies with histidine residues of five chains (His22 and His51), playing a key role in pore permeability. The combination of traditional MD and MDeNM was a very efficient protocol to investigate functional conformational changes of transmembrane proteins that act as molecular channels. This protocol can support future investigations of drug candidates by acting on SH protein to inhibit viral infection. Graphical Abstract The ion channel of the human respiratory syncytial virus (hRSV) small hydrophobic protein (SH) transmembrane domainᅟ.

Allelic Analysis of Sheath Blight Resistance with Association Mapping in Rice

PubMed Central

Jia, Limeng; Yan, Wengui; Zhu, Chengsong; Agrama, Hesham A.; Jackson, Aaron; Yeater, Kathleen; Li, Xiaobai; Huang, Bihu; Hu, Biaolin; McClung, Anna; Wu, Dianxing

2012-01-01

Sheath blight (ShB) caused by the soil-borne pathogen Rhizoctonia solani is one of the most devastating diseases in rice world-wide. Global attention has focused on examining individual mapping populations for quantitative trait loci (QTLs) for ShB resistance, but to date no study has taken advantage of association mapping to examine hundreds of lines for potentially novel QTLs. Our objective was to identify ShB QTLs via association mapping in rice using 217 sub-core entries from the USDA rice core collection, which were phenotyped with a micro-chamber screening method and genotyped with 155 genome-wide markers. Structure analysis divided the mapping panel into five groups, and model comparison revealed that PCA5 with genomic control was the best model for association mapping of ShB. Ten marker loci on seven chromosomes were significantly associated with response to the ShB pathogen. Among multiple alleles in each identified loci, the allele contributing the greatest effect to ShB resistance was named the putative resistant allele. Among 217 entries, entry GSOR 310389 contained the most putative resistant alleles, eight out of ten. The number of putative resistant alleles presented in an entry was highly and significantly correlated with the decrease of ShB rating (r = −0.535) or the increase of ShB resistance. Majority of the resistant entries that contained a large number of the putative resistant alleles belonged to indica, which is consistent with a general observation that most ShB resistant accessions are of indica origin. These findings demonstrate the potential to improve breeding efficiency by using marker-assisted selection to pyramid putative resistant alleles from various loci in a cultivar for enhanced ShB resistance in rice. PMID:22427867

New Vary-Chap Profile of the Topside Ionosphere Electron Density Distribution for use with the IRI Model and the GIRO Real-Time Data

NASA Technical Reports Server (NTRS)

Nsumei, Patrick; Reinisch, Bodo W.; Huang, Xueqin; Bilitza, Dieter

2012-01-01

A new Vary-Chap function is introduced for the empirical modeling of the electron density N(h) profile in the topside ionosphere that uses a shape function S(h) in the generalized Chapman function. The Vary-Chap profile extends the bottomside profile that is specified by the IRI model or measured by the Global Ionospheric Radio Observatory (GIRO) to the altitude of the ISIS-2 satellite. Some 80,000 topside profiles, measured by the topside sounder on the ISIS-2 satellite were analyzed, and the shape function S(h) was calculated for each profile. A parameterized function S*(h), composed of two sub-functions S1(h) and S2(h), is fitted to the measured S(h) profile using three free parameters. At altitudes just above the F2 layer peak height hmF2, the shape function S1 controls S(h), and at greater altitudes S2 controls S(h). The height of the intersection of S1 and S2 is defined as the transition height h(sub T) indicating the transition from an O(+) to an H(+)-dominated profile shape. The observed transition heights range from approx.500 km to 800 km.

A new impulsive seismic shear wave source for near-surface (0-30 m) seismic studies

NASA Astrophysics Data System (ADS)

Crane, J. M.; Lorenzo, J. M.

2010-12-01

Estimates of elastic moduli and fluid content in shallow (0-30 m) natural soils below artificial flood containment structures can be particularly useful in levee monitoring as well as seismic hazard studies. Shear wave moduli may be estimated from horizontally polarized, shear wave experiments. However, long profiles (>10 km) with dense receiver and shot spacings (<1m) cannot be collected efficiently using currently available shear wave sources. We develop a new, inexpensive, shear wave source for collecting fast, shot gathers over large acquisition sites. In particular, gas-charged, organic-rich sediments comprising most lower-delta sedimentary facies, greatly attenuate compressional body-waves. On the other hand, SH waves are relatively insensitive to pore-fluid moduli and can improve resolution. We develop a recoil device (Jolly, 1956) into a single-user, light-weight (<20 kg), impulsive, ground-surface-coupled SH wave generator, which is capable of working at rates of several hundred shotpoints per day. Older impulsive methods rely on hammer blows to ground-planted stationary targets. Our source is coupled to the ground with steel spikes and the powder charge can be detonated mechanically or electronically. Electrical fuses show repeatability in start times of < 50 microseconds. The barrel and shell-holder exceed required thicknesses to ensure complete safety during use. The breach confines a black-powder, 12-gauge shotgun shell, loaded with inert, environmentally safe ballast. In urban settings, produced heat and sound are confined by a detached, exterior cover. A moderate 2.5 g black-powder charge generates seismic amplitudes equivalent to three 4-kg sledge-hammer blows. We test this device to elucidate near subsurface sediment properties at former levee breach sites in New Orleans, Louisiana, USA. Our radio-telemetric seismic acquisition system uses an in-house landstreamer, consisting of 14-Hz horizontal component geophones, coupled to steel plates. Reflected, refracted and surface arrivals resulting from a single shot of this seismic source are comparable in signal, noise, and frequency composition to three stacked hammer blows to a ground-planted stationary target.

Intramolecular interactions regulate SAP97 binding to GKAP

PubMed Central

Wu, Hongju; Reissner, Carsten; Kuhlendahl, Sven; Coblentz, Blake; Reuver, Susanne; Kindler, Stefan; Gundelfinger, Eckart D.; Garner, Craig C.

2000-01-01

Membrane-associated guanylate kinase homologs (MAGUKs) are multidomain proteins found to be central organizers of cellular junctions. In this study, we examined the molecular mechanisms that regulate the interaction of the MAGUK SAP97 with its GUK domain binding partner GKAP (GUK-associated protein). The GKAP–GUK interaction is regulated by a series of intramolecular interactions. Specifically, the association of the Src homology 3 (SH3) domain and sequences situated between the SH3 and GUK domains with the GUK domain was found to interfere with GKAP binding. In contrast, N-terminal sequences that precede the first PDZ domain in SAP97, facilitated GKAP binding via its association with the SH3 domain. Utilizing crystal structure data available for PDZ, SH3 and GUK domains, molecular models of SAP97 were generated. These models revealed that SAP97 can exist in a compact U-shaped conformation in which the N-terminal domain folds back and interacts with the SH3 and GUK domains. These models support the biochemical data and provide new insights into how intramolecular interactions may regulate the association of SAP97 with its binding partners. PMID:11060025

Genetic loss of SH2B3 in acute lymphoblastic leukemia.

PubMed

Perez-Garcia, Arianne; Ambesi-Impiombato, Alberto; Hadler, Michael; Rigo, Isaura; LeDuc, Charles A; Kelly, Kara; Jalas, Chaim; Paietta, Elisabeth; Racevskis, Janis; Rowe, Jacob M; Tallman, Martin S; Paganin, Maddalena; Basso, Giuseppe; Tong, Wei; Chung, Wendy K; Ferrando, Adolfo A

2013-10-03

The SH2B adaptor protein 3 (SH2B3) gene encodes a negative regulator of cytokine signaling with a critical role in the homeostasis of hematopoietic stem cells and lymphoid progenitors. Here, we report the identification of germline homozygous SH2B3 mutations in 2 siblings affected with developmental delay and autoimmunity, one in whom B-precursor acute lymphoblastic leukemia (ALL) developed. Mechanistically, loss of SH2B3 increases Janus kinase-signal transducer and activator of transcription signaling, promotes lymphoid cell proliferation, and accelerates leukemia development in a mouse model of NOTCH1-induced ALL. Moreover, extended mutation analysis showed homozygous somatic mutations in SH2B3 in 2 of 167 ALLs analyzed. Overall, these results demonstrate a Knudson tumor suppressor role for SH2B3 in the pathogenesis of ALL and highlight a possible link between genetic predisposition factors in the pathogenesis of autoimmunity and leukemogenesis.

Intratracheal administration of p38α short-hairpin RNA plasmid ameliorates lung ischemia-reperfusion injury in rats.

PubMed

Lv, Xiangqi; Tan, Jing; Liu, Dongdong; Wu, Ping; Cui, Xiaoguang

2012-06-01

Lung ischemia-reperfusion injury (LIRI) remains a significant problem after lung transplantation. A crucial signaling enzyme involved in inflammation and apoptosis during LIRI is p38 mitogen-activated protein kinase (MAPK). Gene silencing of p38α by short hairpin RNA (shRNA) can downregulate p38α expression. The lungs have an extremely large surface area, which makes the absorption of shRNA highly effective. Therefore, we evaluated the therapeutic efficacy of p38α shRNA plasmids in a rat model of lung transplantation. The delivery of p38α shRNA plasmid was performed by intratracheal administration 48 hours before transplantation into donor rats. Control animals received scrambled shRNA plasmids. Reverse-transcription polymerase chain reaction and Western blots were used to assess gene silencing efficacy. The therapeutic effects of shRNA plasmids were evaluated by lung function tests. We determined the levels of inflammatory cytokines, the level of intercellular adhesion molecule 1 (ICAM-1), c-Myc mRNA expression, and ICAM-1 protein expression, and the presence of cell apoptosis. Rats administered p38α shRNA plasmids showed a significant downregulation in lung expression of p38α transcripts and protein levels. Compared with the control group, the p38α shRNA group showed a higher pulmonary vein oxygen level, lower wet weight-to-dry weight ratio, lower lung injury score, and lower serum levels of tumor necrosis factor-α, interleukin-6, and interleukin-8. Messenger RNA levels of ICAM-1 and c-Myc in the p38α shRNA group were dramatically lower than in the control group. Levels of ICAM-1 protein expression exhibited a similar trend. Cell apoptosis decreased in the p38α shRNA group vs the control group. Intratracheal administration of p38α shRNA plasmids provided therapeutic effects in a rat model of lung transplantation. Crown Copyright © 2012. Published by Elsevier Inc. All rights reserved.

Spatial extreme value analysis to project extremes of large-scale indicators for severe weather

PubMed Central

Gilleland, Eric; Brown, Barbara G; Ammann, Caspar M

2013-01-01

Concurrently high values of the maximum potential wind speed of updrafts (Wmax) and 0–6 km wind shear (Shear) have been found to represent conducive environments for severe weather, which subsequently provides a way to study severe weather in future climates. Here, we employ a model for the product of these variables (WmSh) from the National Center for Atmospheric Research/United States National Center for Environmental Prediction reanalysis over North America conditioned on their having extreme energy in the spatial field in order to project the predominant spatial patterns of WmSh. The approach is based on the Heffernan and Tawn conditional extreme value model. Results suggest that this technique estimates the spatial behavior of WmSh well, which allows for exploring possible changes in the patterns over time. While the model enables a method for inferring the uncertainty in the patterns, such analysis is difficult with the currently available inference approach. A variation of the method is also explored to investigate how this type of model might be used to qualitatively understand how the spatial patterns of WmSh correspond to extreme river flow events. A case study for river flows from three rivers in northwestern Tennessee is studied, and it is found that advection of WmSh from the Gulf of Mexico prevails while elsewhere, WmSh is generally very low during such extreme events. © 2013 The Authors. Environmetrics published by JohnWiley & Sons, Ltd. PMID:24223482

Design, fabrication, and testing of an ultrasonic de-icing system for helicopter rotor blades

NASA Astrophysics Data System (ADS)

Palacios, Jose Luis

A low-power, non-thermal ultrasonic de-icing system is introduced as a possible substitute for current electro-thermal systems. The system generates delaminating ultrasonic transverse shear stresses at the interface of accreted ice. A PZT-4 disk driven at 28.5 KHz (radial resonance of the disk) instantaneously de-bonds 2 mm thick freezer ice layers. The ice layers are accreted to a 0.7 mm thick, 30.4 cm x 30.4 cm steel plate at an environment temperature of -20°C. A power input of 50 Watts is applied to the actuator (50 V, 19.6 KV/m), which translates to a de-icing power of 0.07 W/cm2. A finite element model of the actuator bonded to the isotropic plate is used to guide the design of the system, and predicts the transverse shear stresses at the ice interface. Wind tunnel icing tests were conducted to demonstrate the potential use of the proposed system under impact icing conditions. Both glaze ice and rime ice were generated on steel and composite plates by changing the cloud conditions of the wind tunnel. Continuous ultrasonic vibration prevented impact ice formation around the actuator location at an input power not exceeding 0.18 W/cm 2 (1.2 W/in2). As ice thickness reached a critical thickness of approximately 1.2 mm, shedding occurred on those locations where ultrasonic transverse shear stresses exceeded the shear adhesion strength of the ice. Finite element transverse shear stress predictions correlate with observed experimental impact ice de-bonding behavior. To increase the traveling distance of propagating ultrasonic waves, ultrasonic shear horizontal wave modes are studied. Wave modes providing large modal interface transverse shear stress concentration coefficients (ISCC) between the host structure (0.7 mm thick steel plate) and accreted ice (2.5 mm thick ice layer) are identified and investigated for a potential increase in the wave propagation distance. Ultrasonic actuators able to trigger these optimum wave modes are designed and fabricated. Despite exciting wave modes with high ISCC values, instantaneous ice de-bonding is not observed at input powers under 100 Watts. The two triggered ultrasonic wave modes of the structure occur at high excitation frequencies, 202 KHz and 500 KHz respectively. At these frequencies, the ultrasonic actuators do not provide large enough transverse shear stresses to exceed the shear adhesion strength of the ice layer. Neither the actuator exciting the SH1 mode (202 KHz), nor the actuator triggering the SH2 mode (500 KHz) instantaneously de-bonds ice layers with an input power under 100 Watts.

Advanced seismic imaging of overdeepened alpine valleys

NASA Astrophysics Data System (ADS)

Burschil, Thomas; Buness, Hermann; Tanner, David; Gabriel, Gerald; Krawczyk, Charlotte M.

2017-04-01

Major European alpine valleys and basins are densely populated areas with infrastructure of international importance. To protect the environment by, e.g., geohazard assessment or groundwater estimation, understanding of the geological structure of these valleys is essential. The shape and deposits of a valley can clarify its genesis and allows a prediction of behaviour in future glaciations. The term "overdeepened" refers to valleys and basins, in which pressurized melt-water under the glacier erodes the valley below the fluvial level. Most overdeepened valleys or basins were thus refilled during the ice melt or remain in the form of lakes. The ICDP-project Drilling Overdeepened Alpine Valleys (DOVE) intends to correlate the sedimentary succession from boreholes between valleys in the entire alpine range. Hereby, seismic exploration is essential to predict the most promising well path and drilling site. In a first step, this DFG-funded project investigates the benefit of multi-component techniques for seismic imaging. At two test sites, the Tannwald Basin and the Lienz Basin, the Leibniz Institute for Applied Geophysics acquired P-wave reflection profiles to gain structural and facies information. Built on the P-wave information, several S-wave reflection profiles were acquired in the pure SH-wave domain as well as 6-C reflection profiles using a horizontal S-wave source in inline and crossline excitation and 3-C receivers. Five P-wave sections reveal the structure of the Tannwald Basin, which is a distal branch basin of the Rhine Glacier. Strong reflections mark the base of the basin, which has a maximum depth of 240 metres. Internal structures and facies vary strongly and spatially, but allow a seismic facies characterization. We distinguish lacustrine, glacio-fluvial, and deltaic deposits, which make up the fill of the Tannwald Basin. Elements of the SH-wave and 6-C seismic imaging correlate with major structures in the P-wave image, but vary in detail. Based on the interpretation, two possible drilling sites are suggested for DOVE that will also prove the seismic interpretation and explain differences in P- and S-wave imaging. First results for the intermountain Lienz Basin are available from four parallel P-wave sections which show the asymmetric basin shape. The sedimentary base is well imaged down to ca. 0.6 km depth, and internal reflectors point to a diverse fill. Here, S-wave imaging produces less distinct sections and requires more sophisticated processing. In summary, P-wave imaging is suitable to map overdeepened structures in the Alps while S-wave imaging can contribute additional information.

Near-surface velocities and attenuation at two boreholes near Anza, California, from logging data

USGS Publications Warehouse

Fletcher, Joe B.; Fumal, T.; Hsi-Ping, Liu; Carroll, L.C.

1990-01-01

To investigate near-surface site effects in granite rock, we drilled 300-m deep boreholes at two sites which are collocated with stations from the digital array at Anza, California. Significant motion perpendicular to the polarizations of the first shear-wave arrival was recorded within a few meters of the surface. Apparently, the rock structure is sufficiently complicated that body waves are being converted (SH to SV at oblique incidence) very close to the surface. The presence of these elliptical particle motions within a mere few m of the pure shear-wave source suggests that the detection of polarizations perpendicular to the main shear arrival at a single location at the surface is not, by itself, a good method for detecting shear-wave splitting within the upper few tens of kilometers of the earth's crust. -from Authors

Double ionization of nitrogen molecules in orthogonal two-color femtosecond laser fields

NASA Astrophysics Data System (ADS)

Song, Qiying; Li, Hui; Wang, Junping; Lu, Peifen; Gong, Xiaochun; Ji, Qinying; Lin, Kang; Zhang, Wenbin; Ma, Junyang; Li, Hanxiao; Zeng, Heping; He, Feng; Wu, Jian

2018-04-01

Double ionization of nitrogen molecules in orthogonally polarized two-color femtosecond laser fields is investigated by varying the relative intensity between the fundamental wave (FW) and its second harmonic (SH) components. The yield ratios of the double ionization channels, i.e., the non-dissociative {{{{N}}}2}2+ and Coulomb exploded (N+, N+), to the singly charged N2 + channel exhibit distinct dependences on the relative strength between the FW and SH fields. As the intensity ratio of SH to FW increases, the yield ratio of (N+, N+)/N2 + gradually increases, while the ratio of {{{{N}}}2}2+/N2 + first descends and then increases constituting a valley shape which is similar to the behavior of Ar2+/Ar+ observed in the same experimental condition. Based on the classical trajectory simulations, we found that the different characteristics of the two doubly ionized channels stem from two mechanisms, i.e., the {{{{N}}}2}2+ is mostly accessed by the (e, 2e) impact ionization while the recollision-induced excitation with subsequent ionization plays an important role in producing the (N+, N+) channel.

Sexual harassment--a touchy subject for nurses.

PubMed

Cogin, Julie; Fish, Alan

2009-01-01

The purpose of this paper is to examine prevalence of sexual harassment (SH) in nursing and the environmental factors that contribute to incidents of SH. A mixed-method research methodology is adopted. A total of 538 questionnaires are collected from nurses working in eight different hospitals across metropolitan and rural areas in Australia. A total of 23 in-depth semi-structured interviews are conducted. Prevalence of SH in nursing is high with 60 percent of female nurses and 34 percent of male nurses reporting a SH incident in the two-year period prior to this paper. The questionnaire data suggest that patients are the most likely perpetrator, however, the interviews name physicians as typical perpetrators. A model is tested via structural equation modelling and revealed that leadership behaviors, an unbalanced job gender ratio and no prior socialization are positively associated with SH. This paper closes gaps in theory by introducing a new framework explaining the contextual factors that heighten a nurses' probability of being harassed. Some variables such as organizational culture and specific nursing units have not been explored and can be considered a limitation of the paper. The results of this paper assist health professionals to adopt proactive practices for managing SH and plan a workforce where SH is minimized. This paper illustrates the prevalence of different types of SH and the causes for male and female nurses that have not been investigated previously. The results help health managers make informed decisions in regard to intervention strategies.

Polariton resonances in multilayered piezoelectric superlattices

NASA Astrophysics Data System (ADS)

Piliposyan, D.

2018-04-01

Coupled electro-elastic SH waves propagating in a periodic piezoelectric finite-length superlattice with identical piezoelectric materials in a unit cell are considered in the framework of the full system of Maxwell’s electrodynamic equations. In the long wavelength region, coupling between electro-magnetic and elastic waves creates frequency band gaps. It is shown that for piezoelectric superlattice at acoustic frequencies, acousto-optic coupling gives rise to polariton behavior at wavelengths much larger than the length of the unit cell. The results of the paper may be useful in design of narrow band filters or multi-channel piezoelectric filters.

High Temperature Shear Horizontal Electromagnetic Acoustic Transducer for Guided Wave Inspection

PubMed Central

Kogia, Maria; Gan, Tat-Hean; Balachandran, Wamadeva; Livadas, Makis; Kappatos, Vassilios; Szabo, Istvan; Mohimi, Abbas; Round, Andrew

2016-01-01

Guided Wave Testing (GWT) using novel Electromagnetic Acoustic Transducers (EMATs) is proposed for the inspection of large structures operating at high temperatures. To date, high temperature EMATs have been developed only for thickness measurements and they are not suitable for GWT. A pair of water-cooled EMATs capable of exciting and receiving Shear Horizontal (SH0) waves for GWT with optimal high temperature properties (up to 500 °C) has been developed. Thermal and Computational Fluid Dynamic (CFD) simulations of the EMAT design have been performed and experimentally validated. The optimal thermal EMAT design, material selection and operating conditions were calculated. The EMAT was successfully tested regarding its thermal and GWT performance from ambient temperature to 500 °C. PMID:27110792

Seasonal changes in the tropospheric carbon monoxide profile over the remote Southern Hemisphere evaluated using multi-model simulations and aircraft observations

NASA Astrophysics Data System (ADS)

Fisher, J. A.; Wilson, S. R.; Zeng, G.; Williams, J. E.; Emmons, L. K.; Langenfelds, R. L.; Krummel, P. B.; Steele, L. P.

2015-03-01

The combination of low anthropogenic emissions and large biogenic sources that characterizes the Southern Hemisphere (SH) leads to significant differences in atmospheric composition relative to the better studied Northern Hemisphere. This unique balance of sources poses significant challenges for global models. Carbon monoxide (CO) in particular is difficult to simulate in the SH due to the increased importance of secondary chemical production associated with the much more limited primary emissions. Here, we use aircraft observations from the 1991-2000 Cape Grim Overflight Program (CGOP) and the 2009-2011 HIAPER (High-performance Instrumented Airborne Platform for Environmental Research) Pole-to-Pole Observations (HIPPO), together with model output from the SH Model Intercomparison Project, to elucidate the drivers of CO vertical structure in the remote SH. Observed CO vertical profiles from Cape Grim are remarkably consistent with those observed over the southern mid-latitudes Pacific 10-20 years later, despite major differences in time periods, flight locations, and sampling strategies between the two data sets. These similarities suggest the processes driving observed vertical gradients are coherent across much of the remote SH and have not changed significantly over the past 2 decades. Model ability to simulate CO profiles reflects the interplay between biogenic emission sources, the chemical mechanisms that drive CO production from these sources, and the transport that redistributes this CO throughout the SH. The four chemistry-climate and chemical transport models included in the intercomparison show large variability in their abilities to reproduce the observed CO profiles. In particular, two of the four models significantly underestimate vertical gradients in austral summer and autumn, which we find are driven by long-range transport of CO produced from oxidation of biogenic compounds. Comparisons between the models show that more complex chemical mechanisms do not necessarily provide more accurate simulation of CO vertical gradients due to the convolved impacts of emissions, chemistry, and transport. Our results imply a large sensitivity of the remote SH troposphere to biogenic emissions and chemistry, both of which remain key uncertainties in global modeling. We suggest that the CO vertical gradient can be used as a metric for future model evaluation as it provides a sensitive test of the processes that define the chemical state of the background atmosphere.

Strain Differences in Antioxidants in Rat Models of Cardiovascular Disease Exposed to Ozone

EPA Science Inventory

We examined the hypothesis that antioxidant substances and enzymes in lung, heart and in bronchoalveolar lavage fluid (BALF) are altered in response to 03 in cardiovascular disease and/or metabolic syndrome (CVD)-prone rat models. CVD strains [spontaneously hypertensive (SH), SH ...

Numerical Simulation of Strong Ground Motion at Mexico City:A Hybrid Approach for Efficient Evaluation of Site Amplification and Path Effects for Different Types of Earthquakes

NASA Astrophysics Data System (ADS)

Cruz, H.; Furumura, T.; Chavez-Garcia, F. J.

2002-12-01

The estimation of scenarios of the strong ground motions caused by future great earthquakes is an important problem in strong motion seismology. This was pointed out by the great 1985 Michoacan earthquake, which caused a great damage in Mexico City, 300 km away from the epicenter. Since the seismic wavefield is characterized by the source, path and site effects, the pattern of strong motion damage from different types of earthquakes should differ significantly. In this study, the scenarios for intermediate-depth normal-faulting, shallow-interplate thrust faulting, and crustal earthquakes have been estimated using a hybrid simulation technique. The character of the seismic wavefield propagating from the source to Mexico City for each earthquake was first calculated using the pseudospectral method for 2D SH waves. The site amplifications in the shallow structure of Mexico City are then calculated using the multiple SH wave reverberation theory. The scenarios of maximum ground motion for both inslab and interplate earthquakes obtained by the simulation show a good agreement with the observations. This indicates the effectiveness of the hybrid simulation approach to investigate the strong motion damage for future earthquakes.

Diffraction of SH-waves by topographic features in a layered transversely isotropic half-space

NASA Astrophysics Data System (ADS)

Ba, Zhenning; Liang, Jianwen; Zhang, Yanju

2017-01-01

The scattering of plane SH-waves by topographic features in a layered transversely isotropic (TI) half-space is investigated by using an indirect boundary element method (IBEM). Firstly, the anti-plane dynamic stiffness matrix of the layered TI half-space is established and the free fields are solved by using the direct stiffness method. Then, Green's functions are derived for uniformly distributed loads acting on an inclined line in a layered TI half-space and the scattered fields are constructed with the deduced Green's functions. Finally, the free fields are added to the scattered ones to obtain the global dynamic responses. The method is verified by comparing results with the published isotropic ones. Both the steady-state and transient dynamic responses are evaluated and discussed. Numerical results in the frequency domain show that surface motions for the TI media can be significantly different from those for the isotropic case, which are strongly dependent on the anisotropy property, incident angle and incident frequency. Results in the time domain show that the material anisotropy has important effects on the maximum duration and maximum amplitudes of the time histories.

New approaches to high-throughput structure characterization of SH3 complexes: the example of Myosin-3 and Myosin-5 SH3 domains from S. cerevisiae.

PubMed

Musi, Valeria; Birdsall, Berry; Fernandez-Ballester, Gregorio; Guerrini, Remo; Salvatori, Severo; Serrano, Luis; Pastore, Annalisa

2006-04-01

SH3 domains are small protein modules that are involved in protein-protein interactions in several essential metabolic pathways. The availability of the complete genome and the limited number of clearly identifiable SH3 domains make the yeast Saccharomyces cerevisae an ideal proteomic-based model system to investigate the structural rules dictating the SH3-mediated protein interactions and to develop new tools to assist these studies. In the present work, we have determined the solution structure of the SH3 domain from Myo3 and modeled by homology that of the highly homologous Myo5, two myosins implicated in actin polymerization. We have then implemented an integrated approach that makes use of experimental and computational methods to characterize their binding properties. While accommodating their targets in the classical groove, the two domains have selectivity in both orientation and sequence specificity of the target peptides. From our study, we propose a consensus sequence that may provide a useful guideline to identify new natural partners and suggest a strategy of more general applicability that may be of use in other structural proteomic studies.

Mathematical model of the SH-3G helicopter

NASA Technical Reports Server (NTRS)

Phillips, J. D.

1982-01-01

A mathematical model of the Sikorsky SH-3G helicopter based on classical nonlinear, quasi-steady rotor theory was developed. The model was validated statically and dynamically by comparison with Navy flight-test data. The model incorporates ad hoc revisions which address the ideal assumptions of classical rotor theory and improve the static trim characteristics to provide a more realistic simulation, while retaining the simplicity of the classical model.

Workplace harassment, stress, and drinking behavior over time: Gender differences in a national sample

PubMed Central

Rospenda, Kathleen M.; Fujishiro, Kaori; Shannon, Candice A.; Richman, Judith A.

2008-01-01

Research suggests that workplace harassment (WH) significantly predicts alcohol use and problem drinking behavior, but has generally failed to consider concurrent effects of other sources of stress. This two-wave study (n=1418) is the first to explore whether sexual harassment (SH) and generalized workplace harassment (GWH) predict increased drinking independently of the effects of job and life stress, and whether effects differ by gender, in a nationally representative sample. SH and GWH predicted increases in problem drinking one year later for men but not women, while life stress was associated with increased problem drinking for women but not men. This study confirms the importance of examining the associations between different types of stressors and drinking-related outcomes in gendered contexts. PMID:18384975

Effects of all-trans-retinoic acid on human SH-SY5Y neuroblastoma as in vitro model in neurotoxicity research.

PubMed

Cheung, Yuen-Ting; Lau, Way Kwok-Wai; Yu, Man-Shan; Lai, Cora Sau-Wan; Yeung, Sze-Chun; So, Kwok-Fai; Chang, Raymond Chuen-Chung

2009-01-01

Human neuroblastoma SH-SY5Y is a dopaminergic neuronal cell line which has been used as an in vitro model for neurotoxicity experiments. Although the neuroblastoma is usually differentiated by all-trans-retinoic acid (RA), both RA-differentiated and undifferentiated SH-SY5Y cells have been used in neuroscience research. However, the changes in neuronal properties triggered by RA as well as the subsequent responsiveness to neurotoxins have not been comprehensively studied. Therefore, we aim to re-evaluate the differentiation property of RA on this cell line. We hypothesize that modulation of signaling pathways and neuronal properties during RA-mediated differentiation in SH-SY5Y cells can affect their susceptibility to neurotoxins. The differentiation property of RA was confirmed by showing an extensive outgrowth of neurites, increased expressions of neuronal nuclei, neuron specific enolase, synaptophysin and synaptic associated protein-97, and decreased expression of inhibitor of differentiation-1. While undifferentiated SH-SY5Y cells were susceptible to 6-OHDA and MPP+, RA-differentiation conferred SH-SY5Y cells higher tolerance, potentially by up-regulating survival signaling, including Akt pathway as inhibition of Akt removed RA-induced neuroprotection against 6-OHDA. As a result, the real toxicity cannot be revealed in RA-differentiated cells. Therefore, undifferentiated SH-SY5Y is more appropriate for studying neurotoxicity or neuroprotection in experimental Parkinson's disease research.

Cell-matrix adhesion characterization using multiple shear stress zones in single stepwise microchannel

NASA Astrophysics Data System (ADS)

Kim, Min-Ji; Doh, Il; Bae, Gab-Yong; Cha, Hyuk-Jin; Cho, Young-Ho

2014-08-01

This paper presents a cell chip capable to characterize cell-matrix adhesion by monitoring cell detachment rate. The proposed cell chip can supply multiple levels of shear stress in single stepwise microchannel. As epithelial-mesenchymal transition (EMT), one of hallmarks of cancer metastasis is closely associated to the interaction with extracelluar matrix (ECM), we took advantage of two lung cancer cell models with different adhesion properties to ECM depending their epithelial or mesenchymal properties, including the pair of lung cancer cells with (A549sh) or without E-cadherin expression (A549sh-Ecad), which would be optimal model to examine the alteration of adhesion properties after EMT induction. The cell-matrix adhesion resisting to shear stress appeared to be remarkably differed between lung cancer cells. The detachment rate of epithelial-like H358 and mesenchymal-like H460 cells was 53%-80% and 25%-66% in the shear stress range of 34-60 dyn/cm2, respectively. A549sh-Ecad cells exhibits lower detachment rate (5%-9%) compared to A549sh cells (14%-40%). By direct comparison of adhesion between A549sh and A549sh-Ecad, we demonstrated that A549shE-cad to mimic EMT were more favorable to the ECM attachment under the various levels of shear stress. The present method can be applied to quantitative analysis of tumor cell-ECM adhesion.

Finding a Hadamard matrix by simulated annealing of spin vectors

NASA Astrophysics Data System (ADS)

Bayu Suksmono, Andriyan

2017-05-01

Reformulation of a combinatorial problem into optimization of a statistical-mechanics system enables finding a better solution using heuristics derived from a physical process, such as by the simulated annealing (SA). In this paper, we present a Hadamard matrix (H-matrix) searching method based on the SA on an Ising model. By equivalence, an H-matrix can be converted into a seminormalized Hadamard (SH) matrix, whose first column is unit vector and the rest ones are vectors with equal number of -1 and +1 called SH-vectors. We define SH spin vectors as representation of the SH vectors, which play a similar role as the spins on Ising model. The topology of the lattice is generalized into a graph, whose edges represent orthogonality relationship among the SH spin vectors. Starting from a randomly generated quasi H-matrix Q, which is a matrix similar to the SH-matrix without imposing orthogonality, we perform the SA. The transitions of Q are conducted by random exchange of {+, -} spin-pair within the SH-spin vectors that follow the Metropolis update rule. Upon transition toward zeroth energy, the Q-matrix is evolved following a Markov chain toward an orthogonal matrix, at which the H-matrix is said to be found. We demonstrate the capability of the proposed method to find some low-order H-matrices, including the ones that cannot trivially be constructed by the Sylvester method.

Experimental basis for a role for sulfhydryls and dopamine in ulcerogenesis: a primer for cytoprotection--organoprotection.

PubMed

Szabo, S

1986-01-01

This brief review presents the evolution of the concept of cytoprotection which was originally described by Robert (1979) to represent prevention of chemically induced hemorrhagic gastric erosions without inhibiting acid secretion. Prostaglandins (PG) and sulfhydryls (SH) protect only against deep hemorrhagic necrosis in the mucosa without altering the initial damage to surface epithelial cells. Organ integrity and function are thus maintained (i.e., organoprotection) despite the loss of several layers of mucosal cells. While both PG and SH are natural products it must be stressed that only SH compounds can enter directly into protective reactions (e.g., free radical scavenging, modification of receptor SH groups, oxidation of certain structural and enzyme proteins). In addition, SH compounds also stimulate PG synthesis. A major target of gastroprotection by either PG or SH is the preservation of mucosal microvasculature to maintain blood flow for rapid restitution and cell proliferation. Dopamine-related compounds are reviewed because of their possible role in duodenal ulceration. Dopamine and dopamine agonists are antiulcerogens in duodenal ulcer models. Dopamine antagonists are proulcerogens and the dopamine neurotoxin MPTP causes duodenal ulcer in experimental animals. The mechanism of duodenal antiulcerogenic effect involves inhibition of gastric acid and pepsin secretion, stimulation of duodenal bicarbonate secretion, correction of duodenal dysmotility, and maybe increased blood flow. Because of their multiple beneficial effects, SH compounds and dopamine drugs are good models for gastroenteroprotection.

Theoretical Studies of Dissociative Recombination of Electrons with SH+ Ions

NASA Astrophysics Data System (ADS)

Kashinski, D. O.; di Nallo, O. E.; Hickman, A. P.; Mezei, J. Zs.; Schneider, I. F.; Talbi, D.

2015-05-01

We are investigating the dissociative recombination (DR) of electrons with the molecular ion SH+. (The process is e- +SH+ --> S + H .) SH+ is found in the interstellar medium (ISM), and little is known concerning its interstellar chemistry. The abundance of SH+ in the ISM suggests that destruction processes, like DR, are inefficient. Understanding the role of DR as a destruction pathway for SH+ will lead to more accurate astrophysical models. Large active-space multi-reference configuration interaction (MRCI) electronic structure calculations were performed to obtain excited-state potential energy curves (PECs) for several values of SH separation. Excited Rydberg states have proven to be of importance. The block diagonalization method was used to disentangle interacting states, forming a diabatic representation of the PECs. Currently we are performing Multichannel Quantum Defect Theory (MQDT) dynamics calculations to obtain DR rates. The status of the work will be presented at the conference. Work supported by the French CNRS, the NSF, the XSEDE, and USMA.

Structural insights into the intertwined dimer of fyn SH2.

PubMed

Huculeci, Radu; Garcia-Pino, Abel; Buts, Lieven; Lenaerts, Tom; van Nuland, Nico

2015-12-01

Src homology 2 domains are interaction modules dedicated to the recognition of phosphotyrosine sites incorporated in numerous proteins found in intracellular signaling pathways. Here we provide for the first time structural insight into the dimerization of Fyn SH2 both in solution and in crystalline conditions, providing novel crystal structures of both the dimer and peptide-bound structures of Fyn SH2. Using nuclear magnetic resonance chemical shift analysis, we show how the peptide is able to eradicate the dimerization, leading to monomeric SH2 in its bound state. Furthermore, we show that Fyn SH2's dimer form differs from other SH2 dimers reported earlier. Interestingly, the Fyn dimer can be used to construct a completed dimer model of Fyn without any steric clashes. Together these results extend our understanding of SH2 dimerization, giving structural details, on one hand, and suggesting a possible physiological relevance of such behavior, on the other hand. © 2015 The Protein Society.

Comparison of in vivo efficacy of different ocular lubricants in dry eye animal models.

PubMed

Zheng, Xiaodong; Goto, Tomoko; Ohashi, Yuichi

2014-04-29

To compare the efficacy of three types of ocular lubricants in protecting corneal epithelial cells in dry eye animal models. Ocular lubricants containing 0.1% or 0.3% sodium hyaluronate (SH), carboxymethylcellulose (CMC), or hydroxypropyl methylcellulose (HPMC) were tested. First, ocular lubricant containing 0.002% fluorescein was dropped onto the rabbit corneas. The fluorescein intensity as an index of retention was measured. Second, a rabbit dry eye model was made by holding the eye open with a speculum, and 50 μL of each ocular lubricant was dropped onto the cornea. After 3 hours, the corneas were stained with 1% methylene blue (MB), and the absorbance of MB was measured. Third, a rat dry eye model was treated with the ocular lubricants for 4 weeks, and the corneal fluorescein staining was scored. Eyes treated with physiological saline were used as controls. Finally, immunohistochemistry was used to analyze occludin, an epithelial barrier protein, in cultured human corneal epithelial cells pretreated with ocular lubricants and desiccated for 20 or 60 minutes. Our results showed that 0.3% SH had a significantly longer retention time than the other lubricants (all P < 0.01). The absorbance of MB was significantly lower in the 0.3% SH group. The corneas of rats exposed to 0.3% SH had significantly lower fluorescein staining scores. A significantly higher number of occludin-positive cells were found after exposure to 0.3% SH than other lubricants. Ocular lubricant containing 0.3% SH would be preferable to treat patients with dry eye syndrome. Copyright 2014 The Association for Research in Vision and Ophthalmology, Inc.

Comparing the validity of the payment card and structured haggling willingness to pay methods: The case of a diabetes prevention program in rural Kenya.

PubMed

Kangethe, Anne; Franic, Duska M; Corso, Phaedra S

2016-11-01

The objective of this study was to compare the theoretical validity of two willingness-to-pay (WTP) methods, the commonly used payment card (PC) and the recently developed structured haggling (SH), for estimating the potential benefits of a diabetes prevention program in rural Kenya. A convenience sample of adult residents from a rural county in Kenya (Kiambu), with no history of diabetes, was randomly assigned to one of two WTP methods, PC or SH, using structured face-to-face interviews from December 2011 to February 2012. A total of 376 respondents completed the interviews using PC (n = 185) or SH (n = 191). More than 95% of respondents were willing to pay something for program access. The study showed that both methods were feasible in rural Kenya. SH resulted in a higher annual mean WTP than PC, Ksh504.05 (US$7.25) versus Ksh619.95 (US$5.90), respectively (p < 0.01). Based on theory, it was hypothesized that certain predisposing factors would result in greater WTP. Greater socio-economic status (measured using income proxies) resulted in greater unconditional WTP for both the PC and SH groups (t-tests and bivariate correlations) and conditional WTP (GLM models). GLM for PC showed being male, employed and having distant relatives with diabetes were significant predictors for WTP, while for SH being educated, employed and owning a vehicle were significant predictors. Both PC and SH showed theoretical validity in rural Kenya. However, the use of SH over PC in rural Kenya may be the better choice given that SH more closely mirrors marketplace transactions in this setting and the use of SH resulted in more significant variables in the GLM models. Copyright © 2016 Elsevier Ltd. All rights reserved.

Shear horizontal surface acoustic wave microsensor for Class A viral and bacterial detection.

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

Branch, Darren W.; Huber, Dale L.; Brozik, Susan Marie

The rapid autonomous detection of pathogenic microorganisms and bioagents by field deployable platforms is critical to human health and safety. To achieve a high level of sensitivity for fluidic detection applications, we have developed a 330 MHz Love wave acoustic biosensor on 36{sup o} YX Lithium Tantalate (LTO). Each die has four delay-line detection channels, permitting simultaneous measurement of multiple analytes or for parallel detection of single analyte containing samples. Crucial to our biosensor was the development of a transducer that excites the shear horizontal (SH) mode, through optimization of the transducer, minimizing propagation losses and reducing undesirable modes. Detectionmore » was achieved by comparing the reference phase of an input signal to the phase shift from the biosensor using an integrated electronic multi-readout system connected to a laptop computer or PDA. The Love wave acoustic arrays were centered at 330 MHz, shifting to 325-328 MHz after application of the silicon dioxide waveguides. The insertion loss was -6 dB with an out-of-band rejection of 35 dB. The amplitude and phase ripple were 2.5 dB p-p and 2-3{sup o} p-p, respectively. Time-domain gating confirmed propagation of the SH mode while showing suppression of the triple transit. Antigen capture and mass detection experiments demonstrate a sensitivity of 7.19 {+-} 0.74{sup o} mm{sup 2}/ng with a detection limit of 6.7 {+-} 0.40 pg/mm{sup 2} for each channel.« less

Polythiol-containing, recombinant mannosylated-albumin is a superior CD68+/CD206+ Kupffer cell-targeted nanoantioxidant for treatment of two acute hepatitis models.

PubMed

Maeda, Hitoshi; Hirata, Kenshiro; Watanabe, Hiroshi; Ishima, Yu; Chuang, Victor Tuan Giam; Taguchi, Kazuaki; Inatsu, Akihito; Kinoshita, Manabu; Tanaka, Motohiko; Sasaki, Yutaka; Otagiri, Masaki; Maruyama, Toru

2015-02-01

Since reactive oxygen species (ROS) derived from Kupffer cells (KC), especially CD68(+) KC, play a key role in the induction of hepatic oxidative stress and injuries, we developed a polythiolated- and mannosylated human serum albumin (SH-Man-HSA), which functions as a novel nanoantioxidant for delivering thiol to CD68(+) KC. In vitro electron paramagnetic resonance coupled with pharmacokinetics and immunohistochemical studies showed that SH-Man-HSA possessed powerful radical-scavenging activity and rapidly and selectively delivered thiols to the liver via mannose receptor (CD206) on CD68(+) cells. SH-Man-HSA significantly improved the survival rate of concanavalin-A (Con-A)-treated mice. Moreover, SH-Man-HSA exhibited excellent hepatoprotective functions, not by decreasing tumor necrosis factor or interferon-γ production that is closely associated with Con-A-induced hepatitis, but by suppressing ROS production. Interestingly, the protective effect of SH-Man-HSA was superior to N-acetyl cysteine (NAC). This could be attributed to the difference in the inhibition of hepatic oxidative stress between the two antioxidants depending on their potential for thiol delivery to the liver. Similar results were also observed for acetaminophen (APAP)-induced hepatopathy models. Flow cytometric data further confirmed that an increase in F4/80(+)/ROS(+) cells was dramatically decreased by SH-Man-HSA. The administration of SH-Man-HSA at 4 hours following a Con-A or APAP injection also exhibited a profound hepatoprotective action against these hepatitis models, whereas this was not observed for NAC. It can be concluded therefore that SH-Man-HSA has great potential for use in a rescue therapy for hepatopathy as a nanoantioxidant because of its ability to efficiently and rapidly deliver thiols to CD68(+)/CD206(+) KC. Copyright © 2014 by The American Society for Pharmacology and Experimental Therapeutics.

Seasonal variation in Rayleigh-to-Love wave ratio in the secondary microseism

NASA Astrophysics Data System (ADS)

Tanimoto, T.; Hadziioannou, C.; Igel, H.; Wassermann, J. M.; Schreiber, U.; Gebauer, A.; Chow, B.

2015-12-01

The Ring Laser (the G-ring) at Wettzell (WET), Germany, is a rotation-measurement instrument that can monitor tiny variations in seismic noise. It essentially records only SH-type signals. Combined with a co-located seismograph (three-component seismograph STS-2), we can monitor the amount of Love waves from this instrument and that of Rayleigh waves from the STS seismograph. We report on seasonal variation of Rayleigh-to-Love wave ratio in the secondary microseism. The first step in our analysis is to obtain stacked Fourier spectra that were least affected by earthquakes. We used two earthquake catalogues to do this; the GCMT (Global Centroid Moment Tensor, Earthquakes M > 5.5) catalogue and the EMSC (European-Mediterranean Seismic Centre) catalogue for regional earthquakes (distance < 1000 km) with M > 4.5. We then created monthly averages of noise Fourier spectra for the frequency range 0.13-0.30 Hz using both the G-ring and STS data from 2009 to 2015. Monthly spectra show clear seasonal variations for the secondary microseism. We obtained surface vertical acceleration from STS and surface transverse acceleration from G-ring from which we can directly measure the Rayleigh-to-Love wave ratio. The procedure is the same with an account in our recent GRL paper (Tanimoto et al., 2015). Comparison between vertical acceleration and transverse acceleration shows that Rayleigh-wave surface amplitudes are about 20 percent larger than Love waves but in terms of kinetic energy this ratio will be different. We converted these ratios of surface amplitude to those of kinetic energy using an available earth model (Fichtner et al., 2013). The averaged ratio over the frequency band 0.13-0.30 Hz shows is in the range 0.6-0.8 in spring, autumn and winter but it increases to about 1.2 in summer. Except for the summer, the amount of Love waves are higher but the amount of Rayleigh waves increases in summer and appears to exceed that of Love waves.

Neuroprotective Ganglioside Derivatives

DTIC Science & Technology

2006-09-01

SH - SY5Y human neuroblastoma cell line . Derivatives determined to have therapeutic potential are tested in vitro for their...to be cytoprotective in in vitro models using the dopaminergic neurotoxin, 1-methyl-4-phenylpyridinium (MPP+) and the SH - SY5Y cell line . Derivatives...action of these two compounds remains unknown. The ability of GM1 (no preincubation) to protect RA- differentiated SH - SY5Y cells from MPP+

The Role of Iron Competition in the Antagonistic Action of the Rice Endophyte Streptomyces sporocinereus OsiSh-2 Against the Pathogen Magnaporthe oryzae.

PubMed

Zeng, Jiarui; Xu, Ting; Cao, Lidan; Tong, Chunyi; Zhang, Xuan; Luo, Dingyi; Han, Shuping; Pang, Pei; Fu, Weibin; Yan, Jindong; Liu, Xuanming; Zhu, Yonghua

2018-04-20

Rice blast caused by Magnaporthe oryzae severely impacts global rice yield stability. The rice endophyte Streptomyces sporocinereus OsiSh-2, with strong antagonistic activity towards M. oryzae, has been reported in our previous study. To decipher the model of the antagonistic action of OsiSh-2 towards M. oryzae, we compared the iron-capturing abilities of these two strains. The cultivation of OsiSh-2 and a M. oryzae strain under iron-rich and iron-starved conditions showed that M. oryzae depended more on iron supplementation for growth and development than did OsiSh-2. Genomic analysis of the S. sporocinereus and M. oryzae species strains revealed that they might possess different iron acquisition strategies. The actinobacterium OsiSh-2 is likely to favor siderophore utilization compared to the fungus M. oryzae. In addition, protein annotations found that OsiSh-2 contains the highest number of the siderophore biosynthetic gene clusters among the 13 endophytic actinomycete strains and 13 antifungal actinomycete strains that we compared, indicating the prominent siderophore production potential of OsiSh-2. Additionally, we verified that OsiSh-2 could excrete considerably more siderophores than Guy11 under iron-restricted conditions and displayed greater Fe 3+ -reducing activity during iron-supplemental conditions. Measurements of the iron mobilization between the antagonistic OsiSh-2 and Guy11 showed that the iron concentration is higher around OsiSh-2 than around Guy11. In addition, adding iron near OsiSh-2 could decrease the antagonism of OsiSh-2 towards Guy11. Our study revealed that the antagonistic capacity displayed by OsiSh-2 towards M. oryzae was related to the competition for iron. The highly efficient iron acquisition system of OsiSh-2 may offer valuable insight for the biocontrol of rice blast.

Changes in functional properties of the caffeine-sensitive Ca2+ store during differentiation of human SH-SY5Y neuroblastoma cells.

PubMed

Riddoch, Fiona C; Brown, Anna M; Rowbotham, Sophie E; Redfern, Christopher P F; Cheek, Timothy R

2007-03-01

We have used single cell fluorescence imaging techniques to examine how functional properties of the caffeine-sensitive Ca(2+) store change during differentiation of a sub-population of caffeine-sensitive SH-SY5Y cells. Application of caffeine (30 mM) 1-10.5 min after a 'priming' depolarisation pulse of 55 mM K(+) revealed that the caffeine-sensitive store in undifferentiated cells remained replete, whereas that in 9-cis retinoic acid (9cRA)-differentiated cells spontaneously dissipated with a t(1/2) of 2.8 min, and was essentially completely depleted approximately 10 min after priming. In 9cRA-differentiated cells that were stimulated with methacholine (10 microM) 1 min after priming, the amplitude, rate of rise and propagation velocity of the Ca(2+) wave in the neurites were all constant, whereas these kinetic parameters all progressively decreased as the wave travelled along the neurites in cells that were stimulated 10 min after priming. Use-dependent block with ryanodine inhibited the global Ca(2+) signal in 9cRA-differentiated cells stimulated with methacholine 1 min after priming (71+/-8%) but not 10 min after priming. Depolarisation was more effective at priming the caffeine-sensitive Ca(2+) store in 9cRA-differentiated cells, which lack a functional store-operated Ca(2+) entry pathway. We conclude that differentiation of caffeine-sensitive SH-SY5Y cells is accompanied by an increase in lability of the caffeine-sensitive Ca(2+) store, and that spontaneous dissipation of Ca(2+) from the store limits the time course of its molecular 'memory' during which it can amplify the hormone-induced Ca(2+) signal by Ca(2+)-induced Ca(2+) release.

Theoretical Studies of Dissociative Recombination of Electrons with SH+ Ions

NASA Astrophysics Data System (ADS)

Kashinski, D. O.; di Nallo, O. E.; Hickman, A. P.; Mezei, J. Zs.; Colboc, F.; Schneider, I. F.; Chakrabarti, K.; Talbi, D.

2017-04-01

We are investigating the dissociative recombination (DR) of electrons with the molecular ion SH+, i.e. e- +SH+ -> S + H . SH+ is found in the interstellar medium (ISM), and little is known concerning its chemistry. Understanding the role of DR of electrons with SH+ will lead to more accurate astrophysical models. Large active-space multi-reference configuration interaction (MRCI) electronic structure calculations were performed using the GAMESS code to obtain ground and excited 2 Π state potential energy curves (PECs) for several values of SH separation. Core-excited Rydberg states have proven to be of huge importance. The block diagonalization method was used to disentangle interacting states and form a diabatic representation of the PECs. Currently we are performing dynamics calculations using Multichannel Quantum Defect Theory (MQDT) to obtain DR rates. The status of the work will be presented at the conference. Work supported by the French CNRS, the NSF, the XSEDE, and USMA.

Theoretical Studies of Dissociative Recombination of Electrons with SH+ Ions

NASA Astrophysics Data System (ADS)

Kashinski, D. O.; di Nallo, O. E.; Hickman, A. P.; Mezei, J. Zs.; Colboc, F.; Schneider, I. F.; Chakrabarti, K.; Talbi, D.

2016-05-01

We are investigating the dissociative recombination (DR) of electrons with the molecular ion SH+, i.e. e- +SH+ --> S + H . SH+ is found in the interstellar medium (ISM), and little is known concerning its chemistry. Understanding the role of DR of electrons with SH+ will lead to more accurate astrophysical models. Large active-space multi-reference configuration interaction (MRCI) electronic structure calculations were performed using the GAMESS code to obtain ground and excited 2 Π state potential energy curves (PECs) for several values of SH separation. Core-excited Rydberg states have proven to be of huge importance. The block diagonalization method was used to disentangle interacting states and form a diabatic representation of the PECs. Currently we are performing dynamics calculations using Multichannel Quantum Defect Theory (MQDT) to obtain DR rates. The status of the work will be presented at the conference. work supported by the French CNRS, the NSF, the XSEDE, and USMA.

Modeling cometary photopolarimetric characteristics with Sh-matrix method

NASA Astrophysics Data System (ADS)

Kolokolova, L.; Petrov, D.

2017-12-01

Cometary dust is dominated by particles of complex shape and structure, which are often considered as fractal aggregates. Rigorous modeling of light scattering by such particles, even using parallelized codes and NASA supercomputer resources, is very computer time and memory consuming. We are presenting a new approach to modeling cometary dust that is based on the Sh-matrix technique (e.g., Petrov et al., JQSRT, 112, 2012). This method is based on the T-matrix technique (e.g., Mishchenko et al., JQSRT, 55, 1996) and was developed after it had been found that the shape-dependent factors could be separated from the size- and refractive-index-dependent factors and presented as a shape matrix, or Sh-matrix. Size and refractive index dependences are incorporated through analytical operations on the Sh-matrix to produce the elements of T-matrix. Sh-matrix method keeps all advantages of the T-matrix method, including analytical averaging over particle orientation. Moreover, the surface integrals describing the Sh-matrix elements themselves can be solvable analytically for particles of any shape. This makes Sh-matrix approach an effective technique to simulate light scattering by particles of complex shape and surface structure. In this paper, we present cometary dust as an ensemble of Gaussian random particles. The shape of these particles is described by a log-normal distribution of their radius length and direction (Muinonen, EMP, 72, 1996). Changing one of the parameters of this distribution, the correlation angle, from 0 to 90 deg., we can model a variety of particles from spheres to particles of a random complex shape. We survey the angular and spectral dependencies of intensity and polarization resulted from light scattering by such particles, studying how they depend on the particle shape, size, and composition (including porous particles to simulate aggregates) to find the best fit to the cometary observations.

Fabrication and Packaging of Discontinuous MIM (Metal-Insulator-Metal) Film Arrays for Efficient MM Wave and IR Detection and Mixing.

DTIC Science & Technology

1987-10-01

ADDRESS 12. REPORT DATE II. &. krm Researh Office -October, 1987 Podt Office 8ox 12211 IS. MUMBER OF PAGES Research Triangle Parli NC 2770 61 14...11 Ac know ledaements The authors wi.sh to thank Ms. Dora Liverman of the Biology Department for assistance in the SEM work. This research is

From N-WASP to WAVE: key molecules for regulation of cortical actin organization.

PubMed

Takenawa, Tadaomi

2005-01-01

We first isolated N-WASP as one of the proteins bound to Ash/Grb2 SH3 domain. This protein has a VCA region (verplorin-like, cofilin-like, acidic region) at the C-terminus, which binds to G-actin and Arp2/3 complex, and several functional domains at the N-terminus, such as WHD (WASP homology domain) and GBD/CRIB domain. N-WASP activates Arp2/3 complex-dependent actin polymerization through the VCA region, leading to filopodium formation. Next, we found WAVE1, WAVE2 and WAVE3. All these proteins have also VCA regions at C-terminal areas and induce membrane ruffle formation. To clarify the different roles of WAVE1 and WAVE2, we established WAVE1- and WAVE2-deficient mouse embryonic fibroblasts (MEFs), because these two WAVEs are expressed in MEF. When wild-type MEFs are stimulated randomly by PDGF, two types of ruffles, peripheral and dorsal, are formed. However, dorsal ruffle formation does not occurin WAVE1-deficient MEFs. In contrast, peripheral ruffle formation is diminished in WAVE2-deficient MEFs. On the other hand, in MEFs migrating towards a chemoattractant gradient, only peripheral ruffles (lamellipodia) are formed. In this migration, WAVE1-deficient MEFs still could form lamellipodia but WAVE2-deficient MEFs could not. All these data show that WAVE2 but not WAVE1 is essential for lamellipodium formation and directed migration.

Mantle Flow Across the Baikal Rift Constrained With Integrated Seismic Measurements

NASA Astrophysics Data System (ADS)

Lebedev, S.; Meier, T.; van der Hilst, R. D.

2005-12-01

The Baikal Rift is located at the boundary of the stable Siberian Craton and deforming central Mongolia. The origin of the late Cenozoic rifting and volcanism are debated, as is the mantle flow beneath the rift zone. Here we combine new evidence from azimuthally-anisotropic upper-mantle tomography and from a radially-anisotropic inversion of interstation surface-wave dispersion curves with previously published shear-wave-splitting measurements of azimuthal anisotropy across the rift (Gao et al. 1994). While our tomographic model maps isotropic and anisotropic shear-velocity heterogeneity globally, the inversion of interstation phase-velocity measurements produces a single, radially-anisotropic, shear-velocity profile that averages from the rift to 500 km SE of it. The precision and the broad band (8-340 s) of the Rayleigh and Love wave curves ensures high accuracy of the profile. Tomography and shear-wave splitting both give a NW-SE fast direction (perpendicular to the rift) in the vicinity of the rift, changing towards W-E a few hundred kilometers from it. Previously, this has been interpreted as evidence for mantle flow similar to that beneath mid-ocean ridges, with deeper vertical flow directly beneath the rift also proposed. Our radially anisotropic profile, however, shows that while strong anisotropy with SH waves faster than SV waves is present in the thin lithosphere and upper asthenosphere beneath and SE of the rift, no anisotropy is required below 110 km. The tomographic model shows thick cratonic lithosphere north of the rift. These observations suggest that instead of a flow diverging from the rift axis in NW and SE directions, the most likely pattern is the asthenospheric flow in SE direction from beneath the Siberian lithosphere and across the rift. Possible driving forces of the flow are large-scale lithospheric deformation in East Asia and the draining of asthenosphere at W-Pacific subduction zones; a plume beneath the Siberian craton also cannot be ruled out. As shown for the model of subcontinental asthenospheric flow by Morgan and Morgan (2005), this mantle flow pattern can explain not only the rifting but also the basaltic volcanism observed in the Lake Baikal region.

Norms and values in sociohydrological models

NASA Astrophysics Data System (ADS)

Roobavannan, Mahendran; van Emmerik, Tim H. M.; Elshafei, Yasmina; Kandasamy, Jaya; Sanderson, Matthew R.; Vigneswaran, Saravanamuthu; Pande, Saket; Sivapalan, Murugesu

2018-02-01

Sustainable water resources management relies on understanding how societies and water systems coevolve. Many place-based sociohydrology (SH) modeling studies use proxies, such as environmental degradation, to capture key elements of the social component of system dynamics. Parameters of assumed relationships between environmental degradation and the human response to it are usually obtained through calibration. Since these relationships are not yet underpinned by social-science theories, confidence in the predictive power of such place-based sociohydrologic models remains low. The generalizability of SH models therefore requires major advances in incorporating more realistic relationships, underpinned by appropriate hydrological and social-science data and theories. The latter is a critical input, since human culture - especially values and norms arising from it - influences behavior and the consequences of behaviors. This paper reviews a key social-science theory that links cultural factors to environmental decision-making, assesses how to better incorporate social-science insights to enhance SH models, and raises important questions to be addressed in moving forward. This is done in the context of recent progress in sociohydrological studies and the gaps that remain to be filled. The paper concludes with a discussion of challenges and opportunities in terms of generalization of SH models and the use of available data to allow future prediction and model transfer to ungauged basins.

Large-Scale, Extratropical Weather Systems within Mars' Atmosphere

NASA Astrophysics Data System (ADS)

Hollingsworth, Jeffery L.

2013-04-01

During late autumn through early spring, extratropical regions on Mars exhibit profound mean zonal equator-to-pole thermal contrasts. The imposition of this strong meridional temperature variation supports intense eastward-traveling, synoptic weather systems (i.e., transient baroclinic/barotropic waves) within Mars' extratropical atmosphere. Such disturbances grow, mature and decay within the east-west varying seasonal-mean midlatitude jet stream (i.e., the polar vortex) on the planet. Near the surface, the weather disturbances indicated large-scale spiraling "comma"-shaped dust cloud structures and scimitar-shaped dust fronts, indicative of processes associated with cyclo-/fronto-genesis. The weather systems occur during specific seasons on Mars, and in both hemispheres. The northern hemisphere (NH) disturbances are significantly more intense than their counterparts in the southern hemisphere (SH). Further, the NH weather systems and accompanying frontal waves appear to have significant impacts on the transport of tracer fields (e.g., particularly dust and to some extent water species (vapor/ice) as well). And regarding dust, frontal waves appear to be key agents in the lifting, lofting, organization and transport of this particular atmospheric aerosol. In this paper, a brief background and supporting observations of Mars' extratropical weather systems is presented. This is followed by a short review of the theory and various modeling studies (i.e., ranging from highly simplified, mechanistic and full global circulation modeling investigations) which have been pursued. Finally, a discussion of outstanding issues and questions regarding the character and nature of Mars' extratropical traveling weather systems is offered.

Large-Scale Extratropical Weather Systems in Mars' Atmosphere

NASA Technical Reports Server (NTRS)

Hollingsworth, Jeffery L.

2013-01-01

During late autumn through early spring, extratropical regions on Mars exhibit profound mean zonal equator-to-pole thermal contrasts. The imposition of this strong meridional temperature variation supports intense eastward-traveling, synoptic weather systems (i.e., transient baroclinic/barotropic waves) within Mars' extratropical atmosphere. Such disturbances grow, mature and decay within the east-west varying seasonal-mean midlatitude jet stream (i.e., the polar vortex) on the planet. Near the surface, the weather disturbances indicated large-scale spiraling "comma"-shaped dust cloud structures and scimitar-shaped dust fronts, indicative of processes associated with cyclo-/fronto-genesis. The weather systems occur during specific seasons on Mars, and in both hemispheres. The northern hemisphere (NH) disturbances are significantly more intense than their counterparts in the southern hemisphere (SH). Further, the NH weather systems and accompanying frontal waves appear to have significant impacts on the transport of tracer fields (e.g., particularly dust and to some extent water species (vapor/ice) as well). And regarding dust, frontal waves appear to be key agents in the lifting, lofting, organization and transport of this particular atmospheric aerosol. In this paper, a brief background and supporting observations of Mars' extratropical weather systems is presented. This is followed by a short review of the theory and various modeling studies (i.e., ranging from highly simplified, mechanistic and full global circulation modeling investigations) which have been pursued. Finally, a discussion of outstanding issues and questions regarding the character and nature of Mars' extratropical traveling weather systems is offered.

A novel small molecule ameliorates ocular neovascularisation and synergises with anti-VEGF therapy.

PubMed

Sulaiman, Rania S; Merrigan, Stephanie; Quigley, Judith; Qi, Xiaoping; Lee, Bit; Boulton, Michael E; Kennedy, Breandán; Seo, Seung-Yong; Corson, Timothy W

2016-05-05

Ocular neovascularisation underlies blinding eye diseases such as retinopathy of prematurity, proliferative diabetic retinopathy, and wet age-related macular degeneration. These diseases cause irreversible vision loss, and provide a significant health and economic burden. Biologics targeting vascular endothelial growth factor (VEGF) are the major approach for treatment. However, up to 30% of patients are non-responsive to these drugs and they are associated with ocular and systemic side effects. Therefore, there is a need for small molecule ocular angiogenesis inhibitors to complement existing therapies. We examined the safety and therapeutic potential of SH-11037, a synthetic derivative of the antiangiogenic homoisoflavonoid cremastranone, in models of ocular neovascularisation. SH-11037 dose-dependently suppressed angiogenesis in the choroidal sprouting assay ex vivo and inhibited ocular developmental angiogenesis in zebrafish larvae. Additionally, intravitreal SH-11037 (1 μM) significantly reduced choroidal neovascularisation (CNV) lesion volume in the laser-induced CNV mouse model, comparable to an anti-VEGF antibody. Moreover, SH-11037 synergised with anti-VEGF treatments in vitro and in vivo. Up to 100 μM SH-11037 was not associated with signs of ocular toxicity and did not interfere with retinal function or pre-existing retinal vasculature. SH-11037 is thus a safe and effective treatment for murine ocular neovascularisation, worthy of further mechanistic and pharmacokinetic evaluation.

Tunable rejection filters with ultra-wideband using zeroth shear mode plate wave resonators

NASA Astrophysics Data System (ADS)

Kadota, Michio; Sannomiya, Toshio; Tanaka, Shuji

2017-07-01

This paper reports wide band rejection filters and tunable rejection filters using ultra-wideband zeroth shear mode (SH0) plate wave resonators. The frequency range covers the digital TV band in Japan that runs from 470 to 710 MHz. This range has been chosen to meet the TV white space cognitive radio requirements of rejection filters. Wide rejection bands were obtained using several resonators with different frequencies. Tunable rejection filters were demonstrated using Si diodes connected to the band rejection filters. Wide tunable ranges as high as 31% were measured by applying a DC voltage to the Si diodes.

An analytical solution to assess the SH seismoelectric response of the vadose zone

NASA Astrophysics Data System (ADS)

Monachesi, L. B.; Zyserman, F. I.; Jouniaux, L.

2018-03-01

We derive an analytical solution of the seismoelectric conversions generated in the vadose zone, when this region is crossed by a pure shear horizontal (SH) wave. Seismoelectric conversions are induced by electrokinetic effects linked to relative motions between fluid and porous media. The considered model assumes a one-dimensional soil constituted by a single layer on top of a half space in contact at the water table, and a shearing force located at the earth's surface as the wave source. The water table is an interface expected to induce a seismoelectric interfacial response (IR). The top layer represents a porous rock which porous space is partially saturated by water and air, while the half-space is completely saturated with water, representing the saturated zone. The analytical expressions for the coseismic fields and the interface responses, both electric and magnetic, are derived by solving Pride's equations with proper boundary conditions. An approximate analytical expression of the solution is also obtained, which is very simple and applicable in a fairly broad set of situations. Hypothetical scenarios are proposed to study and analyse the dependence of the electromagnetic fields on various parameters of the medium. An analysis of the approximate solution is also made together with a comparison to the exact solution. The main result of the present analysis is that the amplitude of the interface response generated at the water table is found to be proportional to the jump in the electric current density, which in turn depends on the saturation contrast, poro-mechanical and electrical properties of the medium and on the amplitude of the solid displacement produced by the source. This result is in agreement with the one numerically obtained by the authors, which has been published in a recent work. We also predict the existence of an interface response located at the surface, and that the electric interface response is several orders of magnitude bigger than the electric coseismic field, whereas it is the opposite using compressional waves as shown by theoretical and experimental results. This fact should encourage the performance of field and laboratory tests to check the viability of SHTE seismoelectrics as a near surface prospecting/monitoring tool.

An analytical solution to assess the SH seismoelectric response of the vadose zone

NASA Astrophysics Data System (ADS)

Monachesi, L. B.; Zyserman, F. I.; Jouniaux, L.

2018-06-01

We derive an analytical solution of the seismoelectric conversions generated in the vadose zone, when this region is crossed by a pure shear horizontal (SH) wave. Seismoelectric conversions are induced by electrokinetic effects linked to relative motions between fluid and porous media. The considered model assumes a 1D soil constituted by a single layer on top of a half-space in contact at the water table, and a shearing force located at the earth's surface as the wave source. The water table is an interface expected to induce a seismoelectric interfacial response (IR). The top layer represents a porous rock in which porous space is partially saturated by water and air, while the half-space is completely saturated with water, representing the saturated zone. The analytical expressions for the coseismic fields and the interface responses, both electric and magnetic, are derived by solving Pride's equations with proper boundary conditions. An approximate analytical expression of the solution is also obtained, which is very simple and applicable in a fairly broad set of situations. Hypothetical scenarios are proposed to study and analyse the dependence of the electromagnetic fields on various parameters of the medium. An analysis of the approximate solution is also made together with a comparison to the exact solution. The main result of the present analysis is that the amplitude of the interface response generated at the water table is found to be proportional to the jump in the electric current density, which in turn depends on the saturation contrast, poro-mechanical and electrical properties of the medium and on the amplitude of the solid displacement produced by the source. This result is in agreement with the one numerically obtained by the authors, which has been published in a recent work. We also predict the existence of an interface response located at the surface, and that the electric interface response is several orders of magnitude bigger than the electric coseismic field, whereas it is the opposite using compressional waves as shown by theoretical and experimental results. This fact should encourage the performance of field and laboratory tests to check the viability of SHTE seismoelectrics as a near surface prospecting/monitoring tool.

Contribution of in situ geophysical methods for the definition of the São Sebastião crater model (Azores)

NASA Astrophysics Data System (ADS)

Lopes, Isabel; Deidda, Gian Piero; Mendes, Manuela; Strobbia, Claudio; Santos, Jaime

2013-11-01

The area located inside the São Sebastião volcanic crater, at the southeast end of Terceira Island (Azores), is characterized by an important amplification of ground motion with respect to the surrounding area, as clearly demonstrated by the spatial distribution of the damage that occurred during the Terceira earthquake (the strongest earthquake felt in the Island during the recent decades - 01/01/1980 - M = 7.2). Geological and geophysical studies have been conducted, to characterize the volcanic crater and understand the different site effects that occurred in the village of São Sebastião. The complexity of the subsurface geology, with intercalations of compact basalt and soft pyroclastic deposits, is associated to extreme vertical and lateral velocity contrasts, and poses a serious challenge to different geophysical characterization methods. The available qualitative model did not allow a complete understanding of the site effects. A new seismic campaign has been designed and acquired, and a single, geologically consistent geophysical model has been generated integrating the existing and new data. The new campaign included two cross-line P-wave seismic refraction profiles, four short SH-wave seismic reflection profiles, and seven multichannel surface wave acquisitions. The integration and joint interpretation of geophysical and geological data allowed mutual validation and confirmation of data processing steps. In particular, the use of refraction, reflection and surface wave techniques allowed facing the complexity of a geology that can pose different challenges to all the methods when used individually: velocity inversions, limited reflectivity, and lateral variations. It is shown how the integration of seismic data from different methods, in the framework of a geological model, allowed the geometrical and dynamic characterization of the site. Correlation with further borehole information, then allowed the definition of a subsoil model for the crater, providing information that allowed a better understanding of the earthquake site effects in the São Sebastião village. The new near-surface geological model includes a lava layer within the soft infill materials of the crater. This new model matches closely with the damage distribution map, and explains the spatial variation of building stock performance in the 1980 earthquake.

Inhibitory effect on the uptake and diffusion of Cd(2+) onto soybean hull sorbent in Cd-Pb binary sorption systems.

PubMed

Módenes, Aparecido N; Espinoza-Quiñones, Fernando R; Colombo, Andréia; Geraldi, Claudinéia L; Trigueros, Daniela E G

2015-05-01

The uptake of Cd(2+) and Pb(2+) ions by a soybean hull (SH) biosorbent in single and binary systems has been investigated. Sorption tests regarding SH in natura and chemically treated were carried out testing a suitable value range of solution pH, sorption temperature and shaking velocity. Sorption capacity is improved at pH 4, 30 °C temperature and 100 rpm. When a strong base is applied, a related-to-untreated SH increasing of 20% in the sorption capacity of Pb(2+) ions was observed, but with poor results for Cd(2+) uptake. Additionally, a relatively strong decreasing in both sorption capacities of Pb(2+) and Cd(2+) ions was evidenced for all acidic treatments. Regarding untreated SH, kinetic sorption data of both metals were well-interpreted by a pseudo second-order model and a rate-limiting step on the basis of an intra-particle diffusion model was suggested to occur. An inhibitory effect of Pb(2+) diffusion over Cd(2+) one was observed, limiting to reach the obtained maximum sorption capacity in single system. Maximum adsorption capacities of 0.49 and 0.67mequivg(-1) for Cd(2+) and Pb(2+), respectively, were predicted by the Langmuir isotherm model that reproduced well the equilibrium sorption data for single systems. The inhibitory effect of one metal over the other one was verified in equilibrium sorption data for binary systems interpreted on the basis of a modified extended Langmuir isotherm model, predicting changes in metal affinity onto the SH surface. Finally, SH is an alternative biosorbent with a great potential for the wastewater treatment containing cadmium and lead ions. Copyright © 2015 Elsevier Ltd. All rights reserved.

Geotechnical Site Investigation Using S-waves with Implications for Ground Motion Analysis

NASA Astrophysics Data System (ADS)

Hassan, Bilal; Butt, Stephen D.; Hurich, Charles A.

2017-12-01

Evaluation results of shear wave attenuation-based ground motion restricted by fracture orientation and rheology, from among those of an extended experimental study, are presented herein. The issues of competence of fractured bedrock dynamically disturbed multilaterally are assessed. Disturbance is primarily modelled by Sh and Sv stimulation, given fracture orientation, while subjected to direct fracture stress regime conditions varying in time. Hence, directionalities of polarisation and stress are taken into consideration simultaneously following simple site-specific non-erodetic approach. Comparison of spectral curves and spectral ratio curves of attenuation with respect to variations of direction and stress emphasise the amplification of the `seismic response' in one direction compared to the other, i.e. vertical vs. horizontal, in terms of weighing possibilities of or predicting structural integrity against failure. The composite analyses of multiple spectral curves not only enable determination of the orientation of the fracture set/s in space but also allow inferring the nature of more amplified response perpendicular to the crack surface compared to that of a response parallel to the crack surface.

Guided wave and damage detection in composite laminates using different fiber optic sensors.

PubMed

Li, Fucai; Murayama, Hideaki; Kageyama, Kazuro; Shirai, Takehiro

2009-01-01

Guided wave detection using different fiber optic sensors and their applications in damage detection for composite laminates were systematically investigated and compared in this paper. Two types of fiber optic sensors, namely fiber Bragg gratings (FBG) and Doppler effect-based fiber optic (FOD) sensors, were addressed and guided wave detection systems were constructed for both types. Guided waves generated by a piezoelectric transducer were propagated through a quasi-isotropic carbon fiber reinforced plastic (CFRP) laminate and acquired by these fiber optic sensors. Characteristics of these fiber optic sensors in ultrasonic guided wave detection were systematically compared. Results demonstrated that both the FBG and FOD sensors can be applied in guided wave and damage detection for the CFRP laminates. The signal-to-noise ratio (SNR) of guided wave signal captured by an FOD sensor is relatively high in comparison with that of the FBG sensor because of their different physical principles in ultrasonic detection. Further, the FOD sensor is sensitive to the damage-induced fundamental shear horizontal (SH(0)) guided wave that, however, cannot be detected by using the FBG sensor, because the FOD sensor is omnidirectional in ultrasound detection and, in contrast, the FBG sensor is severely direction dependent.

Activation of PI3K/Akt signaling by n-terminal SH2 domain mutants of the p85α regulatory subunit of PI3K is enhanced by deletion of its c-terminal SH2 domain.

PubMed

Hofmann, Bianca T; Jücker, Manfred

2012-10-01

The phosphoinositide 3-kinase (PI3K) is frequently activated in human cancer cells due to gain of function mutations in the catalytic (p110) and the regulatory (p85) subunits. The regulatory subunit consists of an SH3 domain and two SH2 domains. An oncogenic form of p85α named p65 lacking the c-terminal SH2 domain (cSH2) has been cloned from an irradiation-induced murine thymic lymphoma and transgenic mice expressing p65 in T lymphocytes develop a lymphoproliferative disorder. We have recently detected a c-terminal truncated form of p85α named p76α in a human lymphoma cell line lacking most of the cSH2 domain due to a frame shift mutation. Here, we report that the deletion of the cSH2 domain enhances the activating effects of the n-terminal SH2 domain (nSH2) mutants K379E and R340E on the PI3K/Akt pathway and micro tumor formation in a focus assay. Further analysis revealed that this transforming effect is mediated by activation of the catalytic PI3K isoform p110α and downstream signaling through mTOR. Our data further support a mechanistic model in which mutations of the cSH2 domain of p85α can abrogate its negative regulatory function on PI3K activity via the nSH2 domain of p85α. Copyright © 2012 Elsevier Inc. All rights reserved.

Evaluation of the reversal of multidrug resistance by MDR1 ribonucleic acid interference in a human colon cancer model using a Renilla luciferase reporter gene and coelenterazine.

PubMed

Jeon, Yong Hyun; Bae, Seon-ae; Lee, Yong Jin; Lee, You La; Lee, Sang-Woo; Yoon, Ghil-Suk; Ahn, Byeong-Cheol; Ha, Jeoung-Hee; Lee, Jaetae

2010-12-01

The reversal effect of multidrug resistance (MDR1) gene expression by adenoviral vector-mediated MDR1 ribonucleic acid interference was assessed in a human colon cancer animal model using bioluminescent imaging with Renilla luciferase (Rluc) gene and coelenterazine, a substrate for Rluc or MDR1 gene expression. A fluorescent microscopic examination demonstrated an increased green fluorescent protein signal in Ad-shMDR1- (recombinant adenovirus that coexpressed MDR1 small hairpin ribonucleic acid [shRNA] and green fluorescent protein) infected HCT-15/Rluc cells in a virus dose-dependent manner. Concurrently, with an increasing administered virus dose (0, 15, 30, 60, and 120 multiplicity of infection), Rluc activity was significantly increased in Ad-shMDR1-infected HCT-15/Rluc cells in a virus dose-dependent manner. In vivo bioluminescent imaging showed about 7.5-fold higher signal intensity in Ad-shMDR1-infected tumors than in control tumors (p < .05). Immunohistologic analysis demonstrated marked reduction of P-glycoprotein expression in infected tumor but not in control tumor. In conclusion, the reversal of MDR1 gene expression by MDR1 shRNA was successfully evaluated by bioluminescence imaging with Rluc activity using an in vivo animal model with a multidrug resistance cancer xenograft.

Lipid binding by the Unique and SH3 domains of c-Src suggests a new regulatory mechanism

PubMed Central

Pérez, Yolanda; Maffei, Mariano; Igea, Ana; Amata, Irene; Gairí, Margarida; Nebreda, Angel R.; Bernadó, Pau; Pons, Miquel

2013-01-01

c-Src is a non-receptor tyrosine kinase involved in numerous signal transduction pathways. The kinase, SH3 and SH2 domains of c-Src are attached to the membrane-anchoring SH4 domain through the flexible Unique domain. Here we show intra- and intermolecular interactions involving the Unique and SH3 domains suggesting the presence of a previously unrecognized additional regulation layer in c-Src. We have characterized lipid binding by the Unique and SH3 domains, their intramolecular interaction and its allosteric modulation by a SH3-binding peptide or by Calcium-loaded calmodulin binding to the Unique domain. We also show reduced lipid binding following phosphorylation at conserved sites of the Unique domain. Finally, we show that injection of full-length c-Src with mutations that abolish lipid binding by the Unique domain causes a strong in vivo phenotype distinct from that of wild-type c-Src in a Xenopus oocyte model system, confirming the functional role of the Unique domain in c-Src regulation. PMID:23416516

Tropospheric jet response to Antarctic ozone depletion: An update with Chemistry-Climate Model Initiative (CCMI) models

NASA Astrophysics Data System (ADS)

Son, Seok-Woo; Han, Bo-Reum; Garfinkel, Chaim I.; Kim, Seo-Yeon; Park, Rokjin; Abraham, N. Luke; Akiyoshi, Hideharu; Archibald, Alexander T.; Butchart, N.; Chipperfield, Martyn P.; Dameris, Martin; Deushi, Makoto; Dhomse, Sandip S.; Hardiman, Steven C.; Jöckel, Patrick; Kinnison, Douglas; Michou, Martine; Morgenstern, Olaf; O’Connor, Fiona M.; Oman, Luke D.; Plummer, David A.; Pozzer, Andrea; Revell, Laura E.; Rozanov, Eugene; Stenke, Andrea; Stone, Kane; Tilmes, Simone; Yamashita, Yousuke; Zeng, Guang

2018-05-01

The Southern Hemisphere (SH) zonal-mean circulation change in response to Antarctic ozone depletion is re-visited by examining a set of the latest model simulations archived for the Chemistry-Climate Model Initiative (CCMI) project. All models reasonably well reproduce Antarctic ozone depletion in the late 20th century. The related SH-summer circulation changes, such as a poleward intensification of westerly jet and a poleward expansion of the Hadley cell, are also well captured. All experiments exhibit quantitatively the same multi-model mean trend, irrespective of whether the ocean is coupled or prescribed. Results are also quantitatively similar to those derived from the Coupled Model Intercomparison Project phase 5 (CMIP5) high-top model simulations in which the stratospheric ozone is mostly prescribed with monthly- and zonally-averaged values. These results suggest that the ozone-hole-induced SH-summer circulation changes are robust across the models irrespective of the specific chemistry-atmosphere-ocean coupling.

Protein kinase A-dependent increase in WAVE2 expression induced by the focal adhesion protein vinexin.

PubMed

Mitsushima, Masaru; Sezaki, Takuhito; Akahane, Rie; Ueda, Kazumitsu; Suetsugu, Shiro; Takenawa, Tadaomi; Kioka, Noriyuki

2006-03-01

The focal adhesion protein vinexin is a member of a family of adaptor proteins that are thought to participate in the regulation of cell adhesion, cytoskeletal reorganization, and growth factor signaling. Here, we show that vinexin beta increases the amount of and reduces the mobility on SDS-PAGE of Wiskott-Aldrich syndrome protein family verprolin-homologous protein (WAVE) 2 protein, which is a key factor modulating actin polymerization in migrating cells. This mobility retardation disappeared after in vitro phosphatase treatment. Co-immunoprecipitation assays revealed the interaction of vinexin beta with WAVE2 as well as WAVE1 and N-WASP. Vinexin beta interacts with the proline-rich region of WAVE2 through the first and second SH3 domains of vinexin beta. Mutations disrupting the interaction impaired the ability of vinexin beta to increase the amount of WAVE2 protein. Treatments with proteasome inhibitors increased the amount of WAVE2, but did not have an additive effect with vinexin beta. Inhibition of protein kinase A (PKA) activity suppressed the vinexin-induced increase in WAVE2 protein, while activation of PKA increased WAVE2 expression without vinexin beta. These results suggest that vinexin beta regulates the proteasome-dependent degradation of WAVE2 in a PKA-dependent manner.

Identification and specificity studies of small-molecule ligands for SH3 protein domains.

PubMed

Inglis, Steven R; Stojkoski, Cvetan; Branson, Kim M; Cawthray, Jacquie F; Fritz, Daniel; Wiadrowski, Emma; Pyke, Simon M; Booker, Grant W

2004-10-21

The Src Homology 3 (SH3) domains are small protein-protein interaction domains that bind proline-rich sequences and mediate a wide range of cell-signaling and other important biological processes. Since deregulated signaling pathways form the basis of many human diseases, the SH3 domains have been attractive targets for novel therapeutics. High-affinity ligands for SH3 domains have been designed; however, these have all been peptide-based and no examples of entirely nonpeptide SH3 ligands have previously been reported. Using the mouse Tec Kinase SH3 domain as a model system for structure-based ligand design, we have identified several simple heterocyclic compounds that selectively bind to the Tec SH3 domain. Using a combination of nuclear magnetic resonance chemical shift perturbation, structure-activity relationships, and site-directed mutagenesis, the binding of these compounds at the proline-rich peptide-binding site has been characterized. The most potent of these, 2-aminoquinoline, bound with Kd = 125 microM and was able to compete for binding with a proline-rich peptide. Synthesis of 6-substituted-2-aminoquinolines resulted in ligands with up to 6-fold improved affinity over 2-aminoquinoline and enhanced specificity for the Tec SH3 domain. Therefore, 2-aminoquinolines may potentially be useful for the development of high affinity small molecule ligands for SH3 domains.

Non-Equilibrium Modeling of Inductively Coupled RF Plasmas

DTIC Science & Technology

2015-01-01

λt) is: λt = ∑ s∈Sh αλsXs (16) where the mole fractions of the heavy components are Xs = nskBT/p (s ∈ Sh). The coefficients α λ s are solu- tion of...the linear (symmetric) transport system: ∑ p∈Sh Gλspα λ s = Xs (17) s ∈ Sh. Quantities G λ sp are the entries of the thermal conductivity (symmetric...in the plasma: P = 2π ∫ R 0 Ωj r dr, (34) is equal to P0 = 350 000W/m. In order to match the condition P = P0 at steady-state, the current intensity is

Shared Ageing Research Models (ShARM): a new facility to support ageing research.

PubMed

Duran, Adele L; Potter, Paul; Wells, Sara; Kirkwood, Tom; von Zglinicki, Thomas; McArdle, Anne; Scudamore, Cheryl; Meng, Qing-Jun; de Haan, Gerald; Corcoran, Anne; Bellantuono, Ilaria

2013-12-01

In order to manage the rise in life expectancy and the concomitant increased occurrence of age-related diseases, research into ageing has become a strategic priority. Mouse models are commonly utilised as they share high homology with humans and show many similar signs and diseases of ageing. However, the time and cost needed to rear aged cohorts can limit research opportunities. Sharing of resources can provide an ethically and economically superior framework to overcome some of these issues but requires dedicated infrastructure. Shared Ageing Research Models (ShARM) ( www.ShARMUK.org ) is a new, not-for-profit organisation funded by Wellcome Trust, open to all investigators. It collects, stores and distributes flash frozen tissues from aged murine models through its biorepository and provides a database of live ageing mouse colonies available in the UK and abroad. It also has an online environment (MICEspace) for collation and analysis of data from communal models and discussion boards on subjects such as the welfare of ageing animals and common endpoints for intervention studies. Since launching in July 2012, thanks to the generosity of researchers in UK and Europe, ShARM has collected more than 2,500 tissues and has in excess of 2,000 mice registered in live ageing colonies. By providing the appropriate support, ShARM has been able to bring together the knowledge and experience of investigators in the UK and Europe to maximise research outputs with little additional cost and minimising animal use in order to facilitate progress in ageing research.

Analysis of the thermodynamics of binding of an SH3 domain to proline-rich peptides using a chimeric fusion protein.

PubMed

Candel, Adela M; van Nuland, Nico A J; Martin-Sierra, Francisco M; Martinez, Jose C; Conejero-Lara, Francisco

2008-03-14

A complete understanding of the thermodynamic determinants of binding between SH3 domains and proline-rich peptides is crucial to the development of rational strategies for designing ligands for these important domains. Recently we engineered a single-chain chimeric protein by fusing the alpha-spectrin Src homology region 3 (SH3) domain to the decapeptide APSYSPPPPP (p41). This chimera mimics the structural and energetic features of the interaction between SH3 domains and proline-rich peptides. Here we show that analysing the unfolding thermodynamics of single-point mutants of this chimeric fusion protein constitutes a very useful approach to deciphering the thermodynamics of SH3-ligand interactions. To this end, we investigated the contribution of each proline residue of the ligand sequence to the SH3-peptide interaction by producing six single Pro-Ala mutants of the chimeric protein and analysing their unfolding thermodynamics by differential scanning calorimetry (DSC). Structural analyses of the mutant chimeras by circular dichroism, fluorescence and NMR together with NMR-relaxation measurements indicate conformational flexibility at the binding interface, which is strongly affected by the different Pro-Ala mutations. An analysis of the DSC thermograms on the basis of a three-state unfolding model has allowed us to distinguish and separate the thermodynamic magnitudes of the interaction at the binding interface. The model assumes equilibrium between the "unbound" and "bound" states at the SH3-peptide binding interface. The resulting thermodynamic magnitudes classify the different proline residues according to their importance in the interaction as P2 approximately P7 approximately P10>P9 approximately P6>P8, which agrees well with Lim's model for the interaction between SH3 domains and proline-rich peptides. In addition, the thermodynamic signature of the interaction is the same as that usually found for this type of binding, with a strong enthalpy-entropy compensation for all the mutants. This compensation appears to derive from an increase in conformational flexibility concomitant to the weakening of the interactions at the binding interface. We conclude that our approach, based on DSC and site-directed mutagenesis analysis of chimeric fusion proteins, may serve as a suitable tool to analyse the energetics of weak biomolecular interactions such as those involving SH3 domains.

Intraperitoneal AAV9-shRNA inhibits target expression in neonatal skeletal and cardiac muscles.

PubMed

Mayra, Azat; Tomimitsu, Hiroyuki; Kubodera, Takayuki; Kobayashi, Masaki; Piao, Wenying; Sunaga, Fumiko; Hirai, Yukihiko; Shimada, Takashi; Mizusawa, Hidehiro; Yokota, Takanori

2011-02-11

Systemic injections of AAV vectors generally transduce to the liver more effectively than to cardiac and skeletal muscles. The short hairpin RNA (shRNA)-expressing AAV9 (shRNA-AAV9) can also reduce target gene expression in the liver, but not enough in cardiac or skeletal muscles. Higher doses of shRNA-AAV9 required for inhibiting target genes in cardiac and skeletal muscles often results in shRNA-related toxicity including microRNA oversaturation that can induce fetal liver failure. In this study, we injected high-dose shRNA-AAV9 to neonates and efficiently silenced genes in cardiac and skeletal muscles without inducing liver toxicity. This is because AAV is most likely diluted or degraded in the liver than in cardiac or skeletal muscle during cell division after birth. We report that this systemically injected shRNA-AAV method does not induce any major side effects, such as liver dysfunction, and the dose of shRNA-AAV is sufficient for gene silencing in skeletal and cardiac muscle tissues. This novel method may be useful for generating gene knockdown in skeletal and cardiac mouse tissues, thus providing mouse models useful for analyzing diseases caused by loss-of-function of target genes. Copyright © 2011 Elsevier Inc. All rights reserved.

Genetic Control of Seed Shattering in Rice by the APETALA2 Transcription Factor SHATTERING ABORTION1[C][W][OA

PubMed Central

Zhou, Yan; Lu, Danfeng; Li, Canyang; Luo, Jianghong; Zhu, Bo-Feng; Zhu, Jingjie; Shangguan, Yingying; Wang, Zixuan; Sang, Tao; Zhou, Bo; Han, Bin

2012-01-01

Seed shattering is an important agricultural trait in crop domestication. SH4 (for grain shattering quantitative trait locus on chromosome 4) and qSH1 (for quantitative trait locus of seed shattering on chromosome 1) genes have been identified as required for reduced seed shattering during rice (Oryza sativa) domestication. However, the regulatory pathways of seed shattering in rice remain unknown. Here, we identified a seed shattering abortion1 (shat1) mutant in a wild rice introgression line. The SHAT1 gene, which encodes an APETALA2 transcription factor, is required for seed shattering through specifying abscission zone (AZ) development in rice. Genetic analyses revealed that the expression of SHAT1 in AZ was positively regulated by the trihelix transcription factor SH4. We also identified a frameshift mutant of SH4 that completely eliminated AZs and showed nonshattering. Our results suggest a genetic model in which the persistent and concentrated expression of active SHAT1 and SH4 in the AZ during early spikelet developmental stages is required for conferring AZ identification. qSH1 functioned downstream of SHAT1 and SH4, through maintaining SHAT1 and SH4 expression in AZ, thus promoting AZ differentiation. PMID:22408071

SHORT HYPOCOTYL1 Encodes a SMARCA3-Like Chromatin Remodeling Factor Regulating Elongation1[OPEN

PubMed Central

Bo, Kailiang; Behera, Tusar K.; Pandey, Sudhakar; Wen, Changlong; Wang, Yuhui; Simon, Philipp W.; Li, Yuhong

2016-01-01

In Arabidopsis (Arabidopsis thaliana), the UVR8-mediated signaling pathway is employed to attain UVB protection and acclimation to deal with low-dosage UVB (LDUVB)-induced stresses. Here, we identified SHORT HYPOCOTYL1 (SH1) in cucumber (Cucumis sativus), which regulates LDUVB-dependent hypocotyl elongation by modulating the UVR8 signaling pathway. We showed that hypocotyl elongation in cucumbers carrying the recessive sh1 allele was LDUVB insensitive and that Sh1 encoded a human SMARCA3-like chromatin remodeling factor. The allele frequency and distribution pattern at this locus among natural populations supported the wild cucumber origin of sh1 for local adaptation, which was under selection during domestication. The cultivated cucumber carries predominantly the Sh1 allele; the sh1 allele is nearly fixed in the semiwild Xishuangbanna cucumber, and the wild cucumber population is largely at Hardy-Weinberg equilibrium for the two alleles. The SH1 protein sequence was highly conserved among eukaryotic organisms, but its regulation of hypocotyl elongation in cucumber seems to be a novel function. While Sh1 expression was inhibited by LDUVB, its transcript abundance was highly correlated with hypocotyl elongation rate and the expression level of cell-elongation-related genes. Expression profiling of key regulators in the UVR8 signaling pathway revealed significant differential expression of CsHY5 between two near isogenic lines of Sh1. Sh1 and CsHY5 acted antagonistically at transcriptional level. A working model was proposed in which Sh1 regulates LDUVB-dependent hypocotyl elongation in cucumber through changing the chromatin states and thus the accessibility of CsHY5 in the UVR8 signaling pathway to promoters of LDUVB-responsive genes for hypocotyl elongation. PMID:27559036

A graph kernel approach for alignment-free domain-peptide interaction prediction with an application to human SH3 domains.

PubMed

Kundu, Kousik; Costa, Fabrizio; Backofen, Rolf

2013-07-01

State-of-the-art experimental data for determining binding specificities of peptide recognition modules (PRMs) is obtained by high-throughput approaches like peptide arrays. Most prediction tools applicable to this kind of data are based on an initial multiple alignment of the peptide ligands. Building an initial alignment can be error-prone, especially in the case of the proline-rich peptides bound by the SH3 domains. Here, we present a machine-learning approach based on an efficient graph-kernel technique to predict the specificity of a large set of 70 human SH3 domains, which are an important class of PRMs. The graph-kernel strategy allows us to (i) integrate several types of physico-chemical information for each amino acid, (ii) consider high-order correlations between these features and (iii) eliminate the need for an initial peptide alignment. We build specialized models for each human SH3 domain and achieve competitive predictive performance of 0.73 area under precision-recall curve, compared with 0.27 area under precision-recall curve for state-of-the-art methods based on position weight matrices. We show that better models can be obtained when we use information on the noninteracting peptides (negative examples), which is currently not used by the state-of-the art approaches based on position weight matrices. To this end, we analyze two strategies to identify subsets of high confidence negative data. The techniques introduced here are more general and hence can also be used for any other protein domains, which interact with short peptides (i.e. other PRMs). The program with the predictive models can be found at http://www.bioinf.uni-freiburg.de/Software/SH3PepInt/SH3PepInt.tar.gz. We also provide a genome-wide prediction for all 70 human SH3 domains, which can be found under http://www.bioinf.uni-freiburg.de/Software/SH3PepInt/Genome-Wide-Predictions.tar.gz. Supplementary data are available at Bioinformatics online.

A graph kernel approach for alignment-free domain–peptide interaction prediction with an application to human SH3 domains

PubMed Central

Kundu, Kousik; Costa, Fabrizio; Backofen, Rolf

2013-01-01

Motivation: State-of-the-art experimental data for determining binding specificities of peptide recognition modules (PRMs) is obtained by high-throughput approaches like peptide arrays. Most prediction tools applicable to this kind of data are based on an initial multiple alignment of the peptide ligands. Building an initial alignment can be error-prone, especially in the case of the proline-rich peptides bound by the SH3 domains. Results: Here, we present a machine-learning approach based on an efficient graph-kernel technique to predict the specificity of a large set of 70 human SH3 domains, which are an important class of PRMs. The graph-kernel strategy allows us to (i) integrate several types of physico-chemical information for each amino acid, (ii) consider high-order correlations between these features and (iii) eliminate the need for an initial peptide alignment. We build specialized models for each human SH3 domain and achieve competitive predictive performance of 0.73 area under precision-recall curve, compared with 0.27 area under precision-recall curve for state-of-the-art methods based on position weight matrices. We show that better models can be obtained when we use information on the noninteracting peptides (negative examples), which is currently not used by the state-of-the art approaches based on position weight matrices. To this end, we analyze two strategies to identify subsets of high confidence negative data. The techniques introduced here are more general and hence can also be used for any other protein domains, which interact with short peptides (i.e. other PRMs). Availability: The program with the predictive models can be found at http://www.bioinf.uni-freiburg.de/Software/SH3PepInt/SH3PepInt.tar.gz. We also provide a genome-wide prediction for all 70 human SH3 domains, which can be found under http://www.bioinf.uni-freiburg.de/Software/SH3PepInt/Genome-Wide-Predictions.tar.gz. Contact: backofen@informatik.uni-freiburg.de Supplementary information: Supplementary data are available at Bioinformatics online. PMID:23813002

Structural Basis for Activation of ZAP-70 by Phosphorylation of the SH2-Kinase Linker

PubMed Central

Yan, Qingrong; Barros, Tiago; Visperas, Patrick R.; Deindl, Sebastian; Kadlecek, Theresa A.; Weiss, Arthur

2013-01-01

Serial activation of the tyrosine kinases Lck and ZAP-70 initiates signaling downstream of the T cell receptor. We previously reported the structure of an autoinhibited ZAP-70 variant in which two regulatory tyrosine residues (315 and 319) in the SH2-kinase linker were replaced by phenylalanine. We now present a crystal structure of ZAP-70 in which Tyr 315 and Tyr 319 are not mutated, leading to the recognition of a five-residue sequence register error in the SH2-kinase linker of the original crystallographic model. The revised model identifies distinct roles for these two tyrosines. As seen in a recently reported structure of the related tyrosine kinase Syk, Tyr 315 of ZAP-70 is part of a hydrophobic interface between the regulatory apparatus and the kinase domain, and the integrity of this interface would be lost upon engagement of doubly phosphorylated peptides by the SH2 domains. Tyr 319 is not necessarily dislodged by SH2 engagement, which activates ZAP-70 only ∼5-fold in vitro. In contrast, phosphorylation by Lck activates ZAP-70 ∼100-fold. This difference is due to the ability of Tyr 319 to suppress ZAP-70 activity even when the SH2 domains are dislodged from the kinase domain, providing stringent control of ZAP-70 activity downstream of Lck. PMID:23530057

Structural basis for activation of ZAP-70 by phosphorylation of the SH2-kinase linker.

PubMed

Yan, Qingrong; Barros, Tiago; Visperas, Patrick R; Deindl, Sebastian; Kadlecek, Theresa A; Weiss, Arthur; Kuriyan, John

2013-06-01

Serial activation of the tyrosine kinases Lck and ZAP-70 initiates signaling downstream of the T cell receptor. We previously reported the structure of an autoinhibited ZAP-70 variant in which two regulatory tyrosine residues (315 and 319) in the SH2-kinase linker were replaced by phenylalanine. We now present a crystal structure of ZAP-70 in which Tyr 315 and Tyr 319 are not mutated, leading to the recognition of a five-residue sequence register error in the SH2-kinase linker of the original crystallographic model. The revised model identifies distinct roles for these two tyrosines. As seen in a recently reported structure of the related tyrosine kinase Syk, Tyr 315 of ZAP-70 is part of a hydrophobic interface between the regulatory apparatus and the kinase domain, and the integrity of this interface would be lost upon engagement of doubly phosphorylated peptides by the SH2 domains. Tyr 319 is not necessarily dislodged by SH2 engagement, which activates ZAP-70 only ∼5-fold in vitro. In contrast, phosphorylation by Lck activates ZAP-70 ∼100-fold. This difference is due to the ability of Tyr 319 to suppress ZAP-70 activity even when the SH2 domains are dislodged from the kinase domain, providing stringent control of ZAP-70 activity downstream of Lck.

Estrogen Receptor Folding Modulates cSrc Kinase SH2 Interaction via a Helical Binding Mode.

PubMed

Nieto, Lidia; Tharun, Inga M; Balk, Mark; Wienk, Hans; Boelens, Rolf; Ottmann, Christian; Milroy, Lech-Gustav; Brunsveld, Luc

2015-11-20

The estrogen receptors (ERs) feature, next to their transcriptional role, important nongenomic signaling actions, with emerging clinical relevance. The Src Homology 2 (SH2) domain mediated interaction between cSrc kinase and ER plays a key role in this; however the molecular determinants of this interaction have not been elucidated. Here, we used phosphorylated ER peptide and semisynthetic protein constructs in a combined biochemical and structural study to, for the first time, provide a quantitative and structural characterization of the cSrc SH2-ER interaction. Fluorescence polarization experiments delineated the SH2 binding motif in the ER sequence. Chemical shift perturbation analysis by nuclear magnetic resonance (NMR) together with molecular dynamics (MD) simulations allowed us to put forward a 3D model of the ER-SH2 interaction. The structural basis of this protein-protein interaction has been compared with that of the high affinity SH2 binding sequence GpYEEI. The ER features a different binding mode from that of the "two-pronged plug two-hole socket" model in the so-called specificity determining region. This alternative binding mode is modulated via the folding of ER helix 12, a structural element directly C-terminal of the key phosphorylated tyrosine. The present findings provide novel molecular entries for understanding nongenomic ER signaling and targeting the corresponding disease states.

Modelled thermal and dynamical responses of the middle atmosphere to EPP-induced ozone changes

NASA Astrophysics Data System (ADS)

Karami, K.; Braesicke, P.; Kunze, M.; Langematz, U.; Sinnhuber, M.; Versick, S.

2015-11-01

Energetic particles including protons, electrons and heavier ions, enter the Earth's atmosphere over the polar regions of both hemispheres, where they can greatly disturb the chemical composition of the upper and middle atmosphere and contribute to ozone depletion in the stratosphere and mesosphere. The chemistry-climate general circulation model EMAC is used to investigate the impact of changed ozone concentration due to Energetic Particle Precipitation (EPP) on temperature and wind fields. The results of our simulations show that ozone perturbation is a starting point for a chain of processes resulting in temperature and circulation changes over a wide range of latitudes and altitudes. In both hemispheres, as winter progresses the temperature and wind anomalies move downward with time from the mesosphere/upper stratosphere to the lower stratosphere. In the Northern Hemisphere (NH), once anomalies of temperature and zonal wind reach the lower stratosphere, another signal develops in mesospheric heights and moves downward. Analyses of Eliassen and Palm (EP) flux divergence show that accelerating or decelerating of the stratospheric zonal flow is in harmony with positive and negative anomalies of the EP flux divergences, respectively. This results suggest that the oscillatory mode in the downwelling signal of temperature and zonal wind in our simulations are the consequence of interaction between the resolved waves in the model and the mean stratospheric flow. Therefore, any changes in the EP flux divergence lead to anomalies in the zonal mean zonal wind which in turn feed back on the propagation of Rossby waves from the troposphere to higher altitudes. The analyses of Rossby waves refractive index show that the EPP-induced ozone anomalies are capable of altering the propagation condition of the planetary-scale Rossby waves in both hemispheres. It is also found that while ozone depletion was confined to mesospheric and stratospheric heights, but it is capable to alter Rossby wave propagation down to tropospheric heights. In response to an accelerated polar vortex in the Southern Hemisphere (SH) late wintertime, we found almost two weeks delay in the occurrence of mean dates of Stratospheric Final Warming (SFW). These results suggest that the stratosphere is not merely a passive sink of wave activity from below, but it plays an active role in determining its own budget of wave activity.

Dentine morphology of Atapuerca-Sima de los Huesos lower molars: Evolutionary implications through three-dimensional geometric morphometric analysis.

PubMed

Hanegraef, Hester; Martinón-Torres, María; Martínez de Pinillos, Marina; Martín-Francés, Laura; Vialet, Amélie; Arsuaga, Juan Luis; Bermúdez de Castro, José María

2018-06-01

This study aims to explore the affinities of the Sima de los Huesos (SH) population in relation to Homo neanderthalensis, Arago, and early and contemporary Homo sapiens. By characterizing SH intra-population variation, we test current models to explain the Neanderthal origins. Three-dimensional reconstructions of dentine surfaces of lower first and second molars were produced by micro-computed tomography. Landmarks and sliding semilandmarks were subjected to generalized Procrustes analysis and principal components analysis. SH is often similar in shape to Neanderthals, and both groups are generally discernible from Homo sapiens. For example, the crown height of SH and Neanderthals is lower than for modern humans. Differences in the presence of a mid-trigonid crest are also observed, with contemporary Homo sapiens usually lacking this feature. Although SH and Neanderthals show strong affinities, they can be discriminated based on certain traits. SH individuals are characterized by a lower intra-population variability, and show a derived dental reduction in lower second molars compared to Neanderthals. SH also differs in morphological features from specimens that are often classified as Homo heidelbergensis, such as a lower crown height and less pronounced mid-trigonid crest in the Arago fossils. Our results are compatible with the idea that multiple evolutionary lineages or populations coexisted in Europe during the Middle Pleistocene, with the SH paradigm phylogenetically closer to Homo neanderthalensis. Further research could support the possibility of SH as a separate taxon. Alternatively, SH could be a subspecies of Neanderthals, with the variability of this clade being remarkably higher than previously thought. © 2018 Wiley Periodicals, Inc.

The Activation of c-Src Tyrosine Kinase: Conformational Transition Pathway and Free Energy Landscape.

PubMed

Fajer, Mikolai; Meng, Yilin; Roux, Benoît

2017-04-20

Tyrosine kinases are important cellular signaling allosteric enzymes that regulate cell growth, proliferation, metabolism, differentiation, and migration. Their activity must be tightly controlled, and malfunction can lead to a variety of diseases, particularly cancer. The nonreceptor tyrosine kinase c-Src, a prototypical model system and a representative member of the Src-family, functions as complex multidomain allosteric molecular switches comprising SH2 and SH3 domains modulating the activity of the catalytic domain. The broad picture of self-inhibition of c-Src via the SH2 and SH3 regulatory domains is well characterized from a structural point of view, but a detailed molecular mechanism understanding is nonetheless still lacking. Here, we use advanced computational methods based on all-atom molecular dynamics simulations with explicit solvent to advance our understanding of kinase activation. To elucidate the mechanism of regulation and self-inhibition, we have computed the pathway and the free energy landscapes for the "inactive-to-active" conformational transition of c-Src for different configurations of the SH2 and SH3 domains. Using the isolated c-Src catalytic domain as a baseline for comparison, it is observed that the SH2 and SH3 domains, depending upon their bound orientation, promote either the inactive or active state of the catalytic domain. The regulatory structural information from the SH2-SH3 tandem is allosterically transmitted via the N-terminal linker of the catalytic domain. Analysis of the conformational transition pathways also illustrates the importance of the conserved tryptophan 260 in activating c-Src, and reveals a series of concerted events during the activation process.

Gene Expression Profile of NF-κB, Nrf2, Glycolytic, and p53 Pathways During the SH-SY5Y Neuronal Differentiation Mediated by Retinoic Acid.

PubMed

de Bittencourt Pasquali, Matheus Augusto; de Ramos, Vitor Miranda; Albanus, Ricardo D Oliveira; Kunzler, Alice; de Souza, Luis Henrinque Trentin; Dalmolin, Rodrigo Juliani Siqueira; Gelain, Daniel Pens; Ribeiro, Leila; Carro, Luigi; Moreira, José Cláudio Fonseca

2016-01-01

SH-SY5Y cells, a neuroblastoma cell line that is a well-established model system to study the initial phases of neuronal differentiation, have been used in studies to elucidate the mechanisms of neuronal differentiation. In the present study, we investigated alterations of gene expression in SH-SY5Y cells during neuronal differentiation mediated by retinoic acid (RA) treatment. We evaluated important pathways involving nuclear factor kappa B (NF-κB), nuclear E2-related factor 2 (Nrf2), glycolytic, and p53 during neuronal differentiation. We also investigated the involvement of reactive oxygen species (ROS) in modulating the gene expression profile of those pathways by antioxidant co-treatment with Trolox®, a hydrophilic analogue of α-tocopherol. We found that RA treatment increases levels of gene expression of NF-κB, glycolytic, and antioxidant pathway genes during neuronal differentiation of SH-SY5Y cells. We also found that ROS production induced by RA treatment in SH-SY5Y cells is involved in gene expression profile alterations, chiefly in NF-κB, and glycolytic pathways. Antioxidant co-treatment with Trolox® reversed the effects mediated by RA NF-κB, and glycolytic pathways gene expression. Interestingly, co-treatment with Trolox® did not reverse the effects in antioxidant gene expression mediated by RA in SH-SY5Y. To confirm neuronal differentiation, we quantified endogenous levels of tyrosine hydroxylase, a recognized marker of neuronal differentiation. Our data suggest that during neuronal differentiation mediated by RA, changes in profile gene expression of important pathways occur. These alterations are in part mediated by ROS production. Therefore, our results reinforce the importance in understanding the mechanism by which RA induces neuronal differentiation in SH-SY5Y cells, principally due this model being commonly used as a neuronal cell model in studies of neuronal pathologies.

Tumor Xenograft Response to Redox-Active Therapies Assessed by Magnetic Resonance Imaging Using a Thiol-Bearing DOTA Complex of Gadolinium1

PubMed Central

Guntle, Gerald P; Jagadish, Bhumasamudram; Mash, Eugene A; Powis, Garth; Dorr, Robert T; Raghunand, Natarajan

2012-01-01

Gd-LC6-SH is a thiol-bearing DOTA complex of gadolinium designed to bind plasma albumin at the conserved Cys34 site. The binding of Gd-LC6-SH shows sensitivity to the presence of competing thiols. We hypothesized that Gd-LC6-SH could provide magnetic resonance imaging (MRI) enhancement that is sensitive to tumor redox state and that the prolonged retention of albumin-bound Gd-LC6-SH in vivo can be exploited to identify a saturating dose above which the shortening of MRI longitudinal relaxation time (T1) of tissue is insensitive to the injected gadolinium dose. In the Mia-PaCa-2 pancreatic tumor xenograft model in SCID mice, both the small-molecule Gd-DTPA-BMA and the macromolecule Galbumin MRI contrast agents produced dose-dependent decreases in tumor T1. By contrast, the decreases in tumor T1 provided by Gd-LC6-SH at 0.05 and 0.1 mmol/kg were not significantly different at longer times after injection. SCID mice bearing Mia-PaCa-2 or NCI-N87 tumor xenografts were treated with either the glutathione synthesis inhibitor buthionine sulfoximine or the thiol-oxidizing anticancer drug Imexon, respectively. In both models, there was a significantly greater increase in tumor R1 (=1/T1) 60 minutes after injection of Gd-LC6-SH in drug-treated animals relative to saline-treated controls. In addition, Mercury Orange staining for nonprotein sulfhydryls was significantly decreased by drug treatment relative to controls in both tumor models. In summary, these studies show that thiol-bearing complexes of gadolinium such as Gd-LC6-SH can serve as redox-sensitive MRI contrast agents for detecting differences in tumor redox status and can be used to evaluate the effects of redox-active drugs. PMID:22741038

Functional Consequences of Intracellular Proline Levels Manipulation Affecting PRODH/POX-Dependent Pro-Apoptotic Pathways in a Novel in Vitro Cell Culture Model.

PubMed

Zareba, Ilona; Surazynski, Arkadiusz; Chrusciel, Marcin; Miltyk, Wojciech; Doroszko, Milena; Rahman, Nafis; Palka, Jerzy

2017-01-01

The effect of impaired intracellular proline availability for proline dehydrogenase/proline oxidase (PRODH/POX)-dependent apoptosis was studied. We generated a constitutively knocked-down PRODH/POX MCF-7 breast cancer cell line (MCF-7shPRODH/POX) as a model to analyze the functional consequences of impaired intracellular proline levels. We have used inhibitor of proline utilization in collagen biosynthesis, 2-metoxyestradiol (MOE), inhibitor of prolidase that generate proline, rapamycin (Rap) and glycyl-proline (GlyPro), substrate for prolidase. Collagen and DNA biosynthesis were evaluated by radiometric assays. Cell viability was determined using Nucleo-Counter NC-3000. The activity of prolidase was determined by colorimetric assay. Expression of proteins was assessed by Western blot and immunofluorescence bioimaging. Concentration of proline was analyzed by liquid chromatography with mass spectrometry. PRODH/POX knockdown decreased DNA and collagen biosynthesis, whereas increased prolidase activity and intracellular proline level in MCF-7shPRODH/POX cells. All studied compounds decreased cell viability in MCF-7 and MCF-7shPRODH/POX cells. DNA biosynthesis was similarly inhibited by Rap and MOE in both cell lines, but GlyPro inhibited the process only in MCF-7shPRODH/POX and MOE+GlyPro only in MCF-7 cells. All the compounds inhibited collagen biosynthesis, increased prolidase activity and cytoplasmic proline level in MCF-7shPRODH/POX cells and contributed to the induction of pro-survival mode only in MCF-7shPRODH/POX cells. In contrast, all studied compounds upregulated expression of pro-apoptotic protein only in MCF-7 cells. PRODH/POX was confirmed as a driver of apoptosis and proved the eligibility of MCF-7shPRODH/POX cell line as a highly effective model to elucidate the different mechanisms underlying proline utilization or generation in PRODH/POX-dependent pro-apoptotic pathways. © 2017 The Author(s). Published by S. Karger AG, Basel.

Neuronal effects of 4-t-Butylcatechol: A model for catechol-containing antioxidants

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

Lo, Y.-C.; Liu Yuxin; Lin, Y.-C.

2008-04-15

Many herbal medicines and dietary supplements sold as aids to improve memory or treat neurodegenerative diseases or have other favorable effects on the CNS contain a catechol or similar 1,2-dihydroxy aromatic moiety in their structure. As an approach to isolate and examine the neuroprotective properties of catechols, a simple catechol 4-t-Butylcatechol (TBC) has been used as a model. In this study, we investigated the effects of TBC on lipopolysaccharide (LPS)-activated microglial-induced neurotoxicity by using the in vitro model of coculture murine microglial-like cell line HAPI with the neuronal-like human neuroblastoma cell line SH-SY5Y. We also examined the effects of TBCmore » on 6-hydroxydopamine (6-OHDA)-induced neurotoxicity in human dopaminergic neuroblastoma SH-SY5Y cells. TBC at concentrations from 0.1-10 {mu}M had no toxic effect on HAPI cells and SH-SY5Y cells, and it inhibited LPS (100 ng/ml)-induced increases of superoxide, intracellular ROS, gp91{sup Phox}, iNOS and a decrease of HO-1 in HAPI cells. Under coculture condition, TBC significantly reduced LPS-activated microglia-induced dopaminergic SH-SY5Y cells death. Moreover, TBC (0.1-10 {mu}M) inhibited 6-OHDA-induced increases of intracellular ROS, iNOS, nNOS, and a decrease of mitochondria membrane potential, and cell death in SH-SY5Y cells. However, the neurotoxic effects of TBC (100 {mu}M) on SH-SY5Y cells were also observed including the decrease in mitochondria membrane potential and the increase in COX-2 expression and cell death. TBC-induced SH-SY5Y cell death was attenuated by pretreatment with NS-398, a selective COX-2 inhibitor. In conclusion, this study suggests that TBC might possess protective effects on inflammation- and oxidative stress-related neurodegenerative disorders. However, the high concentration of TBC might be toxic, at least in part, for increasing COX-2 expression.« less

The SH-SY5Y cell line in Parkinson's disease research: a systematic review.

PubMed

Xicoy, Helena; Wieringa, Bé; Martens, Gerard J M

2017-01-24

Parkinson's disease (PD) is a devastating and highly prevalent neurodegenerative disease for which only symptomatic treatment is available. In order to develop a truly effective disease-modifying therapy, improvement of our current understanding of the molecular and cellular mechanisms underlying PD pathogenesis and progression is crucial. For this purpose, standardization of research protocols and disease models is necessary. As human dopaminergic neurons, the cells mainly affected in PD, are difficult to obtain and maintain as primary cells, current PD research is mostly performed with permanently established neuronal cell models, in particular the neuroblastoma SH-SY5Y lineage. This cell line is frequently chosen because of its human origin, catecholaminergic (though not strictly dopaminergic) neuronal properties, and ease of maintenance. However, there is no consensus on many fundamental aspects that are associated with its use, such as the effects of culture media composition and of variations in differentiation protocols. Here we present the outcome of a systematic review of scientific articles that have used SH-SY5Y cells to explore PD. We describe the cell source, culture conditions, differentiation protocols, methods/approaches used to mimic PD and the preclinical validation of the SH-SY5Y findings by employing alternative cellular and animal models. Thus, this overview may help to standardize the use of the SH-SY5Y cell line in PD research and serve as a future user's guide.

Focal Mechanism Solutions of the 2008 Wenchuan earthquake sequence from P-wave polarities and SH/P amplitude ratios: new results and implications

NASA Astrophysics Data System (ADS)

Tian, Yuan; Ning, Jieyuan; Yu, Chunquan; Cai, Chen; Tao, Kai

2013-12-01

The 2008 Wenchuan earthquake, a major intraplate earthquake with M w 7.9, occurred on the slowly deforming Longmenshan fault. To better understand the causes of this devastating earthquake, we need knowledge of the regional stress field and the underlying geodynamic processes. Here, we determine focal mechanism solutions (FMSs) of the 2008 Wenchuan earthquake sequence (WES) using both P-wave first-motion polarity data and SH/P amplitude ratio (AR) data. As P-wave polarities are more reliable information, they are given priority over SH/P AR, the latter of which are used only when the former has loose constraint on the FMSs. We collect data from three categories: (1) permanent stations deployed by the China Earthquake Administration (CEA); (2) the Western Sichuan Passive Seismic Array (WSPSA) deployed by Institute of Geology, CEA; (3) global stations from Incorporated Research Institutions for Seismology. Finally, 129 events with magnitude over M s 4.0 in the 2008 WES are identified to have well-constrained FMSs. Among them, 83 are well constrained by P-wave polarities only as shown by Cai et al. (Earthq Sci 24(1):115-125, 2011), and the rest of which are newly constrained by incorporating SH/P AR. Based on the spatial distribution and FMSs of the WES, we draw following conclusions: (1) the principle compressional directions of most FMSs of the WES are subhorizontal, generally in agreement with the conclusion given by Cai et al. (2011) but with a few modifications that the compressional directions are WNW-ESE around Wenchuan and ENE-WSW around Qingchuan, respectively. The subhorizontal compressional direction along the Longmenshan fault from SW to NE seems to have a left-lateral rotation, which agrees well with regional stress field inverted by former researchers (e.g., Xu et al., Acta Seismol Sin 30(5), 1987; Acta Geophys Sin 32(6), 1989; Cui et al., Seismol Geol 27(2):234-242, 2005); (2) the FMSs of the events not only reflected the regional stress state of the Longmenshan region, but also were obviously controlled by the faults to some extent, which was pointed out by Cai et al. (2011) and Yi et al. (Chin J Geophys 55(4):1213-1227, 2012); (3) while the 2008 Wenchuan earthquake and some of its strong aftershocks released most of the elastic energy accumulated on the Longmenshan fault, some other aftershocks seem to occur just for releasing the elastic energy promptly created by the 2008 Wenchuan earthquake and some of its strong aftershocks. (4) Our results further suggest that the Longmenshan fault from Wenchuan to Beichuan was nearly fully destroyed by the 2008 Wenchuan earthquake and accordingly propose that there is less probability for great earthquakes in the middle part of the Longmenshan fault in the near future, although there might be a barrier to the southwest of Wenchuan and it is needed to pay some attention on it in the near future.

Large-Scale, Synoptic-Period Weather Systems in Mars' Atmosphere

NASA Astrophysics Data System (ADS)

Hollingsworth, Jeffery L.; Kahre, M.

2013-10-01

During late autumn through early spring, extratropical regions on Mars exhibit profound mean zonal equator-to-pole thermal contrasts associated with its waxing and waning seasonal polar ice caps. The imposition of this strong meridional temperature gradient supports intense eastward-traveling, synoptic-period weather systems (i.e., transient baroclinic/barotropic waves) within Mars' extratropical atmosphere. These disturbances grow, mature and decay within the east-west varying seasonal-mean middle and high-latitude westerly jet stream (i.e., the polar vortex) on the planet. Near the surface, such weather disturbances indicated distinctive, spiraling "comma"-shaped dust cloud structures of large scale, and scimitar-shaped dust fronts, indicative of processes associated with cyclo- and fronto-genesis. The weather systems are most intense during specific seasons on Mars, and in both hemispheres. The northern hemisphere (NH) disturbances appear to be significantly more vigorous than their counterparts in the southern hemisphere (SH). Further, the NH weather systems and accompanying frontal waves appear to have significant impacts on the transport of tracer fields (e.g., particularly dust and to some extent water species (vapor/ice) as well). Regarding dust, frontal waves appear to be key agents in the lifting, lofting, organization and transport of this atmospheric aerosol. A brief background and supporting observations of Mars' extratropical weather systems is presented. This is followed by various modeling studies (i.e., ranging from highly simplified, mechanistic and fully complex global circulation modeling investigations) that we are pursuing. In particular, transport of scalar quantities (e.g., tracers and high-order dynamically revealing diagnostic fields) are investigated. A discussion of outstanding issues and future modeling pursuits is offered related to Mars' extratropical traveling weather systems.

Differentiated Human SH-SY5Y Cells Provide a Reductionist Model of Herpes Simplex Virus 1 Neurotropism.

PubMed

Shipley, Mackenzie M; Mangold, Colleen A; Kuny, Chad V; Szpara, Moriah L

2017-12-01

Neuron-virus interactions that occur during herpes simplex virus (HSV) infection are not fully understood. Neurons are the site of lifelong latency and are a crucial target for long-term suppressive therapy or viral clearance. A reproducible neuronal model of human origin would facilitate studies of HSV and other neurotropic viruses. Current neuronal models in the herpesvirus field vary widely and have caveats, including incomplete differentiation, nonhuman origins, or the use of dividing cells that have neuropotential but lack neuronal morphology. In this study, we used a robust approach to differentiate human SH-SY5Y neuroblastoma cells over 2.5 weeks, producing a uniform population of mature human neuronal cells. We demonstrate that terminally differentiated SH-SY5Y cells have neuronal morphology and express proteins with subcellular localization indicative of mature neurons. These neuronal cells are able to support a productive HSV-1 infection, with kinetics and overall titers similar to those seen in undifferentiated SH-SY5Y cells and the related SK-N-SH cell line. However, terminally differentiated, neuronal SH-SY5Y cells release significantly less extracellular HSV-1 by 24 h postinfection (hpi), suggesting a unique neuronal response to viral infection. With this model, we are able to distinguish differences in neuronal spread between two strains of HSV-1. We also show expression of the antiviral protein cyclic GMP-AMP synthase (cGAS) in neuronal SH-SY5Y cells, which is the first demonstration of the presence of this protein in nonepithelial cells. These data provide a model for studying neuron-virus interactions at the single-cell level as well as via bulk biochemistry and will be advantageous for the study of neurotropic viruses in vitro IMPORTANCE Herpes simplex virus (HSV) affects millions of people worldwide, causing painful oral and genital lesions, in addition to a multitude of more severe symptoms such as eye disease, neonatal infection, and, in rare cases, encephalitis. Presently, there is no cure available to treat those infected or prevent future transmission. Due to the ability of HSV to cause a persistent, lifelong infection in the peripheral nervous system, the virus remains within the host for life. To better understand the basis of virus-neuron interactions that allow HSV to persist within the host peripheral nervous system, improved neuronal models are required. Here we describe a cost-effective and scalable human neuronal model system that can be used to study many neurotropic viruses, such as HSV, Zika virus, dengue virus, and rabies virus. Copyright © 2017 American Society for Microbiology.

Differentiated Human SH-SY5Y Cells Provide a Reductionist Model of Herpes Simplex Virus 1 Neurotropism

PubMed Central

Mangold, Colleen A.; Kuny, Chad V.

2017-01-01

ABSTRACT Neuron-virus interactions that occur during herpes simplex virus (HSV) infection are not fully understood. Neurons are the site of lifelong latency and are a crucial target for long-term suppressive therapy or viral clearance. A reproducible neuronal model of human origin would facilitate studies of HSV and other neurotropic viruses. Current neuronal models in the herpesvirus field vary widely and have caveats, including incomplete differentiation, nonhuman origins, or the use of dividing cells that have neuropotential but lack neuronal morphology. In this study, we used a robust approach to differentiate human SH-SY5Y neuroblastoma cells over 2.5 weeks, producing a uniform population of mature human neuronal cells. We demonstrate that terminally differentiated SH-SY5Y cells have neuronal morphology and express proteins with subcellular localization indicative of mature neurons. These neuronal cells are able to support a productive HSV-1 infection, with kinetics and overall titers similar to those seen in undifferentiated SH-SY5Y cells and the related SK-N-SH cell line. However, terminally differentiated, neuronal SH-SY5Y cells release significantly less extracellular HSV-1 by 24 h postinfection (hpi), suggesting a unique neuronal response to viral infection. With this model, we are able to distinguish differences in neuronal spread between two strains of HSV-1. We also show expression of the antiviral protein cyclic GMP-AMP synthase (cGAS) in neuronal SH-SY5Y cells, which is the first demonstration of the presence of this protein in nonepithelial cells. These data provide a model for studying neuron-virus interactions at the single-cell level as well as via bulk biochemistry and will be advantageous for the study of neurotropic viruses in vitro. IMPORTANCE Herpes simplex virus (HSV) affects millions of people worldwide, causing painful oral and genital lesions, in addition to a multitude of more severe symptoms such as eye disease, neonatal infection, and, in rare cases, encephalitis. Presently, there is no cure available to treat those infected or prevent future transmission. Due to the ability of HSV to cause a persistent, lifelong infection in the peripheral nervous system, the virus remains within the host for life. To better understand the basis of virus-neuron interactions that allow HSV to persist within the host peripheral nervous system, improved neuronal models are required. Here we describe a cost-effective and scalable human neuronal model system that can be used to study many neurotropic viruses, such as HSV, Zika virus, dengue virus, and rabies virus. PMID:28956768

The effects of the theoretical formalism and data selection on mantle models derived from waveform tomography

NASA Astrophysics Data System (ADS)

Mégnin, Charles; Romanowicz, Barbara

1999-08-01

Most global tomographic models to date are derived using a combination of surface wave (or normal-mode) data and body wave traveltime data. The traveltime approach limits the number of phases available for inversion by requiring them to be isolated on the seismogram. This may ultimately result in limiting the resolution of 3-D structure, at least in some depth ranges in the mantle. In a previous study, we successfully derived a degree 12 whole-mantle SH-velocity tomographic model (SAW12D) using exclusively waveform data. In that inversion, a normal-mode formalism suitable for body waveforms, the non-linear asymptotic coupling theory (NACT), was combined with a body wave windowing scheme, referred to as the `individual wavepacket' (IW) technique, which allows one to assign individual weights to different body wave energy packets. We here compare the relative merits of this choice of theoretical formalism and windowing scheme at different depth ranges in the mantle. Choosing as the reference a model obtained using 7500 transverse-component body wave and 8000 surface wave seismograms and the NACT and IW approaches, we discuss the relative performance of the path average approximation (PAVA), a zeroth-order theoretical approximation appropriate for single-mode surface waves, relative to NACT, and compare the IW windowing scheme with a more standard `full window' (FW) approach, in which a single time window is considered from the first body wave arrival to the fundamental-mode surface waves. The combination PAVA/FW is often used in global tomography to supplement the traveltime data. We show that although the quality of the image derived under the PAVA/FW formalism is very similar to that derived under NACT/IW in the first 300 km of the upper mantle, where the resolution is dominated by surface waves, it deteriorates at greater depths. Images of the lower mantle are shown to be strongly sensitive to the theoretical formalism. In contrast, the resolution of structure near the core-mantle boundary depends mostly on the windowing scheme. This is because this resolution is controlled by low-amplitude phases such as S_diff, which are downweighted in the FW scheme. Whilst the image obtained in D'' using the combination NACT/IW is in good agreement with images obtained by other authors using both waveforms and traveltimes, we show that, when using FW, uppermost mantle structure can be mapped into D''. This result is confirmed by synthetic tests performed on a composite of the upper-mantle geodynamic model 3SMAC. We also show, based on synthetic tests, that for structures in the upper mantle with sharp boundaries, differences are observed between NACT and PAVA. Whilst a combination of traveltimes and surface wave data is adequate for resolving relatively smooth features in the mantle, our results show that by potentially increasing the achievable sampling, the waveform approach shows great promise for future high-resolution tomographic modelling of mantle structure, if cast in an appropriate theoretical framework.

Multiple copies of orbital angular momentum states through second-harmonic generation in a two-dimensional periodically poled LiTaO{sub 3} crystal

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

Fang, Xinyuan; Wei, Dunzhao; Liu, Dongmei

We experimentally demonstrate multiple copies of optical orbital angular momentum (OAM) states through quasi-phase-matched (QPM) second-harmonic (SH) generation in a 2D periodically poled LiTaO{sub 3} (PPLT) crystal. Since the QPM condition is satisfied by involving different reciprocal vectors in the 2D PPLT crystal, collinear and noncollinear SH beams carrying OAMs of l{sub 2} are simultaneously generated by the input fundamental beam with an OAM of l{sub 1}. The OAM conservation law (i.e., l{sub 2} = 2l{sub 1}) holds well in the experiment, which can tolerate certain phase-mismatch between the interacting waves. Our results provide an efficient way to obtain multiple copies ofmore » the wavelength-converted OAM states, which can be used to enhance the capacity in optical communications.« less

ENSO-related Interannual Variability of Southern Hemisphere Atmospheric Circulation: Assessment and Projected Changes in CMIP5 Models

NASA Astrophysics Data System (ADS)

Frederiksen, Carsten; Grainger, Simon; Zheng, Xiaogu; Sisson, Janice

2013-04-01

ENSO variability is an important driver of the Southern Hemisphere (SH) atmospheric circulation. Understanding the observed and projected changes in ENSO variability is therefore important to understanding changes in Australian surface climate. Using a recently developed methodology (Zheng et al., 2009), the coherent patterns, or modes, of ENSO-related variability in the SH atmospheric circulation can be separated from modes that are related to intraseasonal variability or to changes in radiative forcings. Under this methodology, the seasonal mean SH 500 hPa geopotential height is considered to consist of three components. These are: (1) an intraseasonal component related to internal dynamics on intraseasonal time scales; (2) a slow-internal component related to internal dynamics on slowly varying (interannual or longer) time scales, including ENSO; and (3) a slow-external component related to external (i.e. radiative) forcings. Empirical Orthogonal Functions (EOFs) are used to represent the modes of variability of the interannual covariance of the three components. An assessment is first made of the modes in models from the Coupled Model Intercomparison Project Phase 5 (CMIP5) dataset for the SH summer and winter seasons in the 20th century. In reanalysis data, two EOFs of the slow component (which includes the slow-internal and slow-external components) have been found to be related to ENSO variability (Frederiksen and Zheng, 2007). In SH summer, the CMIP5 models reproduce the leading ENSO mode very well when the structures of the EOF and the associated SST, and associated variance are considered. There is substantial improvement in this mode when compared with the CMIP3 models shown in Grainger et al. (2012). However, the second ENSO mode in SH summer has a poorly reproduced EOF structure in the CMIP5 models, and the associated variance is generally underestimated. In SH winter, the performance of the CMIP5 models in reproducing the structure and variance is similar for both ENSO modes, with the associated variance being generally underestimated. Projected changes in the modes in the 21st century are then investigated using ensembles of CMIP5 models that reproduce well the 20th century slow modes. The slow-internal and slow-external components are examined separately, allowing the projected changes in the response to ENSO variability to be separated from the response to changes in greenhouse gas concentrations. By using several ensembles, the model-dependency of the projected changes in the ENSO-related slow-internal modes is examined. Frederiksen, C. S., and X. Zheng, 2007: Variability of seasonal-mean fields arising from intraseasonal variability. Part 3: Application to SH winter and summer circulations. Climate Dyn., 28, 849-866. Grainger, S., C. S. Frederiksen, and X. Zheng, 2012: Modes of interannual variability of Southern Hemisphere atmospheric circulation in CMIP3 models: Assessment and Projections. Climate Dyn., in press. Zheng, X., D. M. Straus, C. S. Frederiksen, and S. Grainger, 2009: Potentially predictable patterns of extratropical tropospheric circulation in an ensemble of climate simulations with the COLA AGCM. Quart. J. Roy. Meteor. Soc., 135, 1816-1829.

The impact of heat waves on children's health: a systematic review.

PubMed

Xu, Zhiwei; Sheffield, Perry E; Su, Hong; Wang, Xiaoyu; Bi, Yan; Tong, Shilu

2014-03-01

Young children are thought to be particularly sensitive to heat waves, but relatively less research attention has been paid to this field to date. A systematic review was conducted to elucidate the relationship between heat waves and children's health. Literature published up to August 2012 were identified using the following MeSH terms and keywords: "heatwave", "heat wave", "child health", "morbidity", "hospital admission", "emergency department visit", "family practice", "primary health care", "death" and "mortality". Of the 628 publications identified, 12 met the selection criteria. The existing literature does not consistently suggest that mortality among children increases significantly during heat waves, even though infants were associated with more heat-related deaths. Exposure to heat waves in the perinatal period may pose a threat to children's health. Pediatric diseases or conditions associated with heat waves include renal disease, respiratory disease, electrolyte imbalance and fever. Future research should focus on how to develop a consistent definition of a heat wave from a children's health perspective, identifying the best measure of children's exposure to heat waves, exploring sensitive outcome measures to quantify the impact of heat waves on children, evaluating the possible impacts of heat waves on children's birth outcomes, and understanding the differences in vulnerability to heat waves among children of different ages and from different income countries. Projection of the children's disease burden caused by heat waves under climate change scenarios, and development of effective heat wave mitigation and adaptation strategies that incorporate other child protective health measures, are also strongly recommended.

The impact of heat waves on children's health: a systematic review

NASA Astrophysics Data System (ADS)

Xu, Zhiwei; Sheffield, Perry E.; Su, Hong; Wang, Xiaoyu; Bi, Yan; Tong, Shilu

2014-03-01

Young children are thought to be particularly sensitive to heat waves, but relatively less research attention has been paid to this field to date. A systematic review was conducted to elucidate the relationship between heat waves and children's health. Literature published up to August 2012 were identified using the following MeSH terms and keywords: "heatwave", "heat wave", "child health", "morbidity", "hospital admission", "emergency department visit", "family practice", "primary health care", "death" and "mortality". Of the 628 publications identified, 12 met the selection criteria. The existing literature does not consistently suggest that mortality among children increases significantly during heat waves, even though infants were associated with more heat-related deaths. Exposure to heat waves in the perinatal period may pose a threat to children's health. Pediatric diseases or conditions associated with heat waves include renal disease, respiratory disease, electrolyte imbalance and fever. Future research should focus on how to develop a consistent definition of a heat wave from a children's health perspective, identifying the best measure of children's exposure to heat waves, exploring sensitive outcome measures to quantify the impact of heat waves on children, evaluating the possible impacts of heat waves on children's birth outcomes, and understanding the differences in vulnerability to heat waves among children of different ages and from different income countries. Projection of the children's disease burden caused by heat waves under climate change scenarios, and development of effective heat wave mitigation and adaptation strategies that incorporate other child protective health measures, are also strongly recommended.

Study of Rayleigh-Love coupling from Spatial Gradient Observation

NASA Astrophysics Data System (ADS)

Lin, C. J.; Hosseini, K.; Donner, S.; Vernon, F.; Wassermann, J. M.; Igel, H.

2017-12-01

We present a new method to study Rayleigh-Love coupling. Instead of using seismograms solely, where ground motion is recorded as function of time, we incorporate with rotation and strain, also called spatial gradient where ground is represented as function of distance. Seismic rotation and strain are intrinsic different observable wavefield so are helpful to indentify wave type and wave propagation. A Mw 7.5 earthquake on 29 March 2015 occurred in Kokopo, Papua New Guinea recorded by a dense seismic array at PFO, California are used to obtaint seismic spatial gradient. We firstly estimate time series of azimuthal direction and phase velocity of SH wave and Rayleigh wave by analyzing collocated seismograms and rotations. This result also compares with frequency wavenumber methods using a nearby ANZA seismic array. We find the direction of Rayleigh wave fits well with great-circle back azimuth during wave propagation, while the direction of Love wave deviates from that, especially when main energy of Rayleigh wave arrives. From the analysis of cross-correlation between areal strain and vertical rotation, it reveals that high coherence, either positive or negative, happens at the same time when Love wave deparate from great-circle path. We also find the observed azimuth of Love wave and polarized particle motion of Rayleigh wave fits well with the fast direction of Rayleigh wave, for the period of 50 secs. We conclude the cause of deviated azimuth of Love wave is due to Rayleigh-Love coupling, as surface wave propagates through the area with anisotropic structure.

Regulating Prostate Cancer Sensitivity to Chemotherapy through Translational Control of CCAAT Enhancer Binding Proteins

DTIC Science & Technology

2015-08-01

ratio in LNCaP and PC3 cells and suppression of CEBPB sensitized these cells to bortezomib in vitro. PC3 xenografts deficient in CEBPB showed...resistant growth of PCa tumors in a mouse xenograft model. shNTV or shCEBPB LNCaP cells were subcutaneously engrafted into male NSG mice and when tumors...was monitored weekly by caliper measurement for 8-weeks (Fig. 3B). We observed significant suppression of CRPC growth in xenografts expressing shC

Anomalies of Siberian High Intensity and Their Precursors in Climatic Models Output

NASA Astrophysics Data System (ADS)

Martynova, Yuliya; Krupchatnikov, Vladimir

2016-04-01

The Siberian High (SH) is a powerful pressure system that determines the weather regime during the wintertime for the huge part of Asia [Sazonov B.I., 1991]. Particularly, SH regulates an intensity and duration of frosts in Siberia. Moreover, this pressure system has a strong connection with another atmospheric centers of action of the Northern Hemisphere such as Arctic High, Icelandic Low, the Azores High [Morozova S.V., 2013]. SH variation is closely related to atmospheric dynamics processes and air temperature variations between surface and middle troposphere. The maintaining of SH mainly depends on downward through the troposphere airflow which variation is strongly affected by the Arctic oscillation (AO). Positive (negative) AO phase causes the remarkably weakening (strengthening) of the downward airflow that has strong effect on the SH behavior [Gong G. et al., 2002; Krupchatnikov V. N. et al., 2009; Martynova Yu.V. and V.N. Krupchatnikov, 2010]. SH is highly exposed to global climate change that increases standard deviation of SH intensity [Fei L.I. and G. A. O. Yong-Qi, 2015]. The changes of SH characteristics result from not only direct climate change effect (such as global temperature rise) but also feedback effect of another climate system parameters variation. Thus, these parameters can serve as precursors of the extremely SH intensity. It's important to remember that the changes of the just one component of this High-Low interaction system could affect whole system. This study is devoted to determination of the precursors of the anomaly SH behavior and estimation of changes of the determined connection in the climate change conditions. The research was provided on a base of climate system models and reanalysis data. Acknowledgements This work is partially supported by SB RAS project VIII.80.2.1, RFBR grants 14-05-00502, 16-35-00301, 16-05-00558. References Fei L.I. and G. A. O. Yong-Qi The Project Siberian High in CMIP5 Models // Atmospheric and Oceanic Science Letters. 2015. V. 8, No. 4, pp. 179-184. Gong, G., D. Entekhabi, and J. Cohen A large-ensemble model study of the wintertime AO-NAO and the role of interannual snow perturbations // J. Climate. 2002. V. 15, pp. 3488-3499. Krupchatnikov V. N. et al. Hydrology and Vegetation Dynamics of the Climate System of Northern Eurasia and the Arctic Basin // Izvestiya, Atmospheric and Oceanic Physics, 2009, Vol. 45, No. 1, pp. 116-136. Martynova Yu.V. and V.N. Krupchatnikov A Study of the Sensitivity of the Surface Temperature in Eurasia in Winter to Snow Cover Anomalies: The Role of the Stratosphere // Izvestiya, Atmospheric and Oceanic Physics, 2010, Vol. 46, No. 6, pp. 757-769. Morozova S.V. Comprehensive Analysis of the Centres of the Atmosphere Action of the Nortern Hemishere // Izv. Saratov Univ. (N.S.), Ser. Earth Sciences, 2013, vol. 13, iss. 1, P. 38-44 (in Russian). Sazonov B.I. Harsh winters and drought / B.I. Sazonov. - L.: Hydrometeoizdat, 1991. - 240 p. (in Russian).

Different regulation of aryl hydrocarbon receptor-regulated genes in response to dioxin in undifferentiated and neuronally differentiated human neuroblastoma SH-SY5Y cells.

PubMed

Imran, Saima; Ferretti, Patrizia; Vrzal, Radim

2015-01-01

Some environmental pollutants derived from industrial processes have been suggested to be responsible for neurological impairment in children, especially in heavily polluted areas. Since these compounds are usually activators of aryl hydrocarbon receptor (AhR), it would be important to better understand the molecular pathways downstream of AhR leading to neural deficits. To this purpose, appropriate in vitro human neural model is much needed. Here we have investigated whether undifferentiated and neuronally differentiated human neuroblastoma cells, SH-SY5Y cells, can provide a suitable model for monitoring AhR activity induced by environmental pollutants, focusing on 2,3,7,8-tetrachlordibenzo-p-dioxin (TCDD), a known activator of AhR. Further characterization of differentiated SH-SY5Y showed an increase in AhRR (aryl hydrocarbon receptor repressor), no change in ARNT1 (AhR nuclear translocator 1), and a decrease in ARNT2 expression with differentiation; in contrast, AhR was undetectable in both undifferentiated and differentiated cells. Nonetheless, treatment of parental as well as differentiated SH-SY5Y cells with TCDD resulted in the induction of AhR-regulated genes, CYP1A1 and CYP1B1; AhRR expression was also affected, but to a much smaller extent. These results indicate that undifferentiated SH-SY5Y are less sensitive to TCDD than neuronally differentiated ones, suggesting a higher resistance of the undifferentiated tumor cells to toxic insults. They also suggest that TCDD in these cells may not act via direct activation of AhR that is undetectable in SH-SY5Y as well as in differentiated neurons. Hence, these cells do not provide an appropriate model for studying ligand-mediated activation of AhR.

EWS Knockdown and Taxifolin Treatment Induced Differentiation and Removed DNA Methylation from p53 Promoter to Promote Expression of Puma and Noxa for Apoptosis in Ewing’s Sarcoma

PubMed Central

Hossain, Mohammad Motarab; Ray, Swapan Kumar

2016-01-01

Ewing’s sarcoma is a pediatric tumor that mainly occurs in soft tissues and bones. Malignant characteristics of Ewing’s sarcoma are correlated with expression of EWS oncogene. We achieved knockdown of EWS expression using a plasmid vector encoding EWS short hairpin RNA (shRNA) to increase anti-tumor mechanisms of taxifolin (TFL), a new flavonoid, in human Ewing’s sarcoma cells in culture and animal models. Immunofluorescence microscopy and flow cytometric analysis showed high expression of EWS in human Ewing’s sarcoma SK-N-MC and RD-ES cell lines. EWS shRNA plus TFL inhibited 80% cell viability and caused the highest decreases in EWS expression at mRNA and protein levels in both cell lines. Knockdown of EWS expression induced morphological features of differentiation. EWS shRNA plus TFL caused more alterations in molecular markers of differentiation than either agent alone. EWS shRNA plus TFL caused the highest decreases in cell migration with inhibition of survival, angiogenic and invasive factors. Knockdown of EWS expression was associated with removal of DNA methylation from p53 promoter, promoting expression of p53, Puma, and Noxa. EWS shRNA plus TFL induced the highest amounts of apoptosis with activation of extrinsic and intrinsic pathways in both cell lines in culture. EWS shRNA plus TFL also inhibited growth of Ewing’s sarcoma tumors in animal models due to inhibition of differentiation inhibitors and angiogenic and invasive factors and also induction of activation of caspase-3 for apoptosis. Collectively, knockdown of EWS expression increased various anti-tumor mechanisms of TFL in human Ewing’s sarcoma in cell culture and animal models. PMID:27547487

EWS Knockdown and Taxifolin Treatment Induced Differentiation and Removed DNA Methylation from p53 Promoter to Promote Expression of Puma and Noxa for Apoptosis in Ewing's Sarcoma.

PubMed

Hossain, Mohammad Motarab; Ray, Swapan Kumar

2014-10-01

Ewing's sarcoma is a pediatric tumor that mainly occurs in soft tissues and bones. Malignant characteristics of Ewing's sarcoma are correlated with expression of EWS oncogene. We achieved knockdown of EWS expression using a plasmid vector encoding EWS short hairpin RNA (shRNA) to increase anti-tumor mechanisms of taxifolin (TFL), a new flavonoid, in human Ewing's sarcoma cells in culture and animal models. Immunofluorescence microscopy and flow cytometric analysis showed high expression of EWS in human Ewing's sarcoma SK-N-MC and RD-ES cell lines. EWS shRNA plus TFL inhibited 80% cell viability and caused the highest decreases in EWS expression at mRNA and protein levels in both cell lines. Knockdown of EWS expression induced morphological features of differentiation. EWS shRNA plus TFL caused more alterations in molecular markers of differentiation than either agent alone. EWS shRNA plus TFL caused the highest decreases in cell migration with inhibition of survival, angiogenic and invasive factors. Knockdown of EWS expression was associated with removal of DNA methylation from p53 promoter, promoting expression of p53, Puma, and Noxa. EWS shRNA plus TFL induced the highest amounts of apoptosis with activation of extrinsic and intrinsic pathways in both cell lines in culture. EWS shRNA plus TFL also inhibited growth of Ewing's sarcoma tumors in animal models due to inhibition of differentiation inhibitors and angiogenic and invasive factors and also induction of activation of caspase-3 for apoptosis. Collectively, knockdown of EWS expression increased various anti-tumor mechanisms of TFL in human Ewing's sarcoma in cell culture and animal models.

Sequence harmony: detecting functional specificity from alignments

PubMed Central

Feenstra, K. Anton; Pirovano, Walter; Krab, Klaas; Heringa, Jaap

2007-01-01

Multiple sequence alignments are often used for the identification of key specificity-determining residues within protein families. We present a web server implementation of the Sequence Harmony (SH) method previously introduced. SH accurately detects subfamily specific positions from a multiple alignment by scoring compositional differences between subfamilies, without imposing conservation. The SH web server allows a quick selection of subtype specific sites from a multiple alignment given a subfamily grouping. In addition, it allows the predicted sites to be directly mapped onto a protein structure and displayed. We demonstrate the use of the SH server using the family of plant mitochondrial alternative oxidases (AOX). In addition, we illustrate the usefulness of combining sequence and structural information by showing that the predicted sites are clustered into a few distinct regions in an AOX homology model. The SH web server can be accessed at www.ibi.vu.nl/programs/seqharmwww. PMID:17584793

Development of the Semi-implicit Time Integration in KIM-SH

NASA Astrophysics Data System (ADS)

NAM, H.

2015-12-01

The Korea Institute of Atmospheric Prediction Systems (KIAPS) was founded in 2011 by the Korea Meteorological Administration (KMA) to develop Korea's own global Numerical Weather Prediction (NWP) system as nine year (2011-2019) project. The KIM-SH is a KIAPS integrated model-spectral element based in the HOMME. In KIM-SH, the explicit schemes are employed. We introduce the three- and two-time-level semi-implicit scheme in KIM-SH as the time integration. Explicit schemes however have a tendancy to be unstable and require very small timesteps while semi-implicit schemes are very stable and can have much larger timesteps.We define the linear and reference values, then by definition of semi-implicit scheme, we apply the linear solver as GMRES. The numerical results from experiments will be introduced with the current development status of the time integration in KIM-SH. Several numerical examples are shown to confirm the efficiency and reliability of the proposed schemes.

Optical Acquisition, Image and Data Compression

DTIC Science & Technology

1988-07-30

compairison with EO interferometric of spatially encoded masks, representing a set of dif- T h, in coario E rotic ferent period periodic clipping operations...symmetrically clip the filter, with the MF as its special case, it offers a peaks of a symmetric triangular wave. Signal Procesrn6 -60- T Kasparis, G...graphic exsampIle sh wing fhere .i ingle negative cylindrical lens together with two identical the- input and output reiiatiiin. Note that bith the input

Convergence and divergence in spherical harmonic series of the gravitational field generated by high-resolution planetary topography—A case study for the Moon

NASA Astrophysics Data System (ADS)

Hirt, Christian; Kuhn, Michael

2017-08-01

Theoretically, spherical harmonic (SH) series expansions of the external gravitational potential are guaranteed to converge outside the Brillouin sphere enclosing all field-generating masses. Inside that sphere, the series may be convergent or may be divergent. The series convergence behavior is a highly unstable quantity that is little studied for high-resolution mass distributions. Here we shed light on the behavior of SH series expansions of the gravitational potential of the Moon. We present a set of systematic numerical experiments where the gravity field generated by the topographic masses is forward-modeled in spherical harmonics and with numerical integration techniques at various heights and different levels of resolution, increasing from harmonic degree 90 to 2160 ( 61 to 2.5 km scales). The numerical integration is free from any divergence issues and therefore suitable to reliably assess convergence versus divergence of the SH series. Our experiments provide unprecedented detailed insights into the divergence issue. We show that the SH gravity field of degree-180 topography is convergent anywhere in free space. When the resolution of the topographic mass model is increased to degree 360, divergence starts to affect very high degree gravity signals over regions deep inside the Brillouin sphere. For degree 2160 topography/gravity models, severe divergence (with several 1000 mGal amplitudes) prohibits accurate gravity modeling over most of the topography. As a key result, we formulate a new hypothesis to predict divergence: if the potential degree variances show a minimum, then the SH series expansions diverge somewhere inside the Brillouin sphere and modeling of the internal potential becomes relevant.

Formulation of glutathione responsive anti-proliferative nanoparticles from thiolated Akt1 siRNA and disulfide-crosslinked PEI for efficient anti-cancer gene therapy.

PubMed

Muthiah, Muthunarayanan; Che, Hui-Lian; Kalash, Santhosh; Jo, Jihoon; Choi, Seok-Yong; Kim, Won Jong; Cho, Chong Su; Lee, Jae Young; Park, In-Kyu

2015-02-01

In this study, thiol-modified siRNA (SH-siRNA) was delivered by bioreducible polyethylenimine (ssPEI), to enhance physicochemical properties of polyplexes and function of siRNA through disulfide bonding between SH-siRNA and ssPEI. The ssPEI was utilized to deliver Akt1 SH-siRNA for suppression of Akt1 mRNA and blockage of Akt1 protein translation, resulting in reduced cellular proliferation and the induction of apoptosis. Disulfide bondings between the ssPEI and SH-siRNA through thiol groups in both were confirmed by DTT treatment. Complexation between ssPEI and Akt1SH-siRNA was enhanced and reduced surface charge of ssPEI/Akt1SH-siRNA complexes with smaller average particle sizes even at lower N/P ratios was obtained compared with PEI/Akt1siRNA ones. Cellular uptake of ssPEI/Akt1SH-siRNA complexes in CT-26 mouse colon cancer cells was also enhanced. The ssPEI/Akt1SH-siRNA complexes reduced proliferation and increased apoptosis of mouse colon cancer cells in vitro. In an in vivo mouse tumor model, the complexes reduced tumor proliferation and downregulation of Akt1 compared to controls. Copyright © 2014 Elsevier B.V. All rights reserved.

Oncogenic JAK2V617F requires an intact SH2-like domain for constitutive activation and induction of a myeloproliferative disease in mice.

PubMed

Gorantla, Sivahari P; Dechow, Tobias N; Grundler, Rebekka; Illert, Anna Lena; Zum Büschenfelde, Christian Meyer; Kremer, Marcus; Peschel, Christian; Duyster, Justus

2010-11-25

The oncogenic JAK2V617F mutation is found in myeloproliferative neoplasms (MPNs) and is believed to be critical for leukemogenesis. Here we show that JAK2V617F requires an intact SH2 domain for constitutive activation of downstream signaling pathways. In addition, there is a strict requirement of cytokine receptor expression for the activation of this oncogene. Further analysis showed that the SH2 domain mutation did not interfere with JAK2 membrane distribution. However, coimmunoprecipitated experiments revealed a role for the SH2 domain in the aggregation and cross-phosphorylation of JAK2V617F at the cell membrane. Forced overexpression of cytokine receptors could rescue the JAK2V617F SH2 mutant supporting a critical role of JAK2V617F abundance for constitutive activation. However, under physiologic cytokine receptor expression the SH2 domain is absolutely necessary for oncogenic JAK2V617F activation. This is demonstrated in a bone marrow transplantation model, in which an intact SH2 domain in JAK2V617F is required for the induction of an MPN-like disease. Thus, our results points to an indispensable role of the SH2 domain in JAK2V617F-induced MPNs.

Tumor Necrosis Factor-α Is Required for Mast Cell-Mediated Host Immunity Against Cutaneous Staphylococcus aureus Infection.

PubMed

Liu, Chao; Ouyang, Wei; Xia, Jingyan; Sun, Xiaoru; Zhao, Liying; Xu, Feng

2018-06-05

Mast cells (MCs) play a key role in immune process response to invading pathogens. This study assessed the involvement of MCs in controlling Staphylococcus aureus infection in a cutaneous infection model of MC-deficient (KitW-sh/W-sh) mice. KitW-sh/W-sh mice developed significantly larger skin lesions after the cutaneous S. aureus challenge, when compared to wild-type (WT) mice, while MC dysfunction reduced the inflammation response to S. aureus. The levels of tumor necrosis factor (TNF)-α in skin tissues were significantly decreased in KitW-sh/W-sh mice upon infection. Moreover, the exogenous administration of MCs or recombinant TNF-α effectively restored the immune response against S. aureus in KitW-sh/W-sh mice via the recruitment of neutrophils to the infected site. These results indicate that the effects of MC deficiency are largely attributed to the decrease in production of TNF-α in cutaneous S. aureus infection. In addition, S. aureus-induced MC activation was dependent on the c-kit receptor-activated phosphoinositide 3-kinase (PI3K)/AKT/P65-nuclear factor (NF-κB) pathway, which was confirmed by treatment with Masitinib (a c-kit receptor inhibitor), Wortmannin (a PI3K inhibitor), and pyrrolidine dithiocarbamate (a NF-κB inhibitor), respectively. The present study identifies the critical role of MCs in the host defense against S. aureus infection.

Seasonal effects of irrigation on land-atmosphere latent heat, sensible heat, and carbon fluxes in semiarid basin

NASA Astrophysics Data System (ADS)

Zeng, Yujin; Xie, Zhenghui; Liu, Shuang

2017-02-01

Irrigation, which constitutes ˜ 70 % of the total amount of freshwater consumed by the human population, is significantly impacting land-atmosphere fluxes. In this study, using the improved Community Land Model version 4.5 (CLM4.5) with an active crop model, two high-resolution (˜ 1 km) simulations investigating the effects of irrigation on latent heat (LH), sensible heat (SH), and carbon fluxes (or net ecosystem exchange, NEE) from land to atmosphere in the Heihe River basin in northwestern China were conducted using a high-quality irrigation dataset compiled from 1981 to 2013. The model output and measurements from remote sensing demonstrated the capacity of the developed models to reproduce ecological and hydrological processes. The results revealed that the effects of irrigation on LH and SH are strongest during summer, with a LH increase of ˜ 100 W m-2 and a SH decrease of ˜ 60 W m-2 over intensely irrigated areas. However, the reactions are much weaker during spring and autumn when there is much less irrigation. When the irrigation rate is below 5 mm day-1, the LH generally increases, whereas the SH decreases with growing irrigation rates. However, when the irrigation threshold is in excess of 5 mm day-1, there is no accrued effect of irrigation on the LH and SH. Irrigation produces opposite effects to the NEE during spring and summer. During the spring, irrigation yields more discharged carbon from the land to the atmosphere, increasing the NEE value by 0.4-0.8 gC m-2 day-1, while the summer irrigation favors crop fixing of carbon from atmospheric CO2, decreasing the NEE value by ˜ 0.8 gC m-2 day-1. The repercussions of irrigation on land-atmosphere fluxes are not solely linked to the irrigation amount, and other parameters (especially the temperature) also control the effects of irrigation on LH, SH, and NEE.

Salt geometry influence on present-day stress orientations in the Nile Delta: Insights from numerical modeling

NASA Astrophysics Data System (ADS)

Eckert, Andreas; Zhang, Weicheng

2016-02-01

The offshore Nile Delta displays sharply contrasting orientations of the maximum horizontal stress, SH, in regions above Messinian evaporites (suprasalt) and regions below Messinian evaporites (subsalt). Published stress orientation data predominantly show margin-normal suprasalt SH orientations but a margin-parallel subsalt SH orientation. While these data sets provide the first major evidence that evaporite sequences can act as mechanical detachment horizons, the cause for the stress orientation contrast remains unclear. In this study, 3D finite element analysis is used to investigate the causes for stress re-orientation based on two different hypotheses. The modeling study evaluates the influence of different likely salt geometries and whether stress reorientations are the result of basal drag forces induced by gravitational gliding or whether they represent localized variations due to mechanical property contrasts. The modeling results show that when salt is present as a continuous layer, gravitational gliding occurs and basal drag forces induced in the suprasalt layers result in the margin-normal principal stress becoming the maximum horizontal stress. With the margin-normal stress increase being confined to the suprasalt layers, the salt acts as a mechanical detachment horizon, resulting in different SH orientations in the suprasalt compared to the subsalt layers. When salt is present as isolated bodies localized stress variations occur due to the mechanical property contrasts imposed by the salt, also resulting in different SH orientations in the suprasalt compared to the subsalt layers. The modeling results provide additional quantitative evidence to confirm the role of evaporite sequences as mechanical detachment horizons.

Fundamental understanding of wave generation and reception using d(36) type piezoelectric transducers.

PubMed

Zhou, Wensong; Li, Hui; Yuan, Fuh-Gwo

2015-03-01

A new piezoelectric wafer made from a PMN-PT single crystal with dominant piezoelectric coefficient d36 is proposed to generate and detect guided waves on isotropic plates. The in-plane shear coupled with electric field arising from the piezoelectric coefficient is not usually present for conventional piezoelectric wafers, such as lead zirconate titanate (PZT). The direct piezoelectric effect of coefficient d36 indicates that under external in-plane shear stress the charge is induced on a face perpendicular to the poled z-direction. On thin plates, this type of piezoelectric wafer will generate shear horizontal (SH) waves in two orthogonal wave propagation directions as well as two Lamb wave modes in other wave propagation directions. Finite element analyses are employed to explore the wave disturbance in terms of time-varying displacements excited by the d36 wafer in different directions of wave propagation to understand all the guided wave modes accurately. Experiments are conducted to examine the voltage responses received by this type of wafer, and also investigate results of tuning frequency and effects of d31 piezoelectric coefficient, which is intentionally ignored in the finite element analysis. All results demonstrate the main features and utility of proposed d36 piezoelectric wafer for guided wave generation and detection in structural health monitoring. Copyright © 2014 Elsevier B.V. All rights reserved.

Archie's Saturation Exponent for Natural Gas Hydrate in Coarse-Grained Reservoirs

NASA Astrophysics Data System (ADS)

Cook, Ann E.; Waite, William F.

2018-03-01

Accurately quantifying the amount of naturally occurring gas hydrate in marine and permafrost environments is important for assessing its resource potential and understanding the role of gas hydrate in the global carbon cycle. Electrical resistivity well logs are often used to calculate gas hydrate saturations, Sh, using Archie's equation. Archie's equation, in turn, relies on an empirical saturation parameter, n. Though n = 1.9 has been measured for ice-bearing sands and is widely used within the hydrate community, it is highly questionable if this n value is appropriate for hydrate-bearing sands. In this work, we calibrate n for hydrate-bearing sands from the Canadian permafrost gas hydrate research well, Mallik 5L-38, by establishing an independent downhole Sh profile based on compressional-wave velocity log data. Using the independently determined Sh profile and colocated electrical resistivity and bulk density logs, Archie's saturation equation is solved for n, and uncertainty is tracked throughout the iterative process. In addition to the Mallik 5L-38 well, we also apply this method to two marine, coarse-grained reservoirs from the northern Gulf of Mexico Gas Hydrate Joint Industry Project: Walker Ridge 313-H and Green Canyon 955-H. All locations yield similar results, each suggesting n ≈ 2.5 ± 0.5. Thus, for the coarse-grained hydrate bearing (Sh > 0.4) of greatest interest as potential energy resources, we suggest that n = 2.5 ± 0.5 should be applied in Archie's equation for either marine or permafrost gas hydrate settings if independent estimates of n are not available.

Diagnostic Comparison of Meteorological Analyses during the 2002 Antarctic Winter

NASA Technical Reports Server (NTRS)

Manney, Gloria L.; Allen, Douglas R.; Kruger, Kirstin; Naujokat, Barbara; Santee, Michelle L.; Sabutis, Joseph L.; Pawson, Steven; Swinbank, Richard; Randall, Cora E.; Simmons, Adrian J.;

Source and path effects in the wave fields of tremor and explosions at Stromboli Volcano, Italy

USGS Publications Warehouse

Chouet, B.; Saccorotti, G.; Martini, M.; Dawson, P.; De Luca, G.; Milana, G.; Scarpa, R.

1997-01-01

The wave fields generated by Strombolian activity are investigated using data from small-aperture seismic arrays deployed on the north flank of Stromboli and data from seismic and pressure transducers set up near the summit crater. Measurements of slowness and azimuth as a function of time clearly indicate that the sources of tremor and explosions are located beneath the summit crater at depths shallower than 200 m with occasional bursts of energy originating from sources extending to a depth of 3 km. Slowness, azimuth, and particle motion measurements reveal a complex composition of body and surface waves associated with topography, structure, and source properties. Body waves originating at depths shallower than 200 m dominate the wave field at frequencies of 0.5-2.5 Hz, and surface waves generated by the surficial part of the source and by scattering sources distributed around the island dominate at frequencies above 2.5 Hz. The records of tremor and explosions are both dominated by SH motion. Far-field records from explosions start with radial motion, and near-field records from those events show dominantly horizontal motion and often start with a low-frequency (1-2 Hz) precursor characterized by elliptical particle motion, followed within a few seconds by a high-frequency radial phase (1-10 Hz) accompanying the eruption of pyroclastics. The dominant component of the near- and far-field particle motions from explosions, and the timing of air and body wave phases observed in the near field, are consistent with a gaspiston mechanism operating on a shallow (<200 m deep), vertical crack-like conduit. Models of a degassing fluid column suggest that noise emissions originating in the collective oscillations of bubbles ascending in the magma conduit may provide an adequate self-excitation mechanism for sustained tremor generation at Stromboli. Copyright 1997 by the American Geophysical Union.

On guided circumferential waves in soft electroactive tubes under radially inhomogeneous biasing fields

NASA Astrophysics Data System (ADS)

Wu, Bin; Su, Yipin; Chen, Weiqiu; Zhang, Chuanzeng

2017-02-01

Soft electroactive (EA) tube actuators and many other cylindrical devices have been proposed recently in literature, which show great advantages over those made from conventional hard solid materials. However, their practical applications may be limited because these soft EA devices are prone to various failure modes. In this paper, we present an analysis of the guided circumferential elastic waves in soft EA tube actuators, which has potential applications in the in-situ nondestructive evaluation (NDE) or online structural health monitoring (SHM) to detect structural defects or fatigue cracks in soft EA tube actuators and in the self-sensing of soft EA tube actuators based on the concept of guided circumferential elastic waves. Both circumferential SH and Lamb-type waves in an incompressible soft EA cylindrical tube under inhomogeneous biasing fields are considered. The biasing fields, induced by the application of an electric voltage difference to the electrodes on the inner and outer cylindrical surfaces of the EA tube in addition to an axial pre-stretch, are inhomogeneous in the radial direction. Dorfmann and Ogden's theory of nonlinear electroelasticity and the associated linear theory for small incremental motion constitute the basis of our analysis. By means of the state-space formalism for the incremental wave motion along with the approximate laminate technique, dispersion relations are derived in a particularly efficient way. For a neo-Hookean ideal dielectric model, the proposed approach is first validated numerically. Numerical examples are then given to show that the guided circumferential wave propagation characteristics are significantly affected by the inhomogeneous biasing fields and the geometrical parameters. Some particular phenomena such as the frequency veering and the nonlinear dependence of the phase velocity on the radial electric voltage are discussed. Our numerical findings demonstrate that it is feasible to use guided circumferential elastic waves for the ultrasonic non-destructive online SHM to detect interior structural defects or fatigue cracks and for the self-sensing of the actual state of the soft EA tube actuator.

Burden of illness attributable to subclinical hypothyroidism in the Spanish population.

PubMed

Donnay, S; Balsa, J A; Álvarez, Julia; Crespo, C; Pérez-Alcántara, F; Polanco, C

2013-11-01

Subclinical hypothyroidism (SH) has been associated recently to cardiovascular diseases. However, the loss of health it entails remains unknown. This study has assessed the burden of illness attributable to SH in Spain. Based on the Spanish prevalence data found in international studies, a theoretical model was developed to estimate the Disability Adjusted Life Years (DALYs), Years of Life Lost (YLL) and Years Lost due to Disability (YLD) associated with SH. Prevalence of risk factors, coronary mortality risk and coronary event risk associated with SH were obtained from a review of the literature. An analysis was conducted according to the World Health Organization methodology approach for these studies, using official Spanish sources (hospital discharge records, minimum basic data set [MBDS], inpatient mortality records, etc. In Spain, approximately 2,767,124 people have SH, specifically 1,949,820 with levels of TSH between 4.5 and 6.9mIU/l (70.5%), 538,988 with levels between 7 and 9.9mIU/l (19.5%), and 278,317 between 10 and 19.9mIU/l (10%). These subjects suffer approximately 12,608 cardiac events and 1,388 deaths a year attributed to their SH. This represents 30,550 DALYs (13,124 YLL and 17,426 YLD). Between 1.6 and 7.3% of cardiovascular DALYs can be attributed to SH. SH is a silent disease which considerably increases the burden of disease. Evaluation of SH, at least in patients belonging to risk groups, could be cost-effective. Copyright © 2013 Elsevier España, S.L. All rights reserved.

Surface hopping with a manifold of electronic states. II. Application to the many-body Anderson-Holstein model

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

Dou, Wenjie; Subotnik, Joseph E.; Nitzan, Abraham

We investigate a simple surface hopping (SH) approach for modeling a single impurity level coupled to a single phonon and an electronic (metal) bath (i.e., the Anderson-Holstein model). The phonon degree of freedom is treated classically with motion along–and hops between–diabatic potential energy surfaces. The hopping rate is determined by the dynamics of the electronic bath (which are treated implicitly). For the case of one electronic bath, in the limit of small coupling to the bath, SH recovers phonon relaxation to thermal equilibrium and yields the correct impurity electron population (as compared with numerical renormalization group). For the case ofmore » out of equilibrium dynamics, SH current-voltage (I-V) curve is compared with the quantum master equation (QME) over a range of parameters, spanning the quantum region to the classical region. In the limit of large temperature, SH and QME agree. Furthermore, we can show that, in the limit of low temperature, the QME agrees with real-time path integral calculations. As such, the simple procedure described here should be useful in many other contexts.« less

Using genome-wide measurements for computational prediction of SH2–peptide interactions

PubMed Central

Wunderlich, Zeba; Mirny, Leonid A.

2009-01-01

Peptide-recognition modules (PRMs) are used throughout biology to mediate protein–protein interactions, and many PRMs are members of large protein domain families. Recent genome-wide measurements describe networks of peptide–PRM interactions. In these networks, very similar PRMs recognize distinct sets of peptides, raising the question of how peptide-recognition specificity is achieved using similar protein domains. The analysis of individual protein complex structures often gives answers that are not easily applicable to other members of the same PRM family. Bioinformatics-based approaches, one the other hand, may be difficult to interpret physically. Here we integrate structural information with a large, quantitative data set of SH2 domain–peptide interactions to study the physical origin of domain–peptide specificity. We develop an energy model, inspired by protein folding, based on interactions between the amino-acid positions in the domain and peptide. We use this model to successfully predict which SH2 domains and peptides interact and uncover the positions in each that are important for specificity. The energy model is general enough that it can be applied to other members of the SH2 family or to new peptides, and the cross-validation results suggest that these energy calculations will be useful for predicting binding interactions. It can also be adapted to study other PRM families, predict optimal peptides for a given SH2 domain, or study other biological interactions, e.g. protein–DNA interactions. PMID:19502496

Adenoviral short hairpin RNA therapy targeting phosphodiesterase 5a relieves cardiac remodeling and dysfunction following myocardial infarction.

PubMed

Li, Longhu; Haider, Husnain Kh; Wang, Linlin; Lu, Gang; Ashraf, Muhammad

2012-05-15

We previously showed that treatment with tadalafil, a long-acting phosphodiesterase-5a (PDE5a) inhibitor, effectively prevented adverse left ventricular (LV) remodeling of the infarcted heart. We hypothesized that short-hairpin RNA (shRNA) therapy targeting PDE5a would simulate the effects of pharmacological intervention for treatment of postinfarction LV remodeling and dysfunction. Experimental model of myocardial infarction was developed in female mice by permanent ligation of left coronary artery. Immediately after that, an adenoviral vector encoding for shRNA sequence targeting PDE5a (Ad-shPDE5a) was injected intramyocardially, which specifically inhibited PDE5a in the heart. Four weeks later, Ad-shPDE5a treated mice showed significant mitigation of the left ventricle (LV) dilatation and dysfunction as indicated by smaller LV cavity and more preserved ejection fraction and fractional shortening. Infarction size and fibrosis were significantly reduced in Ad-shPDE5a-treated mice. Additionally, more salvaged cardiomyocytes, significantly reduced collagen contents, and higher blood vessel density were observed in Ad-shPDE5a-treated mice. The cytoprotective effects of Ad-shPDE5a were demonstrated in vitro in Ad-shPDE5a transfected cardiomyocytes cultured under oxygen glucose deprivation. Among downstream mediators of PDE5a signaling, cyclic GMP (cGMP) and cGMP-dependent protein kinase G (PKG) were activated with concomitant reduction in caspase-3 activity. However, no significant change in PKA and cAMP activities were observed in Ad-shPDE5a-treated hearts. Inhibition with shRNA improved cardiac remodeling and dysfunction by reducing infarction size and cardiac fibrosis and increased cGMP and PKG activity. These findings suggest that PDE5 inhibition with Ad-shPDE5a is a novel approach for treatment of myocardial infarction.

Adenoviral short hairpin RNA therapy targeting phosphodiesterase 5a relieves cardiac remodeling and dysfunction following myocardial infarction

PubMed Central

Li, Longhu; Haider, Husnain Kh.; Wang, Linlin; Lu, Gang

2012-01-01

We previously showed that treatment with tadalafil, a long-acting phosphodiesterase-5a (PDE5a) inhibitor, effectively prevented adverse left ventricular (LV) remodeling of the infarcted heart. We hypothesized that short-hairpin RNA (shRNA) therapy targeting PDE5a would simulate the effects of pharmacological intervention for treatment of postinfarction LV remodeling and dysfunction. Experimental model of myocardial infarction was developed in female mice by permanent ligation of left coronary artery. Immediately after that, an adenoviral vector encoding for shRNA sequence targeting PDE5a (Ad-shPDE5a) was injected intramyocardially, which specifically inhibited PDE5a in the heart. Four weeks later, Ad-shPDE5a treated mice showed significant mitigation of the left ventricle (LV) dilatation and dysfunction as indicated by smaller LV cavity and more preserved ejection fraction and fractional shortening. Infarction size and fibrosis were significantly reduced in Ad-shPDE5a-treated mice. Additionally, more salvaged cardiomyocytes, significantly reduced collagen contents, and higher blood vessel density were observed in Ad-shPDE5a-treated mice. The cytoprotective effects of Ad-shPDE5a were demonstrated in vitro in Ad-shPDE5a transfected cardiomyocytes cultured under oxygen glucose deprivation. Among downstream mediators of PDE5a signaling, cyclic GMP (cGMP) and cGMP-dependent protein kinase G (PKG) were activated with concomitant reduction in caspase-3 activity. However, no significant change in PKA and cAMP activities were observed in Ad-shPDE5a-treated hearts. Inhibition with shRNA improved cardiac remodeling and dysfunction by reducing infarction size and cardiac fibrosis and increased cGMP and PKG activity. These findings suggest that PDE5 inhibition with Ad-shPDE5a is a novel approach for treatment of myocardial infarction. PMID:22447941

Seasonal effects of irrigation on land-atmosphere latent heat, sensible heat and carbon fluxes in semi-arid basin

NASA Astrophysics Data System (ADS)

Xie, Zhenghui; Zeng, Yujin

2017-04-01

Irrigation, which constitutes 70% of the total amount of fresh water consumed by the human population, is significantly impacting the land-atmosphere fluxes. In this study, using the improved Community Land Model version 4.5 (CLM 4.5) with an active crop model, two high resolution ( 1 km) simulations investigating the effects of irrigation on Latent Heat (LH), Sensible Heat (SH) and Carbon Fluxes (or net ecosystem exchange, NEE) from land to atmosphere on the Heihe River Basin in northwestern China were conducted using a high-quality irrigation dataset compiled from 1981 to 2013. The model output and measurements from remote sensing demonstrated the capacity and viability of the developed models to reproduce ecological and hydrological processes. The results revealed the effects of irrigation on LH and SH are strongest during summer with a LH increase of 100 W/m2 and a SH decrease of 60 W/m2 over intensely irrigated areas. However, the reactions are much weaker during spring and autumn when there is much less irrigation. When the irrigation rate below 5 mm/day, the LH generally increases, whereas the SH decreases with growing irrigation rates. However, when the irrigation threshold is in excess of 5 mm/day, there is no accrued effect of irrigation on the LH and SH. Irrigation produces opposite effects to the NEE during spring and summer. During the spring, irrigation yields more discharged carbon from the land to the atmosphere, increasing the NEE value by 0.4-0.8 gC/m2/day, while the summer irrigation favors crop fixing of carbon from atmospheric CO2, decreasing the NEE value by 0.8 gC/m2/day. The repercussions of irrigation on land-atmosphere fluxes are not solely linked to the irrigation amount, and other parameters (especially the temperature) also control the effects of irrigation on LH, SH and NEE. The study indicates that how a land surface model with high spatial resolution can represent crop growing and its effects over basin scale.

Experimental and numerical investigation of tissue harmonic imaging (THI)

NASA Astrophysics Data System (ADS)

Jing, Yuan; Yang, Xinmai; Cleveland, Robin O.

2003-04-01

In THI the probing ultrasonic pulse has enough amplitude that it undergoes nonlinear distortion and energy shifts from the fundamental frequency of the pulse into its higher harmonics. Images generated from the second harmonic (SH) have superior quality to the images formed from the fundamental frequency. Experiments with a single element focused ultrasound transducer were used to compare a line target embedded in a tissue phantom using either fundamental or SH imaging. SH imaging showed an improvement in both the axial resolution (0.70 mm vs 0.92 mm) and the lateral resolution (1.02 mm vs 2.70 mm) of the target. In addition, the contrast-to-tissue ratio of the target was 2 dB higher with SH imaging. A three-dimensional model of the forward propagation has been developed to simulate the experimental system. The model is based on a time-domain code for solving the KZK equation and accounts for arbitrary spatial variations in all tissue properties. The code was used to determine the impact of a nearfield layer of fat on the fundamental and second harmonic signals. For a 15 mm thick layer the SH side-lobes remained the same but the fundamental side-lobes increased by 2 dB. [Work supported by the NSF through the Center for Subsurface Sensing and Imaging Systems.

Characterization of optical turbulence in a jet engine exhaust with Shack-Hartmenn wavefront sensor

NASA Astrophysics Data System (ADS)

Deron, R.; Mendez, F.

2008-10-01

Airborne laser countermeasure applications (DIRCM) are hampered by the turbulence of jet engine exhaust. The effects of this source of perturbation on optical propagation have still to be documented and analyzed in order to get a better insight into the different mechanisms of the plume perturbations and also to validate CFD/LES codes. For that purpose, wave front sensing has been used as a non-intrusive optical technique to provide unsteady and turbulent optical measurements through a plume of a jet engine installed at a fixed point on the ground. The experiment has been implemented in October 2007 along with other optical measuring techniques at Volvo Aero Corporation (Trollhättan, Sweden). This study is part of a European research programme dealing with DIRCM issues. The Shack- Hartmann (SH) wave front sensing technique was employed. It consisted of 64 x 64 lenslets coupled to a 1024x1024 pixel Dalsa CCD sensor working at a sampling rate of 40 Hz. A 15 ns pulsed laser synchronized with the SH sensor enabled "freezing" turbulence in each SH image. The ability of the technique to substract a reference permitted a simple calibration procedure to ensure accurate and reliable measurements despite vibration environment. Instantaneous phases are reconstructed using Fourier techniques so as to obtain a better spatial resolution against turbulent effects. Under any given plume condition, overall tilt aberration prevails. Phase power spectra derived from phase statistics are drawn according to the plume main axis and to normal axis. They compare favorably well to the decaying Kolmogorov power law on a useful high spatial frequency range. Averaged phases are also decomposed into Zernike polynomials to analyze optical mode behavior according to engine status and to plume abscissa. With overall tilt removed, turbulent DSP's amplitude drops by a factor of 30 to 40 and mean aberrations by a factor of 10 from an abscissa 1 meter to another 3.5 meters away from the engine nozzle, due to quite different turbulent conditions.

Stratospheric Impact of Varying Sea Surface Temperatures

NASA Technical Reports Server (NTRS)

Newman, Paul A.; Nash, Eric R.; Nielsen, Jon E.; Waugh, Darryn; Pawson, Steven

2004-01-01

The Finite-Volume General Circulation Model (FVGCM) has been run in 50 year simulations with the: 1) 1949-1999 Hadley Centre sea surface temperatures (SST), and 2) a fixed annual cycle of SSTs. In this presentation we first show that the 1949-1999 FVGCM simulation produces a very credible stratosphere in comparison to an NCEP/NCAR reanalysis climatology. In particular, the northern hemisphere has numerous major and minor stratospheric warming, while the southern hemisphere has only a few over the 50-year simulation. During the northern hemisphere winter, temperatures are both warmer in the lower stratosphere and the polar vortex is weaker than is found in the mid-winter southern hemisphere. Mean temperature differences in the lower stratosphere are shown to be small (less than 2 K), and planetary wave forcing is found to be very consistent with the climatology. We then will show the differences between our varying SST simulation and the fixed SST simulation in both the dynamics and in two parameterized trace gases (ozone and methane). In general, differences are found to be small, with subtle changes in planetary wave forcing that lead to reduced temperatures in the SH and increased temperatures in the NH.

Southern Hemisphere origins for interannual variations of Tibetan Plateau snow cover in boreal summer

NASA Astrophysics Data System (ADS)

Wu, Z.

2017-12-01

The climate response to the Tibetan Plateau (TP) snow cover (TPSC) has been receiving extensive concern. However, relatively few studies have devoted to revealing the potential factors that can contribute to the TPSC variability on the interannual time scale. Especially during the boreal summer, snow cover can persist over the TP at high elevations, which exerts profound influences on the local and remote climate change. The present study finds that May Southern Hemisphere (SH) annular mode (SAM), the dominating mode of atmospheric circulation variability in the SH extratropics, exhibits a significant positive relationship with the boreal summer TPSC interannual variability. Observational analysis and numerical experiments manifest that the signal of May SAM can be "prolonged" by a meridional Indian Ocean tripole (IOT) sea surface temperature anomaly (SSTA) via atmosphere-ocean interaction. The IOT SSTA pattern persists into the following summer and excites anomalous local-scale zonal vertical circulation. Subsequently, a positive (or negative) tropical dipole rainfall (TDR) mode is induced with deficient (or sufficient) precipitation in tropical western Indian Ocean and sufficient (or deficient) precipitation in eastern Indian Ocean-Maritime continent. Rossby wave source diagnosis reveals that the wave energies, generated by the latent heat release of the TDR mode, propagate northward into western TP. As a response, abnormal cyclonic circulation and upward movement are triggered and prevail over western TP, providing favorable dynamical conditions for more TPSC, and vice versa. Hence, the IOT SSTA plays an "ocean bridge" role and the TDR mode acts as an "atmosphere bridge" role in the process of May SAM impacting the following summer TPSC variability. The results of our work may provide new insight about the cross-equatorial propagation of the SAM influence. Keywords Southern Hemisphere annular mode; Tibetan Plateau snow cover; Rossby wave source

PDX-1 Is a Therapeutic Target for Pancreatic Cancer, Insulinoma and Islet Neoplasia Using a Novel RNA Interference Platform

PubMed Central

Liu, Shi-He; Rao, Donald D.; Nemunaitis, John; Senzer, Neil; Zhou, Guisheng; Dawson, David; Gingras, Marie-Claude; Wang, Zhaohui; Gibbs, Richard; Norman, Michael; Templeton, Nancy S.; DeMayo, Francesco J.; O'Malley, Bert; Sanchez, Robbi; Fisher, William E.; Brunicardi, F. Charles

2012-01-01

Pancreatic and duodenal homeobox-1 (PDX-1) is a transcription factor that regulates insulin expression and islet maintenance in the adult pancreas. Our recent studies demonstrate that PDX-1 is an oncogene for pancreatic cancer and is overexpressed in pancreatic cancer. The purpose of this study was to demonstrate that PDX-1 is a therapeutic target for both hormonal symptoms and tumor volume in mouse models of pancreatic cancer, insulinoma and islet neoplasia. Immunohistochemistry of human pancreatic and islet neoplasia specimens revealed marked PDX-1 overexpression, suggesting PDX-1 as a “drugable” target within these diseases. To do so, a novel RNA interference effector platform, bifunctional shRNAPDX-1, was developed and studied in mouse and human cell lines as well as in mouse models of pancreatic cancer, insulinoma and islet neoplasia. Systemic delivery of bi-shRNAhumanPDX-1 lipoplexes resulted in marked reduction of tumor volume and improved survival in a human pancreatic cancer xenograft mouse model. bi-shRNAmousePDX-1 lipoplexes prevented death from hyperinsulinemia and hypoglycemia in an insulinoma mouse model. shRNAmousePDX-1 lipoplexes reversed hyperinsulinemia and hypoglycemia in an immune-competent mouse model of islet neoplasia. PDX-1 was overexpressed in pancreatic neuroendocrine tumors and nesidioblastosis. These data demonstrate that PDX-1 RNAi therapy controls hormonal symptoms and tumor volume in mouse models of pancreatic cancer, insulinoma and islet neoplasia, therefore, PDX-1 is a potential therapeutic target for these pancreatic diseases. PMID:22905092

Stapled haemorrhoidectomy (haemorrhoidopexy) for the treatment of haemorrhoids: a systematic review and economic evaluation.

PubMed

Burch, J; Epstein, D; Baba-Akbari, A; Weatherly, H; Fox, D; Golder, S; Jayne, D; Drummond, M; Woolacott, N

2008-04-01

To determine the safety, clinical effectiveness and cost-effectiveness of circular stapled haemorrhoidopexy (SH) for the treatment of haemorrhoids. Main electronic databases were searched up to July 2006. Randomised controlled trials (RCTs) with 20 or more participants that compared SH with any conventional haemorrhoidectomy (CH) technique in people of any age with prolapsing haemorrhoids for whom surgery is considered a relevant option, were used to evaluate clinical effectiveness. An economic model of the surgical treatment of haemorrhoids was developed. The clinical effectiveness review included 27 RCTs (n = 2279; 1137 SH; 1142 CH). All had some methodological flaws; only two reported recruiting patients with second, third and fourth degree haemorrhoids, and 37% reported using an appropriate method of randomisation and/or allocation concealment. In the early postoperative period 95% of trials reported less pain following SH; by day 21 the pain reported following SH and CH was minimal, with little difference between the two techniques. Significantly fewer patients had unhealed wounds at 6 weeks following SH [odds ratio (OR) 0.08, 95% confidence interval (CI) 0.03 to 0.19, p < 0.001]. Residual prolapse was more common after SH (OR 3.38, 95% CI 1.00 to 11.47, p = 0.05, nine RCTs, results of a sensitivity analysis). There was no difference between SH and CH in the incidence of bleeding or postoperative complications. SH resulted in shorter operating times, hospital stay, time to first bowel movement and return to normal activity. In the short term (between 6 weeks and a year) prolapse was more common after SH (OR 4.68, 95% CI 1.11 to 19.71, p = 0.04, six RCTs). There was no difference in the number of patients complaining of pain between SH and CH. In the long term (1 year and over), there was a significantly higher rate of prolapse after SH (OR 4.34, 95% CI 1.67 to 11.28, p = 0.003, 12 RCTs). There was no difference in the number of patients experiencing pain, or the incidence of bleeding, between SH and CH. There was no difference in the total number of reinterventions, or reinterventions for pain, bleeding or complications, between SH and CH. Significantly more reinterventions were undertaken after SH for prolapse at 12 months or longer (OR 6.78, 95% CI 2.00 to 23.00, p = 0.002, six RCTs). Overall, there was no statistically significant difference in the rate of complications between SH and CH. In the economic assessment it was found that, on average, CH dominated SH. However, CH and SH had very similar costs and quality-adjusted life-years (QALYs). On average, the difference in costs between the procedures was 19 pounds and the difference in QALY was -0.001, favouring CH, over 3 years. In terms of QALYs, the superior quality of life due to lower pain levels in the early postoperative period with SH was offset by the higher rate of symptoms over the follow-up period, compared with CH. The results are very sensitive to modelling assumptions, particularly the valuation of utility in the early postoperative period. The probabilistic sensitivity analysis showed that, at a threshold incremental cost-effectiveness ratio of 20,000-30,000 pounds per QALY, SH had a 45% probability of being cost-effective. SH was associated with less pain in the immediate postoperative period, but a higher rate of residual prolapse, prolapse in the longer term and reintervention for prolapse. There was no clear difference in the rate or type of complications associated with the two techniques and the absolute and relative rates of recurrence and reintervention for both are still uncertain. CH and SH had very similar costs and QALYs, the cost of the staple gun being offset by savings in hospital stay. Should the price of the gun change, the conclusions of the economic analysis may also change. Some training may be required in the use of the staple gun; this is not expected to have major resource implications. Given the currently available clinical evidence and the results of the economic analysis, the decision as to whether SH or CH is conducted could primarily be based on the priorities and preferences of the patient and surgeon. An adequately powered, good-quality RCT is required, comparing SH with CH, recruiting patients with second, third and fourth degree haemorrhoids, and having a minimum follow-up period of 5 years to ensure an adequate evaluation of the reintervention rate. Other areas for research are the effectiveness of SH in patients with fourth degree haemorrhoids and patients with co-morbid conditions, the reintervention rates for all treatments for haemorrhoids, utilities of patients up to 6 months postoperatively, the trade-offs of patients for short-term pain versus long-term outcomes, and the ability of SH to reduce hospital stays in a real practice setting.

Fast electron transfer through a single molecule natively structured redox protein

NASA Astrophysics Data System (ADS)

Della Pia, Eduardo Antonio; Chi, Qijin; MacDonald, J. Emyr; Ulstrup, Jens; Jones, D. Dafydd; Elliott, Martin

2012-10-01

The electron transfer properties of proteins are normally measured as molecularly averaged ensembles. Through these and related measurements, proteins are widely regarded as macroscopically insulating materials. Using scanning tunnelling microscopy (STM), we present new measurements of the conductance through single-molecules of the electron transfer protein cytochrome b562 in its native conformation, under pseudo-physiological conditions. This is achieved by thiol (SH) linker pairs at opposite ends of the molecule through protein engineering, resulting in defined covalent contact between a gold surface and a platinum-iridium STM tip. Two different orientations of the linkers were examined: a long-axis configuration (SH-LA) and a short-axis configuration (SH-SA). In each case, the molecular conductance could be `gated' through electrochemical control of the heme redox state. Reproducible and remarkably high conductance was observed in this relatively complex electron transfer system, with single-molecule conductance values peaking around 18 nS and 12 nS for the SH-SA and SH-LA cytochrome b562 molecules near zero electrochemical overpotential. This strongly points to the important role of the heme co-factor bound to the natively structured protein. We suggest that the two-step model of protein electron transfer in the STM geometry requires a multi-electron transfer to explain such a high conductance. The model also yields a low value for the reorganisation energy, implying that solvent reorganisation is largely absent.The electron transfer properties of proteins are normally measured as molecularly averaged ensembles. Through these and related measurements, proteins are widely regarded as macroscopically insulating materials. Using scanning tunnelling microscopy (STM), we present new measurements of the conductance through single-molecules of the electron transfer protein cytochrome b562 in its native conformation, under pseudo-physiological conditions. This is achieved by thiol (SH) linker pairs at opposite ends of the molecule through protein engineering, resulting in defined covalent contact between a gold surface and a platinum-iridium STM tip. Two different orientations of the linkers were examined: a long-axis configuration (SH-LA) and a short-axis configuration (SH-SA). In each case, the molecular conductance could be `gated' through electrochemical control of the heme redox state. Reproducible and remarkably high conductance was observed in this relatively complex electron transfer system, with single-molecule conductance values peaking around 18 nS and 12 nS for the SH-SA and SH-LA cytochrome b562 molecules near zero electrochemical overpotential. This strongly points to the important role of the heme co-factor bound to the natively structured protein. We suggest that the two-step model of protein electron transfer in the STM geometry requires a multi-electron transfer to explain such a high conductance. The model also yields a low value for the reorganisation energy, implying that solvent reorganisation is largely absent. Electronic supplementary information (ESI) available: Experimental methods, DNA and protein sequences, additional STM statistical analysis and images, electrochemical data and It-z data analysis. See DOI: 10.1039/c2nr32131a

Hydro-bio-geomechanical properties of hydrate-bearing sediments from Nankai Trough

USGS Publications Warehouse

Santamarina, J.C.; Dai, Shifeng; Terzariol, M.; Jang, Jeonghwan; Waite, William F.; Winters, William J.; Nagao, J.; Yoneda, J.; Konno, Y.; Fujii, T.; Suzuki, K.

2015-01-01

Natural hydrate-bearing sediments from the Nankai Trough, offshore Japan, were studied using the Pressure Core Characterization Tools (PCCTs) to obtain geomechanical, hydrological, electrical, and biological properties under in situ pressure, temperature, and restored effective stress conditions. Measurement results, combined with index-property data and analytical physics-based models, provide unique insight into hydrate-bearing sediments in situ. Tested cores contain some silty-sands, but are predominantly sandy- and clayey-silts. Hydrate saturations Sh range from 0.15 to 0.74, with significant concentrations in the silty-sands. Wave velocity and flexible-wall permeameter measurements on never-depressurized pressure-core sediments suggest hydrates in the coarser-grained zones, the silty-sands where Sh exceeds 0.4, contribute to soil-skeletal stability and are load-bearing. In the sandy- and clayey-silts, where Sh < 0.4, the state of effective stress and stress history are significant factors determining sediment stiffness. Controlled depressurization tests show that hydrate dissociation occurs too quickly to maintain thermodynamic equilibrium, and pressure–temperature conditions track the hydrate stability boundary in pure-water, rather than that in seawater, in spite of both the in situ pore water and the water used to maintain specimen pore pressure prior to dissociation being saline. Hydrate dissociation accompanied with fines migration caused up to 2.4% vertical strain contraction. The first-ever direct shear measurements on never-depressurized pressure-core specimens show hydrate-bearing sediments have higher sediment strength and peak friction angle than post-dissociation sediments, but the residual friction angle remains the same in both cases. Permeability measurements made before and after hydrate dissociation demonstrate that water permeability increases after dissociation, but the gain is limited by the transition from hydrate saturation before dissociation to gas saturation after dissociation. In a proof-of-concept study, sediment microbial communities were successfully extracted and stored under high-pressure, anoxic conditions. Depressurized samples of these extractions were incubated in air, where microbes exhibited temperature-dependent growth rates.

A joint latent class model for classifying severely hemorrhaging trauma patients.

PubMed

Rahbar, Mohammad H; Ning, Jing; Choi, Sangbum; Piao, Jin; Hong, Chuan; Huang, Hanwen; Del Junco, Deborah J; Fox, Erin E; Rahbar, Elaheh; Holcomb, John B

2015-10-24

In trauma research, "massive transfusion" (MT), historically defined as receiving ≥10 units of red blood cells (RBCs) within 24 h of admission, has been routinely used as a "gold standard" for quantifying bleeding severity. Due to early in-hospital mortality, however, MT is subject to survivor bias and thus a poorly defined criterion to classify bleeding trauma patients. Using the data from a retrospective trauma transfusion study, we applied a latent-class (LC) mixture model to identify severely hemorrhaging (SH) patients. Based on the joint distribution of cumulative units of RBCs and binary survival outcome at 24 h of admission, we applied an expectation-maximization (EM) algorithm to obtain model parameters. Estimated posterior probabilities were used for patients' classification and compared with the MT rule. To evaluate predictive performance of the LC-based classification, we examined the role of six clinical variables as predictors using two separate logistic regression models. Out of 471 trauma patients, 211 (45 %) were MT, while our latent SH classifier identified only 127 (27 %) of patients as SH. The agreement between the two classification methods was 73 %. A non-ignorable portion of patients (17 out of 68, 25 %) who died within 24 h were not classified as MT but the SH group included 62 patients (91 %) who died during the same period. Our comparison of the predictive models based on MT and SH revealed significant differences between the coefficients of potential predictors of patients who may be in need of activation of the massive transfusion protocol. The traditional MT classification does not adequately reflect transfusion practices and outcomes during the trauma reception and initial resuscitation phase. Although we have demonstrated that joint latent class modeling could be used to correct for potential bias caused by misclassification of severely bleeding patients, improvement in this approach could be made in the presence of time to event data from prospective studies.

A new method to effectively and rapidly generate neurons from SH-SY5Y cells.

PubMed

Yang, HongNa; Wang, Jing; Sun, JinHua; Liu, XiaoDun; Duan, Wei-Ming; Qu, TingYu

2016-01-01

It is well known that neurons differentiated from SH-SY5Y cells can serve as cell models for neuroscience research; i.e., neurotoxicity and tolerance to morphine in vitro. To differentiate SH-SY5Y cells into neurons, RA (retinoic acid) is commonly used to produce the inductive effect. However, the percentage of neuronal cells produced from SH-SY5Y cells is low, either from the use of RA treatment alone or from the combined application of RA and other chemicals. In the current study, we used CM-hNSCs (conditioned medium of human neural stem cells) as the combinational inducer with RA to prompt neuronal differentiation of SH-SY5Y cells. We found that neuronal differentiation was improved and that neurons were greatly increased in the differentiated SH-SY5Y cells using a combined treatment of CM-hNSCs and RA compared to RA treatment alone. The neuronal percentage was higher than 80% (about 88%) on the 3rd day and about 91% on the 7th day examined after a combined treatment with CM-hNSCs and RA. Cell maturation and neurite growth of these neuronal cells were also improved. In addition, the use of CM-hNSCs inhibited the apoptosis of RA-treated SH-SY5Y cells in culture. We are the first to report the use of CM-hNSCs in combination with RA to induce neuronal differentiation of RA-treated SH-SY5Y cells. Our method can rapidly and effectively promote the neuronal production of SH-SY5Y cells in culture conditions. Copyright © 2015 Elsevier Ireland Ltd. All rights reserved.

Structure-based design of competitive ligands to target Spon2 in gastric cancer: An integration of molecular modeling and in vitro assay.

PubMed

Xu, Zhenglei; Yu, Zhichao; Nai, Shumei; Shi, Ruiyue; Tang, Qinhong; Zhang, Haiyang; Ye, Lijuan; Wang, Lisheng; Hong, Yincai

2017-10-01

Spon2 is a proto-oncogene matrix protein that plays an essential role in the tumorigenesis and metastasis of gastric cancer. The protein has recently been found to function as a guanine nucleotide exchange factor through the activation of RhoGTPase. Here, computational modeling and bioinformatics analysis were employed to investigate the molecular mechanism and biological implication underlying Spon2 autoinhibition. It is revealed that the binding of PxxP motif to SH domain can stabilize the intramolecular interaction between the N-terminal helix and DH domain of Spon2, thus shifting the protein into an autoinhibitory state. Here, we proposed releasing Spon2 autoinhibition by targeting SH domain with competitive peptide ligands. To verify this notion, the PxxP sequence was adopted as the start to derive an array of efficient SH binders by using a structure-based rational design strategy, which were then substantiated with fluorescence spectroscopy analysis and guanine nucleotide exchange test. Consequently, the obtained peptide ligands were determined to have a moderate or high affinity for SH domain; they can also enhance Spon2 exchange activity by 1.2-6.1 folds, exhibiting a significant correlation with their SH-binding affinity (Pearson's coefficient=0.92). In addition, neutral substitution of conserved residues in a high-affinity peptide ligand can largely reduce its Spon2-activating potency, confirming that the designed peptide activates Spon2 by competitively disrupting SH-PxxP interaction. Copyright © 2017 Elsevier Inc. All rights reserved.

Exploring molecular complexity with ALMA (EMoCA): Alkanethiols and alkanols in Sagittarius B2(N2)

NASA Astrophysics Data System (ADS)

Müller, Holger S. P.; Belloche, Arnaud; Xu, Li-Hong; Lees, Ronald M.; Garrod, Robin T.; Walters, Adam; van Wijngaarden, Jennifer; Lewen, Frank; Schlemmer, Stephan; Menten, Karl M.

2016-03-01

Context. Over the past five decades, radio astronomy has shown that molecular complexity is a natural outcome of interstellar chemistry, in particular in star forming regions. However, the pathways that lead to the formation of complex molecules are not completely understood and the depth of chemical complexity has not been entirely revealed. In addition, the sulfur chemistry in the dense interstellar medium is not well understood. Aims: We want to know the relative abundances of alkanethiols and alkanols in the Galactic center source Sagittarius B2(N2), the northern hot molecular core in Sgr B2(N), whose relatively small line widths are favorable for studying the molecular complexity in space. Methods: We investigated spectroscopic parameter sets that were able to reproduce published laboratory rotational spectra of ethanethiol and studied effects that modify intensities in the predicted rotational spectrum of ethanol. We used the Atacama Large Millimeter Array (ALMA) in its Cycles 0 and 1 for a spectral line survey of Sagittarius B2(N) between 84 and 114.4 GHz. These data were analyzed by assuming local thermodynamic equilibrium (LTE) for each molecule. Our observations are supplemented by astrochemical modeling; a new network is used that includes reaction pathways for alkanethiols for the first time. Results: We detected methanol and ethanol in their parent 12C species and their isotopologs with one 12C atom substituted by 13C; the latter were detected for the first time unambiguously in the case of ethanol. The 12C/13C ratio is ~25 for both molecules. In addition, we identified CH318 OH with a 16O/18O ratio of ~180 and a 13CH3OH/CH318 OH ratio of ~7.3. Upper limits were derived for the next larger alkanols normal- and iso-propanol. We observed methanethiol, CH3SH, also known as methyl mercaptan, including torsionally excited transitions for the first time. We also identified transitions of ethanethiol (or ethyl mercaptan), though not enough to claim a secure detection in this source. The ratios CH3SH to C2H5SH and C2H5OH to C2H5SH are ≳21 and ≳125, respectively. In the process of our study, we noted severe discrepancies in the intensities of observed and predicted ethanol transitions and propose a change in the relative signs of the dipole moment components. In addition, we determined alternative sets of spectroscopic parameters for ethanethiol. The astrochemical models indicate that substantial quantities of both CH3SH and C2H5SH may be produced on the surfaces of dust grains, to be later released into the gas phase. The modeled ratio CH3SH/C2H5SH = 3.1 is lower than the observed value of ≳21; the model value appears to be affected most by the underprediction of CH3SH relative to CH3OH and C2H5OH, as judged by a very high CH3OH/CH3SH ratio. Conclusions: The column density ratios involving methanol, ethanol, and methanethiol in Sgr B2(N2) are similar to values reported for Orion KL, but those involving ethanethiol are significantly different and suggest that the detection of ethanethiol reported toward Orion KL is uncertain. Our chemical model presently does not permit the prediction of sufficiently accurate column densities of alkanethiols or their ratios among alkanethiols and alkanols. Therefore, additional observational results are required to establish the level of C2H5SH in the dense and warm interstellar medium with certainty.

Helicopter noise measurements data report. volume II. helicopter models: Bell 212 (UH-1N), Sikorsky S-61 (SH-3A), Sikorsky S-64 'Skycrane' (CH- 54B), Boeing Vertol 'Chinook' (CH-47C)

DOT National Transportation Integrated Search

1977-04-01

The helicopter models used in this test program were the Hughes 300C, Hughes 500C, Bell 47-G, Bell 206-L, Bell 212 (UH-1N), Sikorsky S-61 (SH-3A), Sikorsky S-64 'Skycrane' (CH-54B), and Boeing Vertol 'Chinook' CH-47C. Volume I contains the measured n...

Surface and downhole shear wave seismic methods for thick soil site investigations

USGS Publications Warehouse

Hunter, J.A.; Benjumea, B.; Harris, J.B.; Miller, R.D.; Pullan, S.E.; Burns, R.A.; Good, R.L.

2002-01-01

Shear wave velocity-depth information is required for predicting the ground motion response to earthquakes in areas where significant soil cover exists over firm bedrock. Rather than estimating this critical parameter, it can be reliably measured using a suite of surface (non-invasive) and downhole (invasive) seismic methods. Shear wave velocities from surface measurements can be obtained using SH refraction techniques. Array lengths as large as 1000 m and depth of penetration to 250 m have been achieved in some areas. High resolution shear wave reflection techniques utilizing the common midpoint method can delineate the overburden-bedrock surface as well as reflecting boundaries within the overburden. Reflection data can also be used to obtain direct estimates of fundamental site periods from shear wave reflections without the requirement of measuring average shear wave velocity and total thickness of unconsolidated overburden above the bedrock surface. Accurate measurements of vertical shear wave velocities can be obtained using a seismic cone penetrometer in soft sediments, or with a well-locked geophone array in a borehole. Examples from thick soil sites in Canada demonstrate the type of shear wave velocity information that can be obtained with these geophysical techniques, and show how these data can be used to provide a first look at predicted ground motion response for thick soil sites. ?? 2002 Published by Elsevier Science Ltd.

High resolution crystal structure of the Grb2 SH2 domain with a phosphopeptide derived from CD28.

PubMed

Higo, Kunitake; Ikura, Teikichi; Oda, Masayuki; Morii, Hisayuki; Takahashi, Jun; Abe, Ryo; Ito, Nobutoshi

2013-01-01

Src homology 2 (SH2) domains play a critical role in cellular signal transduction. They bind to peptides containing phosphotyrosine (pY) with various specificities that depend on the flanking amino-acid residues. The SH2 domain of growth-factor receptor-bound protein 2 (Grb2) specifically recognizes pY-X-N-X, whereas the SH2 domains in phosphatidylinositol 3-kinase (PI3K) recognize pY-X-X-M. Binding of the pY site in CD28 (pY-M-N-M) by PI3K and Grb2 through their SH2 domains is a key step that triggers the CD28 signal transduction for T cell activation and differentiation. In this study, we determined the crystal structure of the Grb2 SH2 domain in complex with a pY-containing peptide derived from CD28 at 1.35 Å resolution. The peptide was found to adopt a twisted U-type conformation, similar to, but distinct from type-I β-turn. In all previously reported crystal structures, the peptide bound to the Grb2 SH2 domains adopts a type-I β-turn conformation, except those with a proline residue at the pY+3 position. Molecular modeling also suggests that the same peptide bound to PI3K might adopt a very different conformation.

Characterizing haploinsufficiency of SHELL gene to improve fruit form prediction in introgressive hybrids of oil palm.

PubMed

Teh, Chee-Keng; Muaz, Siti Dalila; Tangaya, Praveena; Fong, Po-Yee; Ong, Ai-Ling; Mayes, Sean; Chew, Fook-Tim; Kulaveerasingam, Harikrishna; Appleton, David

2017-06-08

The fundamental trait in selective breeding of oil palm (Eleais guineensis Jacq.) is the shell thickness surrounding the kernel. The monogenic shell thickness is inversely correlated to mesocarp thickness, where the crude palm oil accumulates. Commercial thin-shelled tenera derived from thick-shelled dura × shell-less pisifera generally contain 30% higher oil per bunch. Two mutations, sh MPOB (M1) and sh AVROS (M2) in the SHELL gene - a type II MADS-box transcription factor mainly present in AVROS and Nigerian origins, were reported to be responsible for different fruit forms. In this study, we have tested 1,339 samples maintained in Sime Darby Plantation using both mutations. Five genotype-phenotype discrepancies and eight controls were then re-tested with all five reported mutations (sh AVROS , sh MPOB , sh MPOB2 , sh MPOB3 and sh MPOB4 ) within the same gene. The integration of genotypic data, pedigree records and shell formation model further explained the haploinsufficiency effect on the SHELL gene with different number of functional copies. Some rare mutations were also identified, suggesting a need to further confirm the existence of cis-compound mutations in the gene. With this, the prediction accuracy of fruit forms can be further improved, especially in introgressive hybrids of oil palm. Understanding causative variant segregation is extremely important, even for monogenic traits such as shell thickness in oil palm.

Cherubism Mice Also Deficient in c-Fos Exhibit Inflammatory Bone Destruction Executed by Macrophages That Express MMP14 Despite the Absence of TRAP+ Osteoclasts.

PubMed

Kittaka, Mizuho; Mayahara, Kotoe; Mukai, Tomoyuki; Yoshimoto, Tetsuya; Yoshitaka, Teruhito; Gorski, Jeffrey P; Ueki, Yasuyoshi

2018-01-01

Currently, it is believed that osteoclasts positive for tartrate-resistant acid phosphatase (TRAP+) are the exclusive bone-resorbing cells responsible for focal bone destruction in inflammatory arthritis. Recently, a mouse model of cherubism (Sh3bp2 KI/KI ) with a homozygous gain-of-function mutation in the SH3-domain binding protein 2 (SH3BP2) was shown to develop auto-inflammatory joint destruction. Here, we demonstrate that Sh3bp2 KI/KI mice also deficient in the FBJ osteosarcoma oncogene (c-Fos) still exhibit noticeable bone erosion at the distal tibia even in the absence of osteoclasts at 12 weeks old. Levels of serum collagen I C-terminal telopeptide (ICTP), a marker of bone resorption generated by matrix metalloproteinases (MMPs), were elevated, whereas levels of serum cross-linked C-telopeptide (CTX), another resorption marker produced by cathepsin K, were not increased. Collagenolytic MMP levels were increased in the inflamed joints of the Sh3bp2 KI/KI mice deficient in c-Fos. Resorption pits contained a large number of F4/80+ macrophages and genetic depletion of macrophages rescued these erosive changes. Importantly, administration of NSC405020, an MMP14 inhibitor targeted to the hemopexin (PEX) domain, suppressed bone erosion in c-Fos-deficient Sh3bp2 KI/KI mice. After activation of the NF-κB pathway, macrophage colony-stimulating factor (M-CSF)-dependent macrophages from c-Fos-deficient Sh3bp2 KI/KI mice expressed increased amounts of MMP14 compared with wild-type macrophages. Interestingly, receptor activator of NF-κB ligand (RANKL)-deficient Sh3bp2 KI/KI mice failed to show notable bone erosion, whereas c-Fos deletion did restore bone erosion to the RANKL-deficient Sh3bp2 KI/KI mice, suggesting that osteolytic transformation of macrophages requires both loss-of-function of c-Fos and gain-of-function of SH3BP2 in this model. These data provide the first genetic evidence that cells other than osteoclasts can cause focal bone destruction in inflammatory bone disease and suggest that MMP14 is a key mediator conferring pathological bone-resorbing capacity on c-Fos-deficient Sh3bp2 KI/KI macrophages. In summary, the paradigm that osteoclasts are the exclusive cells executing inflammatory bone destruction may need to be reevaluated based on our findings with c-Fos-deficient cherubism mice lacking osteoclasts. © 2017 American Society for Bone and Mineral Research. © 2017 American Society for Bone and Mineral Research.

Quantitative degassing of gas hydrate-bearing pressure cores from Green Canyon 955, Gulf of Mexico

NASA Astrophysics Data System (ADS)

Phillips, S. C.; Holland, M. E.; Flemings, P. B.; Schultheiss, P. J.; Waite, W. F.; Petrou, E. G.; Jang, J.; Polito, P. J.; O'Connell, J.; Dong, T.; Meazell, K.

2017-12-01

We present results from 20 quantitative degassing experiments of pressure-core sections collected during Expedition UT-GOM2-1 from Green Canyon 955 in the northern Gulf of Mexico. These experiments highlight an average pore-space methane hydrate saturation, Sh, of 59% (min: 12%; max 87%) in sediments between 413 and 440 mbsf in 2032 m water depth. There is a strong lithofacies control of hydrate saturation within the reservoir, with a high saturation sandy silt facies (Sh of 65 to 87%) interbedded with a low saturation clayey silt facies (Sh of 12 to 30%). Bedding occurs on the scale of tens of centimeters. Outside of the main hydrate reservoir, methane hydrate occurs in low saturations (Sh of 0.8 to 3%). Hydrate saturations exhibit a strong correlation (R2=0.89) with the average P-wave velocity measured through the degassed sections. These preliminary hydrate saturations were calculated assuming a porosity of 40% with core filling the full internal diameter of the core liner. Gas recovered during these experiments is composed of almost entirely methane, with an average of 94 ppm ethane and detectable, but not quantifiable, propane. Degassed pressure cores were depressurized through a manifold by the stepwise release of fluid, and the volumes of produced gas and water were monitored. The core's hydrostatic pressure was measured and recorded continuously at the manifold. Pressure and temperature were also measured by data storage tags within the sample chambers. Two slow, multi-day degassing experiments were performed to estimate the in situ salinity within core sections. Based on temperature and pressure observations at the point of the initial pressure rebound due to hydrate dissociation, we estimate the salinity within these samples to be between 33 and 42 g kg-1.

Archie’s saturation exponent for natural gas hydrate in coarse-grained reservoirs

USGS Publications Warehouse

Cook, Ann E.; Waite, William F.

2018-01-01

Accurately quantifying the amount of naturally occurring gas hydrate in marine and permafrost environments is important for assessing its resource potential and understanding the role of gas hydrate in the global carbon cycle. Electrical resistivity well logs are often used to calculate gas hydrate saturations, Sh, using Archie's equation. Archie's equation, in turn, relies on an empirical saturation parameter, n. Though n = 1.9 has been measured for ice‐bearing sands and is widely used within the hydrate community, it is highly questionable if this n value is appropriate for hydrate‐bearing sands. In this work, we calibrate n for hydrate‐bearing sands from the Canadian permafrost gas hydrate research well, Mallik 5L‐38, by establishing an independent downhole Sh profile based on compressional‐wave velocity log data. Using the independently determined Sh profile and colocated electrical resistivity and bulk density logs, Archie's saturation equation is solved for n, and uncertainty is tracked throughout the iterative process. In addition to the Mallik 5L‐38 well, we also apply this method to two marine, coarse‐grained reservoirs from the northern Gulf of Mexico Gas Hydrate Joint Industry Project: Walker Ridge 313‐H and Green Canyon 955‐H. All locations yield similar results, each suggesting n ≈ 2.5 ± 0.5. Thus, for the coarse‐grained hydrate bearing (Sh > 0.4) of greatest interest as potential energy resources, we suggest that n = 2.5 ± 0.5 should be applied in Archie's equation for either marine or permafrost gas hydrate settings if independent estimates of n are not available.

The Gassmann-Burgers Model to Simulate Seismic Waves at the Earth Crust And Mantle

NASA Astrophysics Data System (ADS)

Carcione, José M.; Poletto, Flavio; Farina, Biancamaria; Craglietto, Aronne

2017-03-01

The upper part of the crust shows generally brittle behaviour while deeper zones, including the mantle, may present ductile behaviour, depending on the pressure-temperature conditions; moreover, some parts are melted. Seismic waves can be used to detect these conditions on the basis of reflection and transmission events. Basically, from the elastic-plastic point of view the seismic properties (seismic velocity and density) depend on effective pressure and temperature. Confining and pore pressures have opposite effects on these properties, such that very small effective pressures (the presence of overpressured fluids) may substantially decrease the P- and S-wave velocities, mainly the latter, by opening of cracks and weakening of grain contacts. Similarly, high temperatures induce the same effect by partial melting. To model these effects, we consider a poro-viscoelastic model based on Gassmann equations and Burgers mechanical model to represent the properties of the rock frame and describe ductility in which deformation takes place by shear plastic flow. The Burgers elements allow us to model the effects of seismic attenuation, velocity dispersion and steady-state creep flow, respectively. The stiffness components of the brittle and ductile media depend on stress and temperature through the shear viscosity, which is obtained by the Arrhenius equation and the octahedral stress criterion. Effective pressure effects are taken into account in the dry-rock moduli using exponential functions whose parameters are obtained by fitting experimental data as a function of confining pressure. Since fluid effects are important, the density and bulk modulus of the saturating fluids (water and steam) are modeled using the equations provided by the NIST website, including supercritical behaviour. The theory allows us to obtain the phase velocity and quality factor as a function of depth and geological pressure and temperature as well as time frequency. We then obtain the PS and SH equations of motion recast in the velocity-stress formulation, including memory variables to avoid the computation of time convolutions. The equations correspond to isotropic anelastic and inhomogeneous media and are solved by a direct grid method based on the Runge-Kutta time stepping technique and the Fourier pseudospectral method. The algorithm is tested with success against known analytical solutions for different shear viscosities. An example shows how anomalous conditions of pressure and temperature can in principle be detected with seismic waves.

Bayesian Modeling for Identification and Estimation of the Learning Effects of Pointing Tasks

NASA Astrophysics Data System (ADS)

Kyo, Koki

Recently, in the field of human-computer interaction, a model containing the systematic factor and human factor has been proposed to evaluate the performance of the input devices of a computer. This is called the SH-model. In this paper, in order to extend the range of application of the SH-model, we propose some new models based on the Box-Cox transformation and apply a Bayesian modeling method for identification and estimation of the learning effects of pointing tasks. We consider the parameters describing the learning effect as random variables and introduce smoothness priors for them. Illustrative results show that the newly-proposed models work well.

Theoretical Insights Reveal Novel Motions in Csk’s SH3 Domain That Control Kinase Activation

PubMed Central

Barkho, Sulyman; Pierce, Levi C. T.; Li, Sheng; Adams, Joseph A.; Jennings, Patricia A.

2015-01-01

The Src family of tyrosine kinases (SFKs) regulate numerous aspects of cell growth and differentiation and are under the principal control of the C-terminal Src Kinase (Csk). Although Csk and SFKs share conserved kinase, SH2 and SH3 domains, they differ considerably in three-dimensional structure, regulatory mechanism, and the intrinsic kinase activities. Although the SH2 and SH3 domains are known to up- or down-regulate tyrosine kinase function, little is known about the global motions in the full-length kinase that govern these catalytic variations. We use a combination of accelerated Molecular Dynamics (aMD) simulations and experimental methods to provide a new view of functional motions in the Csk scaffold. These computational studies suggest that high frequency vibrations in the SH2 domain are coupled through the N-terminal lobe of the kinase domain to motions in the SH3 domain. The effects of these reflexive movements on the kinase domain can be viewed using both Deuterium Exchange Mass Spectrometry (DXMS) and steady-state kinetic methods. Removal of several contacts, including a crystallographically unobserved N-terminal segment, between the SH3 and kinase domains short-circuit these coupled motions leading to reduced catalytic efficiency and stability of N-lobe motifs within the kinase domain. The data expands the model of Csk’s activation whereby separate domains productively interact with two diametrically opposed surfaces of the kinase domain. Such reversible transitions may organize the active structure of the tyrosine kinase domain of Csk. PMID:26030592

Caspase-3 short hairpin RNAs: a potential therapeutic agent in neurodegeneration of aluminum-exposed animal model.

PubMed

Zhang, Qinli; Li, Na; Jiao, Xia; Qin, Xiujun; Kaur, Ramanjit; Lu, Xiaoting; Song, Jing; Wang, Linping; Wang, Junming; Niu, Qiao

2014-01-01

There is abundant evidence supporting the role of caspases in the development of neurodegenerative disease, including Alzheimer's disease (AD). Therefore, regulating the activity of caspases has been considered as a therapeutic target. However, all the efforts on AD therapy using pan-caspase inhibitors have failed because of uncontrolled adverse effects. Alternatively, the specific knockdown of caspase-3 gene through RNA interference (RNAi) could serve as a future potential therapeutic strategy. The aim of the present study is to down-regulate the expression of caspase-3 gene using lentiviral vector-mediated caspase-3 short hairpin RNA (LV-Caspase-3 shRNA). The effect of LV-Caspase-3 shRNA on apoptosis induced by aluminum (Al) was investigated in primary cultured cortical neurons and validated in C57BL/6J mice. The results indicated an increase in apoptosis and caspase-3 expression in primary cultured neurons and the cortex ofmice exposed to Al, which could be down-regulated by LV-Caspase-3 shRNA. Furthermore, LV-Caspase-3 shRNA reduced neural cell death and improved learning and memory in C57BL/6J mice treated with Al. Our results suggest that LV-caspase-3 shRNA is a potential therapeutic agent to prevent neurodegeneration and cognitive dysfunction in aluminum- exposed animal models. The findings provide a rational gene therapy strategy for AD.

Heat Waves and Morbidity: Current Knowledge and Further Direction-A Comprehensive Literature Review

PubMed Central

Li, Mengmeng; Gu, Shaohua; Bi, Peng; Yang, Jun; Liu, Qiyong

2015-01-01

In the past few decades, several devastating heat wave events have significantly challenged public health. As these events are projected to increase in both severity and frequency in the future, it is important to assess the relationship between heat waves and the health indicators that can be used in the early warning systems to guide the public health response. Yet there is a knowledge gap in the impact of heat waves on morbidity. In this study, a comprehensive review was conducted to assess the relationship between heat waves and different morbidity indicators, and to identify the vulnerable populations. The PubMed and ScienceDirect database were used to retrieve published literature in English from 1985 to 2014 on the relationship between heat waves and morbidity, and the following MeSH terms and keywords were used: heat wave, heat wave, morbidity, hospital admission, hospitalization, emergency call, emergency medical services, and outpatient visit. Thirty-three studies were included in the final analysis. Most studies found a short-term negative health impact of heat waves on morbidity. The elderly, children, and males were more vulnerable during heat waves, and the medical care demand increased for those with existing chronic diseases. Some social factors, such as lower socioeconomic status, can contribute to heat-susceptibility. In terms of study methods and heat wave definitions, there remain inconsistencies and uncertainties. Relevant policies and guidelines need to be developed to protect vulnerable populations. Morbidity indicators should be adopted in heat wave early warning systems in order to guide the effective implementation of public health actions. PMID:25993103

Bibliography of Soviet Laser Developments Number 54, July-August 1981.

DTIC Science & Technology

1982-12-01

441. Kotyuk, A.F., A.P. Romashkov, and N.Sh. Khaykin (0). Production of a metrologic control system for measuring pulse power. IT, no. 8, 1981, 30-31...Possibility of recording the bas!ic characteristics of a wave process by a laser strain gauge . Sb 17, 30-34. 474. Dubovoy, A.P., and V.M. Sinel’nikov (0...Yu.S. Nechayev (560). Metrological features of a laser device with a single-mirror deflecting unit. Institut fiziki vysokoy energiy. Serpukhov

Structure-based characterization of the binding of peptide to the human endophilin-1 Src homology 3 domain using position-dependent noncovalent potential analysis.

PubMed

Fu, Chunjiang; Wu, Gang; Lv, Fenglin; Tian, Feifei

2012-05-01

Many protein-protein interactions are mediated by a peptide-recognizing domain, such as WW, PDZ, or SH3. In the present study, we describe a new method called position-dependent noncovalent potential analysis (PDNPA), which can accurately characterize the nonbonding profile between the human endophilin-1 Src homology 3 (hEndo1 SH3) domain and its peptide ligands and quantitatively predict the binding affinity of peptide to hEndo1 SH3. In this procedure, structure models of diverse peptides in complex with the hEndo1 SH3 domain are constructed by molecular dynamics simulation and a virtual mutagenesis protocol. Subsequently, three noncovalent interactions associated with each position of the peptide ligand in the complexed state are analyzed using empirical potential functions, and the resulting potential descriptors are then correlated with the experimentally measured affinity on the basis of 1997 hEndo1 SH3-binding peptides with known activities, using linear partial least squares regression (PLS) and the nonlinear support vector machine (SVM). The results suggest that: (i) the electrostatics appears to be more important than steric properties and hydrophobicity in the formation of the hEndo1 SH3-peptide complex; (ii) P(-4) of the core decapeptide ligand with the sequence pattern P(-6)P(-5)P(-4)P(-3)P(-2)P(-1)P(0)P(1)P(2)P(3) is the most important position in terms of determining both the stability and specificity of the architecture of the complex, and; (iii) nonlinear SVM appears to be more effective than linear PLS for accurately predicting the binding affinity of a peptide ligand to hEndo1 SH3, whereas PLS models are straightforward and easy to interpret as compared to those built by SVM.

Classical Heat-Flux Measurements in Coronal Plasmas from Collective Thomson-Scattering Spectra

NASA Astrophysics Data System (ADS)

Henchen, R. J.; Hu, S. X.; Katz, J.; Froula, D. H.; Rozmus, W.

2016-10-01

Collective Thomson scattering was used to measure heat flux in coronal plasmas. The relative amplitude of the Thomson-scattered power into the up- and downshifted electron plasma wave features was used to determine the flux of electrons moving along the temperature gradient at three to four times the electron thermal velocity. Simultaneously, the ion-acoustic wave features were measured. Their relative amplitude was used to measure the flux of the return-current electrons. The frequencies of these ion-acoustic and electron plasma wave features provide local measurements of the electron temperature and density. These spectra were obtained at five locations along the temperature gradient in a laser-produced blowoff plasma. These measurements of plasma parameters are used to infer the Spitzer-Härm flux (qSH = - κ∇Te ) and are in good agreement with the values of the heat flux measured from the scattering-feature asymmetries. Additional experiments probed plasma waves perpendicular to the temperature gradient. The data show small effects resulting from heat flux compared to probing waves along the temperature gradient. This material is based upon work supported by the Department of Energy National Nuclear Security Administration under Award Number DE-NA0001944.

Expression of truncated Int6/eIF3e in mammary alveolar epithelium leads to persistent hyperplasia and tumorigenesis

PubMed Central

Mack, David L; Boulanger, Corinne A; Callahan, Robert; Smith, Gilbert H

2007-01-01

Introduction Int6 has been shown to be an interactive participant with the protein translation initiation complex eIF3, the COP9 signalosome and the regulatory lid of the 26S proteasome. Insertion of mouse mammary tumor virus into the Int6 locus creates a C-terminally truncated form of the protein. Expression of the truncated form of Int6 (Int6sh) in stably transfected human and mouse mammary epithelial cell lines leads to cellular transformation. In addition, decreased expression of Int6/eIF3e is observed in approximately one third of all human breast carcinomas. Methods To validate that Int6sh has transforming activity in vivo, a transgenic mouse model was designed using the whey acidic protein (Wap) promoter to target expression of truncated Int6 to differentiating alveolar epithelial cells in the mammary gland. Microarray analyses were performed on normal, premalignant and malignant WapInt6sh expressing tissues. Results Mammary tumors developed in 42% of WapInt6sh heterozygous parous females at an average age of 18 months. In WapInt6sh mice, the contralateral mammary glands from both tumorous and non-tumorous tissues contained widespread focal alveolar hyperplasia. Only 4% of WapInt6sh non-breeding females developed tumors by 2 years of age. The Wap promoter is active only during estrus in the mammary tissue of cycling non-pregnant mice. Microarray analyses of mammary tissues demonstrated that Int6sh expression in the alveolar tissue altered the mammary transcriptome in a specific manner that was detectable even in the first pregnancy. This Int6sh-specific transcriptome pattern subsequently persisted in both the Int6sh-expressing alveolar hyperplasia and mammary tumors. These observations are consistent with the conclusion that WapInt6sh-expressing alveolar cells survive involution following the cessation of lactation, and subsequently give rise to the mammary tumors that arise in aging multiparous females. Conclusion These observations provide direct in vivo evidence that mammary-specific expression of the Int6sh truncation leads to persistence of alveolar hyperplasia with the accompanying increased predisposition to mammary tumorigenesis. PMID:17626637

Long Non-Coding RNA SH3PXD2A-AS1 Promotes Cell Progression Partly Through Epigenetic Silencing P57 and KLF2 in Colorectal Cancer.

PubMed

Ma, Zhonghua; Peng, Peng; Zhou, Jing; Hui, Bingqing; Ji, Hao; Wang, Juan; Wang, Keming

2018-05-03

Colorectal cancer (CRC) is one of the most commonly diagnosed malignancies worldwide. Current evidence has revealed the key roles of long non-coding RNAs (IncRNAs) in multiple cancers, including CRC. In this study we identified the lncRNA SH3PXD2A-AS1 as a novel molecule associated with CRC progression by analyzing the publicly available data from The Cancer Genome Atlas (TCGA) and Gene Expression Omnibus (GEO) datasets. Quantitative real-time polymerase chain reaction (qRT-PCR) assays were performed to examine the expression levels of SH3PXD2A-AS1 in CRC tissue samples and CRC cell lines. Cell viability examination, colony-formation experiments, ethynyl deoxyuridine (Edu) assays and flow cytometry were performed to investigate the roles of SH3PXD2A-AS1 in CRC proliferation, cell cycle regulation, and apoptosis. Transwell assays were used to explore the effects of SH3PXD2A-AS1 on CRC cells migration and invasion. A nude mice model was used to assess the effects of SH3PXD2A-AS1 on tumorigenesis in vivo. Subcellular fractionation, RNA immunoprecipitation (RIP), and chromatin immunoprecipitation (ChIP) assays were conducted to detect the molecular mechanisms of SH3PXD2A-ASl-mediated gene expression. Rescue assays were used to determine whether P57 and Kruppel-like factor 2 (KLF2) were involved in SH3PXD2A-ASl-dependent CRC proliferation. We firstly found that SH3PXD2A-AS1 was significantly upregulated in CRC tissues and cell lines, and overexpression of SH3PXD2A-AS1 was correlated with tumor size, TNM stage, and lymph node metastasis in patients with CRC. Furthermore, SH3PXD2A-AS1 knockdown inhibited CRC cells proliferation, migration and invasion in vitro, and suppressed tumorigenesis in vivo. Mechanistic studies indicated that SH3PXD2A-AS1 could epiqenetically repress P57 and KLF2 expression through interaction with EZH2. Rescue experiments suggested that SH3PXD2A-ASl-mediated oncogenesis was impaired by overexpression of P57 or KLF2. Interestingly, the expression of SH3PXD2A-AS1 was inversely correlated with the expression of P57 and KLF2 in CRC tissue samples. Our research presents the first evidence that SH3PXD2A-AS1 acts as an oncogene in CRC, and may be a promising diagnostic or therapeutic target in patients with CRC. © 2018 The Author(s). Published by S. Karger AG, Basel.

Characterization of Differentiated SH-SY5Y as Neuronal Screening Model Reveals Increased Oxidative Vulnerability

PubMed Central

Forster, J. I.; Köglsberger, S.; Trefois, C.; Boyd, O.; Baumuratov, A. S.; Buck, L.; Balling, R.; Antony, P. M. A.

2016-01-01

The immortalized and proliferative cell line SH-SY5Y is one of the most commonly used cell lines in neuroscience and neuroblastoma research. However, undifferentiated SH-SY5Y cells share few properties with mature neurons. In this study, we present an optimized neuronal differentiation protocol for SH-SY5Y that requires only two work steps and 6 days. After differentiation, the cells present increased levels of ATP and plasma membrane activity but reduced expression of energetic stress response genes. Differentiation results in reduced mitochondrial membrane potential and decreased robustness toward perturbations with 6-hydroxydopamine. We are convinced that the presented differentiation method will leverage genetic and chemical high-throughput screening projects targeting pathways that are involved in the selective vulnerability of neurons with high energetic stress levels. PMID:26738520

Mesospheric signatures observed during 2010 minor stratospheric warming at King Sejong Station (62°S, 59°W)

NASA Astrophysics Data System (ADS)

Eswaraiah, S.; Kim, Yong Ha; Hong, Junseok; Kim, Jeong-Han; Ratnam, M. Venkat; Chandran, A.; Rao, S. V. B.; Riggin, Dennis

2016-03-01

A minor stratospheric sudden warming (SSW) event was noticed in the southern hemisphere (SH) during September (day 259) 2010 along with two episodic warmings in early August (day 212) and late October (day 300) 2010. Among the three warming events, the signature of mesosphere response was detected only for the September event in the mesospheric wind dataset from both meteor radar and MF radar located at King Sejong Station (62°S, 59°W) and Rothera (68°S, 68°W), Antarctica, respectively. The zonal winds in the mesosphere reversed approximately a week before the September SSW event, as has been observed in the 2002 major SSW. Signatures of mesospheric cooling (MC) in association with stratospheric warmings are found in temperatures measured by the Microwave Limb Sounder (MLS). Simulations of specified dynamics version of Whole Atmosphere Community Climate Model (SD-WACCM) are able to reproduce these observed features. The mesospheric wind field was found to differ significantly from that of normal years probably due to enhanced planetary wave (PW) activity before the SSW. From the wavelet analysis of wind data of both stations, we find that strong 14-16 day PWs prevailed prior to the SSW and disappeared suddenly after the SSW in the mesosphere. Our study provides evidence that minor SSWs in SH can result in significant effects on the mesospheric dynamics as in the northern hemisphere.

Scattering of In-Plane Waves by Elastic Wedges

NASA Astrophysics Data System (ADS)

Mohammadi, K.; Asimaki, D.; Fradkin, L.

2014-12-01

The scattering of seismic waves by elastic wedges has been a topic of interest in seismology and geophysics for many decades. Analytical, semi-analytical, experimental and numerical studies on idealized wedges have provided insight into the seismic behavior of continental margins, mountain roots and crustal discontinuities. Published results, however, have almost exclusively focused on incident Rayleigh waves and out-of-plane body (SH) waves. Complementing the existing body of work, we here present results from our study on the res­ponse of elastic wedges to incident P or SV waves, an idealized pro­blem that can provide valuable insight to the understanding and parameterization of topographic ampli­fication of seismic ground mo­tion. We first show our earlier work on explicit finite difference simulations of SV-wave scattering by elastic wedges over a wide range of internal angles. We next present a semi-analytical solution that we developed using the approach proposed by Gautesen, to describe the scattered wavefield in the immediate vicinity of the wedge's tip (near-field). We use the semi-analytical solution to validate the numerical analyses, and improve resolution of the amplification factor at the wedge vertex that spikes when the internal wedge angle approaches the critical angle of incidence.

Single-station 6C beamforming

NASA Astrophysics Data System (ADS)

Nakata, N.; Hadziioannou, C.; Igel, H.

2017-12-01

Six-component measurements of seismic ground motion provide a unique opportunity to identify and decompose seismic wavefields into different wave types and incoming azimuths, as well as estimate structural information (e.g., phase velocity). By using the relationship between the transverse component and vertical rotational motion for Love waves, we can find the incident azimuth of the wave and the phase velocity. Therefore, when we scan the entire range of azimuth and slownesses, we can process the seismic waves in a similar way to conventional beamforming processing, without using a station array. To further improve the beam resolution, we use the distribution of amplitude ratio between translational and rotational motions at each time sample. With this beamforming, we decompose multiple incoming waves by azimuth and phase velocity using only one station. We demonstrate this technique using the data observed at Wettzell (vertical rotational motion and 3C translational motions). The beamforming results are encouraging to extract phase velocity at the location of the station, apply to oceanic microseism, and to identify complicated SH wave arrivals. We also discuss single-station beamforming using other components (vertical translational and horizontal rotational components). For future work, we need to understand the resolution limit of this technique, suitable length of time windows, and sensitivity to weak motion.

Surface hopping with a manifold of electronic states. III. Transients, broadening, and the Marcus picture

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

Dou, Wenjie; Subotnik, Joseph E.; Nitzan, Abraham

2015-06-21

In a previous paper [Dou et al., J. Chem. Phys. 142, 084110 (2015)], we have introduced a surface hopping (SH) approach to deal with the Anderson-Holstein model. Here, we address some interesting aspects that have not been discussed previously, including transient phenomena and extensions to arbitrary impurity-bath couplings. In particular, in this paper we show that the SH approach captures phonon coherence beyond the secular approximation, and that SH rates agree with Marcus theory at steady state. Finally, we show that, in cases where the electronic tunneling rate depends on nuclear position, a straightforward use of Marcus theory rates yieldsmore » a useful starting point for capturing level broadening. For a simple such model, we find I-V curves that exhibit negative differential resistance.« less

Smelling Sulfur: Copper and Silver Regulate the Response of Human Odorant Receptor OR2T11 to Low-Molecular-Weight Thiols.

PubMed

Li, Shengju; Ahmed, Lucky; Zhang, Ruina; Pan, Yi; Matsunami, Hiroaki; Burger, Jessica L; Block, Eric; Batista, Victor S; Zhuang, Hanyi

2016-10-03

Mammalian survival depends on ultrasensitive olfactory detection of volatile sulfur compounds, since these compounds can signal the presence of rancid food, O 2 depleted atmospheres, and predators (through carnivore excretions). Skunks exploit this sensitivity with their noxious spray. In commerce, natural and liquefied gases are odorized with t-BuSH and EtSH, respectively, as warnings. The 100-million-fold difference in olfactory perception between structurally similar EtSH and EtOH has long puzzled those studying olfaction. Mammals detect thiols and other odorants using odorant receptors (ORs), members of the family of seven transmembrane G-protein-coupled receptors (GPCRs). Understanding the regulator cofactors and response of ORs is particularly challenging due to the lack of X-ray structural models. Here, we combine computational modeling and site-directed mutagenesis with saturation transfer difference (STD) NMR spectroscopy and measurements of the receptor response profiles. We find that human thiol receptor OR2T11 responds specifically to gas odorants t-BuSH and EtSH requiring ionic copper for its robust activation and that this role of copper is mimicked by ionic and nanoparticulate silver. While copper is both an essential nutrient for life and, in excess, a hallmark of various pathologies and neurodegenerative diseases, its involvement in human olfaction has not been previously demonstrated. When screened against a series of alcohols, thiols, sulfides, and metal-coordinating ligands, OR2T11 responds with enhancement by copper to the mouse semiochemical CH 3 SCH 2 SH and derivatives, to four-membered cyclic sulfide thietane and to one- to four-carbon straight- and branched-chain and five-carbon branched-chain thiols but not to longer chain thiols, suggesting compact receptor dimensions. Alcohols are unreactive.

Dynamic and organizational studies by SH NMR of polyisoprenols (PIs) in model membranes

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

Troy, F.A.; Knudsen, M.J.

1987-05-01

The objective of the authors studies seeks to understand the molecular details of how undecaprenol (C55) and dolichol (C95) function as chemical carriers of glycosyl residues in the membrane-directed synthesis of glycoconjugates. SH NMR studies provide information on the organization and dynamics of PIs in model membranes. Incorporation of polar or omega-terminus SH-labeled PIs into multilamellar membranes of phosphatidylcholine (PC) give rise to SH-NMR spectra interpretable in terms of quadrupole splittings ( vq), a measure of the degree of orderness of the SH-labeled site, and spin lattice relaxation times (T1's), revealing rates of motion. The authors results show: 1) vqmore » of the PIs increased with increase concentration of label and with lowering of temperature; 2) little difference in T1 or vq values between tail-group or headgroup SH-labeled geraniol (C10), farnesol (C15) or solanesol (C45) was observed; and 3) T1 measurements revealed correlation times close to the fatty acyl CH3 termini in PC. These data indicate that both ends of the esterified PI molecules see similar environments in the bilayer (BL) interior, and suggest that the esterified PIs studied here do not adopt a conventional head-group-at-interface orientation of lipids within the BL. These data support the authors earlier conclusions based on spin label EPR studies. Headgroup labeled dolichol (C95-CD2-OH) and dolichol phosphate (C94-CD2-O-PO3H2) have been synthesized. Surprisingly, no anisotropic quadrupole splitting in PC vesicles were observed. This may indicate an unusual conformation of the long poly-cis prenyl chains.« less

Prostate-targeted biodegradable nanoparticles loaded with androgen receptor silencing constructs eradicate xenograft tumors in mice

PubMed Central

Yang, Jun; Xie, Sheng-Xue; Huang, Yiling; Ling, Min; Liu, Jihong; Ran, Yali; Wang, Yanlin; Thrasher, J Brantley; Berkland, Cory; Li, Benyi

2012-01-01

Background Prostate cancer is the major cause of cancer death in men and the androgen receptor (AR) has been shown to play a critical role in the progression of the disease. Our previous reports showed that knocking down the expression of the AR gene using a siRNA-based approach in prostate cancer cells led to apoptotic cell death and xenograft tumor eradication. In this study, we utilized a biodegradable nanoparticle to deliver the therapeutic AR shRNA construct specifically to prostate cancer cells. Materials & methods The biodegradable nanoparticles were fabricated using a poly(dl-lactic-co-glycolic acid) polymer and the AR shRNA constructs were loaded inside the particles. The surface of the nanoparticles were then conjugated with prostate-specific membrane antigen aptamer A10 for prostate cancer cell-specific targeting. Results A10-conjugation largely enhanced cellular uptake of nanoparticles in both cell culture- and xenograft-based models. The efficacy of AR shRNA encapsulated in nanoparticles on AR gene silencing was confirmed in PC-3/AR-derived xenografts in nude mice. The therapeutic property of A10-conjugated AR shRNA-loaded nanoparticles was evaluated in xenograft models with different prostate cancer cell lines: 22RV1, LAPC-4 and LNCaP. Upon two injections of the AR shRNA-loaded nanoparticles, rapid tumor regression was observed over 2 weeks. Consistent with previous reports, A10 aptamer conjugation significantly enhanced xenograft tumor regression compared with nonconjugated nanoparticles. Discussion These data demonstrated that tissue-specific delivery of AR shRNA using a biodegradable nanoparticle approach represents a novel therapy for life-threatening prostate cancers. PMID:22583574

Numerical simulation of stress-strain state of electrophoretic shell molds

NASA Astrophysics Data System (ADS)

Sviridov, A. V.; Odinokov, V. I.; Dmitriev, E. A.; Evstigneev, A. I.; Bashkov, O. V.

2017-10-01

In the foundry engineering, castings obtained in one-piece non-gas-generating high-refractory electrophoretic shell molds (ShM) by investment patterns (IP) have an increased rejects percentage associated with low deformation resistance and crack resistance of the SM at different stages of their formation and manufacturing. Crack resistance of the ShM based on IP depends mainly on their stress-strain state (SSS) at various stages of mold forming. SSS decrease significantly improves their crack resistance and decreases their rejects percentage of castings occurring due to clogging and surface defects. In addition, the known methods of decreasing the SSS are still poorly understood. Thus, current research trends are to determine SSS at each stage of ShM forming and develop the ways to decrease it. Theoretical predicting of crack formation in multiple-layer axisymmetric shell molds is given in the work [1], and SSS of multiple-layer axisymmetric shell molds is given in the work [2]. Monolayer electrophoretic ShM had a lack of concern in this field, thus it became an argument for the present workMathematical Model of ShM SSS

Linac head scatter factor for asymmetric radiation field

NASA Astrophysics Data System (ADS)

Soubra, Mazen Ahmed

1997-11-01

The head scatter factor, Sh is an important dosimetric quantity used in radiation therapy dose calculation. It is empirically determined and its field size dependence reflects changes in photon scatter from components in the linac treatment head. In this work a detailed study of the physical factors influencing the determination of Sh was performed with particular attention given to asymmetric field geometries. Ionization measurements for 6 and 18 MV photon beams were made to examine the factors which determine Sh. These include: phantom size and material, collimator backscatter, non-lateral electronic equilibrium (LEE) conditions, electron contamination, collimator-exchange, photon energy, flattening filter and off-axis distance (OAD). Results indicated that LEE is not required for Sh measurements if electron contamination is minimized. Brass caps or polystyrene miniphantoms can both be used in Sh measurements provided the phantom thickness is large enough to stop contaminant electrons. Backscatter radiation effects into the monitor chamber were found to be negligible for the Siemens linac. It was found that the presence and shape of the flattening filter had a significant effect on the empirically determined value of Sh was also shown to be a function of OAD, particularly for small fields. For fields larger than 12×12 cm2/ Sh was independent of OAD. A flattening filter mass model was introduced to explain qualitatively the above results. A detailed Monte Carlo simulation of the Siemens KD2 linac head in 6 MV mode was performed to investigate the sources of head scatter which contribute to the measured Sh. The simulated head components include the flattening filter, the electron beam stopper, the primary collimator, the photon monitor chamber and the secondary collimators. The simulations showed that the scatter from the head of the Siemens linac is a complex function of the head components. On the central axis the flattening filter played the dominant role in the contributing to scatter. However this role was significantly reduced off- axis and other head components, such as the electron beam stopper and the primary collimator, became more important. The role of the mirror and ion chamber was relatively minor. Scatter from the secondary collimators was shown to be a function of the filed size and the position of the collimators in the treatment head. They were also found to play a dual role, both as a scatter source and as an attenuator for scatter produced upstream in the linac head. A closed form model, based on the work of Yu and Slobada, was developed to estimate head scatter factors for on- and off-axis asymmetric fields. The model requires three parameters to fit the measured data. The first, a constant c, has a physical significance and is independent of energy and off-axis distance. The second, g, shows a small variation with the energy and OAD while the third parameter, the primary-to-scatter ratio, is strongly dependent on energy and off-axis distance. Comparison of Sh, predicted by the model, to measurement for a large range of symmetric and asymmetric fields showed excellent agreement. A maximum of 0.7% discrepancy was observed at 12 cm OAD.

Sheared Layers in the Continental Crust: Nonlinear and Linearized inversion for Ps receiver functions

NASA Astrophysics Data System (ADS)

Park, J. J.

2017-12-01

Sheared Layers in the Continental Crust: Nonlinear and Linearized inversion for Ps receiver functions Jeffrey Park, Yale University The interpretation of seismic receiver functions (RFs) in terms of isotropic and anisotropic layered structure can be complex. The relationship between structure and body-wave scattering is nonlinear. The anisotropy can involve more parameters than the observations can readily constrain. Finally, reflectivity-predicted layer reverberations are often not prominent in data, so that nonlinear waveform inversion can search in vain to match ghost signals. Multiple-taper correlation (MTC) receiver functions have uncertainties in the frequency domain that follow Gaussian statistics [Park and Levin, 2016a], so grid-searches for the best-fitting collections of interfaces can be performed rapidly to minimize weighted misfit variance. Tests for layer-reverberations can be performed in the frequency domain without reflectivity calculations, allowing flexible modelling of weak, but nonzero, reverberations. Park and Levin [2016b] linearized the hybridization of P and S body waves in an anisotropic layer to predict first-order Ps conversion amplitudes at crust and mantle interfaces. In an anisotropic layer, the P wave acquires small SV and SH components. To ensure continuity of displacement and traction at the top and bottom boundaries of the layer, shear waves are generated. Assuming hexagonal symmetry with an arbitrary symmetry axis, theory confirms the empirical stacking trick of phase-shifting transverse RFs by 90 degrees in back-azimuth [Shiomi and Park, 2008; Schulte-Pelkum and Mahan, 2014] to enhance 2-lobed and 4-lobed harmonic variation. Ps scattering is generated by sharp interfaces, so that RFs resemble the first derivative of the model. MTC RFs in the frequency domain can be manipulated to obtain a first-order reconstruction of the layered anisotropy, under the above modeling constraints and neglecting reverberations. Examples from long-running continental stations will be discussed. Park, J., and V. Levin, 2016a. doi:10.1093/gji/ggw291. Park, J., and V. Levin, 2016b. doi:10.1093/gji/ggw323. Schulte-Pelkum, V., and Mahan, K. H., 2014. doi:10.1007/s00024-014-0853-4. Shiomi, K., & Park, J., 2008. doi:10.1029/2007JB005535.

Site Characterization in the Urban Area of Tijuana, B. C., Mexico by Means of: H/V Spectral Ratios, Spectral Analysis of Surface Waves, and Random Decrement Method

NASA Astrophysics Data System (ADS)

Tapia-Herrera, R.; Huerta-Lopez, C. I.; Martinez-Cruzado, J. A.

2009-05-01

Results of site characterization for an experimental site in the metropolitan area of Tijuana, B. C., Mexico are presented as part of the on-going research in which time series of earthquakes, ambient noise, and induced vibrations were processed with three different methods: H/V spectral ratios, Spectral Analysis of Surface Waves (SASW), and the Random Decrement Method, (RDM). Forward modeling using the wave propagation stiffness matrix method (Roësset and Kausel, 1981) was used to compute the theoretical SH/P, SV/P spectral ratios, and the experimental H/V spectral ratios were computed following the conventional concepts of Fourier analysis. The modeling/comparison between the theoretical and experimental H/V spectral ratios was carried out. For the SASW method the theoretical dispersion curves were also computed and compared with the experimental one, and finally the theoretical free vibration decay curve was compared with the experimental one obtained with the RDM. All three methods were tested with ambient noise, induced vibrations, and earthquake signals. Both experimental spectral ratios obtained with ambient noise as well as earthquake signals agree quite well with the theoretical spectral ratios, particularly at the fundamental vibration frequency of the recording site. Differences between the fundamental vibration frequencies are evident for sites located at alluvial fill (~0.6 Hz) and at sites located at conglomerate/sandstones fill (0.75 Hz). Shear wave velocities for the soft soil layers of the 4-layer discrete soil model ranges as low as 100 m/s and up to 280 m/s. The results with the SASW provided information that allows to identify low velocity layers, not seen before with the traditional seismic methods. The damping estimations obtained with the RDM are within the expected values, and the dominant frequency of the system also obtained with the RDM correlates within the range of plus-minus 20 % with the one obtained by means of the H/V spectral ratio.

The oscillator model for the Lie superalgebra sh(2|2) and Charlier polynomials

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

Jafarov, E. I.; Van der Jeugt, J.

2013-10-15

We investigate an algebraic model for the quantum oscillator based upon the Lie superalgebra sh(2|2), known as the Heisenberg–Weyl superalgebra or “the algebra of supersymmetric quantum mechanics,” and its Fock representation. The model offers some freedom in the choice of a position and a momentum operator, leading to a free model parameter γ. Using the technique of Jacobi matrices, we determine the spectrum of the position operator, and show that its wavefunctions are related to Charlier polynomials C{sub n} with parameter γ{sup 2}. Some properties of these wavefunctions are discussed, as well as some other properties of the current oscillatormore » model.« less

SH c realization of minimal model CFT: triality, poset and Burge condition

NASA Astrophysics Data System (ADS)

Fukuda, M.; Nakamura, S.; Matsuo, Y.; Zhu, R.-D.

2015-11-01

Recently an orthogonal basis of {{W}}_N -algebra (AFLT basis) labeled by N-tuple Young diagrams was found in the context of 4D/2D duality. Recursion relations among the basis are summarized in the form of an algebra SH c which is universal for any N. We show that it has an {{S}}_3 automorphism which is referred to as triality. We study the level-rank duality between minimal models, which is a special example of the automorphism. It is shown that the nonvanishing states in both systems are described by N or M Young diagrams with the rows of boxes appropriately shuffled. The reshuffling of rows implies there exists partial ordering of the set which labels them. For the simplest example, one can compute the partition functions for the partially ordered set (poset) explicitly, which reproduces the Rogers-Ramanujan identities. We also study the description of minimal models by SH c . Simple analysis reproduces some known properties of minimal models, the structure of singular vectors and the N-Burge condition in the Hilbert space.

Computational Insights into the Interactions between Calmodulin and the c/nSH2 Domains of p85α Regulatory Subunit of PI3Kα: Implication for PI3Kα Activation by Calmodulin.

PubMed

Ni, Duan; Liu, Dingyu; Zhang, Jian; Lu, Shaoyong

2018-01-04

Calmodulin (CaM) and phosphatidylinositide-3 kinase (PI3Kα) are well known for their multiple roles in a series of intracellular signaling pathways and in the progression of several human cancers. Crosstalk between CaM and PI3Kα has been an area of intensive research. Recent experiments have shown that in adenocarcinoma, K-Ras4B is involved in the CaM-PI3Kα crosstalk. Based on experimental results, we have recently put forward a hypothesis that the coordination of CaM and PI3Kα with K-Ras4B forms a CaM-PI3Kα-K-Ras4B ternary complex, which leads to the formation of pancreatic ductal adenocarcinoma. However, the mechanism for the CaM-PI3Kα crosstalk is unresolved. Based on molecular modeling and molecular dynamics simulations, here we explored the potential interactions between CaM and the c/nSH2 domains of p85α subunit of PI3Kα. We demonstrated that CaM can interact with the c/nSH2 domains and the interaction details were unraveled. Moreover, the possible modes for the CaM-cSH2 and CaM-nSH2 interactions were uncovered and we used them to construct a complete CaM-PI3Kα complex model. The structural model of CaM-PI3Kα interaction not only offers a support for our previous ternary complex hypothesis, but also is useful for drug design targeted at CaM-PI3Kα protein-protein interactions.

Comparison of SH3 and SH2 domain dynamics when expressed alone or in an SH(3+2) construct: the role of protein dynamics in functional regulation.

PubMed

Engen, J R; Smithgall, T E; Gmeiner, W H; Smith, D L

1999-04-02

Protein dynamics play an important role in protein function and regulation of enzymatic activity. To determine how additional interactions with surrounding structure affects local protein dynamics, we have used hydrogen exchange and mass spectrometry to investigate the SH2 and SH3 domains of the protein tyrosine kinase Hck. Exchange rates of isolated Hck SH3 and SH2 domains were compared with rates for the same domains when part of a larger SH(3+2) construct. Increased deuterium incorporation was observed for the SH3 domain in the joint construct, particularly near the SH2 interface and the short sequence that connects SH3 to SH2, implying greater flexibility of SH3 when it is part of SH(3+2). Slow cooperative unfolding of the SH3 domain occurred at the same rate in isolated SH3 as in the SH(3+2) construct, suggesting a functional significance for this unfolding. The SH2 domain displayed relatively smaller changes in flexibility when part of the SH(3+2) construct. These results suggest that the domains influence each other. Further, our results imply a link between functional regulation and structural dynamics of SH3 and SH2 domains. Copyright 1999 Academic Press.

Reprogramming the murine colon cancer microenvironment using lentivectors encoding shRNA against IL-10 as a component of a potent DC-based chemoimmunotherapy.

PubMed

Rossowska, Joanna; Anger, Natalia; Szczygieł, Agnieszka; Mierzejewska, Jagoda; Pajtasz-Piasecka, Elżbieta

2018-06-28

The excessive amounts of immunosuppressive factors present in a tumor microenvironment (TME) reduce the effectiveness of cancer vaccines. The main objective of our research was to improve the effectiveness of dendritic cell (DC)-based immunotherapy or chemoimmunotherapy composed of cyclophosphamide (CY) and DCs by application of lentivectors encoding shRNA specific to IL-10 (shIL10 LVs) in murine colon carcinoma MC38 model. The efficacy of shIL10 LVs in silencing of IL-10 expression was measured both in vitro and in vivo using Real-Time PCR and ELISA assays. In addition, the influence of intratumorally inoculated lentivectors on MC38 tumor microenvironment was examined using flow cytometry method. The effect of applied therapeutic schemes was determined by measurement of tumor growth inhibition and activation state of local and systemic immune response. We observed that intratumorally inoculated shIL10 LVs transduced tumor and TME-infiltrating cells and reduced the secretion of IL-10. Application of shIL10 LVs for three consecutive weeks initiated tumor growth inhibition, whereas treatment with shIL10 LVs and BMDC/TAg did not enhance the antitumor effect. However, when pretreatment with CY was introduced to the proposed scheme, we noticed high MC38 tumor growth inhibition accompanied by reduction of MDSCs and Tregs in TME, as well as activation of potent local and systemic Th1-type antitumor response. The obtained data shows that remodeling of TME by shIL10 LVs and CY enhances DC activity and supports them during regeneration and actuation of a potent antitumor response. Therefore, therapeutic strategies aimed at local IL-10 elimination using lentiviral vectors should be further investigated in context of combined chemoimmunotherapies.

The Siberian High and Arctic Sea Ice: Long-term Climate Change and Impacts on Air Pollution during Wintertime in China

NASA Astrophysics Data System (ADS)

Long, X.; Zhao, S.; Feng, T.; Tie, X.; Li, G.

2017-12-01

China has undergone severe air pollution during wintertime as national industrialization and urbanization have been increasingly developed in the past three decades. It has been suggested that high emission and adverse weather patterns contribute to wintertime air pollution. Recent studies propose that climate change and Arctic sea ice loss likely lead to extreme haze events in winter. Here we use two reanalysis and observational datasets to present the trends of Siberian High (SH) intensity over Eurasia, and Arctic temperature and sea ice. The results show the Arctic region of Asia is becoming warming accompanied by a rapid decline of sea ice while Eurasia is cooling and SH intensity is gradually enhancing. Wind patterns induced by these changes cause straight westerly prevailing over Eurasia at the year of weak SH while strengthened northerly winds at the year of strong SH. Therefore, we utilize regional dynamical and chemical WRF-Chem model to determine the impact of SH intensity difference on wintertime air pollution in China. As a result, enhancing northerly winds at the year of strong SH rapidly dilute and transport air pollution, causing a decline of 50 - 400 µg m-3 PM2.5 concentrations relative to that at the year of weak SH. We also assess the impact of emission reduction to half the current level on air pollution. The results show that emission reduction by 50% has an equivalent impact as the variability of SH intensity. This suggests that climate change over Eurasia has largely offset the negative impact of emission on air pollution and it is urgently needed to take measures to mitigate air pollution. In view of current high emission scenario in China, it will be a long way to effectively mitigate, or ultimately prevent wintertime air pollution.

Characterization of domain-peptide interaction interface: a case study on the amphiphysin-1 SH3 domain.

PubMed

Hou, Tingjun; Zhang, Wei; Case, David A; Wang, Wei

2008-02-29

Many important protein-protein interactions are mediated by peptide recognition modular domains, such as the Src homology 3 (SH3), SH2, PDZ, and WW domains. Characterizing the interaction interface of domain-peptide complexes and predicting binding specificity for modular domains are critical for deciphering protein-protein interaction networks. Here, we propose the use of an energetic decomposition analysis to characterize domain-peptide interactions and the molecular interaction energy components (MIECs), including van der Waals, electrostatic, and desolvation energy between residue pairs on the binding interface. We show a proof-of-concept study on the amphiphysin-1 SH3 domain interacting with its peptide ligands. The structures of the human amphiphysin-1 SH3 domain complexed with 884 peptides were first modeled using virtual mutagenesis and optimized by molecular mechanics (MM) minimization. Next, the MIECs between domain and peptide residues were computed using the MM/generalized Born decomposition analysis. We conducted two types of statistical analyses on the MIECs to demonstrate their usefulness for predicting binding affinities of peptides and for classifying peptides into binder and non-binder categories. First, combining partial least squares analysis and genetic algorithm, we fitted linear regression models between the MIECs and the peptide binding affinities on the training data set. These models were then used to predict binding affinities for peptides in the test data set; the predicted values have a correlation coefficient of 0.81 and an unsigned mean error of 0.39 compared with the experimentally measured ones. The partial least squares-genetic algorithm analysis on the MIECs revealed the critical interactions for the binding specificity of the amphiphysin-1 SH3 domain. Next, a support vector machine (SVM) was employed to build classification models based on the MIECs of peptides in the training set. A rigorous training-validation procedure was used to assess the performances of different kernel functions in SVM and different combinations of the MIECs. The best SVM classifier gave satisfactory predictions for the test set, indicated by average prediction accuracy rates of 78% and 91% for the binding and non-binding peptides, respectively. We also showed that the performance of our approach on both binding affinity prediction and binder/non-binder classification was superior to the performances of the conventional MM/Poisson-Boltzmann solvent-accessible surface area and MM/generalized Born solvent-accessible surface area calculations. Our study demonstrates that the analysis of the MIECs between peptides and the SH3 domain can successfully characterize the binding interface, and it provides a framework to derive integrated prediction models for different domain-peptide systems.

A strongly negative shear velocity gradient and lateral variability in the lowermost mantle beneath the Pacific

NASA Astrophysics Data System (ADS)

Ritsema, Jeroen; Garnero, Edward; Lay, Thorne

1997-01-01

A new approach for constraining the seismic shear velocity structure above the core-mantle boundary is introduced, whereby SH-SKS differential travel times, amplitude ratios of SV/SKS, and Sdiff waveshapes are simultaneously modeled. This procedure is applied to the lower mantle beneath the central Pacific using da.ta from numerous deep-focus southwest Pacific earthquakes recorded in North America. We analyze 90 broadband and 248 digitized analog recordings for this source-receiver geometry. SH-SKS times are highly variable and up to 10 s larger than standard reference model predictions, indicating the presence of laterally varying low shear velocities in the study area. The travel times, however, do not constrain the depth extent or velocity gradient of the low-velocity region. SV/SKS amplitude ratios and SH waveforms are sensitive to the radial shear velocity profile, and when analyzed simultaneously with SH-SKS times, rnveal up to 3% shear velocity reductions restricted to the lowermost 190±50 km of the mantle. Our preferred model for the central-eastern Pacific region (Ml) has a strong negative gradient (with 0.5% reduction in velocity relative to the preliminary reference Earth model (PREM) at 2700 km depth and 3% reduction at 2891 km depth) and slight velocity reductions from 2000 to 2700 km depth (0-0.5% lower than PREM). Significant small-scale (100-500 km) shear velocity heterogeneity (0.5%-1%) is required to explain scatter in the differential times and amplitude ratios.

Crystal structure of Src-like adaptor protein 2 reveals close association of SH3 and SH2 domains through β-sheet formation.

PubMed

Wybenga-Groot, Leanne E; McGlade, C Jane

2013-12-01

The Src-like adaptor proteins (SLAP/SLAP2) are key components of Cbl-dependent downregulation of antigen receptor, cytokine receptor, and receptor tyrosine kinase signaling in hematopoietic cells. SLAP and SLAP2 consist of adjacent SH3 and SH2 domains that are most similar in sequence to Src family kinases (SFKs). Notably, the SH3-SH2 connector sequence is significantly shorter in SLAP/SLAP2 than in SFKs. To understand the structural implication of a short SH3-SH2 connector sequence, we solved the crystal structure of a protein encompassing the SH3 domain, SH3-SH2 connector, and SH2 domain of SLAP2 (SLAP2-32). While both domains adopt typical folds, the short SH3-SH2 connector places them in close association. Strand βe of the SH3 domain interacts with strand βA of the SH2 domain, resulting in the formation of a continuous β sheet that spans the length of the protein. Disruption of the SH3/SH2 interface through mutagenesis decreases SLAP-32 stability in vitro, consistent with inter-domain binding being an important component of SLAP2 structure and function. The canonical peptide binding pockets of the SH3 and SH2 domains are fully accessible, in contrast to other protein structures that display direct interaction between SH3 and SH2 domains, in which either peptide binding surface is obstructed by the interaction. Our results reveal potential sites of novel interaction for SH3 and SH2 domains, and illustrate the adaptability of SH2 and SH3 domains in mediating interactions. As well, our results suggest that the SH3 and SH2 domains of SLAP2 function interdependently, with implications on their mode of substrate binding. © 2013.

The p53-Deficient Mouse as a Breast Cancer Model

DTIC Science & Technology

1995-10-01

M.A. Gryka , F.Z. Bischoff, M.A. Tain- Halachmi, R.T. Bronson, and R.A. Weinberg. 1994. Tumor sky, and S.H. Friend. 1990. Germ line p53 mutations in a...J. Kassel, M.A. Gryka , F.Z. Bischoff, Weaver-Feldhaus, W. Ding, Z. Gholami, P. Soderkvist, L. M.A. Tainsky, and S.H. Friend. 1990. Germ line p53

Heat-Flux Measurements from Collective Thomson-Scattering Spectra

NASA Astrophysics Data System (ADS)

Henchen, R. J.; Hu, S. X.; Katz, J.; Froula, D. H.; Rozmus, W.

2015-11-01

Collective Thomson scattering was used to measure heat flux in coronal plasmas. The relative amplitude of the Thomson-scattered power into the up- and downshifted electron plasma wave features was used to determine the flux of electrons moving along the temperature gradient at three to four times the electron thermal velocity. Simultaneously, the ion-acoustic wave features were measured. Their relative amplitude is used to measure the flux of the return-current electrons. The frequencies of these ion-acoustic and electron plasma wave features provide local measurements of the electron temperature and density. These spectra were obtained at five locations along the temperature gradient in a laser-produced blowoff plasma. These measurements of plasma parameters are used to infer the Spitzer -Härm flux qSH = - κ∇Te and are in good agreement with the values of the heat flux measured from the scattering-feature asymmetries. This material is based upon work supported by the Department of Energy National Nuclear Security Administration under Award Number DE-NA0001944.

Global monsoon precipitation responses to large volcanic eruptions

PubMed Central

Liu, Fei; Chai, Jing; Wang, Bin; Liu, Jian; Zhang, Xiao; Wang, Zhiyuan

2016-01-01

Climate variation of global monsoon (GM) precipitation involves both internal feedback and external forcing. Here, we focus on strong volcanic forcing since large eruptions are known to be a dominant mechanism in natural climate change. It is not known whether large volcanoes erupted at different latitudes have distinctive effects on the monsoon in the Northern Hemisphere (NH) and the Southern Hemisphere (SH). We address this issue using a 1500-year volcanic sensitivity simulation by the Community Earth System Model version 1.0 (CESM1). Volcanoes are classified into three types based on their meridional aerosol distributions: NH volcanoes, SH volcanoes and equatorial volcanoes. Using the model simulation, we discover that the GM precipitation in one hemisphere is enhanced significantly by the remote volcanic forcing occurring in the other hemisphere. This remote volcanic forcing-induced intensification is mainly through circulation change rather than moisture content change. In addition, the NH volcanic eruptions are more efficient in reducing the NH monsoon precipitation than the equatorial ones, and so do the SH eruptions in weakening the SH monsoon, because the equatorial eruptions, despite reducing moisture content, have weaker effects in weakening the off-equatorial monsoon circulation than the subtropical-extratropical volcanoes do. PMID:27063141

Global monsoon precipitation responses to large volcanic eruptions.

PubMed

Liu, Fei; Chai, Jing; Wang, Bin; Liu, Jian; Zhang, Xiao; Wang, Zhiyuan

2016-04-11

Climate variation of global monsoon (GM) precipitation involves both internal feedback and external forcing. Here, we focus on strong volcanic forcing since large eruptions are known to be a dominant mechanism in natural climate change. It is not known whether large volcanoes erupted at different latitudes have distinctive effects on the monsoon in the Northern Hemisphere (NH) and the Southern Hemisphere (SH). We address this issue using a 1500-year volcanic sensitivity simulation by the Community Earth System Model version 1.0 (CESM1). Volcanoes are classified into three types based on their meridional aerosol distributions: NH volcanoes, SH volcanoes and equatorial volcanoes. Using the model simulation, we discover that the GM precipitation in one hemisphere is enhanced significantly by the remote volcanic forcing occurring in the other hemisphere. This remote volcanic forcing-induced intensification is mainly through circulation change rather than moisture content change. In addition, the NH volcanic eruptions are more efficient in reducing the NH monsoon precipitation than the equatorial ones, and so do the SH eruptions in weakening the SH monsoon, because the equatorial eruptions, despite reducing moisture content, have weaker effects in weakening the off-equatorial monsoon circulation than the subtropical-extratropical volcanoes do.

Modeling subduction earthquake sources in the central-western region of Colombia using waveform inversion of body waves

NASA Astrophysics Data System (ADS)

Monsalve-Jaramillo, Hugo; Valencia-Mina, William; Cano-Saldaña, Leonardo; Vargas, Carlos A.

2018-05-01

Source parameters of four earthquakes located within the Wadati-Benioff zone of the Nazca plate subducting beneath the South American plate in Colombia were determined. The seismic moments for these events were recalculated and their approximate equivalent rupture area, slip distribution and stress drop were estimated. The source parameters for these earthquakes were obtained by deconvolving multiple events through teleseismic analysis of body waves recorded in long period stations and with simultaneous inversion of P and SH waves. The calculated source time functions for these events showed different stages that suggest that these earthquakes can reasonably be thought of being composed of two subevents. Even though two of the overall focal mechanisms obtained yielded similar results to those reported by the CMT catalogue, the two other mechanisms showed a clear difference compared to those officially reported. Despite this, it appropriate to mention that the mechanisms inverted in this work agree well with the expected orientation of faulting at that depth as well as with the wave forms they are expected to produce. In some of the solutions achieved, one of the two subevents exhibited a focal mechanism considerably different from the total earthquake mechanism; this could be interpreted as the result of a slight deviation from the overall motion due the complex stress field as well as the possibility of a combination of different sources of energy release analogous to the ones that may occur in deeper earthquakes. In those cases, the subevents with very different focal mechanism compared to the total earthquake mechanism had little contribution to the final solution and thus little contribution to the total amount of energy released.

Evaluation of a global algorithm for wavefront reconstruction for Shack-Hartmann wave-front sensors and thick fundus reflectors.

PubMed

Liu, Tao; Thibos, Larry; Marin, Gildas; Hernandez, Martha

2014-01-01

Conventional aberration analysis by a Shack-Hartmann aberrometer is based on the implicit assumption that an injected probe beam reflects from a single fundus layer. In fact, the biological fundus is a thick reflector and therefore conventional analysis may produce errors of unknown magnitude. We developed a novel computational method to investigate this potential failure of conventional analysis. The Shack-Hartmann wavefront sensor was simulated by computer software and used to recover by two methods the known wavefront aberrations expected from a population of normally-aberrated human eyes and bi-layer fundus reflection. The conventional method determines the centroid of each spot in the SH data image, from which wavefront slopes are computed for least-squares fitting with derivatives of Zernike polynomials. The novel 'global' method iteratively adjusted the aberration coefficients derived from conventional centroid analysis until the SH image, when treated as a unitary picture, optimally matched the original data image. Both methods recovered higher order aberrations accurately and precisely, but only the global algorithm correctly recovered the defocus coefficients associated with each layer of fundus reflection. The global algorithm accurately recovered Zernike coefficients for mean defocus and bi-layer separation with maximum error <0.1%. The global algorithm was robust for bi-layer separation up to 2 dioptres for a typical SH wavefront sensor design. For 100 randomly generated test wavefronts with 0.7 D axial separation, the retrieved mean axial separation was 0.70 D with standard deviations (S.D.) of 0.002 D. Sufficient information is contained in SH data images to measure the dioptric thickness of dual-layer fundus reflection. The global algorithm is superior since it successfully recovered the focus value associated with both fundus layers even when their separation was too small to produce clearly separated spots, while the conventional analysis misrepresents the defocus component of the wavefront aberration as the mean defocus for the two reflectors. Our novel global algorithm is a promising method for SH data image analysis in clinical and visual optics research for human and animal eyes. © 2013 The Authors Ophthalmic & Physiological Optics © 2013 The College of Optometrists.

Reduced connection between the East Asian Summer Monsoon and Southern Hemisphere Circulation on interannual timescales under intense global warming

NASA Astrophysics Data System (ADS)

Yu, Tianlei; Guo, Pinwen; Cheng, Jun; Hu, Aixue; Lin, Pengfei; Yu, Yongqiang

2018-03-01

Previous studies show a close relationship between the East Asian Summer Monsoon (EASM) and Southern Hemisphere (SH) circulation on interannual timescales. In this study, we investigate whether this close relationship will change under intensive greenhouse-gas effect by analyzing simulations under two different climate background states: preindustrial era and Representative Concentration Pathway (RCP) 8.5 stabilization from the Community Climate System Model Version 4 (CCSM4). Results show a significantly reduced relationship under stabilized RCP8.5 climate state, such a less correlated EASM with the sea level pressure in the southern Indian Ocean and the SH branch of local Hadley Cell. Further analysis suggests that the collapse of the Atlantic Meridional Overturning Circulation (AMOC) due to this warming leads to a less vigorous northward meridional heat transport, a decreased intertropical temperature contrast in boreal summer, which produces a weaker cross-equatorial Hadley Cell in the monsoonal region and a reduced Interhemispheric Mass Exchange (IME). Since the monsoonal IME acts as a bridge connecting EASM and SH circulation, the reduced IME weakens this connection. By performing freshwater hosing experiment using the Flexible Global Ocean—Atmosphere—Land System model, Grid-point Version 2 (FGOALS-g2), we show a weakened relationship between the EASM and SH circulation as in CCSM4 when AMOC collapses. Our results suggest that a substantially weakened AMOC is the main driver leading to the EASM, which is less affected by SH circulation in the future warmer climate.

Interactions between relay helix and Src homology 1 domain helix (SH1) drive the converter domain rotation during the recovery stroke of myosin II

PubMed Central

Baumketner, Andrij

2012-01-01

Myosin motor protein exists in two alternative conformations, pre-recovery state M* and post-recovery state M**, upon ATP binding. The details of the M*-to-M** transition, known as the recovery stroke to reflect its role as the functional opposite of the force-generating power stroke, remain elusive. The defining feature of the post-recovery state is a kink in the relay helix, a key part of the protein involved in force generation. In this paper we determine the interactions that are responsible for the appearance of the kink. We design a series of computational models that contain three other segments, relay loop, converter domain and Src homology 1 domain helix (SH1), with which relay helix interacts, and determine their structure in accurate replica exchange molecular dynamics simulations in explicit solvent. By conducting an exhaustive combinatorial search among different models we find that: 1) the converter domain must be attached to the relay helix during the transition, so it does not interfere with other parts of the protein, 2) the structure of the relay helix is controlled by SH1 helix. The kink is strongly coupled to the position of SH1 helix. It arises as a result of direct interactions between SH1 and the relay helix and leads to a rotation of the C-terminal part of the relay helix which is subsequently transmitted to the converter domain. PMID:22411190

Short Hairpin RNA Gene Silencing of Prolyl Hydroxylase-2 with a Minicircle Vector Improves Neovascularization of Hindlimb Ischemia

PubMed Central

Lijkwan, Maarten A.; Hellingman, Alwine A.; Bos, Ernst J.; van der Bogt, Koen E.A.; Huang, Mei; Kooreman, Nigel G.; de Vries, Margreet R.; Peters, Hendrika A.B.; Robbins, Robert C.; Quax, Paul H.A.

2014-01-01

Abstract In this study, we target the hypoxia inducible factor-1 alpha (HIF-1-alpha) pathway by short hairpin RNA interference therapy targeting prolyl hydroxylase-2 (shPHD2). We use the minicircle (MC) vector technology as an alternative for conventional nonviral plasmid (PL) vectors in order to improve neovascularization after unilateral hindlimb ischemia in a murine model. Gene expression and transfection efficiency of MC and PL, both in vitro and in vivo, were assessed using bioluminescence imaging (BLI) and firefly luciferase (Luc) reporter gene. C57Bl6 mice underwent unilateral electrocoagulation of the femoral artery and gastrocnemic muscle injection with MC-shPHD2, PL-shPHD2, or phosphate-buffered saline (PBS) as control. Blood flow recovery was monitored using laser Doppler perfusion imaging, and collaterals were visualized by immunohistochemistry and angiography. MC-Luc showed a 4.6-fold higher in vitro BLI signal compared with PL-Luc. BLI signals in vivo were 4.3×105±3.3×105 (MC-Luc) versus 0.4×105±0.3×105 (PL-Luc) at day 28 (p=0.016). Compared with PL-shPHD2 or PBS, MC-shPHD2 significantly improved blood flow recovery, up to 50% from day 3 until day 14 after ischemia induction. MC-shPHD2 significantly increased collateral density and capillary density, as monitored by alpha-smooth muscle actin expression and CD31+ expression, respectively. Angiography data confirmed the histological findings. Significant downregulation of PHD2 mRNA levels by MC-shPHD2 was confirmed by quantitative polymerase chain reaction. Finally, Western blot analysis confirmed significantly higher levels of HIF-1-alpha protein by MC-shPHD2, compared with PL-shPHD2 and PBS. This study provides initial evidence of a new potential therapeutic approach for peripheral artery disease. The combination of HIF-1-alpha pathway targeting by shPHD2 with the robust nonviral MC plasmid improved postischemic neovascularization, making this approach a promising potential treatment option for critical limb ischemia. PMID:24090375

Mass balance model parameter transferability on a tropical glacier

NASA Astrophysics Data System (ADS)

Gurgiser, Wolfgang; Mölg, Thomas; Nicholson, Lindsey; Kaser, Georg

2013-04-01

The mass balance and melt water production of glaciers is of particular interest in the Peruvian Andes where glacier melt water has markedly increased water supply during the pronounced dry seasons in recent decades. However, the melt water contribution from glaciers is projected to decrease with appreciable negative impacts on the local society within the coming decades. Understanding mass balance processes on tropical glaciers is a prerequisite for modeling present and future glacier runoff. As a first step towards this aim we applied a process-based surface mass balance model in order to calculate observed ablation at two stakes in the ablation zone of Shallap Glacier (4800 m a.s.l., 9°S) in the Cordillera Blanca, Peru. Under the tropical climate, the snow line migrates very frequently across most of the ablation zone all year round causing large temporal and spatial variations of glacier surface conditions and related ablation. Consequently, pronounced differences between the two chosen stakes and the two years were observed. Hourly records of temperature, humidity, wind speed, short wave incoming radiation, and precipitation are available from an automatic weather station (AWS) on the moraine near the glacier for the hydrological years 2006/07 and 2007/08 while stake readings are available at intervals of between 14 to 64 days. To optimize model parameters, we used 1000 model simulations in which the most sensitive model parameters were varied randomly within their physically meaningful ranges. The modeled surface height change was evaluated against the two stake locations in the lower ablation zone (SH11, 4760m) and in the upper ablation zone (SH22, 4816m), respectively. The optimal parameter set for each point achieved good model skill but if we transfer the best parameter combination from one stake site to the other stake site model errors increases significantly. The same happens if we optimize the model parameters for each year individually and transfer these combinations to the other year. We show that multi-site and multi-year analyses are crucial before extrapolating ablation modeling to larger glacier areas. So far tested surface albedo schemes and respective parameterizations can obviously not satisfyingly reproduce the dynamics of glacier surface conditions at our study site and new solutions to the problem have to be explored.

Evidence of Enhanced Subrosion in a Fault Zone and Characterization of Hazard Zones with Elastic Parameters derived from SH-wave reflection Seismics and VSP

NASA Astrophysics Data System (ADS)

Wadas, S. H.; Tanner, D. C.; Tschache, S.; Polom, U.; Krawczyk, C. M.

2017-12-01

Subrosion, the dissolution of soluble rocks, e.g., sulfate, salt, or carbonate, requires unsaturated water and fluid pathways that enable the water to flow through the subsurface and generate cavities. Over time, different structures can occur that depend on, e.g., rock solubility, flow rate, and overburden type. The two main structures are sinkholes and depressions. To analyze the link between faults, groundwater flow, and soluble rocks, and to determine parameters that are useful to characterize hazard zones, several shear-wave (SH) reflection seismic profiles were surveyed in Thuringia in Germany, where Permian sulfate rocks and salt subcrop close to the surface. From the analysis of the seismic sections we conclude that areas affected by tectonic deformation phases are prone to enhanced subrosion. The deformation of fault blocks leads to the generation of a damage zone with a dense fracture network. This increases the rock permeability and thus serves as a fluid pathway for, e.g., artesian-confined groundwater. The more complex the fault geometry and the more interaction between faults, the more fractures are generated, e.g., in a strike slip-fault zone. The faults also act as barriers for horizontal groundwater flow perpendicular to the fault surfaces and as conduits for groundwater flow along the fault strike. In addition, seismic velocity anomalies and attenuation of seismic waves are observed. Low velocities <200 m/s and high attenuation may indicate areas affected by subrosion. Other parameters that characterize the underground stability are the shear modulus and the Vp/Vs ratio. The data revealed zones of low shear modulus <100 MPa and high Vp/Vs ratio >2.5, which probably indicate unstable areas due to subrosion. Structural analysis of S-wave seismics is a valuable tool to detect near-surface faults in order to determine whether or not an area is prone to subrosion. The recognition of even small fault blocks can help to better understand the hydrodynamic groundwater conditions, which is another key factor to understand the subrosion process. The elastic parameters derived from seismic velocities can help to identify possible zones of instability.

Constraints on Shear Wave Velocity Heterogeneity and Anisotropy in D' from Finite-Frequency Differential Traveltime Residual Analysis

NASA Astrophysics Data System (ADS)

Liao, T.; Hung, S.; Andrad, E. D.; Liu, Q.

2013-12-01

The D'' region which lies in the lowermost ~250 km of the mantle has long been postulated as a major thermo-chemical boundary layer in the earth's dynamic evolution, where the upwelling plumes most likely originate and the downwelling cold slabs terminate. Numerous seismological investigations have found seismically distinct features, revealing the presence of both strong velocity heterogeneity and anisotropy near the core-mantle boundary. In recent years, the rapid growth of broadband seismograph array data and the advent of array processing methods and finite-frequency wave theory hold great promise for improving global coverage of seismic constraints for refinement of the details and complexity of the D' structure. In this study, we collect all recorded and available broadband waveforms from earthquakes with epicentral distances of 40-145o and magnitudes greater than 5.8 during 2002-2012. A cluster analysis (Houser at al. 2008) is then adopted to simultaneously group the seismic phases of interest with similar waveforms together as clusters and measure relative traveltime shifts between them in the same cluster by waveform cross correlation. We construct a dataset of differential traveltime residuals from composite phases, S(Sdiff), SKS, SKKS, ScS and multiply-reflected ScS phases commonly used to constrain both elastic wave speed heterogeneity and anisotropy in the lowermost mantle. While the splitting of Sdiff phases between the vertically (SV) and transversely (SH) polarized components after correcting for upper mantle anisotropy constrained by SKS/SKKS splitting has been identified as evidence for seismic anisotropy in the D' layer, distinct difference in finite-frequency sensitivity for SVdiff and SHdiff waves may lead to apparent splitting in the isotropic heterogeneous earth (Komatitsch et al. 2010). Finite-frequency sensitivity kernels for measured Sdiff traveltime anomalies, constructed with the interactions of forward and adjoint wavefields accurately calculated by a numerical spectral element method, will be utilized to investigate their contribution to the observed splitting times between the SH and SV components and characterize the inherent elastic anisotropy in D'.

The feasibility of inverting for flow in the lowermost mantle (Invited)

NASA Astrophysics Data System (ADS)

Nowacki, A.; Walpole, J.; Wookey, J. M.; Walker, A.; Forte, A. M.; Masters, G.; Kendall, J. M.

2013-12-01

At the core-mantle boundary (CMB), the largest change in physical properties occurs within the Earth. Furthermore, up to a few hundred kilometres above the CMB--the region known as D″--the largest lateral variations in seismic wave speed are observed outside the upper mantle. Observations of shear wave splitting in D″ shows that these variations are dependent not only on position, but also wave propagation direction and polarisation; that is, strong seismic anisotropy is a pervasive feature of D″, just as in the upper mantle (UM). Similarly to the UM, it is frequently argued that alignment of anisotropic minerals due to flow is the cause of this. Were this the case, this anisotropy could be used to retrieve the recent strain history of the lowermost mantle. Recent modelling of mineral alignment in D″ [1,2] has shown that quite simple models of mantle flow do not produce simple anisotropy, hence one must make use of the most information about the type and orientation of anisotropy possible. Global inversion for radial anisotropy permits complete coverage of the CMB but so far has relied on core-diffracted waves (Sdiff) which are challenging to accurately interpret [3]. The assumption of radial anisotropy may also be too restrictive [4]. Shear wave splitting studies do not impose any assumed type of anisotropy but have been traditionally limited in their geographical scope. We present the results of a consistent analysis of core-reflected shear waves (ScS) for shear wave splitting, producing near-global coverage [5] of D″. Over 12,000 individual measurements are made, from ~470 events. Along well-studied paths such as beneath the Caribbean, our results agree excellently with previous work. Elsewhere, a full range of fast orientations are observed, indicating that simple SV-SH comparisons may not accurately reflect the elasticity present. We compare these results to candidate models of D″ anisotropy assuming a simple flow model derived from geophysical observables. A number of different mechanisms (different slip systems causing alignment of MgSiO3-perovskite, -post-perovskite or MgO) are possible, hence we compute the expected seismic response for several. To accurately recover the wave field, no constraints on symmetry or type of anisotropy are possible, so we make use of the spectral element method. It is necessary to model wave propagation at the correct frequencies (~0.2 Hz), so computations must be performed on thousands of CPUs, using TBs of memory. We use a modified version of SPECFEM3D_GLOBE which does not require disk I/O, removing the main computational bottleneck. This suite of results allows us to contemplate the challenges to be faced in recovering dynamics from measurements of seismic anisotropy in the lowermost mantle. While robustly testing competing models of flow and deformation is within reach, direct inversion is still very much a work in progress. [1] Walker et al. (2011) Geochem., Geophys., Geosys., 12:Q10006. [2] Wenk et al. (2011) Earth Planet. Sci. Lett., 306:33-45. [3] Maupin (1994) Phys. Earth Planet. Inter., 87:1-32. [4] Nowacki et al. (2010) Nature, 467:1091-1095. [5] Houser et al. (2008) Geophys. J. Int., 174:195-212.

Moment tensor solutions estimated using optimal filter theory for 51 selected earthquakes, 1980-1984

USGS Publications Warehouse

Sipkin, S.A.

1987-01-01

The 51 global events that occurred from January 1980 to March 1984, which were chosen by the convenors of the Symposium on Seismological Theory and Practice, have been analyzed using a moment tensor inversion algorithm (Sipkin). Many of the events were routinely analyzed as part of the National Earthquake Information Center's (NEIC) efforts to publish moment tensor and first-motion fault-plane solutions for all moderate- to large-sized (mb>5.7) earthquakes. In routine use only long-period P-waves are used and the source-time function is constrained to be a step-function at the source (??-function in the far-field). Four of the events were of special interest, and long-period P, SH-wave solutions were obtained. For three of these events, an unconstrained inversion was performed. The resulting time-dependent solutions indicated that, for many cases, departures of the solutions from pure double-couples are caused by source complexity that has not been adequately modeled. These solutions also indicate that source complexity of moderate-sized events can be determined from long-period data. Finally, for one of the events of special interest, an inversion of the broadband P-waveforms was also performed, demonstrating the potential for using broadband waveform data in inversion procedures. ?? 1987.

Mid-Mantle Interaction Between the Big, Active Samoan Plume and the Tonga-Kermadec Slabs

NASA Astrophysics Data System (ADS)

Chang, S. J.; Ferreira, A. M. G.; Faccenda, M.

2015-12-01

Mantle plumes play an efficient role in transferring heat from the core-mantle boundary to the surface, where they significantly influence plate tectonics. It is well known that, upon impinging on the lithosphere at spreading ridges or intra-oceanic settings, mantle plumes generate hotspots, Large Igneous Provinces and considerable dynamic topography. However, it is still poorly understood which is the active role of mantle plumes on subducting slabs. Here we show that the stagnancy and fastest trench retreat of the Tonga slab in Southwestern Pacific are consistent with an interaction with the big Samoan plume and the Hikurangi plateau. Our findings are based on comparisons between 3-D anisotropic tomography images and 3-D petrological-thermo-mechanical models, which show complex mantle flow around the slab and intense deformation and anisotropy in the transition zone, explaining several unique features in the Fiji-Tonga area self-consistently. We also found that horizontally polarized shear waves (SH) are faster than vertically polarized shear waves (SV) in the mid mantle beneath the Tonga slab, which may indicate a dominant dislocation creep mechanism during the slab-plume interaction. We propose possible slip systems of bridgmanite in the lower mantle that reconcile the observed seismic anisotropy with thermo-mechanical calculations.

Upper mantle structure of shear-waves velocities and stratification of anisotropy in the Afar Hotspot region

NASA Astrophysics Data System (ADS)

Sicilia, D.; Montagner, J.-P.; Cara, M.; Stutzmann, E.; Debayle, E.; Lépine, J.-C.; Lévêque, J.-J.; Beucler, E.; Sebai, A.; Roult, G.; Ayele, A.; Sholan, J. M.

2008-12-01

The Afar area is one of the biggest continental hotspots active since about 30 Ma. It may be the surface expression of a mantle "plume" related to the African Superswell. Central Africa is also characterized by extensive intraplate volcanism. Around the same time (30 Ma), volcanic activity re-started in several regions of the African plate and hotspots such as Darfur, Tibesti, Hoggar and Mount Cameroon, characterized by a significant though modest volcanic production. The interactions of mantle upwelling with asthenosphere, lithosphere and crust remain unclear and seismic anisotropy might help in investigating these complex interactions. We used data from the global seismological permanent FDSN networks (GEOSCOPE, IRIS, MedNet, GEO- FON, etc.), from the temporary PASSCAL experiments in Tanzania and Saudi Arabia and a French deployment of 5 portable broadband stations surrounding the Afar Hotspot. A classical two-step tomographic inversion from surface waves performed in the Horn of Africa with selected Rayleigh wave and Love wave seismograms leads to a 3D-model of both S V velocities and azimuthal anisotropy, as well as radial SH/ SV anisotropy, with a lateral resolution of 500 km. The region is characterized by low shear-wave velocities beneath the Afar Hotspot, the Red Sea, the Gulf of Aden and East of the Tanzania Craton to 400 km depth. High velocities are present in the Eastern Arabia and the Tanzania Craton. The results of this study enable us to rule out a possible feeding of the Central Africa hotspots from the "Afar plume" above 150-200 km. The azimuthal anisotropy displays a complex pattern near the Afar Hotspot. Radial anisotropy, although poorly resolved laterally, exhibits S H slower than S V waves down to about 150 km depth, and a reverse pattern below. Both azimuthal and radial anisotropies show a stratification of anisotropy at depth, corresponding to different physical processes. These results suggest that the Afar hotspot has a different and deeper origin than the other African hotspots (Darfur, Tibesti, Hoggar). These latter hotspots can be traced down to 200 km from S-wave velocity but have no visible effect on radial and azimuthal anisotropy.

Combining active and passive seismic methods for the characterization of urban sites in Cairo, Egypt

NASA Astrophysics Data System (ADS)

Adly, Ashraf; Poggi, Valerio; Fäh, Donat; Hassoup, Awad; Omran, Awad

2017-07-01

The geology at Kottamiya, Rehab City and Zahraa-Madinat-Nasr to the East of Cairo (Egypt) is composed of low-velocity sediments on top of a rigid rock basement. Such sediments include the loose sands of the Gebel Ahmar formation, marl and shales of Maadi formation, in addition to sparse quaternary soil covers. Due to the contrast of the seismic impedance with the underlying bedrock, these soft sediments have the potential of considerably amplifying the ground motion during an earthquake. For the evaluation of site-specific seismic hazard, we computed the seismic site response in these areas by developing 1-D velocity models and derived average seismic velocities, including Vs30. To do that, we applied different active and passive source techniques, including the horizontal to vertical Fourier spectral ratio of ambient vibration recordings and multichannel analysis of artificially generated surface waves. A set of models representing the velocity structure of the site is then obtained by combined inversion of Rayleigh wave dispersion curves and ellipticity functions. While dispersion curves are used to constrain the uppermost low-velocity part of the soil profile, ellipticity helps in resolving the structure at the depth of the sediment-bedrock interface. From the retrieved velocity models, numerical ground-motion amplification is finally derived using 1-D SH-wave transfer function. We account for uncertainty in amplification by using a statistical model that accounts for the misfit of all the inverted velocity profiles. The study reveals that the different sites experience an important frequency-dependent amplification, with largest amplification occurring at the resonance frequencies of the sites. Amplification up to a factor of 5 is found, with some variability depending on the soil type (Vs30 ranges between 340 and 415 m s-2). Moreover, amplification is expected in the frequency range that is important for buildings (0.8-10 Hz), which is additional confirmation for the need of microzonation analysis of the area. The obtained results will be used for the development of a new seismic hazard model.

Short and long-term exposure of CNS cell lines to BPA-f a radiosensitizer for boron neutron capture therapy: safety dose evaluation by a battery of cytotoxicity tests.

PubMed

De Simone, U; Manzo, L; Ferrari, C; Bakeine, J; Locatelli, C; Coccini, T

2013-03-01

Despite the current clinical use of boronophenylalanine-fructose (BPA-f), as radiosensitizer, in BNCT application for brain tumors, still remains to be determined the safety dose of this agent. We evaluated the potential risk of primary BPA-f toxicity before neutronic irradiation at different concentrations (0-100μgBeq/ml) after short- and long-term exposure (4-48h and 7-10 days), using a battery of tests (i.e. MTT assay, calcein-AM/Propidium Iodide staining, clonogenic test) in CNS cell models (D384 and SH-SY5Y), and non-neuronal primary human fibroblasts (F26). MTT data showed: (i) no cytotoxic effects after short-term exposure (4h) to any of BPA-f concentrations tested in all cell models; (ii) dose- and time-dependent mitochondrial activity impairment in D384 and SH-SY5Y cells only (with 60% and 40% cell death in D384 and SH-SY5Y, respectively, after 48h exposure to BPA-f 100μgBeq/ml). By Calcein-AM/PI staining, BPA-f treatment was specific toward SH-SY5Y cells only: a dose-dependent cell density reduction was observed, with a more pronounced effect after 48h exposure (15-40% at doses ranging 20-100μgBeq/ml). Clonogenic data revealed dose-dependent decrease of cell proliferative capacity in all cell lines, still the SH-SY5Y cells were the most sensitive ones: the lowest dose (20μgBeq/ml) produced 90% cell decrease. These results indicate dose- and time-dependent cytotoxic effects of BPA-f, with CNS cells showing a lower tolerance compared to fibroblasts. Long-term exposure to BPA-f compromised the proliferative capacity regardless of cell model type (cell sensitivity being SH-SY5Y>D384>F26). In short-time exposure, BPA-f exhibits a safe dosage up to 40μgBeq/ml for the viability of CNS cell lines. Copyright © 2012 Elsevier Inc. All rights reserved.

Severe Hypoglycemia and Diabetic Ketoacidosis among Youth with Type 1 Diabetes in the T1D Exchange Clinic Registry

PubMed Central

Cengiz, Eda; Xing, Dongyuan; Wong, Jenise C.; Wolfsdorf, Joseph I.; Haymond, Morey W.; Rewers, Arleta; Shanmugham, Satya; Tamborlane, William V.; Willi, Steven M.; Seiple, Diane L.; Miller, Kellee M.; DuBose, Stephanie N.; Beck, Roy W.

2014-01-01

Objective Severe hypoglycemia (SH) and diabetic ketoacidosis (DKA) are common serious acute complications of type 1 diabetes (T1D). The aim of this study was to determine the frequency of SH and DKA and identify factors related to their occurrence in the T1D Exchange pediatric and young adult cohort. Research Design and Methods The analysis included 13,487 participants in the T1D Exchange clinic registry aged 2-<26 years with T1D ≥2 years. Separate logistic regression models were used to evaluate the association of baseline demographic and clinical factors with the occurrence of SH or DKA in the prior 12 months. Results Non-White race, no private health insurance and lower household income were associated with higher frequencies of both SH and DKA (p<0.001). SH frequency was highest in children <6 years old (p=0.005), but across the age range, SH was not associated with HbA1c levels after controlling for other factors (p=0.72). DKA frequency was highest in adolescents (p<0.001) and associated with higher HbA1c (p<0.001). Conclusions Our data show that poor glycemic control increases the risk of DKA but does not protect against severe hypoglycemia in youth and young adults with type 1 diabetes. The high frequencies of SH and DKA observed in disadvantaged minorities with T1D highlight the need for targeted interventions and new treatment paradigms for patients in these high risk groups. PMID:23469984

Dysregulation of Aldosterone Secretion in Mast Cell-Deficient Mice.

PubMed

Boyer, Hadrien-Gaël; Wils, Julien; Renouf, Sylvie; Arabo, Arnaud; Duparc, Céline; Boutelet, Isabelle; Lefebvre, Hervé; Louiset, Estelle

2017-12-01

Resident adrenal mast cells have been shown to activate aldosterone secretion in rat and man. Especially, mast cell proliferation has been observed in adrenal tissues from patients with aldosterone-producing adrenocortical adenoma. In the present study, we show that the activity of adrenal mast cells is stimulated by low-sodium diet and correlates with aldosterone synthesis in C57BL/6 and BALB/c mice. We have also investigated the regulation of aldosterone secretion in mast cell-deficient C57BL/6 Kit W-sh/W-sh mice in comparison with wild-type C57BL/6 mice. Kit W-sh/W-sh mice submitted to normal sodium diet had basal plasma aldosterone levels similar to those observed in wild-type animals. Conversely, low-sodium diet unexpectedly induced an exaggerated aldosterone response, which seemed to result from an increase in adrenal renin and angiotensin type 1 receptor expression. Severe hyperaldosteronism was associated with an increase in systolic blood pressure and marked hypokalemia, which favored polyuria. Adrenal renin and angiotensin type 1 receptor overexpression may represent a compensatory mechanism aimed at activating aldosterone production in the absence of mast cells. Finally, C57BL/6 Kit W-sh/W-sh mice represent an unexpected animal model of primary aldosteronism, which has the particularity to be triggered by sodium restriction. © 2017 American Heart Association, Inc.

Annual and inter-annual variations of 6.5-day-planetary-waves in MLT observed by TIMED/SABER

NASA Astrophysics Data System (ADS)

Huang, Yingying; Li, Huijun; Li, Chongyin; Zhang, Shaodong

2017-04-01

Annual and inter-annual variations of 6.5DWs in 20-110 km, 52°S-52°N, 2002-2016 are studied by using v2.0 TIMED/SABER kinetic temperature data. Firstly, global annual variations of 6.5DW's spectral power and amplitudes are obtained. Strong wave amplitudes emerge in 30°S/N-50°S/N, and peaks in altitude separate in stratosphere (40-50 km), mesosphere (80-90 km) and the lower thermosphere (100-110 km), respectively. Their annual variations are similar in both hemispheres, but different in altitude. In 40-50 km, the annual maximums emerge mostly in winters: Dec.-Jan. in the NH and Jul.-Aug. in the SH. In MLT, annual peaks arise twice in each half of year. In 80-90 km, they're mainly in equinoctial seasons and winters: May, Aug.-Sep. and Jan. in the NH and Feb., Nov. and May in the SH. In 100-110 km, they emerge mainly in equinoctial seasons: Apr.-May and Aug.-Sep. in the NH and Feb.-Mar. and Oct.-Nov. in the SH. Then, inter-annual variations of 6.5DW amplitudes during the 14-year period are studied. Frequency spectra of monthly-mean amplitudes show that, main dynamics in long-term variations of 6.5DWs are AO and SAO in both hemispheres. Besides, QBO are visible in both hemispheres and 4-month period signals are noticed in the NH in MLT. Amplitudes of SAO, AO and QBO are obtained by bandpass filter. Their amplitudes are comparable in stratosphere and mesosphere, and QBO signals are weaker than the others in the LT. Vertical variations both of SAO and AO amplitudes are very stable. AO structures have little inter-annual changes, while inter-annual variations of SAO are significant and are related with 6.5DW. It means that annual and inter-annual variations of 6.5DW are mainly controlled by AO and SAO, respectively. Although QBO signals are weaker and their variations are less regular than AO and SAO, their phases seems to relate with inter-annual variations of 6.5DW as well.

The numerical calculation of hydrological processes in the coastal zone of the Black Sea region in the city of Poti

NASA Astrophysics Data System (ADS)

Saghinadze, Ivane; Pkhakadze, Manana

2016-04-01

(The article was published with support of the Sh. Rustaveli National Science Foundation) The serious environmental problems started in Poti after transfer of the main flow of the river Rioni to the north. As a result the flooding of the city stopped, but the reduction of water consumption in the city channel, caused a decrease of the sediments carried away by the river, what leads to coastal erosion. The coast changes are connected with the movement of the waves and currents in the coastal part of the sea. In the paper, the three-dimensional mathematical model of sediment transport and coastal zone lithodynamics is developed. The finite element formulations for the problems of wave modes, coastal currents, sediment transport and evolution of the coastal zone of the sea, are given. The numerical algorithms, implemented in the form of software. Programs are allowing to bring the solutions of the tasks to numerical results. The numerical modeling was developed in three stages. In the first stage the topography of the coast and the initial geometry of the structures are considered as an input parameters. Then, coastal wave field is calculated for the conditions prescribed in the initial wave. In the second stage, the calculated wave field is used to estimate the spatial distribution of the radiation stresses near-bottom orbital velocity. In the third stage the coastal wave fields and flow fields are used in the sub-models of sediment transport and changes in the topography of the coast. In the numerical solution of basic equations of motion of the waves, coastal currents and changes in sea bottom topography we use: finite element, finite difference methods and the method of upper relaxation, Crank-Nicolson scheme. As an example, we are giving the results of research of the wave regime in the coastal area of the city of Poti (700X600m) adjacent to the port of Poti. The bottom profile, in this area is rather complicated. During the calculations of the average rise of sea level, 0.1m was taken as the initial value, which corresponds to the actual conditions The calculations have found that in the excitement, the sediment transport rates at a depth of 10-15m are almost zero. The maximum value of the velocity of sediment transport change within 0.006-0.0065m2/s.In the case of the western waves it is essential for longshore sediment transport directions, which varies in the range 0.0015-0.0022m2/s. The rate of sediment transport perpendicular to the bank in this case is irrelevant, and their maximum values in the range 0.00001-0.000017m2/s. Changes in the water depth varies from -0.25 to 0.29m. The rate of coastal erosion south of the port of 8-10 m/year.

WAVE2 signaling mediates invasion of polarized epithelial cells by Salmonella typhimurium.

PubMed

Shi, Jing; Scita, Giorgio; Casanova, James E

2005-08-19

The bacterial pathogen Salmonella penetrates the intestinal epithelium by inducing its own phagocytosis into epithelial cells. The dramatic reorganization of the actin cytoskeleton required for internalization is driven by bacterial manipulation of host signaling pathways, including activation of the Rho family GTPase Rac1 and subsequent activation of the Arp2/3 complex. However, the mechanisms linking these two events remain poorly understood. Rac1 is thought to promote activation of the Arp2/3 complex through its interaction with suppressor of cAMP receptor/WASP family verprolin-homologous (SCAR/WAVE) family proteins, but this interaction is apparently indirect. Two different Rac1 effectors have been shown to bind WAVE2: IRSp53, the SH3 domain of which binds the WAVE2 proline-rich domain, and PIR121/Sra-1, which forms a pentameric complex containing WAVE, Abi1, Nap1, and HSPC300. However, the extent to which each of these complexes contributes to Arp2/3 complex activation in the context of Salmonella infection is unclear. Here, we show that WAVE2 is necessary for efficient invasion of epithelial cells by Salmonella typhimurium. We found that although Salmonella infection strongly promotes the formation of an IRSp53/WAVE2 complex, IRSp53 is not necessary for bacterial internalization. In contrast, disruption of the PIR121/Nap1/Abi1/WAVE2/HSPC300 complex potently inhibits bacterial uptake. These results indicate that WAVE2 is an important component in signaling pathways leading to Salmonella invasion. Although infection leads to the formation of an IRSp53/WAVE2 complex, it is the association of WAVE2 with the Abi1/Nap1/PIR121/HSPC300 complex that regulates bacterial internalization.

Static and Dynamic Anisotropic Muduli of a Shale Sample from Southern Alberta, Canada

NASA Astrophysics Data System (ADS)

Melendez Martinez, J.; Schmitt, D. R.; Kofman, R. S.

2012-12-01

Recent interest in unconventional reservoirs broadly motivates our work in laboratory measurements of seismic anisotropy. Seismic anisotropy is the variation in speed of a wave as a function of its direction of propagation and particle polarization. When assuming an isotropic model of Earth during conventional seismic processing in areas with evidence of anisotropy a poor resolution images or erroneous localization of geological structures with strong dipping is produced. Ignoring anisotropy in unconventional reservoirs leads, for example, leads to erroneous estimation of horizontal stresses, wellbore stress as well as wellbore stability during hydraulic fracturing In this sense, laboratory measurements are an important tool to study seismic anisotropy since they provide information on the anisotropy intrinsic to the rock material itself. This is important to know as this contributes to the observed seismic anisotropy that is influenced by stress states and fractures. In this work, assuming a transversally isotropic medium (VTI), elastic anisotropic moduli of a dry shale from Southern Alberta are estimated as a function of confining pressure. Estimation of elastic constants and dynamic bulk moduli in a VTI medium involves recording P and S travel times by using pulse transmission method in a minimum of three different directions. These are often taken for the sake of convenience to be perpendicular (P0o and S0o), parallel (P90o and SH90o), and oblique (P45o and SH45o) to the layering of the material with the assumption that the perpendicular and parallel directions align with the principal anisotropic axes. The pulse transmission method involves generating and recording P and S ultrasonic waves traveling through a sample. Static Bulk moduli is estimated by measuring the volumetric deformation (strain) for a given confining pressure (stress) by using strain gauges directly bonded on the sample in two different directions: perpendicular to bedding and parallel to bedding. Strain Gauges consist in an electrical resistance which measures the deformation of the sample by measuring changes in resistivity as a function of confining pressure.

Numerical investigation of interfacial transport resistance due to water droplets in proton exchange membrane fuel cell air channels

NASA Astrophysics Data System (ADS)

Koz, Mustafa; Kandlikar, Satish G.

2013-12-01

Oxygen transport resistance at the air flow channel and gas diffusion layer (GDL) interface is needed in modelling the performance of a proton exchange membrane fuel cell (PEMFC). This resistance is expressed through the non-dimensional Sherwood number (Sh). The effect of the presence of a droplet on Sh is studied numerically in an isolated air flow channel using a commercially available package, COMSOL Multiphysics®. A droplet is represented as a solid obstruction placed on the GDL-channel interface and centred along the channel width. The effect of a single droplet is first studied for a range of superficial mean air velocities and droplet sizes. Secondly, the effect of droplet spacing on Sh is studied through simulations of two consecutive droplets. Lastly, multiple droplets in a row are studied as a more representative case of a PEMFC air flow channel. The results show that the droplets significantly increase Sh above the fully developed value in the wake region. This enhancement increases with the number of droplets, droplet size, and superficial mean air velocity. Moreover, the analogy between mass and heat transfer is investigated by comparing Sh to the equivalent Nusselt number.

Scaffold Protein SLP-76 Primes PLCγ1 for Activation by ITK-Mediated Phosphorylation.

PubMed

Devkota, Sujan; Joseph, Raji E; Min, Lie; Bruce Fulton, D; Andreotti, Amy H

2015-08-28

Activation of the phospholipase, PLCγ1, is critical for proper T cell signaling following antigen receptor engagement. In T cells, the Tec family kinase, interleukin-2-induced tyrosine kinase (ITK), phosphorylates PLCγ1 at tyrosine 783 (Y783) leading to activation of phospholipase function and subsequent production of the second messengers inositol 1,4,5-trisphosphate and diacylglycerol. In this work, we demonstrate that PLCγ1 can be primed for ITK-mediated phosphorylation on Y783 by a specific region of the adaptor protein, SLP-76. The SLP-76 phosphotyrosine-containing sequence, pY(173)IDR, does not conform to the canonical recognition motif for an SH2 domain yet binds with significant affinity to the C-terminal SH2 domain of PLCγ1 (SH2C). The SLP-76 pY(173) motif competes with the autoinhibited conformation surrounding the SH2C domain of PLCγ1 leading to exposure of the ITK recognition element on the PLCγ1 SH2 domain and release of the target tyrosine, Y783. These data contribute to the evolving model for the molecular events occurring early in the T cell activation process. Copyright © 2015 Elsevier Ltd. All rights reserved.

Essential roles of mitochondrial depolarization in neuron loss through microglial activation and attraction toward neurons.

PubMed

Nam, Min-Kyung; Shin, Hyun-Ah; Han, Ji-Hye; Park, Dae-Wook; Rhim, Hyangshuk

2013-04-10

As life spans increased, neurodegenerative disorders that affect aging populations have also increased. Progressive neuronal loss in specific brain regions is the most common cause of neurodegenerative disease; however, key determinants mediating neuron loss are not fully understood. Using a model of mitochondrial membrane potential (ΔΨm) loss, we found only 25% cell loss in SH-SY5Y (SH) neuronal mono-cultures, but interestingly, 85% neuronal loss occurred when neurons were co-cultured with BV2 microglia. SH neurons overexpressing uncoupling protein 2 exhibited an increase in neuron-microglia interactions, which represent an early step in microglial phagocytosis of neurons. This result indicates that ΔΨm loss in SH neurons is an important contributor to recruitment of BV2 microglia. Notably, we show that ΔΨm loss in BV2 microglia plays a crucial role in microglial activation and phagocytosis of damaged SH neurons. Thus, our study demonstrates that ΔΨm loss in both neurons and microglia is a critical determinant of neuron loss. These findings also offer new insights into neuroimmunological and bioenergetical aspects of neurodegenerative disease. Copyright © 2013 Elsevier B.V. All rights reserved.

Direct hypothalamic and indirect trans-pallidal, trans-thalamic, or trans-septal control of accumbens signaling and their roles in food intake

PubMed Central

Urstadt, Kevin R.; Stanley, B. Glenn

2015-01-01

Due in part to the increasing incidence of obesity in developed nations, recent research aims to elucidate neural circuits that motivate humans to overeat. Earlier research has described how the nucleus accumbens shell (AcbSh) motivates organisms to feed by activating neuronal populations in the lateral hypothalamus (LH). However, more recent research suggests that the LH may in turn communicate with the AcbSh, both directly and indirectly, to re-tune the motivation to consume foods with homeostatic and food-related sensory signals. Here, we discuss the functional and anatomical evidence for an LH to AcbSh connection and its role in eating behaviors. The LH appears to modulate Acb activity directly, using neurotransmitters such as hypocretin/orexin or melanin concentrating hormone (MCH). The LH also indirectly regulates AcbSh activity through certain subcortical “relay” regions, such as the lateral septum (LS), ventral pallidum (VP), and paraventricular thalamus, using a variety of neurotransmitters. This review aims to summarize studies on these topics and outline a model by which LH circuits processing energy balance can modulate AcbSh neural activity to regulate feeding behavior. PMID:25741246

Which drugs are risk factors for the development of gastroesophageal reflux disease?

PubMed

Mungan, Zeynel; Pınarbaşı Şimşek, Binnur

2017-12-01

Gastroesophageal reflux disease (GERD), which is common in many communities, is associated with structural factors, eating habits, and the use of certain drugs. The use of such drugs can lead to the emergence of GERD and can also exacerbate existing reflux symptoms. These drugs can contribute to GERD by directly causing mucosal damage, by reducing lower esophageal sphincter pressure (LESP), or by affecting esophagogastric motility. In this article, we report our investigation of the relationships between GERD and medications within the scope of the "Turkish GERD Consensus Group." For the medication groups for which sufficient data were obtained (Figure 1), a systematic literature review in English was conducted using the keywords "gastroesophageal reflux" [MeSH Terms] and "anti-inflammatory agents, non-steroidal" [MeSH Terms], "gastroesophageal reflux" [MeSH Terms] and "acetylsalicylic acid" [MeSH Terms], "gastroesophageal reflux" [All Fields] and "estrogenic agents" [All Fields], "gastroesophageal reflux" [All Fields] and "progesterones" [All Fields], "gastroesophageal reflux" [All Fields] and "hormone replacement therapy" [All Fields], "gastroesophageal reflux" [MeSH Terms] and "diphosphonates" [MeSH Terms] OR "diphosphonates" [All Fields], "calcium channel blockers" [MeSH Terms] and "gastroesophageal reflux" [MeSH Terms], "gastroesophageal reflux" [MeSH Terms] and "nitrates" [MeSH Terms], "gastroesophageal reflux" [MeSH Terms] and "antidepressive agents" [MeSH Terms], "gastroesophageal reflux" [MeSH Terms] and "benzodiazepines" [MeSH Terms] and "hypnotic drugs" [MeSH Terms], "gastroesophageal reflux" [MeSH Terms] and "cholinergic antagonists" [MeSH Terms], "gastroesophageal reflux" [MeSH Terms] and "theophylline" [MeSH Terms], and "gastroesophageal reflux [MeSH Terms] AND "anti-asthmatic agents" [MeSH Terms]. The studies were analyzed and the results are presented here.

Influence of electrical boundary conditions on profiles of acoustic field and electric potential of shear-horizontal acoustic waves in potassium niobate plates.

PubMed

Kuznetsova, I E; Nedospasov, I A; Kolesov, V V; Qian, Z; Wang, B; Zhu, F

2018-05-01

The profiles of an acoustic field and electric potential of the forward and backward shear-horizontal (SH) acoustic waves of a higher order propagating in X-Y potassium niobate plate have been theoretically investigated. It has been shown that by changing electrical boundary conditions on a surface of piezoelectric plates, it is possible to change the distributions of an acoustic field and electric potential of the forward and backward acoustic waves. The dependencies of the distribution of a mechanical displacement and electrical potential over the plate thickness for electrically open and electrically shorted plates have been plotted. The influence of a layer with arbitrary conductivity placed on a one or on the both plate surfaces on the profiles under study, phase and group velocities of the forward and backward acoustic waves in X-Y potassium niobate has been also investigated. The obtained results can be useful for development of the method for control of a particle or electrical charge movement inside the piezoelectric plates, as well a sensor for definition of the thin film conductivity. Copyright © 2018 Elsevier B.V. All rights reserved.

Earthquake mechanisms from linear-programming inversion of seismic-wave amplitude ratios

USGS Publications Warehouse

Julian, B.R.; Foulger, G.R.

1996-01-01

The amplitudes of radiated seismic waves contain far more information about earthquake source mechanisms than do first-motion polarities, but amplitudes are severely distorted by the effects of heterogeneity in the Earth. This distortion can be reduced greatly by using the ratios of amplitudes of appropriately chosen seismic phases, rather than simple amplitudes, but existing methods for inverting amplitude ratios are severely nonlinear and require computationally intensive searching methods to ensure that solutions are globally optimal. Searching methods are particularly costly if general (moment tensor) mechanisms are allowed. Efficient linear-programming methods, which do not suffer from these problems, have previously been applied to inverting polarities and wave amplitudes. We extend these methods to amplitude ratios, in which formulation on inequality constraint for an amplitude ratio takes the same mathematical form as a polarity observation. Three-component digital data for an earthquake at the Hengill-Grensdalur geothermal area in southwestern Iceland illustrate the power of the method. Polarities of P, SH, and SV waves, unusually well distributed on the focal sphere, cannot distinguish between diverse mechanisms, including a double couple. Amplitude ratios, on the other hand, clearly rule out the double-couple solution and require a large explosive isotropic component.

Critical Role of the Src Homology 2 (SH2) Domain of Neuronal SH2B1 in the Regulation of Body Weight and Glucose Homeostasis in Mice

PubMed Central

Morris, David L.; Cho, Kae Won; Rui, Liangyou

2010-01-01

SH2B1 is an SH2 domain-containing adaptor protein that plays a key role in the regulation of energy and glucose metabolism in both rodents and humans. Genetic deletion of SH2B1 in mice results in obesity and type 2 diabetes. Single-nucleotide polymorphisms in the SH2B1 loci and chromosomal deletions of the SH2B1 loci associate with obesity and insulin resistance in humans. In cultured cells, SH2B1 promotes leptin and insulin signaling by binding via its SH2 domain to phosphorylated tyrosines in Janus kinase 2 and the insulin receptor, respectively. Here we generated three lines of mice to analyze the role of the SH2 domain of SH2B1 in the central nervous system. Transgenic mice expressing wild-type, SH2 domain-defective (R555E), or SH2 domain-alone (ΔN503) forms of SH2B1 specifically in neurons were crossed with SH2B1 knockout mice to generate KO/SH2B1, KO/R555E, or KO/ΔN503 compound mutant mice. R555E had a replacement of Arg555 with Glu within the SH2 domain. ΔN503 contained an intact SH2 domain but lacked amino acids 1-503. Neuron-specific expression of recombinant SH2B1, but not R555E or ΔN503, corrected hyperphagia, obesity, glucose intolerance, and insulin resistance in SH2B1 null mice. Neuron-specific expression of R555E in wild-type mice promoted obesity and insulin resistance. These results indicate that in addition to the SH2 domain, N-terminal regions of neuronal SH2B1 are also required for the maintenance of normal body weight and glucose metabolism. Additionally, mutations in the SH2 domain of SH2B1 may increase the susceptibility to obesity and type 2 diabetes in a dominant-negative manner. PMID:20484460

Critical role of the Src homology 2 (SH2) domain of neuronal SH2B1 in the regulation of body weight and glucose homeostasis in mice.

PubMed

Morris, David L; Cho, Kae Won; Rui, Liangyou

2010-08-01

SH2B1 is an SH2 domain-containing adaptor protein that plays a key role in the regulation of energy and glucose metabolism in both rodents and humans. Genetic deletion of SH2B1 in mice results in obesity and type 2 diabetes. Single-nucleotide polymorphisms in the SH2B1 loci and chromosomal deletions of the SH2B1 loci associate with obesity and insulin resistance in humans. In cultured cells, SH2B1 promotes leptin and insulin signaling by binding via its SH2 domain to phosphorylated tyrosines in Janus kinase 2 and the insulin receptor, respectively. Here we generated three lines of mice to analyze the role of the SH2 domain of SH2B1 in the central nervous system. Transgenic mice expressing wild-type, SH2 domain-defective (R555E), or SH2 domain-alone (DeltaN503) forms of SH2B1 specifically in neurons were crossed with SH2B1 knockout mice to generate KO/SH2B1, KO/R555E, or KO/DeltaN503 compound mutant mice. R555E had a replacement of Arg(555) with Glu within the SH2 domain. DeltaN503 contained an intact SH2 domain but lacked amino acids 1-503. Neuron-specific expression of recombinant SH2B1, but not R555E or DeltaN503, corrected hyperphagia, obesity, glucose intolerance, and insulin resistance in SH2B1 null mice. Neuron-specific expression of R555E in wild-type mice promoted obesity and insulin resistance. These results indicate that in addition to the SH2 domain, N-terminal regions of neuronal SH2B1 are also required for the maintenance of normal body weight and glucose metabolism. Additionally, mutations in the SH2 domain of SH2B1 may increase the susceptibility to obesity and type 2 diabetes in a dominant-negative manner.

Contraction of Abdominal Wall Muscles Influences Incisional Hernia Occurrence and Size

PubMed Central

Lien, Samuel C.; Hu, Yaxi; Wollstein, Adi; Franz, Michael G.; Patel, Shaun P.; Kuzon, William M.; Urbanchek, Melanie G.

2015-01-01

Background Incisional hernias are a complication in 10% of all open abdominal operations and can result in significant morbidity. The purpose of this study is to determine if inhibiting abdominal muscle contraction influences incisional hernia formation during laparotomy healing. We hypothesize that reducing abdominal musculature deformation reduces incisional hernia occurrence and size. Study Design Using an established rat model for incisional hernia, a laparotomy through the linea alba was closed with one mid-incision, fast-absorbing suture. Three groups were compared: a SHAM group (SHAM; n = 6) received no laparotomies while the Saline Hernia (SH; n = 6) and Botox Hernia (BH; n = 6) groups were treated once with equal volume saline or Botulinum Toxin (Botox®, Allergan) before the incomplete laparotomy closure. On post-operative day 14, the abdominal wall was examined for herniation and adhesions and contractile forces were measured for abdominal wall muscles. Results No hernias developed in SHAM rats. Rostral hernias developed in all SH and BH rats. Caudal hernias developed in all SH rats, but in only 50% of the BH rats. Rostral hernias in the BH group were 35% shorter and 43% narrower compared to those in the SH group (p < 0.05). The BH group had weaker abdominal muscles compared to the SHAM and SH groups (p < 0.05). Conclusions In our rat model, partial paralysis of abdominal muscles reduces the number and size of incisional hernias. These results confirm abdominal wall muscle contractions play a significant role in the pathophysiology of incisional hernia formation. PMID:25817097

Structure-based design of an osteoclast-selective, nonpeptide Src homology 2 inhibitor with in vivo antiresorptive activity

PubMed Central

Shakespeare, William; Yang, Michael; Bohacek, Regine; Cerasoli, Franklin; Stebbins, Karin; Sundaramoorthi, Raji; Azimioara, Mihai; Vu, Chi; Pradeepan, Selvi; Metcalf, Chester; Haraldson, Chad; Merry, Taylor; Dalgarno, David; Narula, Surinder; Hatada, Marcos; Lu, Xiaode; van Schravendijk, Marie Rose; Adams, Susan; Violette, Shelia; Smith, Jeremy; Guan, Wei; Bartlett, Catherine; Herson, Jay; Iuliucci, John; Weigele, Manfred; Sawyer, Tomi

2000-01-01

Targeted disruption of the pp60src (Src) gene has implicated this tyrosine kinase in osteoclast-mediated bone resorption and as a therapeutic target for the treatment of osteoporosis and other bone-related diseases. Herein we describe the discovery of a nonpeptide inhibitor (AP22408) of Src that demonstrates in vivo antiresorptive activity. Based on a cocrystal structure of the noncatalytic Src homology 2 (SH2) domain of Src complexed with citrate [in the phosphotyrosine (pTyr) binding pocket], we designed 3′,4′-diphosphonophenylalanine (Dpp) as a pTyr mimic. In addition to its design to bind Src SH2, the Dpp moiety exhibits bone-targeting properties that confer osteoclast selectivity, hence minimizing possible undesired effects on other cells that have Src-dependent activities. The chemical structure AP22408 also illustrates a bicyclic template to replace the post-pTyr sequence of cognate Src SH2 phosphopeptides such as Ac-pTyr-Glu-Glu-Ile (1). An x-ray structure of AP22408 complexed with Lck (S164C) SH2 confirmed molecular interactions of both the Dpp and bicyclic template of AP22408 as predicted from molecular modeling. Relative to the cognate phosphopeptide, AP22408 exhibits significantly increased Src SH2 binding affinity (IC50 = 0.30 μM for AP22408 and 5.5 μM for 1). Furthermore, AP22408 inhibits rabbit osteoclast-mediated resorption of dentine in a cellular assay, exhibits bone-targeting properties based on a hydroxyapatite adsorption assay, and demonstrates in vivo antiresorptive activity in a parathyroid hormone-induced rat model. PMID:10944210

BDNF and the maturation of posttranscriptional regulatory networks in human SH-SY5Y neuroblast differentiation.

PubMed

Goldie, Belinda J; Barnett, Michelle M; Cairns, Murray J

2014-01-01

The SH-SY5Y culture system is a convenient neuronal model with the potential to elaborate human/primate-specific transcription networks and pathways related to human cognitive disorders. While this system allows for the exploration of specialized features in the human genome, there is still significant debate about how this model should be implemented, and its appropriateness for answering complex functional questions related to human neural architecture. In view of these questions we sought to characterize the posttranscriptional regulatory structure of the two-stage ATRA differentiation, BDNF maturation protocol proposed by Encinas et al. (2000) using integrative whole-genome gene and microRNA (miRNA) expression analysis. We report that ATRA-BDNF induced significant increases in expression of key synaptic genes, brain-specific miRNA and miRNA biogenesis machinery, and in AChE activity, compared with ATRA alone. Functional annotation clustering associated BDNF more significantly with neuronal terms, and with synaptic terms not found in ATRA-only clusters. While our results support use of SH-SY5Y as a neuronal model, we advocate considered selection of the differentiation agent/s relative to the system being modeled.

Neuronal SH2B1 is essential for controlling energy and glucose homeostasis.

PubMed

Ren, Decheng; Zhou, Yingjiang; Morris, David; Li, Minghua; Li, Zhiqin; Rui, Liangyou

2007-02-01

SH2B1 (previously named SH2-B), a cytoplasmic adaptor protein, binds via its Src homology 2 (SH2) domain to a variety of protein tyrosine kinases, including JAK2 and the insulin receptor. SH2B1-deficient mice are obese and diabetic. Here we demonstrated that multiple isoforms of SH2B1 (alpha, beta, gamma, and/or delta) were expressed in numerous tissues, including the brain, hypothalamus, liver, muscle, adipose tissue, heart, and pancreas. Rat SH2B1beta was specifically expressed in neural tissue in SH2B1-transgenic (SH2B1(Tg)) mice. SH2B1(Tg) mice were crossed with SH2B1-knockout (SH2B1(KO)) mice to generate SH2B1(TgKO) mice expressing SH2B1 only in neural tissue but not in other tissues. Systemic deletion of the SH2B1 gene resulted in metabolic disorders in SH2B1(KO) mice, including hyperlipidemia, leptin resistance, hyperphagia, obesity, hyperglycemia, insulin resistance, and glucose intolerance. Neuron-specific restoration of SH2B1beta not only corrected the metabolic disorders in SH2B1(TgKO) mice, but also improved JAK2-mediated leptin signaling and leptin regulation of orexigenic neuropeptide expression in the hypothalamus. Moreover, neuron-specific overexpression of SH2B1 dose-dependently protected against high-fat diet-induced leptin resistance and obesity. These observations suggest that neuronal SH2B1 regulates energy balance, body weight, peripheral insulin sensitivity, and glucose homeostasis at least in part by enhancing hypothalamic leptin sensitivity.

Compressional-Puffing Pretreatment Enhances Neuroprotective Effects of Fucoidans from the Brown Seaweed Sargassum hemiphyllum on 6-Hydroxydopamine-Induced Apoptosis in SH-SY5Y Cells.

PubMed

Huang, Chun-Yung; Kuo, Chia-Hung; Chen, Po-Wei

2017-12-29

In this study, a compressional-puffing process (CPP) was used to pretreat Sargassum hemiphyllum (SH) and then fucoidan was extracted from SH by hot water. Three fucoidan extracts, namely SH1 (puffing at 0 kg/cm²); SH2 (puffing at 1.7 kg/cm²); and SH3 (puffing at 10.0 kg/cm²) were obtained, and their compositions and biological activities were evaluated. The results indicate that CPP increased the extraction yield, total sugar content, and molar ratios of sulfate/fucose of fucoidan and decreased molecular weight and impurities of fucoidan. The SH1-SH3 extracts exhibited characteristics of fucoidan as demonstrated by the analyses of composition, FTIR spectroscopy, NMR spectroscopy, and molecular weight. All SH1-SH3 extracts showed antioxidant activities. The SH1-SH3 extracts protected SH-SY5Y cells from 6-hydroxydopamine (6-OHDA)-induced apoptosis as illustrated by cell cycle distribution, cytochrome c release, activation of caspase-8, -9, and -3, and DNA fragmentation analyses. Additional experiments revealed that phosphorylation of Akt is involved in the opposing effects of SH1-SH3 on 6-OHDA-induced neurotoxicity. SH3 exhibited a relatively high extraction yield, the lowest levels of impurities, and was the most effective at reversing the 6-OHDA-induced neurotoxicity of SH-SY5Y cells among SH1-SH3, which taken together indicate that it may have potential as a candidate therapeutic agent for the preventive therapy of neurodegenerative diseases.

Statistical validation of brain tumor shape approximation via spherical harmonics for image-guided neurosurgery.

PubMed

Goldberg-Zimring, Daniel; Talos, Ion-Florin; Bhagwat, Jui G; Haker, Steven J; Black, Peter M; Zou, Kelly H

2005-04-01

Surgical planning now routinely uses both two-dimensional (2D) and three-dimensional (3D) models that integrate data from multiple imaging modalities, each highlighting one or more aspects of morphology or function. We performed a preliminary evaluation of the use of spherical harmonics (SH) in approximating the 3D shape and estimating the volume of brain tumors of varying characteristics. Magnetic resonance (MR) images from five patients with brain tumors were selected randomly from our MR-guided neurosurgical practice. Standardized mean square reconstruction errors (SMSRE) by tumor volume were measured. Validation metrics for comparing performances of the SH method against segmented contours (SC) were the dice similarity coefficient (DSC) and standardized Euclidean distance (SED) measure. Tumor volume range was 22,413-85,189 mm3, and range of number of vertices in triangulated models was 3674-6544. At SH approximations with degree of at least 30, SMSRE were within 1.66 x 10(-5) mm(-1). Summary measures yielded a DSC range of 0.89-0.99 (pooled median, 0.97 and significantly >0.7; P < .001) and an SED range of 0.0002-0.0028 (pooled median, 0.0005). 3D shapes of tumors may be approximated by using SH for neurosurgical applications.

[Algal oligosaccharides ameliorate osteoporosis via up-regulation of parathyroid hormone 1-84 and vascular endothelial growth factor].

PubMed

Wang, Li; Wang, Haiya; Fang, Ningyuan

2016-06-01

To determine whether algal oligosac- charide~ affects the levels of parathyroid hormone 1-84 (PTH1-84) and vascular endothelial growth fac- tor (VEGF). An osteoporosis rat model was estab- lished via bilateral ovariectomy. The model rats were fed algal oligosaccharides (molecular weights: 600-1, 200 Da) for 4 months. Bone mineral density (BMD) was then measured. MG-63 human osteo- blastic cells were treated with algal oligosaccha- rides. The expression of PTH1-84 and VEGF was then examined. Oligosaccharide-treated cells were transfected with PTH1-84 short hairpin RNA (shR- NA), VEGF shRNA, and PTH1-84-VEGF small interfer- ing RNA (siRNA). The growth rates were then com- pared between transfected and non-transfected Algal oligosaccharides increased the BMD of the osteoporosis rat model compared with untreated controls (P < 0.05). When MG-63 cells were treated with algal oligosaccharides, the growth rate increased by 25% compared with the control group at day 3 (P < 0.05). In addition, the ex- pression of P.TH84 and VEGF was. enhanced. Con- versey w hen tecells were tranfected with PTH84 shRNA, VEGF shRNA, or PTH1-84-VEGF siR- NA, the growth rate was decreased by 17%, 35% and 70%, respectively, compared with controls at day 3 (P < 0.05). Algal oligosaccharides ameliorate osteoporosis via up-regulation of PTH1-84 and VEGF. Algal oligosaccharides should be developed as a potential drug for osteoporosis treatment.

The involvement of Eag1 potassium channels and miR-34a in rotenone-induced death of dopaminergic SH-SY5Y cells

PubMed Central

Horst, Camila Hillesheim; Titze-De-Almeida, Ricardo; Titze-De-Almeida, Simoneide Souza

2017-01-01

The loss of dopaminergic neurons and the resultant motor impairment are hallmarks of Parkinson's disease. The SH-SY5Y cell line is a model of dopaminergic neurons, and allows for the study of dopaminergic neuronal injury. Previous studies have revealed changes in Ether à go-go 1 (Eag1) potassium channel expression during p53-induced SH-SY5Y apoptosis, and the regulatory involvement of microRNA-34a (miR-34a) was demonstrated. In the present study, the involvement of Eag1 and miR-34a in rotenone-induced SH-SY5Y cell injury was investigated. Rotenone is a neurotoxin, which is often used to generate models of Parkinson's disease, since it causes the death of nigrostriatal neurons by inducing intracellular aggregation of alpha synuclein and ubiquitin. In the present study, rotenone resulted in a dose-dependent decrease in cell viability, as revealed by 3-(4,5-dimethylthiazol-2-yl)-2,5-diphenyltetrazolium bromide (MTT) and trypan blue cell counting assays. In addition, Eag1 was demonstrated to be constitutively expressed by SH-SY5Y cells, and involved in cell viability. Suppression of Eag1 with astemizole resulted in a dose-dependent decrease in cell viability, as revealed by MTT assay. Astemizole also enhanced the severity of rotenone-induced injury in SH-SY5Y cells. RNA interference against Eag1, using synthetic small interfering RNAs (siRNAs), corroborated this finding, as siRNAs potentiated rotenone-induced injury. Eag1-targeted siRNAs (kv10.1-3 or EAG1hum_287) resulted in a statistically significant 16.4–23.5% increase in vulnerability to rotenone. An increased number of apoptotic nuclei were observed in cells transfected with EAG1hum_287. Notably, this siRNA intensified rotenone-induced apoptosis, as revealed by an increase in caspase 3/7 activity. Conversely, a miR-34a inhibitor was demonstrated to exert neuroprotective effects. The viability of cells exposed to rotenone for 24 or 48 h and treated with miR-34a inhibitor was restored by 8.4–8.8%. In conclusion, Eag1 potassium channels and miR-34a are involved in the response to rotenone-induced injury in SH-SY5Y cells. The neuroprotective effect of mir-34a inhibitors merits further investigations in animal models of Parkinson's disease. PMID:28259991

Estimates of Rayleigh-to-Love wave ratio in microseisms by co-located Ring Laser and STS-2

NASA Astrophysics Data System (ADS)

Tanimoto, Toshiro; Hadziioannou, Céline; Igel, Heiner; Wassermann, Joachim; Schreiber, Ulrich; Gebauer, André

2015-04-01

In older studies of microseisms (seismic noise), it was often assumed that microseisms, especially the secondary microseisms (0.1-0.3 Hz), mainly consist of Rayleigh waves. However, it has become clear that there exists a large amount of Love-wave energy mixed in it (e.g., Nishida et al., 2008). However, its confirmation is not necessarily straightforward and often required an array of seismographs. In this study, we take advantage of two co-located instruments, a Ring Laser and an STS-2 type seismograph, at Wettzell (WET), Germany (Schreiber et al., 2009). The Ring Laser records rotation (its vertical component) and is thus only sensitive to Love waves. The vertical component of STS-2 seismograph is only sensitive to Rayleigh waves. Therefore, a combination of the two instruments provides a unique opportunity to separate Rayleigh waves and Love waves in microseisms. The question we address in this paper is the ratio of Rayleigh waves to Love waves in microseisms. For both instruments, we analyze data from 2009 to 2014. Our basic approach is to create stacked vertical acceleration spectra for Rayleigh waves from STS-2 and stacked transverse acceleration spectra for Love waves from Ring Laser. The two spectra at Earth's surface can then be compared directly by their amplitudes. The first step in our analysis is a selection of time portions (each six-hour long) that are least affected by earthquakes. We do this by examining the GCMT (Global Centroid Moment Tensor) catalogue and also checking the PSDs for various frequency ranges. The second step is to create stacked (averaged) Fourier spectra from those selected time portions. The key is to use the same time portions for the STS-2 and the Ring Laser data so that the two can be directly compared. The vertical spectra from STS-2 are converted to acceleration spectra. The Ring Laser rotation spectra are first obtained in the unit of radians/sec (rotation rate). But as the Ring Laser spectra are dominated by fundamental-mode Love waves, the rotation spectra can be converted to transverse (SH) acceleration by multiplying them by the factor 2xCp where Cp is the Love-wave phase velocity. We used a seismic model by Fichtner et al. (2013) at WET to estimate Love-wave phase velocity. This conversion from rotation to transverse acceleration was first extensively used by Igel et al. (2005) for the analysis of lower frequency Love waves and the same relation holds for our spectral data. The two spectra provide the ratio of surface amplitudes. In the frequency range of secondary microseisms (0.10-0.35 Hz), they are comparable; near the spectral peak (~0.20 Hz), Rayleigh waves are about 20 percent larger in amplitudes but outside this peak region, Love waves have comparable or slightly larger amplitudes than Rayleigh waves. Therefore, the secondary microseisms at WET consist of similar contributions from Rayleigh waves and Love waves.

Mitochondrial free cholesterol loading sensitizes to TNF- and Fas-mediated steatohepatitis.

PubMed

Marí, Montserrat; Caballero, Francisco; Colell, Anna; Morales, Albert; Caballeria, Juan; Fernandez, Anna; Enrich, Carlos; Fernandez-Checa, José C; García-Ruiz, Carmen

2006-09-01

The etiology of progression from steatosis to steatohepatitis (SH) remains unknown. Using nutritional and genetic models of hepatic steatosis, we show that free cholesterol (FC) loading, but not free fatty acids or triglycerides, sensitizes to TNF- and Fas-induced SH. FC distribution in endoplasmic reticulum (ER) and plasma membrane did not cause ER stress or alter TNF signaling. Rather, mitochondrial FC loading accounted for the hepatocellular sensitivity to TNF due to mitochondrial glutathione (mGSH) depletion. Selective mGSH depletion in primary hepatocytes recapitulated the susceptibility to TNF and Fas seen in FC-loaded hepatocytes; its repletion rescued FC-loaded livers from TNF-mediated SH. Moreover, hepatocytes from mice lacking NPC1, a late endosomal cholesterol trafficking protein, or from obese ob/ob mice, exhibited mitochondrial FC accumulation, mGSH depletion, and susceptibility to TNF. Thus, we propose a critical role for mitochondrial FC loading in precipitating SH, by sensitizing hepatocytes to TNF and Fas through mGSH depletion.

Phrenic motoneuron expression of serotonergic and glutamatergic receptors following upper cervical spinal cord injury

PubMed Central

Mantilla, Carlos B.; Bailey, Jeffrey P.; Zhan, Wen-Zhi; Sieck, Gary C.

2012-01-01

Following cervical spinal cord injury at C2 (SH hemisection model) there is progressive recovery of phrenic activity. Neuroplasticity in the postsynaptic expression of neurotransmitter receptors may contribute to functional recovery. Phrenic motoneurons express multiple serotonergic (5-HTR) and glutamatergic (GluR) receptors, but the timing and possible role of these different neurotransmitter receptor subtypes in the neuroplasticity following SH are not clear. The current study was designed to test the hypothesis that there is an increased expression of serotonergic and glutamatergic neurotransmitter receptors within phrenic motoneurons after SH. In adult male rats, phrenic motoneurons were labeled retrogradely by intrapleural injection of Alexa 488-conjugated cholera toxin B. In thin (10 μm) frozen sections of the spinal cord, fluorescently-labeled phrenic motoneurons were visualized for laser capture microdissection (LCM). Using quantitative real-time RT-PCR in LCM samples, the time course of changes in 5-HTR and GluR mRNA expression was determined in phrenic motoneurons up to 21 days post-SH. Expression of 5-HTR subtypes 1b, 2a and 2c and GluR subtypes AMPA, NMDA, mGluR1 and mGluR5 was evident in phrenic motoneurons from control and SH rats. Phrenic motoneuron expression of 5-HTR2a increased ~8-fold (relative to control) at 14 days post-SH, whereas NMDA expression increased ~16-fold by 21-days post-SH. There were no other significant changes in receptor expression at any time post-SH. This is the first study to systematically document changes in motoneuron expression of multiple neurotransmitter receptors involved in regulation of motoneuron excitability. By providing information on the neuroplasticity of receptors expressed in a motoneuron pool that is inactivated by a higher-level spinal cord injury, appropriate pharmacological targets can be identified to alter motoneuron excitability. PMID:22227062

The Small Hydrophobic Protein of the Human Respiratory Syncytial Virus Forms Pentameric Ion Channels*

PubMed Central

Gan, Siok-Wan; Tan, Edward; Lin, Xin; Yu, Dejie; Wang, Juejin; Tan, Gregory Ming-Yeong; Vararattanavech, Ardcharaporn; Yeo, Chiew Ying; Soon, Cin Huang; Soong, Tuck Wah; Pervushin, Konstantin; Torres, Jaume

2012-01-01

The small hydrophobic (SH) protein is encoded by the human respiratory syncytial virus. Its absence leads to viral attenuation in the context of whole organisms, and it prevents apoptosis in infected cells. Herein, we have examined the structure of SH protein in detergent micelles and in lipid bilayers, by solution NMR and attenuated total reflection-Fourier transform infrared spectroscopy, respectively. We found that SH protein has a single α-helical transmembrane domain and forms homopentamers in several detergents. In detergent micelles, the transmembrane domain is flanked N-terminally by an α-helix that forms a ring around the lumen of the pore and C-terminally by an extended β-turn. SH protein was found in the plasma membrane of transiently expressing HEK 293 cells, which showed pH-dependent (acid-activated) channel activity. Channel activity was abolished in mutants lacking both native His residues, His22 and His51, but not when either His was present. Herein, we propose that the pentameric model of SH protein presented is a physiologically relevant conformation, albeit probably not the only one, in which SH contributes to RSV infection and replication. Viroporins are short (∼100 amino acids) viral membrane proteins that form oligomers of a defined size, act as proton or ion channels, and in general enhance membrane permeability in the host. However, with some exceptions, their precise biological role of their channel activity is not understood. In general, viroporins resemble poorly specialized proteins but are nevertheless critical for viral fitness. In vivo, viruses lacking viroporins usually exhibit an attenuated or weakened phenotype, altered tropism, and diminished pathological effects. We have chosen to study the SH protein, 64 amino acids long, found in the human respiratory syncytial virus because of the effect of RSV on human health and the lack of adequate antivirals. We show that SH protein forms oligomers that behave as ion channels when activated at low pH. This study adds SH protein to a growing group of viroporins that have been structurally characterized. Although the precise biological role of this pentameric channel is still unknown, this report is nevertheless essential to fill some of the many gaps that exist in the understanding of SH protein function. PMID:22621926

Self-help cognitive behavior therapy for working women with problematic hot flushes and night sweats (MENOS@Work): a multicenter randomized controlled trial.

PubMed

Hardy, Claire; Griffiths, Amanda; Norton, Sam; Hunter, Myra S

2018-05-01

The aim of the study was to examine the efficacy of an unguided, self-help cognitive behavior therapy (SH-CBT) booklet on hot flush and night sweat (HFNS) problem rating, delivered in a work setting. Women aged 45 to 60 years, having 10 or more problematic HFNS a week, were recruited to a multicenter randomized controlled trial, via the occupational health/human resources departments of eight organizations. Participants were 1:1 randomized to SH-CBT or no treatment waitlist control (NTWC). The primary outcome was HFNS problem rating; secondary outcomes included HFNS frequency, work and social adjustment, sleep, mood, beliefs and behaviors, and work-related variables (absence, performance, turnover intention, and work impairment due to presenteeism). Intention-to-treat analysis was used, and between-group differences estimated using linear mixed models. A total of 124 women were randomly allocated to SH-CBT (n = 60) and NTWC (n = 64). 104 (84%) were assessed for primary outcome at 6 weeks and 102 (82%) at 20 weeks. SH-CBT significantly reduced HFNS problem rating at 6 weeks (SH-CBT vs NTWC adjusted mean difference, -1.49; 95% CI, -2.11 to -0.86; P < 0.001) and at 20 weeks (-1.09; 95% CI, -1.87 to -0.31; P < 0.01). SH-CBT also significantly reduced HFNS frequency, improved work and social adjustment; sleep, menopause beliefs, HFNS beliefs/behaviors at 6 and 20 weeks; improved wellbeing and somatic symptoms and reduced work impairment due to menopause-related presenteeism at 20 weeks, compared with the NTWC. There was no difference between groups in other work-related outcomes. A brief, unguided SH-CBT booklet is a potentially effective management option for working women experiencing problematic HFNS.

Differential recognition of syk-binding sites by each of the two phosphotyrosine-binding pockets of the Vav SH2 domain.

PubMed

Chen, Chih-Hong; Piraner, Dan; Gorenstein, Nina M; Geahlen, Robert L; Beth Post, Carol

2013-11-01

The association of spleen tyrosine kinase (Syk), a central tyrosine kinase in B cell signaling, with Vav SH2 domain is controlled by phosphorylation of two closely spaced tyrosines in Syk linker B: Y342 and Y346. Previous studies established both singly phosphorylated and doubly phosphorylated forms play a role in signaling. The structure of the doubly phosphorylated form identified a new recognition of phosphotyrosine whereby two phosphotyrosines bind simultaneously to the Vav SH2 domain, one in the canonical pTyr pocket and one in the specificity pocket on the opposite side of the central β-sheet. It is unknown if the specificity pocket can bind phosphotyrosine independent of phosphotyrosine binding the pTyr pocket. To address this gap in knowledge, we determined the structure of the complex between Vav1 SH2 and a peptide (SykLB-YpY) modeling the singly phosphorylated-Y346 form of Syk with unphosphorylated Y342. The nuclear magnetic resonance (NMR) data conclusively establish that recognition of phosphotyrosine is swapped between the two pockets; phosphorylated pY346 binds the specificity pocket of Vav1 SH2, and unphosphorylated Y342 occupies what is normally the pTyr binding pocket. Nearly identical changes in chemical shifts occurred upon binding all three forms of singly and doubly phosphorylated peptides; however, somewhat smaller shift perturbations for SykLB-YpY from residues in regions of high internal mobility suggest that internal motions are coupled to binding affinity. The differential recognition that includes this swapped binding of phosphotyrosine to the specificity pocket of Vav SH2 increases the repertoire of possible phosphotyrosine binding by SH2 domains in regulating protein-protein interactions in cellular signaling. Copyright © 2013 Wiley Periodicals, Inc.

The effect of differentiation agents on inflammatory and oxidative responses of the human neuroblastoma cell line SK-N-SH.

PubMed

Niewiarowska-Sendo, Anna; Patrzalek, Katarzyna; Kozik, Andrzej; Guevara-Lora, Ibeth

2015-01-01

Obtaining a suitable experimental cellular model is a major problem for neuroscience studies. Neuroblastoma cell lines have been often applied in studies related to pathological disorders of nervous system. However, in the search for an ideal model, these cells must be differentiated to cancel their tumor character. The subsequent reactions that are caused by differentiation are not always indifferent to the same model. We evaluated the effect of two well known substances, used for SH-N-SK cell line differentiation, retinoic acid (RA) and phorbol-12-myristate-13-acetate (PMA), on the induction of pro-inflammatory and pro-oxidative reactions in these cells. Cells differentiated with PMA were able to produce significantly higher amounts of pro-inflammatory cytokines whereas the release of nitric oxide radicals was similar to that in undifferentiated cells. On the contrary, in RA-differentiated cells no significant changes in cytokine production were observed and the nitric oxide release was decreased. Additionally, the RA-differentiated neuronal model was more sensible to lipopolysaccharide stimulation, producing pro-inflammatory cytokines abundantly. These results suggest that RA-differentiated SH-N-SK cells provide a more suitable experimental model for the study of molecular and cellular mechanisms of the inflammation and oxidative stress in neuronal cells.

Mesopause Jumps: Observations and Explanation

NASA Astrophysics Data System (ADS)

Luebken, F. J.; Becker, E.; Höffner, J.; Viehl, T. P.; Latteck, R.

2017-12-01

Recent high resolution temperature measurements by resonance lidar at Davis (69°S) occasionally showed a sudden mesopause altitude increase by 5km and an associated mesopause temperature decrease by 10K. We present further observations which are closely related to this `mesopause jump', namely the increase of mean height of polar mesospheric summer echoes (PMSE) observed by a VHF radar, very strong westward winds in the upper mesosphere measured by an MF radar, and relatively large eastward winds in the stratosphere taken from reanalysis. We compare to similar observations in the Northern Hemisphere, namely at ALOMAR (69°N) where such mesopause jumps have never been observed. We present a detailed explanation of mesopause jumps. They occur only when stratospheric winds are moderately eastward and mesospheric winds are very large (westward). Under these conditions, gravity waves with comparatively large eastward phase speeds can pass the stratosphere and propagate to the lower thermosphere because their vertical wavelengths in the mesosphere are rather large which implies reduced dynamical stability. When finally breaking in the lower thermosphere, these waves drive an enhanced residual circulation that causes a cold and high-altitude mesopause. The conditions for a mesopause jump occur only in the Southern Hemisphere (SH) and are associated with the late breakdown of the polar vortex.Mesopause jumps are primarily, but not only, observed prior and close to solstice. We also show that during the onset of PMSE in the SH, stratospheric zonal winds are still eastward (up to 30m/s), and that the onset is not closely related to the transition of the stratospheric circulation.

shRNA-Mediated Silencing of Y-Box Binding Protein-1 (YB-1) Suppresses Growth of Neuroblastoma Cell SH-SY5Y In Vitro and In Vivo

PubMed Central

Wang, Hong; Sun, Ruowen; Gu, Min; Li, Shuang; Zhang, Bin; Chi, Zuofei; Hao, Liangchun

2015-01-01

Y-box binding protein-1 (YB-1), a member of cold-shock protein superfamily, has been demonstrated to be associated with tumor malignancy, and is proposed as a prognostic marker in multiple carcinomas. However, the role of YB-1 in neuroblastoma has not been well studied. To investigate the functional role of YB-1 in neuroblastoma, we established a YB-1-silenced neuroblastoma cell strain by inhibiting YB-1 expression using a shRNA knockdown approach. YB-1-silenced neuroblastoma SH-SY5Y cells exhibited a pronounced reduction in cell proliferation and an increased rate of apoptosis in vitro and in vivo xenograft tumor model. At molecular level, YB-1 silencing resulted in downregulation of Cyclin A, Cyclin D1 and Bcl-2, as well as upregulated levels of Bax, cleaved caspase-3 and cleaved PARP-1. We further demonstrated that YB-1 transcriptionally regulated Cyclin D1 expression by chromatin-immunoprecipitation and luciferase reporter assays. In addition, xenograft tumors derived from neuroblastoma SH-SY5Y cell line were treated with YB-1 shRNA plasmids by intra-tumor injection, and YB-1 targeting effectively inhibited tumor growth and induced cell death. In summary, our findings suggest that YB-1 plays a critical role in neuroblastoma development, and it may serve as a potential target for neuroblastoma therapy. PMID:25993060

Tyr721 regulates specific binding of the CSF-1 receptor kinase insert to PI 3'-kinase SH2 domains: a model for SH2-mediated receptor-target interactions.

PubMed Central

Reedijk, M; Liu, X; van der Geer, P; Letwin, K; Waterfield, M D; Hunter, T; Pawson, T

1992-01-01

Efficient binding of active phosphatidylinositol (PI) 3'-kinase to the autophosphorylated macrophage colony stimulating factor receptor (CSF-1R) requires the noncatalytic kinase insert (KI) region of the receptor. To test whether this region could function independently to bind PI 3'-kinase, the isolated CSF-1R KI was expressed in Escherichia coli, and was inducibly phosphorylated on tyrosine. The tyrosine phosphorylated form of the CSF-1R KI bound PI 3'-kinase in vitro, whereas the unphosphorylated form had no binding activity. The p85 alpha subunit of PI 3'-kinase contains two Src homology (SH)2 domains, which are implicated in the interactions of signalling proteins with activated receptors. Bacterially expressed p85 alpha SH2 domains complexed in vitro with the tyrosine phosphorylated CSF-1R KI. Binding of the CSF-1R KI to PI 3'-kinase activity, and to the p85 alpha SH2 domains, required phosphorylation of Tyr721 within the KI domain, but was independent of phosphorylation at Tyr697 and Tyr706. Tyr721 was also critical for the association of activated CSF-1R with PI 3'-kinase in mammalian cells. Complex formation between the CSF-1R and PI 3'-kinase can therefore be reconstructed in vitro in a specific interaction involving the phosphorylated receptor KI and the SH2 domains of p85 alpha. Images PMID:1314163

Monitoring the dynamics of clonal tumour evolution in vivo using secreted luciferases.

PubMed

Charles, Joël P; Fuchs, Jeannette; Hefter, Mirjam; Vischedyk, Jonas B; Kleint, Maximilian; Vogiatzi, Fotini; Schäfer, Jonas A; Nist, Andrea; Timofeev, Oleg; Wanzel, Michael; Stiewe, Thorsten

2014-06-03

Tumours are heterogeneous cell populations that undergo clonal evolution during tumour progression, metastasis and response to therapy. Short hairpin RNAs (shRNAs) generate stable loss-of-function phenotypes and are versatile experimental tools to explore the contribution of individual genetic alterations to clonal evolution. In these experiments tumour cells carrying shRNAs are commonly tracked with fluorescent reporters. While this works well for cell culture studies and leukaemia mouse models, fluorescent reporters are poorly suited for animals with solid tumours--the most common tumour types in cancer patients. Here we develop a toolkit that uses secreted luciferases to track the fate of two different shRNA-expressing tumour cell clones competitively, both in vitro and in vivo. We demonstrate that secreted luciferase activities can be measured robustly in the blood stream of tumour-bearing mice to accurately quantify, in a minimally invasive manner, the dynamic evolution of two genetically distinct tumour subclones in preclinical mouse models of tumour development, metastasis and therapy.

Distributed wavefront reconstruction with SABRE for real-time large scale adaptive optics control

NASA Astrophysics Data System (ADS)

Brunner, Elisabeth; de Visser, Cornelis C.; Verhaegen, Michel

2014-08-01

We present advances on Spline based ABerration REconstruction (SABRE) from (Shack-)Hartmann (SH) wavefront measurements for large-scale adaptive optics systems. SABRE locally models the wavefront with simplex B-spline basis functions on triangular partitions which are defined on the SH subaperture array. This approach allows high accuracy through the possible use of nonlinear basis functions and great adaptability to any wavefront sensor and pupil geometry. The main contribution of this paper is a distributed wavefront reconstruction method, D-SABRE, which is a 2 stage procedure based on decomposing the sensor domain into sub-domains each supporting a local SABRE model. D-SABRE greatly decreases the computational complexity of the method and removes the need for centralized reconstruction while obtaining a reconstruction accuracy for simulated E-ELT turbulences within 1% of the global method's accuracy. Further, a generalization of the methodology is proposed making direct use of SH intensity measurements which leads to an improved accuracy of the reconstruction compared to centroid algorithms using spatial gradients.

Full inhibition of enzymatic browning in the presence of thiol-functionalised silica nanomaterial.

PubMed

Muñoz-Pina, Sara; Ros-Lis, José V; Argüelles, Ángel; Coll, Carmen; Martínez-Máñez, Ramón; Andrés, Ana

2018-02-15

Darkening processed fruits and vegetables is caused mainly by enzymatic browning through polyphenol oxidase (PPO) action. Accordingly, we explored the potential of four silica-based materials (MCM-41 nanometric size, MCM-41 micrometric size, UVM-7 and aerosil), non-functionalised and functionalised with thiol groups, to inhibit PPO activity in the model system and apple juice. All materials showed relevant performance when immobilising and inhibiting PPO in model systems, and support topology is a main factor for enzyme immobilisation and inhibition. Thiol-containing silica UVM7-SH showed the greatest inactivation, and similar browning values to those obtained by acidification. The enzyme's kinetic parameters in the presence of UVM-7-SH suggested non-competitive inhibition, which indicated that the material interacted with the enzyme, but beyond the active centre. In real systems, UVM-7-SH completely inhibited enzymatic browning in apple juice (cv. Granny Smith and cv. Golden Delicious) up to 9days after 5min of contact. Copyright © 2017 Elsevier Ltd. All rights reserved.

Monitoring the dynamics of clonal tumour evolution in vivo using secreted luciferases

PubMed Central

Charles, Joël P.; Fuchs, Jeannette; Hefter, Mirjam; Vischedyk, Jonas B.; Kleint, Maximilian; Vogiatzi, Fotini; Schäfer, Jonas A.; Nist, Andrea; Timofeev, Oleg; Wanzel, Michael; Stiewe, Thorsten

2014-01-01

Tumours are heterogeneous cell populations that undergo clonal evolution during tumour progression, metastasis and response to therapy. Short hairpin RNAs (shRNAs) generate stable loss-of-function phenotypes and are versatile experimental tools to explore the contribution of individual genetic alterations to clonal evolution. In these experiments tumour cells carrying shRNAs are commonly tracked with fluorescent reporters. While this works well for cell culture studies and leukaemia mouse models, fluorescent reporters are poorly suited for animals with solid tumours—the most common tumour types in cancer patients. Here we develop a toolkit that uses secreted luciferases to track the fate of two different shRNA-expressing tumour cell clones competitively, both in vitro and in vivo. We demonstrate that secreted luciferase activities can be measured robustly in the blood stream of tumour-bearing mice to accurately quantify, in a minimally invasive manner, the dynamic evolution of two genetically distinct tumour subclones in preclinical mouse models of tumour development, metastasis and therapy. PMID:24889111

The Role of Lymphangiogenesis in Orthotopic Prostatic Tumor-Environment on Regional and Systemic Metastasis

DTIC Science & Technology

2008-01-01

expressing Renilla luciferase and VEGF-C shRNA or irrelevant firefly luciferase shRNA (Ctrl) were implanted orthotopically as before. To determine the...on metastasis in Pten knockout model (Month 10-24): a) Generate Ubc/sVEGFR-3 and Ubc/ Renilla luciferase (RL) lentiviral vectors by subcloning...progression (month 10-12) c) Monitor efficiency of Ubc/lentiviral transduction and expression in Pten (-/-) prostate using optical imaging of Renilla

SH2/SH3 signaling proteins.

PubMed

Schlessinger, J

1994-02-01

SH2 and SH3 domains are small protein modules that mediate protein-protein interactions in signal transduction pathways that are activated by protein tyrosine kinases. SH2 domains bind to short phosphotyrosine-containing sequences in growth factor receptors and other phosphoproteins. SH3 domains bind to target proteins through sequences containing proline and hydrophobic amino acids. SH2 and SH3 domain containing proteins, such as Grb2 and phospholipase C gamma, utilize these modules in order to link receptor and cytoplasmic protein tyrosine kinases to the Ras signaling pathway and to phosphatidylinositol hydrolysis, respectively. The three-dimensional structures of several SH2 and SH3 domains have been determined by NMR and X-ray crystallography, and the molecular basis of their specificity is beginning to be unveiled.

Computation of ground motion amplification in Kolkata megacity (India) using finite-difference method for seismic microzonation

NASA Astrophysics Data System (ADS)

Shiuly, Amit; Kumar, Vinay; Narayan, Jay

2014-06-01

This paper presents the ground motion amplification scenario along with fundamental frequency (F 0) of sedimentary deposit for the seismic microzonation of Kolkata City, situated on the world's largest delta island with very soft soil deposit. A 4th order accurate SH-wave viscoelastic finite-difference algorithm is used for computation of response of 1D model for each borehole location. Different maps, such as for F 0, amplification at F 0, average spectral amplification (ASA) in the different frequency bandwidth of earthquake engineering interest are developed for a variety of end-users communities. The obtained ASA of the order of 3-6 at most of the borehole locations in a frequency range of 0.25-10.0 Hz reveals that Kolkata City may suffer severe damage even during a moderate earthquake. Further, unexpected severe damage to collapse of multi-storey buildings may occur in localities near Hoogly River and Salt Lake area due to double resonance effects during distant large earthquakes.

Fundamental study of detection of muscle hypertrophy-oriented gene doping by myostatin knock down using RNA interference.

PubMed

Takemasa, Tohru; Yakushiji, Naohisa; Kikuchi, Dale Manjiro; Deocaris, Custer; Widodo; Machida, Masanao; Kiyosawa, Hidenori

2012-01-01

To investigate the feasibility of developing a method for detection of gene doping in power-athletes, we devised an experimental model system. Myostatin is a potent negative regulator of skeletal muscle development and growth, and myostatin-knockout mice exhibit a double-muscle phenotype. To achieve knockdown, we constructed plasmids expressing short hairpin interfering RNAs (shRNAs) against myostatin. These shRNAs were transfected into C2C12 cultured cells or injected into the tibialis anterior (TA) muscle of adult mice. By performing in vitro and in vivo experiments, we found that some shRNAs effectively reduced the expression of myostatin, and that the TA muscle showed hypertrophy of up to 27.9%. Then, using real-time PCR, we tried to detect the shRNA plasmid in the serum or muscles of mice into which it had been injected. Although we were unable to detect the plasmid in serum samples, it was detectable in the treated muscle at least four weeks after induction. We were also able to detect the plasmid in muscle in the vicinity of the TA. This gene doping model system will be useful for further studies aimed at doping control. Key pointsUsing a myostatin knockdown plasmid, we have succeeded in creating a model system for gene doping using mice that resulted in muscle hypertrophy greater than that reported previously.We confirmed that there was a limit of gene doping detection using real-time PCR, either from serum or muscle smple.This model experimental system can be utilized for examining indirect methods of gene doping detection such as immune responses to gene transfer or a profiling approach using DNA microarray.

Fundamental Study of Detection of Muscle Hypertrophy-Oriented Gene Doping by Myostatin Knock Down Using RNA Interference

PubMed Central

Takemasa, Tohru; Yakushiji, Naohisa; Kikuchi, Dale Manjiro; Deocaris, Custer; Widodo; Machida, Masanao; Kiyosawa, Hidenori

2012-01-01

To investigate the feasibility of developing a method for detection of gene doping in power-athletes, we devised an experimental model system. Myostatin is a potent negative regulator of skeletal muscle development and growth, and myostatin-knockout mice exhibit a double-muscle phenotype. To achieve knockdown, we constructed plasmids expressing short hairpin interfering RNAs (shRNAs) against myostatin. These shRNAs were transfected into C2C12 cultured cells or injected into the tibialis anterior (TA) muscle of adult mice. By performing in vitro and in vivo experiments, we found that some shRNAs effectively reduced the expression of myostatin, and that the TA muscle showed hypertrophy of up to 27.9%. Then, using real-time PCR, we tried to detect the shRNA plasmid in the serum or muscles of mice into which it had been injected. Although we were unable to detect the plasmid in serum samples, it was detectable in the treated muscle at least four weeks after induction. We were also able to detect the plasmid in muscle in the vicinity of the TA. This gene doping model system will be useful for further studies aimed at doping control. Key pointsUsing a myostatin knockdown plasmid, we have succeeded in creating a model system for gene doping using mice that resulted in muscle hypertrophy greater than that reported previously.We confirmed that there was a limit of gene doping detection using real-time PCR, either from serum or muscle smple.This model experimental system can be utilized for examining indirect methods of gene doping detection such as immune responses to gene transfer or a profiling approach using DNA microarray. PMID:24149203

Projections of Southern Hemisphere atmospheric circulation interannual variability

NASA Astrophysics Data System (ADS)

Grainger, Simon; Frederiksen, Carsten S.; Zheng, Xiaogu

2017-02-01

An analysis is made of the coherent patterns, or modes, of interannual variability of Southern Hemisphere 500 hPa geopotential height field under current and projected climate change scenarios. Using three separate multi-model ensembles (MMEs) of coupled model intercomparison project phase 5 (CMIP5) models, the interannual variability of the seasonal mean is separated into components related to (1) intraseasonal processes; (2) slowly-varying internal dynamics; and (3) the slowly-varying response to external changes in radiative forcing. In the CMIP5 RCP8.5 and RCP4.5 experiments, there is very little change in the twenty-first century in the intraseasonal component modes, related to the Southern annular mode (SAM) and mid-latitude wave processes. The leading three slowly-varying internal component modes are related to SAM, the El Niño-Southern oscillation (ENSO), and the South Pacific wave (SPW). Structural changes in the slow-internal SAM and ENSO modes do not exceed a qualitative estimate of the spatial sampling error, but there is a consistent increase in the ENSO-related variance. Changes in the SPW mode exceed the sampling error threshold, but cannot be further attributed. Changes in the dominant slowly-varying external mode are related to projected changes in radiative forcing. They reflect thermal expansion of the tropical troposphere and associated changes in the Hadley Cell circulation. Changes in the externally-forced associated variance in the RCP8.5 experiment are an order of magnitude greater than for the internal components, indicating that the SH seasonal mean circulation will be even more dominated by a SAM-like annular structure. Across the three MMEs, there is convergence in the projected response in the slow-external component.

3D Immersive Visualization: An Educational Tool in Geosciences

NASA Astrophysics Data System (ADS)

Pérez-Campos, N.; Cárdenas-Soto, M.; Juárez-Casas, M.; Castrejón-Pineda, R.

2007-05-01

3D immersive visualization is an innovative tool currently used in various disciplines, such as medicine, architecture, engineering, video games, etc. Recently, the Universidad Nacional Autónoma de México (UNAM) mounted a visualization theater (Ixtli) with leading edge technology, for academic and research purposes that require immersive 3D tools for a better understanding of the concepts involved. The Division of Engineering in Earth Sciences of the School of Engineering, UNAM, is running a project focused on visualization of geoscience data. Its objective is to incoporate educational material in geoscience courses in order to support and to improve the teaching-learning process, especially in well-known difficult topics for students. As part of the project, proffessors and students are trained in visualization techniques, then their data are adapted and visualized in Ixtli as part of a class or a seminar, where all the attendants can interact, not only among each other but also with the object under study. As part of our results, we present specific examples used in basic geophysics courses, such as interpreted seismic cubes, seismic-wave propagation models, and structural models from bathymetric, gravimetric and seismological data; as well as examples from ongoing applied projects, such as a modeled SH upward wave, the occurrence of an earthquake cluster in 1999 in the Popocatepetl volcano, and a risk atlas from Delegación Alvaro Obregón in Mexico City. All these examples, plus those to come, constitute a library for students and professors willing to explore another dimension of the teaching-learning process. Furthermore, this experience can be enhaced by rich discussions and interactions by videoconferences with other universities and researchers.

Terrestrial Water Storage in African Hydrological Regimes Derived from GRACE Mission Data: Intercomparison of Spherical Harmonics, Mass Concentration, and Scalar Slepian Methods.

PubMed

Rateb, Ashraf; Kuo, Chung-Yen; Imani, Moslem; Tseng, Kuo-Hsin; Lan, Wen-Hau; Ching, Kuo-En; Tseng, Tzu-Pang

2017-03-10

Spherical harmonics (SH) and mascon solutions are the two most common types of solutions for Gravity Recovery and Climate Experiment (GRACE) mass flux observations. However, SH signals are degraded by measurement and leakage errors. Mascon solutions (the Jet Propulsion Laboratory (JPL) release, herein) exhibit weakened signals at submascon resolutions. Both solutions require a scale factor examined by the CLM4.0 model to obtain the actual water storage signal. The Slepian localization method can avoid the SH leakage errors when applied to the basin scale. In this study, we estimate SH errors and scale factors for African hydrological regimes. Then, terrestrial water storage (TWS) in Africa is determined based on Slepian localization and compared with JPL-mascon and SH solutions. The three TWS estimates show good agreement for the TWS of large-sized and humid regimes but present discrepancies for the TWS of medium and small-sized regimes. Slepian localization is an effective method for deriving the TWS of arid zones. The TWS behavior in African regimes and its spatiotemporal variations are then examined. The negative TWS trends in the lower Nile and Sahara at -1.08 and -6.92 Gt/year, respectively, are higher than those previously reported.

Bio-mimicking of Proline-Rich Motif Applied to Carbon Nanotube Reveals Unexpected Subtleties Underlying Nanoparticle Functionalization

NASA Astrophysics Data System (ADS)

Zhang, Yuanzhao; Jimenez-Cruz, Camilo A.; Wang, Jian; Zhou, Bo; Yang, Zaixing; Zhou, Ruhong

2014-11-01

Here, we report computational studies of the SH3 protein domain interacting with various single-walled carbon nanotubes (SWCNT) either bare or functionalized by mimicking the proline-rich motif (PRM) ligand (PPPVPPRR) and compare it to the SH3-PRM complex binding. With prolines or a single arginine attached, the SWCNT gained slightly on specificity when compared with the bare control, whereas with multi-arginine systems the specificity dropped dramatically to our surprise. Although the electrostatic interaction provided by arginines is crucial in the recognition between PRM and SH3 domain, our results suggest that attaching multiple arginines to the SWCNT has a detrimental effect on the binding affinity. Detailed analysis of the MD trajectories found two main factors that modulate the specificity of the binding: the existence of competing acidic patches at the surface of SH3 that leads to ``trapping and clamping'' by the arginines, and the rigidity of the SWCNT introducing entropic penalties in the proper binding. Further investigation revealed that the same ``clamping'' phenomenon exits in the PRM-SH3 system, which has not been reported in previous literature. The competing effects between nanoparticle and its functionalization components revealed by our model system should be of value to current and future nanomedicine designs.

Terrestrial Water Storage in African Hydrological Regimes Derived from GRACE Mission Data: Intercomparison of Spherical Harmonics, Mass Concentration, and Scalar Slepian Methods

PubMed Central

Rateb, Ashraf; Kuo, Chung-Yen; Imani, Moslem; Tseng, Kuo-Hsin; Lan, Wen-Hau; Ching, Kuo-En; Tseng, Tzu-Pang

2017-01-01

Spherical harmonics (SH) and mascon solutions are the two most common types of solutions for Gravity Recovery and Climate Experiment (GRACE) mass flux observations. However, SH signals are degraded by measurement and leakage errors. Mascon solutions (the Jet Propulsion Laboratory (JPL) release, herein) exhibit weakened signals at submascon resolutions. Both solutions require a scale factor examined by the CLM4.0 model to obtain the actual water storage signal. The Slepian localization method can avoid the SH leakage errors when applied to the basin scale. In this study, we estimate SH errors and scale factors for African hydrological regimes. Then, terrestrial water storage (TWS) in Africa is determined based on Slepian localization and compared with JPL-mascon and SH solutions. The three TWS estimates show good agreement for the TWS of large-sized and humid regimes but present discrepancies for the TWS of medium and small-sized regimes. Slepian localization is an effective method for deriving the TWS of arid zones. The TWS behavior in African regimes and its spatiotemporal variations are then examined. The negative TWS trends in the lower Nile and Sahara at −1.08 and −6.92 Gt/year, respectively, are higher than those previously reported. PMID:28287453

Bio-mimicking of Proline-Rich Motif Applied to Carbon Nanotube Reveals Unexpected Subtleties Underlying Nanoparticle Functionalization

PubMed Central

Zhang, Yuanzhao; Jimenez-Cruz, Camilo A.; Wang, Jian; Zhou, Bo; Yang, Zaixing; Zhou, Ruhong

2014-01-01

Here, we report computational studies of the SH3 protein domain interacting with various single-walled carbon nanotubes (SWCNT) either bare or functionalized by mimicking the proline-rich motif (PRM) ligand (PPPVPPRR) and compare it to the SH3-PRM complex binding. With prolines or a single arginine attached, the SWCNT gained slightly on specificity when compared with the bare control, whereas with multi-arginine systems the specificity dropped dramatically to our surprise. Although the electrostatic interaction provided by arginines is crucial in the recognition between PRM and SH3 domain, our results suggest that attaching multiple arginines to the SWCNT has a detrimental effect on the binding affinity. Detailed analysis of the MD trajectories found two main factors that modulate the specificity of the binding: the existence of competing acidic patches at the surface of SH3 that leads to “trapping and clamping” by the arginines, and the rigidity of the SWCNT introducing entropic penalties in the proper binding. Further investigation revealed that the same “clamping” phenomenon exits in the PRM-SH3 system, which has not been reported in previous literature. The competing effects between nanoparticle and its functionalization components revealed by our model system should be of value to current and future nanomedicine designs. PMID:25427563

RNAi screening uncovers Dhx9 as a modifier of ABT-737 resistance in an Eμ-myc/Bcl-2 mouse model

PubMed Central

Mills, John R.; Malina, Abba; Lee, Teresa; Di Paola, Domenic; Larsson, Ola; Miething, Cornelius; Grosse, Frank; Tang, Hengli; Zannis-Hadjopoulos, Maria; Lowe, Scott W.

2013-01-01

ABT-737 is a promising chemotherapeutic agent that promotes apoptosis by acting as a selective BH3 mimetic to neutralize Bcl-2–like family members. One shortcoming with its use is that Mcl-1, a member of the Bcl-2 family, is poorly inhibited by ABT-737 and thus is a major cause of resistance. We performed a short hairpin RNA (shRNA)-based drop-out screen to identify novel genes and pathways that could reverse resistance to ABT-737 treatment in Eµ-myc/Bcl-2 lymphoma cells engineered to rely on endogenous Mcl-1 for survival. Several drug-sensitive shRNAs were identified that were selectively depleted in the presence of ABT-737. Of these, 2 independent shRNAs targeting the RNA/DNA helicase Dhx9 were found to sensitize lymphomas to ABT-737 to an extent comparable to control Mcl-1 shRNAs. Although Dhx9 suppression sensitized both mouse and human cells to ABT-737 treatment, it did so without altering MCL-1 levels. Rather, loss of Dhx9 appeared to activate a p53-dependent apoptotic program, through aggravation of replicative stress, which was found to be both necessary and sufficient for the ABT-737–shDhx9 synthetic lethal relationship. PMID:23440244

Shear horizontal feature guided ultrasonic waves in plate structures with 90° transverse bends.

PubMed

Yu, Xudong; Manogharan, Prabhakaran; Fan, Zheng; Rajagopal, Prabhu

2016-02-01

Antisymmetric and symmetric Lamb-type feature guided waves (FGW) have recently been shown to exist in small angle plate bends. This paper reports Semi-Analytical Finite Element (SAFE) method simulations revealing the existence of a new family of Shear Horizontal (SHB) type of FGW mode in 90° bends in plate structures. Mode shapes and velocity dispersion curves are extracted, demonstrating the SH-like nature of a bend-confined mode identified in studies of power flow across the bend. The SHB mode is shown to have reduced attenuation in the higher frequency range, making it an ideal choice for high-resolution inspection of such bends. Further modal studies examine the physical basis for mode confinement, and argue that this is strongly related to FGW phenomena reported earlier, and also linked to the curvature at the bend region. Wedge acoustic waves discussed widely in literature are shown as arising from surface-limiting of the SHB mode at higher frequencies. The results are validated by experiments and supported by 3D Finite Element (FE) simulations. Copyright © 2015 Elsevier B.V. All rights reserved.

Wideband acoustic wave resonators composed of hetero acoustic layer structure

NASA Astrophysics Data System (ADS)

Kadota, Michio; Tanaka, Shuji

2018-07-01

“Hetero acoustic layer (HAL) surface acoustic wave (SAW) device” is a new type of SAW device using a single crystal piezoelectric thin plate supported by a substrate. In this study, a HAL SAW resonator using a LiNbO3 (LN) thin plate and a multi-layer acoustic film was designed by finite element method (FEM) and fabricated. The thickness of LN is 3.6 µm and the pitch of an interdigital transducer (IDT) (λ) is 5.24 µm for a resonance frequency of 600 MHz. The multi-layer acoustic film is composed of 3 layers of SiO2 and AlN for each, i.e., 6 layers in total, alternately deposited on a glass substrate. The HAL SAW resonator achieved a wide bandwidth of 20.3% and a high impedance ratio of 83 dB. Compared with a 0th shear horizontal (SH0) mode plate wave resonator, the performance is better and the thickness of LN is 7 times larger. The HAL SAW without a cavity is advantageous in terms of mechanical stability, thickness controllability and fabrication yield.

Automated Technical Library System Users Manual.

DTIC Science & Technology

1979-12-01

AUTOPILOT);SH:AGEH 1; SH:PGH 1;SH:PGH 2;SH:FHE 400(CA);SH:PCH 1;SH:PRM;AL:HY-130;AL=I7- 4PH ; SH:PT150(SW);SH:HS DENISON CENTER DOCUMENT TYPE:PA Circulation...0 One or the other or both AND NOT AN One and not the other 17 To combine sets, enclose all Boolean statements, including embedded statements, in... 17 / FG-9001 * 48 18/ CS-ENERGY DEPT* AND FG=9001 Sometimes you are only interested in seeing the final results of a FIND statement without the step

An examination of dynamics crosstalk between SH2 and SH3 domains by hydrogen/deuterium exchange and mass spectrometry

PubMed Central

Hochrein, James M.; Lerner, Edwina C.; Schiavone, Anthony P.; Smithgall, Thomas E.; Engen, John R.

2006-01-01

The ability of proteins to regulate their own enzymatic activity can be facilitated by changes in structure or protein dynamics in response to external regulators. Because many proteins contain SH2 and SH3 domains, transmission of information between the domains is a potential method of allosteric regulation. To determine if ligand binding to one modular domain may alter structural dynamics in an adjacent domain, allowing potential transmission of information through the protein, we used hydrogen exchange and mass spectrometry to measure changes in protein dynamics in the SH3 and SH2 domains of hematopoietic cell kinase (Hck). Ligand binding to either domain had little or no effect on hydrogen exchange in the adjacent domain, suggesting that changes in protein structure or dynamics are not a means of SH2/SH3 crosstalk. Furthermore, ligands of varying affinity covalently attached to SH3/SH2 altered dynamics only in the domain to which they bind. Such results demonstrate that ligand binding may not structurally alter adjacent SH3/SH2 domains and implies that other aspects of protein architecture contribute to the multiple levels of regulation in proteins containing SH3 and SH2 domains. PMID:16322569

SH2 domains: modulators of nonreceptor tyrosine kinase activity.

PubMed

Filippakopoulos, Panagis; Müller, Susanne; Knapp, Stefan

2009-12-01

The Src homology 2 (SH2) domain is a sequence-specific phosphotyrosine-binding module present in many signaling molecules. In cytoplasmic tyrosine kinases, the SH2 domain is located N-terminally to the catalytic kinase domain (SH1) where it mediates cellular localization, substrate recruitment, and regulation of kinase activity. Initially, structural studies established a role of the SH2 domain stabilizing the inactive state of Src family members. However, biochemical characterization showed that the presence of the SH2 domain is frequently required for catalytic activity, suggesting a crucial function stabilizing the active state of many nonreceptor tyrosine kinases. Recently, the structure of the SH2-kinase domain of Fes revealed that the SH2 domain stabilizes the active kinase conformation by direct interactions with the regulatory helix alphaC. Stabilizing interactions between the SH2 and the kinase domains have also been observed in the structures of active Csk and Abl. Interestingly, mutations in the SH2 domain found in human disease can be explained by SH2 domain destabilization or incorrect positioning of the SH2. Here we summarize our understanding of mechanisms that lead to tyrosine kinase activation by direct interactions mediated by the SH2 domain and discuss how mutations in the SH2 domain trigger kinase inactivation.

Identification of a human src homology 2-containing protein-tyrosine-phosphatase: a putative homolog of Drosophila corkscrew.

PubMed Central

Freeman, R M; Plutzky, J; Neel, B G

1992-01-01

src homology 2 (SH2) domains direct binding to specific phosphotyrosyl proteins. Recently, SH2-containing protein-tyrosine-phosphatases (PTPs) were identified. Using degenerate oligonucleotides and the PCR, we have cloned a cDNA for an additional PTP, SH-PTP2, which contains two SH2 domains and is expressed ubiquitously. When expressed in Escherichia coli, SH-PTP2 displays tyrosine-specific phosphatase activity. Strong sequence similarity between SH-PTP2 and the Drosophila gene corkscrew (csw) and their similar patterns of expression suggest that SH-PTP2 is the human corkscrew homolog. Sequence comparisons between SH-PTP2, SH-PTP1, corkscrew, and other SH2-containing proteins suggest the existence of a subfamily of SH2 domains found specifically in PTPs, whereas comparison of the PTP domains of the SH2-containing PTPs with other tyrosine phosphatases suggests the existence of a subfamily of PTPs containing SH2 domains. Since corkscrew, a member of the terminal class signal transduction pathway, acts in concert with D-raf to positively transduce the signal generated by the receptor tyrosine kinase torso, these findings suggest several mechanisms by which SH-PTP2 may participate in mammalian signal transduction. Images PMID:1280823

Arctigenin Confers Neuroprotection Against Mechanical Trauma Injury in Human Neuroblastoma SH-SY5Y Cells by Regulating miRNA-16 and miRNA-199a Expression to Alleviate Inflammation.

PubMed

Song, Jie; Li, Na; Xia, Yang; Gao, Zhong; Zou, Sa-Feng; Yan, Yu-Hui; Li, Shao-Heng; Wang, Yue; Meng, Ya-Kun; Yang, Jing-Xian; Kang, Ting-Guo

2016-09-01

Mechanical trauma injury is a severe insult to neural cells. Subsequent secondary injury involves the release of inflammatory factors that have dramatic consequences for undamaged cells, leading to normal cell death after the initial injury. The present study investigated the capacity for arctigenin (ARC) to prevent secondary effects and evaluated the mechanism underlying the action of microRNA (miRNA)-199a and miRNA-16 in a mechanical trauma injury (MTI) model using SH-SY5Y cells in vitro. SH-SY5Y cells are often applied to in vitro models of neuronal function and differentiation. Recently, miRNAs have been demonstrated to play a crucial role in NF-κB and cholinergic signaling, which can regulate inflammation. The cell model was established by scratch-induced injury of human SH-SY5Y cells, which mimics the characteristics of MTI. A cell counting kit-8 (CCK-8), terminal deoxynucleotidyl transferase dUTP nick end labeling (TUNEL), and immunocytochemistry were used to measure cell viability. Enzyme-linked immunosorbent assay (ELISA) was used to evaluate the inflammatory cytokine and cholinesterase (CHE) content. The lactate dehydrogenase (LDH) content was measured to assess the degree of cell injury. The mRNA levels were measured by RT-PCR to analyze ARC's mechanism of action. miRNA inhibitors and mimics were used to inhibit and strengthen the expression of miRNAs. Protein expression was detected by western blotting analysis. ARC treatment reduced the TNF-α and IL-6 levels as well as the number of TUNEL+ apoptotic SH-SY5Y cells surrounding the scratch and increased the IL-10 level compared to the controls. ARC attenuated the increase of the cell damage degree and LDH content induced by scratching, indicating increased cell survival. Mechanistic studies showed that ARC upregulated the miRNA-16 and miRNA-199a levels to reduce upstream protein (IKKα and IKKβ) expression and inhibit NF-κB signaling pathway activity; moreover, the increased miRNA-199a suppresses cholinesterases to increase cholinergic signaling, resulting in decreased expression of proinflammatory cytokines. ARC treatment confers protection for SH-SY5Y cells through positive regulation of miRNA expression, thereby reducing the inflammatory response. In turn, these effects accelerate injury repair in the scratch-induced injury model. These results might provide insights into the pharmacological role of ARC in anti-inflammation and neuroprotection in neural cells.

D-beta-hydroxybutyrate protects dopaminergic SH-SY5Y cells in a rotenone model of Parkinson's disease.

PubMed

Imamura, Keiko; Takeshima, Takao; Kashiwaya, Yoshihiro; Nakaso, Kazuhiro; Nakashima, Kenji

2006-11-01

It has been postulated that the pathogenesis of Parkinson's disease (PD) is associated with mitochondrial dysfunction. Rotenone, an inhibitor of mitochondrial complex I, provides models of PD both in vivo and in vitro. We investigated the neuroprotective effect of D-beta-hydroxybutyrate (bHB), a ketone body, against rotenone toxicity by using SH-SY5Y dopaminergic neuroblastoma cells. SH-SY5Y cells, differentiated by all-trans-retinoic acid, were exposed to rotenone at concentrations ranging from 0 to 1,000 nM. We evaluated cellular oxidation reduction by the alamarBlue assay, viability by lactate dehydrogenase (LDH) assay, and survival/death ratio by live/dead assays. Exposure to rotenone for 48 hr oxidized cells and decreased their viability and survival rate in a concentration-dependent manner. Pretreatment of cells with 8 mM bHB provided significant protection to SH-SY5Y cells. Whereas rotenone caused the loss of mitochondrial membrane potential, released cytochrome c into the cytosol, and reduced cytochrome c content in mitochondria, addition of bHB blocked this toxic effect. bHB also attenuated the rotenone-induced activation of caspase-9 and caspase-3. Administration of 0-10 mM 3-nitropropionic acid, a complex II inhibitor, also decreased the reducing power of SH-SY5Y cells measured by alamarBlue assay. Pretreatment with 8 mM bHB attenuated the decrease of alamarBlue fluorescence. These data demonstrated that bHB had a neuroprotective effect that supported the mitochondrial respiration system by reversing the inhibition of complex I or II. Ketone bodies, the alternative energy source in the mammalian brain, appear to have therapeutic potential in PD. Copyright 2006 Wiley-Liss, Inc.

Quantitative characterization of semiconductor structures with a scanning microwave microscope.

PubMed

Korolyov, S A; Reznik, A N

2018-02-01

In this work, our earlier method for measuring resistance R sh of semiconductor films with a near-field scanning microwave microscope [A. N. Reznik and S. A. Korolyov, J. Appl. Phys. 119, 094504 (2016)] is studied in a 0.1 kΩ/sq < R sh < 15 kΩ/sq range. The method is based on a microscope model in the form of a monopole or dipole antenna interacting with an arbitrary layered structure. The model fitting parameters are determined from the data yielded by calibration measurements on a system of etalon samples. The performance of the method was analyzed experimentally, using strip-probe and coaxial-probe microscopes in the frequency range of 1-3 GHz. For test structures, we used doped GaN films on the Al 2 O 3 substrate and also transistor structures based on the AlGaN/GaN heterojunction and AlGaAs/GaAs/InGaAs/GaAs/AlGaAs quantum well with a conducting channel. The obtained microwave microscope data were compared with the results of measurements by the van der Pauw method. At the first stage of the experiment, the calibration etalons were bulk homogeneous samples with different permittivity/conductivity values. In this case, satisfactory agreement between the microscope and the van der Pauw data was obtained with a strip probe on all tested samples in the entire range of R sh . With a coaxial probe, such accordance was observed only in high-ohmic samples with R sh > 1 kΩ/sq. The use of GaN film structures as a calibration system helped to increase the accuracy of the coaxial-probe-aided measurement of R sh to a level of ∼10%.

A Study on the Rectification Property of Self-Assembled Viologen Single Molecules Using a Scanning Tunneling Microscopy.

PubMed

Lee, Nam-Suk; Shin, Hoon-Kyu; Kwon, Young-Soo

2015-02-01

An ultrahigh vacuum scanning tunneling microscopy (UHV-STM) and a scanning tunneling spectroscopy (STS) are used measure the rectification property of self-assembled viologen single molecules (VC8SH, VC10SH, HSC8VC8SH, and HSC10VC10SH) in the previous study. Using STM we observe viologen single molecules in the self-assembled octanethiol (OT) SAM matrix. In the OT matrix a mixed phase that includes a c(4 x 2) superlattice of high-density standing up-phase is observed. We indicate high peak current-like rectifications at + 1.68 V(VC8SH), + 1.56 V(VC10SH), + 1.14 V(HSC8VC8SH), and + 1.04 V(HSC10VC10SH) based on the experiment implemented in this study. In addition, transition voltages (Vtrans) from direct tunneling to the Fowler-Nordheim tunneling are presented at 1.08 V(VC8SH), 0.97 V(VC10SH), 0.99 V(HSC8VC8SH), and 0.89 V(HSC1VC1SH).

Comparison of biological activities of selenium and silver nanoparticles attached with bioactive phytoconstituents: green synthesized using Spermacoce hispida extract

NASA Astrophysics Data System (ADS)

Vennila, Krishnan; Chitra, Loganathan; Balagurunathan, Rama; Palvannan, Thayumanavan

2018-03-01

Selenium and silver nanoparticles (NPs) were synthesized using Spermacoce hispida aqueous leaf extract (Sh-ALE). The optimum condition required for the synthesis of Sh-SeNPs was found to be 30 mM selenious acid solution to Sh-ALE at the ratio of 4:46, pH 9, incubated at 40 °C for 10 min. On the other hand, for Sh-AgNPs the optimum condition was found to be 1 mM AgNO3 to the Sh-ALE solution at the ratio of 4:46, pH 8, incubated at 40 °C for 10 min. SEM analysis revealed that both the Sh-AgNPs and Sh-SeNPs are predominantly rod-shaped. Sh-SeNPs and Sh-AgNPs were found to possess concentration-dependent antioxidant activity. However, Sh-SeNPs showed potent anti-inflammatory property, antibacterial property and anticancer activity against human cervical cancer cell in comparison to Sh-AgNPs. Phytochemical analysis, FTIR and GC-MS analysis showed that various flavonoids, saponins and phenolic compounds present in Sh-ALE catalysed the formation of NPs. Also, GC-MS analysis revealed that Sh-SeNPs are capped by synaptogenin B and derivatives of apigenin, quinoline and quinazoline. The advantage of attachment of such phytoconstituents on Sh-SeNPs for its potent biological activity in comparison to Sh-AgNPs is evident in in vitro conditions.

The Abl SH2-kinase linker naturally adopts a conformation competent for SH3 domain binding.

PubMed

Chen, Shugui; Brier, Sébastien; Smithgall, Thomas E; Engen, John R

2007-04-01

The core of the Abelson tyrosine kinase (c-Abl) is structurally similar to Src-family kinases where SH3 and SH2 domains pack against the backside of the kinase domain in the down-regulated conformation. Both kinase families depend upon intramolecular association of SH3 with the linker joining the SH2 and kinase domains for suppression of kinase activity. Hydrogen deuterium exchange (HX) and mass spectrometry (MS) were used to probe intramolecular interaction of the c-Abl SH3 domain with the linker in recombinant constructs lacking the kinase domain. Under physiological conditions, the c-Abl SH3 domain undergoes partial unfolding, which is stabilized by ligand binding, providing a unique assay for SH3:linker interaction in solution. Using this approach, we observed dynamic association of the SH3 domain with the linker in the absence of the kinase domain. Truncation of the linker before W254 completely prevented cis-interaction with SH3, while constructs containing amino acids past this point showed SH3:linker interactions. The observation that the Abl linker sequence exhibits SH3-binding activity in the absence of the kinase domain is unique to Abl and was not observed with Src-family kinases. These results suggest that SH3:linker interactions may have a more prominent role in Abl regulation than in Src kinases, where the down-regulated conformation is further stabilized by a second intramolecular interaction between the C-terminal tail and the SH2 domain.

Tide Gauge Records Reveal Improved Processing of Gravity Recovery and Climate Experiment Time-Variable Mass Solutions over the Coastal Ocean

NASA Astrophysics Data System (ADS)

Piecuch, Christopher G.; Landerer, Felix W.; Ponte, Rui M.

2018-05-01

Monthly ocean bottom pressure solutions from the Gravity Recovery and Climate Experiment (GRACE), derived using surface spherical cap mass concentration (MC) blocks and spherical harmonics (SH) basis functions, are compared to tide gauge (TG) monthly averaged sea level data over 2003-2015 to evaluate improved gravimetric data processing methods near the coast. MC solutions can explain ≳ 42% of the monthly variance in TG time series over broad shelf regions and in semi-enclosed marginal seas. MC solutions also generally explain ˜5-32 % more TG data variance than SH estimates. Applying a coastline resolution improvement algorithm in the GRACE data processing leads to ˜ 31% more variance in TG records explained by the MC solution on average compared to not using this algorithm. Synthetic observations sampled from an ocean general circulation model exhibit similar patterns of correspondence between modeled TG and MC time series and differences between MC and SH time series in terms of their relationship with TG time series, suggesting that observational results here are generally consistent with expectations from ocean dynamics. This work demonstrates the improved quality of recent MC solutions compared to earlier SH estimates over the coastal ocean, and suggests that the MC solutions could be a useful tool for understanding contemporary coastal sea level variability and change.

Statistical Validation of Brain Tumor Shape Approximation via Spherical Harmonics for Image-Guided Neurosurgery1

PubMed Central

Goldberg-Zimring, Daniel; Talos, Ion-Florin; Bhagwat, Jui G.; Haker, Steven J.; Black, Peter M.; Zou, Kelly H.

2005-01-01

Rationale and Objectives Surgical planning now routinely uses both two-dimensional (2D) and three-dimensional (3D) models that integrate data from multiple imaging modalities, each highlighting one or more aspects of morphology or function. We performed a preliminary evaluation of the use of spherical harmonics (SH) in approximating the 3D shape and estimating the volume of brain tumors of varying characteristics. Materials and Methods Magnetic resonance (MR) images from five patients with brain tumors were selected randomly from our MR-guided neurosurgical practice. Standardized mean square reconstruction errors (SMSRE) by tumor volume were measured. Validation metrics for comparing performances of the SH method against segmented contours (SC) were the dice similarity coefficient (DSC) and standardized Euclidean distance (SED) measure. Results Tumor volume range was 22413–85189 mm3, and range of number of vertices in triangulated models was 3674–6544. At SH approximations with degree of at least 30, SMSRE were within 1.66 × 10−5 mm−1. Summary measures yielded a DSC range of 0.89–0.99 (pooled median, 0.97 and significantly >0.7; P < .001) and an SED range of 0.0002–0.0028 (pooled median, 0.0005). Conclusion 3D shapes of tumors may be approximated by using SH for neurosurgical applications. PMID:15831419

Evaluation of recombinant protein superoxide dismutase of Haemophilus parasuis strain SH0165 as vaccine candidate in a mouse model.

PubMed

Guo, Ling; Xu, Lei; Wu, Tao; Fu, Shulin; Qiu, Yinsheng; Hu, Chien-An Andy; Ren, Xinglong; Liu, Rongrong; Ye, Mengdie

2017-04-01

Haemophilus parasuis can cause a severe membrane inflammation disorder. It has been documented that superoxide dismutase (SOD) is a potential target to treat systemic inflammatory diseases. Therefore, we constructed an experimental H. parasuis subunit vaccine SOD and determined the protective efficacy of SOD using a lethal dose challenge against H. parasuis serovar 4 strain MD0322 and serovar 5 strain SH0165 in a mouse model. The results demonstrated that SOD could induce a strong humoral immune response in mice and provide significant immunoprotection efficacy against a lethal dose of H. parasuis serovar 4 strain MD0322 or serovar 5 strain SH0165 challenge. IgG subtype analysis indicated SOD protein could trigger a bias toward a Th1-type immune response and induce the proliferation of splenocytes and secretion of IL-2 and IFN-γ of splenocytes. In addition, serum in mice from the SOD-immunized group could inhibit the growth of strain MD0322 and strain SH0165 in the whole-blood killing bacteria assay. This is the first report that immunization of mice with SOD protein could provide protective effect against a lethal dose of H. parasuis serovar 4 and serovar 5 challenge in mice, which may provide a novel approach against heterogeneous serovar infection of H. parasuis in future.

Deficiency of the bulk spin Hall effect model for spin-orbit torques in magnetic-insulator/heavy-metal heterostructures

NASA Astrophysics Data System (ADS)

Li, Junxue; Yu, Guoqiang; Tang, Chi; Liu, Yizhou; Shi, Zhong; Liu, Yawen; Navabi, Aryan; Aldosary, Mohammed; Shao, Qiming; Wang, Kang L.; Lake, Roger; Shi, Jing

2017-06-01

Electrical currents in a magnetic-insulator/heavy-metal heterostructure can induce two simultaneous effects, namely, spin Hall magnetoresistance (SMR) on the heavy-metal side and spin-orbit torques (SOTs) on the magnetic-insulator side. Within the framework of a pure spin current model based on the bulk spin Hall effect (SHE), the ratio of the spin Hall-induced anomalous Hall effect (SH-AHE) to SMR should be equal to the ratio of the fieldlike torque (FLT) to the dampinglike torque (DLT). We perform a quantitative study of SMR, SH-AHE, and SOTs in a series of thulium iron garnet/platinum or T m3F e5O12/Pt heterostructures with different T m3F e5O12 thicknesses, where T m3F e5O12 is a ferrimagnetic insulator with perpendicular magnetic anisotropy. We find the ratio between the measured effective fields of FLT and DLT is at least two times larger than the ratio of the SH-AHE to SMR. In addition, the bulk SHE model grossly underestimates the spin-torque efficiency of FLT. Our results reveal deficiencies of the bulk SHE model and also address the importance of interfacial effects such as the Rashba and magnetic proximity effects in magnetic-insulator/heavy-metal heterostructures.

Functional Independence and Interdependence of the Src Homology Domains of Phospholipase C-γ1 in B-Cell Receptor Signal Transduction

PubMed Central

DeBell, Karen E.; Stoica, Bogdan A.; Verí, Maria-Concetta; Di Baldassarre, Angela; Miscia, Sebastiano; Graham, Laurie J.; Rellahan, Barbara L.; Ishiai, Masamichi; Kurosaki, Tomohiro; Bonvini, Ezio

1999-01-01

B-cell receptor (BCR)-induced activation of phospholipase C-γ1 (PLCγ1) and PLCγ2 is crucial for B-cell function. While several signaling molecules have been implicated in PLCγ activation, the mechanism coupling PLCγ to the BCR remains undefined. The role of PLCγ1 SH2 and SH3 domains at different steps of BCR-induced PLCγ1 activation was examined by reconstitution in a PLCγ-negative B-cell line. PLCγ1 membrane translocation required a functional SH2 N-terminal [SH2(N)] domain, was decreased by mutation of the SH3 domain, but was unaffected by mutation of the SH2(C) domain. Tyrosine phosphorylation did not require the SH2(C) or SH3 domains but depended exclusively on a functional SH2(N) domain, which mediated the association of PLCγ1 with the adapter protein, BLNK. Forcing PLCγ1 to the membrane via a myristoylation signal did not bypass the SH2(N) domain requirement for phosphorylation, indicating that the phosphorylation mediated by this domain is not due to membrane anchoring alone. Mutation of the SH2(N) or the SH2(C) domain abrogated BCR-stimulated phosphoinositide hydrolysis and signaling events, while mutation of the SH3 domain partially decreased signaling. PLCγ1 SH domains, therefore, have interrelated but distinct roles in BCR-induced PLCγ1 activation. PMID:10523627

Site Response and Basin Waves in the Sacramento–San Joaquin Delta, California

USGS Publications Warehouse

Fletcher, Jon Peter B.; Boatwright, John

2013-01-01

The Sacramento–San Joaquin Delta is an inland delta at the western extent of the Central Valley. Levees were built around swampy islands starting after the Civil War to reclaim these lands for farming. Various studies show that these levees could fail in concert from shaking from a major local or regional earthquake resulting in salty water from the San Francisco Bay contaminating the water in the Delta. We installed seismographs around the Delta and on levees to assess the contribution of site response to the seismic hazard of the levees. Cone penetrometer testing shows that the upper 10 s of meters of soil in the Delta have shear‐wave velocities of about 200  m/s, which would give a strong site response. Seismographs were sited following two strategies: pairs of stations to compare the response of the levees to nearby sites, and a more regional deployment in the Delta. Site response was determined in two different ways: a traditional spectral ratio (TSR) approach of S waves using station BDM of the Berkeley Digital Seismic Net as a reference site, and using SH/SV ratios of noise (or Nakamura’s method). Both estimates usually agree in spectral character for stations whose response is dominated by a resonant peak, but the most obvious peaks in the SH/SV ratios usually are about two‐thirds as large as the main peaks in the TSRs. Levee sites typically have large narrow resonances in the site response function compared to sites in the farmland of the Delta. These resonances, at a frequency of about 1–3 Hz, have amplitudes of about 15 with TSR and 10–12 with Nakamura’s method. Sites on farmland in the Delta also have amplifications, but these are typically broader and not as resonant in appearance. Late (slow) Rayleigh waves were recorded at stations in the Delta, have a dominant period of about one second, and are highly monochromatic. Results from a three‐station array at the Holland Marina suggest that they have a phase velocity of about 600  m/s and arrive at about the same azimuth as the straight‐line back azimuth to the source. A dispersion curve determined for the basin or valley waves yields a shallow velocity profile that increases from about 350  m/s in the upper 0.2 km to about 1.1  km/s at a depth of about 2 km.

Tropomyosin-related kinase C (TrkC) enhances podocyte migration by ERK-mediated WAVE2 activation.

PubMed

Gromnitza, Sascha; Lepa, Carolin; Weide, Thomas; Schwab, Albrecht; Pavenstädt, Hermann; George, Britta

2018-03-01

Podocyte malfunction is central to glomerular diseases and is marked by defective podocyte intercellular junctions and actin cytoskeletal dynamics. Podocytes share many morphologic features with neurons, so that similar sets of proteins appear to regulate cell process formation. One such protein is the tropomyosin-related kinase C (TrkC). TrkC deficiency in mice leads to proteinuria as a surrogate of defective kidney filter function. Activation of endogenous TrkC by its ligand neurotrophin-3 resulted in increased podocyte migration-a surrogate of podocyte actin dynamics in vivo. Employing a mutagenesis approach, we found that the Src homologous and collagen-like (Shc) binding site Tyr 516 within the TrkC cytoplasmic domain was necessary for TrkC-induced migration of podocytes. TrkC activation led to a mobility shift of Wiskott-Aldrich syndrome family verprolin-homologous protein (WAVE)-2 which is known to orchestrate Arp2/3 activation and actin polymerization. Chemical inactivation of Erk or mutagenesis of 2 of 4 known Erk target sites within WAVE2, Thr 346 and Ser 351 , abolished the TrkC-induced WAVE2 mobility shift. Knockdown of WAVE2 by shRNA abolished TrkC-induced podocyte migration. In summary, TrkC signals to the podocyte actin cytoskeleton to induce migration by phosphorylating WAVE2 Erk dependently. This signaling mechanism may be important for TrkC-mediated cytoskeletal dynamics in podocyte disease.-Gromnitza, S., Lepa, C., Weide, T., Schwab, A., Pavenstädt, H., George, B. Tropomyosin-related kinase C (TrkC) enhances podocyte migration by ERK-mediated WAVE2 activation.

Inheritance of deleterious mutations at both BRCA1 and BRCA2 in an international sample of 32,295 women.

PubMed

Rebbeck, Timothy R; Friebel, Tara M; Mitra, Nandita; Wan, Fei; Chen, Stephanie; Andrulis, Irene L; Apostolou, Paraskevi; Arnold, Norbert; Arun, Banu K; Barrowdale, Daniel; Benitez, Javier; Berger, Raanan; Berthet, Pascaline; Borg, Ake; Buys, Saundra S; Caldes, Trinidad; Carter, Jonathan; Chiquette, Jocelyne; Claes, Kathleen B M; Couch, Fergus J; Cybulski, Cezary; Daly, Mary B; de la Hoya, Miguel; Diez, Orland; Domchek, Susan M; Nathanson, Katherine L; Durda, Katarzyna; Ellis, Steve; Evans, D Gareth; Foretova, Lenka; Friedman, Eitan; Frost, Debra; Ganz, Patricia A; Garber, Judy; Glendon, Gord; Godwin, Andrew K; Greene, Mark H; Gronwald, Jacek; Hahnen, Eric; Hallberg, Emily; Hamann, Ute; Hansen, Thomas V O; Imyanitov, Evgeny N; Isaacs, Claudine; Jakubowska, Anna; Janavicius, Ramunas; Jaworska-Bieniek, Katarzyna; John, Esther M; Karlan, Beth Y; Kaufman, Bella; Investigators, KConFab; Kwong, Ava; Laitman, Yael; Lasset, Christine; Lazaro, Conxi; Lester, Jenny; Loman, Niklas; Lubinski, Jan; Manoukian, Siranoush; Mitchell, Gillian; Montagna, Marco; Neuhausen, Susan L; Nevanlinna, Heli; Niederacher, Dieter; Nussbaum, Robert L; Offit, Kenneth; Olah, Edith; Olopade, Olufunmilayo I; Park, Sue Kyung; Piedmonte, Marion; Radice, Paolo; Rappaport-Fuerhauser, Christine; Rookus, Matti A; Seynaeve, Caroline; Simard, Jacques; Singer, Christian F; Soucy, Penny; Southey, Melissa; Stoppa-Lyonnet, Dominique; Sukiennicki, Grzegorz; Szabo, Csilla I; Tancredi, Mariella; Teixeira, Manuel R; Teo, Soo-Hwang; Terry, Mary Beth; Thomassen, Mads; Tihomirova, Laima; Tischkowitz, Marc; Toland, Amanda Ewart; Toloczko-Grabarek, Aleksandra; Tung, Nadine; van Rensburg, Elizabeth J; Villano, Danylo; Wang-Gohrke, Shan; Wappenschmidt, Barbara; Weitzel, Jeffrey N; Zidan, Jamal; Zorn, Kristin K; McGuffog, Lesley; Easton, Douglas; Chenevix-Trench, Georgia; Antoniou, Antonis C; Ramus, Susan J

2016-11-11

Most BRCA1 or BRCA2 mutation carriers have inherited a single (heterozygous) mutation. Transheterozygotes (TH) who have inherited deleterious mutations in both BRCA1 and BRCA2 are rare, and the consequences of transheterozygosity are poorly understood. From 32,295 female BRCA1/2 mutation carriers, we identified 93 TH (0.3 %). "Cases" were defined as TH, and "controls" were single mutations at BRCA1 (SH1) or BRCA2 (SH2). Matched SH1 "controls" carried a BRCA1 mutation found in the TH "case". Matched SH2 "controls" carried a BRCA2 mutation found in the TH "case". After matching the TH carriers with SH1 or SH2, 91 TH were matched to 9316 SH1, and 89 TH were matched to 3370 SH2. The majority of TH (45.2 %) involved the three common Jewish mutations. TH were more likely than SH1 and SH2 women to have been ever diagnosed with breast cancer (BC; p = 0.002). TH were more likely to be diagnosed with ovarian cancer (OC) than SH2 (p = 0.017), but not SH1. Age at BC diagnosis was the same in TH vs. SH1 (p = 0.231), but was on average 4.5 years younger in TH than in SH2 (p < 0.001). BC in TH was more likely to be estrogen receptor (ER) positive (p = 0.010) or progesterone receptor (PR) positive (p = 0.013) than in SH1, but less likely to be ER positive (p < 0.001) or PR positive (p = 0.012) than SH2. Among 15 tumors from TH patients, there was no clear pattern of loss of heterozygosity (LOH) for BRCA1 or BRCA2 in either BC or OC. Our observations suggest that clinical TH phenotypes resemble SH1. However, TH breast tumor marker characteristics are phenotypically intermediate to SH1 and SH2.

Recombinant cell lines expressing shRNA targeting herpes simplex virus 2 VP16 inhibit virus replication.

PubMed

Zhang, Rui; Wang, Yan; Song, Bo; Han, Zhi Qiang; Xu, Yu Ming

2012-01-01

To establish HSV2 VP16 targeting shRNA-expressing cell lines and investigate the antiviral effect of shRNA targeting HSV2 VP16. The cell lines Vero-shRNAs and negative-control Vero-shCON were established. Their inhibition effects on VP16 mRNA expression were tested by real-time fluorescent quantitative polymerase chain reaction (PCR) and their antiviral effects were evaluated by yield reduction assay. The influence of passage numbers on the inhibition ability of cell lines was researched. Vero-shRNA24 targeting the upper stream, Vero-shRNA642 targeting the lower stream and Vero-shCON were established. Vero-shRNA24, Vero-shRNA642 and Vero-shRNA24 + 642 could reduce the VP16 mRNA significantly. Vero-shRNA24 was the most efficient. The HSV2 titers in Vero and Vero-shCON were the highest at 72 h after infection, and started decreasing thereafter. The viral titers of the Vero-shRNA groups reached a peak after 84 h and the highest titers were lower than in the Vero group. The inhibiting effect on VP16 mRNA expression and viral replication of Vero-shRNA24 cell lines of passages 10 and 20 were not significantly different from the primary cell line. Although of no statistical significance, the passage 50 cell line showed decreased inhibiting ability. Recombinant cell lines expressing shRNA targeting HSV2 VP16 were established. They can stably inhibit HSV2 VP16 mRNA expression and viral replication within passage 50. Copyright © 2012 S. Karger AG, Basel.

Two-state dynamics of the SH3-SH2 tandem of Abl kinase and the allosteric role of the N-cap.

PubMed

Corbi-Verge, Carles; Marinelli, Fabrizio; Zafra-Ruano, Ana; Ruiz-Sanz, Javier; Luque, Irene; Faraldo-Gómez, José D

2013-09-03

The regulation and localization of signaling enzymes is often mediated by accessory modular domains, which frequently function in tandems. The ability of these tandems to adopt multiple conformations is as important for proper regulation as the individual domain specificity. A paradigmatic example is Abl, a ubiquitous tyrosine kinase of significant pharmacological interest. SH3 and SH2 domains inhibit Abl by assembling onto the catalytic domain, allosterically clamping it in an inactive state. We investigate the dynamics of this SH3-SH2 tandem, using microsecond all-atom simulations and differential scanning calorimetry. Our results indicate that the Abl tandem is a two-state switch, alternating between the conformation observed in the structure of the autoinhibited enzyme and another configuration that is consistent with existing scattering data for an activated form. Intriguingly, we find that the latter is the most probable when the tandem is disengaged from the catalytic domain. Nevertheless, an amino acid stretch preceding the SH3 domain, the so-called N-cap, reshapes the free-energy landscape of the tandem and favors the interaction of this domain with the SH2-kinase linker, an intermediate step necessary for assembly of the autoinhibited complex. This allosteric effect arises from interactions between N-cap and the SH2 domain and SH3-SH2 connector, which involve a phosphorylation site. We also show that the SH3-SH2 connector plays a determinant role in the assembly equilibrium of Abl, because mutations thereof hinder the engagement of the SH2-kinase linker. These results provide a thermodynamic rationale for the involvement of N-cap and SH3-SH2 connector in Abl regulation and expand our understanding of the principles of modular domain organization.

Fusion protein based on Grb2-SH2 domain for cancer therapy

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

Saito, Yuriko; Graduate School of Pharmaceutical Sciences, Chiba University; Furukawa, Takako, E-mail: tfuru@nirs.go.jp

2010-08-20

Research highlights: {yields} Grb2 mediates EGFR signaling through binding to phosphorylate EGFR with SH2 domain. {yields} We generated fusion proteins containing 1 or 2 SH2 domains of Grb2 added with TAT. {yields} The one with 2 SH2 domains (TSSF) interfered ERK phosphorylation. {yields} TSSF significantly delayed the growth of EGFR overexpressing tumor in a mouse model. -- Abstract: Epidermal growth factor receptor (EGFR) is one of the very attractive targets for cancer therapy. In this study, we generated fusion proteins containing one or two Src-homology 2 (SH2) domains of growth factor receptor bound protein 2 (Grb2), which bind to phosphorylatedmore » EGFR, added with HIV-1 transactivating transcription for cell membrane penetration (termed TSF and TSSF, respectively). We examined if they can interfere Grb2-mediated signaling pathway and suppress tumor growth as expected from the lack of SH3 domain, which is necessary to intermediate EGFR-Grb2 cell signaling, in the fusion proteins. The transduction efficiency of TSSF was similar to that of TSF, but the binding activity of TSSF to EGFR was higher than that of TSF. Treatment of EGFR-overexpressing cells showed that TSSF decreased p42-ERK phosphorylation, while TSF did not. Both the proteins delayed cell growth but did not induce cell death in culture. TSSF also significantly suppressed tumor growth in vivo under consecutive administration. In conclusion, TSSF showed an ability to inhibit EGFR-Grb2 signaling and could have a potential to treat EGFR-activated cancer.« less

Backbone dynamics in an intramolecular prolylpeptide-SH3 complex from the diphtheria toxin repressor, DtxR

PubMed Central

Bhattacharya, Nilakshee; Yi, Myunggi; Zhou, Huan-Xiang; Logan, Timothy M.

2008-01-01

Summary The diphtheria toxin repressor contains an SH3-like domain that forms an intramolecular complex with a proline-rich (Pr) peptide segment and stabilizes the inactive state of the repressor. Upon activation of DtxR by transition metals, this intramolecular complex must dissociate as the SH3 domain and Pr segment form different interactions in the active repressor. In this study we investigate the dynamics of this intramolecular complex using backbone amide nuclear spin relaxation rates determined using NMR spectroscopy and molecular dynamics trajectories. The SH3 domain in the unbound and bound states showed typical dynamics in that the secondary structures were fairly ordered with high generalized order parameters and low effective correlation times while residues in the loops connecting β-strands exhibited reduced generalized order parameters and required additional motional terms to adequately model the relaxation rates. Residues forming the Pr segment exhibited low order parameters with internal rotational correlation times on the order of 0.6 – 1 ns. Further analysis showed that the SH3 domain was rich in millisecond timescale motions while the Pr segment was rich in motions on the 100s μs timescale. Molecular dynamics simultations indicated structural rearrangements that may contribute to the observed relaxation rates and, together with the observed relaxation rate data, suggested that the Pr segment exhibits a binding ↔ unbinding equilibrium. The results of this study provide new insights into the nature of the intramolecular complex and provide a better understanding of the biological role of the SH3 domain in regulating DtxR activity. PMID:17976643

Investigations of the middle atmospheric thermal structure and oscillations over sub-tropical regions in the Northern and Southern Hemispheres

NASA Astrophysics Data System (ADS)

Sharma, Som; Kumar, Prashant; Jethva, Chintan; Vaishnav, Rajesh; Bencherif, Hassan

2017-06-01

The temperature retrieved from the Sounding of the Atmosphere using Broadband Emission Radiometry (SABER) onboard Thermosphere Ionosphere Mesosphere Energetics and Dynamics (TIMED) satellite during January 2002 to September 2015 are used in this study to delineate the differences of middle atmospheric thermal structure in the Northern Hemisphere (NH) and Southern Hemisphere (SH). Two stations namely Mt. Abu (24.59°N, 72.70°E) in NH and Reunion Island (21.11°S, 55.53°E) in SH are chosen over sub-tropical regions. Temperature climatology from SABER observations suggests that stratopause is warmer, and upper mesosphere is cooler in NH as compared to SH. Three atmospheric models are used to understand the monthly thermal structure differences for different altitudes. Moreover, semi-annual, annual and quasi-biennial oscillations are studied using Lomb Scargle Periodogram and Wavelet transform techniques. Over NH, summer and winter season are warmer ( 4 K) and cooler ( 3 K) respectively in stratosphere as compared to SH. It is important to note here that Mt. Abu temperature is warmer ( 9 K) than Reunion Island in winter but in summer season Mt. Abu temperature is cooler in upper mesosphere and above mesosphere NH shows warming. Results show that annual oscillations are dominated in both hemisphere as compared to semi-annual and quasi-biennial oscillations. In upper mesosphere, strength of annual oscillations is substantial in NH, while semi-annual oscillations are stronger in SH. Wavelet analyses found that annual oscillations are significant in NH near mesopause, while semi-annual oscillations are strengthening in SH.

Phenotypic and Genotypic Features of a Salmonella Heidelberg Strain Isolated in Broilers in Brazil and Their Possible Association to Antibiotics and Short-Chain Organic Acids Resistance and Susceptibility

PubMed Central

Santin, Elizabeth; Hayashi, Ricardo Mitsuo; Wammes, Jessica Caroline; Gonzalez-Esquerra, Ricardo; Carazzolle, Marcelo Falsarella; Freire, Caio César de Melo; Monzani, Paulo Sérgio; da Cunha, Anderson Ferreira

2017-01-01

Salmonella enterica serovar Heidelberg is a human pathogen also found in broilers. A strain (UFPR1) has been associated with field reports of resistance to short-chain organic acids (SCOA) in broilers in the South of Brazil, but was susceptible to a Bacillus subtilis-based probiotic added in feed in a related study. This work aimed to (i) report clinical symptoms caused by SH UFPR1 in broilers, (ii) study its susceptibility to some antibiotics in vitro, and (iii) SCOA in vivo; and (iv) relate these phenotypic observations with its genome characteristics. Two in vivo trials used 1-day-old chicks housed for 21 days in 8 sterilized isolated negative pressure rooms with 4 battery cages of 12 birds each. Birds were challenged or not with 107 CFU/bird of SH UFPR1 orally and exposed or not to SCOA in a 2 × 2 factorial design. Zootechnical parameters were unaffected (P > 0.05), no clinical signs were observed, and few cecal and hepatic histologic and immune-related alterations were seen, in birds challenged with SH. Formic and propionic acids added together in drinking water, fumaric and benzoic acid in feed (Trial 1), and coated calcium butyrate in feed (Trial 2) did not reduce the SH isolation frequencies seen in cecum and liver in broilers after SH challenge (P > 0.05). SH UFPR1 was susceptible to amikacin, amoxicillin + clavulanate, ceftiofur, cephalexin, doxycycline and oxytetracycline; and mildly susceptible to ampicillin + sulbactam, cephalothin, ciprofloxacin, enrofloxacin, and gentamycin in an in vitro minimum inhibitory concentration model using Mueller–Hinton agar. The whole genome of SH UFPR1 was sequenced and consisted of a circular chromosome, spanning 4,760,321 bp with 52.18% of GC-content encoding 84 tRNA, 22 rRNA, and 4,427 protein-coding genes. The comparison between SH UFPR1 genome and a multidrug-resistant SL476 strain revealed 11 missing genomic fragments and 5 insertions related to bgt, bgr, and rpoS genes. The deleted genes codify proteins associated with cell cycle regulation, virulence, drug resistance, cellular adhesion, and salt efflux which collectively reveal key aspects of the evolution and adaptation of SH strains such as organic acids resistance and antibiotic sensitivity and provide information relevant to the control of SH in poultry. PMID:29164140

Abl N-terminal Cap stabilization of SH3 domain dynamics†

PubMed Central

Chen, Shugui; Dumitrescu, Teodora Pene; Smithgall, Thomas E.; Engen, John R.

2008-01-01

Crystal structures and other biochemical data indicate that the N-terminal cap (NCap) region of the Abelson tyrosine kinase (c-Abl) is important for maintaining the downregulated conformation of the kinase domain. The exact contributions that NCap makes in stabilizing the various intramolecular interactions within c-Abl are less clear. While the NCap appears important for locking the SH3/SH2 domains to the back of the kinase domain, there may be other more subtle elements of regulation. Hydrogen exchange (HX) and mass spectrometry (MS) were used to determine if the NCap contributes to intramolecular interactions involving the Abl SH3 domain. Under physiological conditions, the Abl SH3 domain underwent partial unfolding and its unfolding half-life was slowed during binding to the SH2-kinase linker, providing a unique assay to test NCap-induced stabilization of the SH3 domain in various constructs. The results showed that NCap stabilizes the dynamics of the SH3 domain in certain constructs but does not increase the relative affinity of the SH3 domain for the native SH2-kinase linker. The stabilization effect was absent in constructs of just NCap + SH3 but was obvious when the SH2 domain and the SH2-kinase linker were present. These results suggest that interactions between NCap and the SH3 domain can contribute to c-Abl stabilization in constructs that contain at least the SH2 domain, an effect that may partially compensate for the absence of the negative regulatory C-terminal tail found in the related Src family of kinases. PMID:18452309

Disruption of c-Kit Signaling in Kit(W-sh/W-sh) Growing Mice Increases Bone Turnover.

PubMed

Lotinun, Sutada; Krishnamra, Nateetip

2016-08-16

c-Kit tyrosine kinase receptor has been identified as a regulator of bone homeostasis. The c-Kit loss-of-function mutations in WBB6F1/J-Kit(W/W-v) mice result in low bone mass. However, these mice are sterile and it is unclear whether the observed skeletal phenotype is secondary to a sex hormone deficiency. In contrast, C57BL/6J-Kit(W-sh)/(W-sh) (W(sh)/W(sh)) mice, which carry an inversion mutation affecting the transcriptional regulatory elements of the c-Kit gene, are fertile. Here, we showed that W(sh)/W(sh) mice exhibited osteopenia with elevated bone resorption and bone formation at 6- and 9-week-old. The c-Kit W(sh) mutation increased osteoclast differentiation, the number of committed osteoprogenitors, alkaline phosphatase activity and mineralization. c-Kit was expressed in both osteoclasts and osteoblasts, and c-Kit expression was decreased in W(sh)/W(sh)osteoclasts, but not osteoblasts, suggesting an indirect effect of c-Kit on bone formation. Furthermore, the osteoclast-derived coupling factor Wnt10b mRNA was increased in W(sh)/W(sh) osteoclasts. Conditioned medium from W(sh)/W(sh) osteoclasts had elevated Wnt10b protein levels and induced increased alkaline phosphatase activity and mineralization in osteoblast cultures. Antagonizing Wnt10b signaling with DKK1 or Wnt10b antibody inhibited these effects. Our data suggest that c-Kit negatively regulates bone turnover, and disrupted c-Kit signaling couples increased bone resorption with bone formation through osteoclast-derived Wnt 10 b.

Abl N-terminal cap stabilization of SH3 domain dynamics.

PubMed

Chen, Shugui; Dumitrescu, Teodora Pene; Smithgall, Thomas E; Engen, John R

2008-05-27

Crystal structures and other biochemical data indicate that the N-terminal cap (NCap) region of the Abelson tyrosine kinase (c-Abl) is important for maintaining the downregulated conformation of the kinase domain. The exact contributions that the NCap makes in stabilizing the various intramolecular interactions within c-Abl are less clear. While the NCap appears to be important for locking the SH3 and SH2 domains to the back of the kinase domain, there may be other more subtle elements of regulation. Hydrogen exchange (HX) and mass spectrometry (MS) were used to determine if the NCap contributes to intramolecular interactions involving the Abl SH3 domain. Under physiological conditions, the Abl SH3 domain underwent partial unfolding and its unfolding half-life was slowed during binding to the SH2 kinase linker, providing a unique assay for testing NCap-induced stabilization of the SH3 domain in various constructs. The results showed that the NCap stabilizes the dynamics of the SH3 domain in certain constructs but does not increase the relative affinity of the SH3 domain for the native SH2 kinase linker. The stabilization effect was absent in constructs of just the NCap and SH3 but was obvious when the SH2 domain and the SH2 kinase linker were present. These results suggest that interactions between the NCap and the SH3 domain can contribute to c-Abl stabilization in constructs that contain at least the SH2 domain, an effect that may partially compensate for the absence of the negative regulatory C-terminal tail found in the related Src family of kinases.

Roles of the SH2 and SH3 domains in the regulation of neuronal Src kinase functions.

PubMed

Groveman, Bradley R; Xue, Sheng; Marin, Vedrana; Xu, Jindong; Ali, Mohammad K; Bienkiewicz, Ewa A; Yu, Xian-Min

2011-02-01

Previous studies demonstrated that intra-domain interactions between Src family kinases (SFKs), stabilized by binding of the phosphorylated C-terminus to the SH2 domain and/or binding of the SH2 kinase linker to the SH3 domain, lock the molecules in a closed conformation, disrupt the kinase active site, and inactivate SFKs. Here we report that the up-regulation of N-methyl-D-aspartate receptors (NMDARs) induced by expression of constitutively active neuronal Src (n-Src), in which the C-terminus tyrosine is mutated to phenylalanine (n-Src/Y535F), is significantly reduced by dysfunctions of the SH2 and/or SH3 domains of the protein. Furthermore, we found that dysfunctions of SH2 and/or SH3 domains reduce auto-phosphorylation of the kinase activation loop, depress kinase activity, and decrease NMDAR phosphorylation. The SH2 domain plays a greater regulatory role than the SH3 domain. Our data also show that n-Src binds directly to the C-terminus of the NMDAR NR2A subunit in vitro, with a K(D) of 108.2 ± 13.3 nM. This binding is not Src kinase activity-dependent, and dysfunctions of the SH2 and/or SH3 domains do not significantly affect the binding. These data indicate that the SH2 and SH3 domains may function to promote the catalytic activity of active n-Src, which is important in the regulation of NMDAR functions. © 2010 The Authors Journal compilation © 2010 FEBS.

Biocompatibility and characterization of renewable agricultural residues and polyester composites.

PubMed

Wu, Chin-San; Hsu, Yi-Chiang; Yeh, Jen-taut; Liao, Hsin-Tzu; Jhang, Jheng-Jie; Sie, Yong-Yu

2013-04-15

Composites of sesame husk and glycidyl methacrylate-grafted polytrimethylene terephthalate (PTT-g-GMA/SH) exhibit noticeably superior mechanical properties compared to PTT/SH composites due to greater compatibility between the two components. The dispersion of SH in the PTT-g-GMA matrix is highly homogeneous as a result of condensation reaction formations. Human lung fibroblasts (FBs) were seeded on these two series of composites to characterize the biocompatibility properties. In a time-dependent course, the FB proliferation results demonstrated higher performance from the PTT/SH series of composites than from the PTT-g-GMA/SH composites. In addition, collagen production by FBs present in the PTT/SH series was 20% higher than in regular culture-plates after 7 days of incubation. The water resistance of PTT-g-GMA/SH was higher than that of PTT/SH, although the weight loss of both composites buried in soil compost indicated that they were both biodegradable, especially at higher levels of SH substitution. The PTT/SH and PTT-g-GMA/SH composites were more biodegradable than pure PTT, implying a strong connection between SH content and biodegradability. Copyright © 2013 Elsevier Ltd. All rights reserved.

First-principles studies of H₂S adsorption and dissociation on metal surfaces

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

Alfonso, D R

2008-01-01

Density functional theory calculations were employed to investigate the molecular and dissociative adsorption of H₂S on the closed packed surfaces of a number of important noble metals (Ag(1 1 1), Au(1 1 1) and Cu(1 1 1)) and transition metals (Ir(1 1 1), Ni(1 1 1), Pd(1 1 1) and Pt(1 1 1)). Energy minima corresponding to adsorbed states were identified with H₂S binding preferentially at the top sites. The adsorption of other S moieties (SH and S) was also examined. SH and S were found to prefer bridge sites and hollow sites, respectively. The binding of H₂S and itsmore » S-containing dissociated species is stronger on the transition metals. The elementary reactions of abstraction of H from H₂S to form a surface SH intermediate and abstraction of H from SH to form a surface S intermediate as model pathways for the dissociation of H₂S were examined. Our results suggest that H₂S decomposition on the aforementioned transition metal surfaces is more facile, both thermodynamically and kinetically.« less

Construction and use of a Cupriavidus necator H16 soluble hydrogenase promoter (PSH) fusion to gfp (green fluorescent protein)

PubMed Central

Jugder, Bat-Erdene; Welch, Jeffrey; Braidy, Nady

2016-01-01

Hydrogenases are metalloenzymes that reversibly catalyse the oxidation or production of molecular hydrogen (H2). Amongst a number of promising candidates for application in the oxidation of H2 is a soluble [Ni–Fe] uptake hydrogenase (SH) produced by Cupriavidus necator H16. In the present study, molecular characterisation of the SH operon, responsible for functional SH synthesis, was investigated by developing a green fluorescent protein (GFP) reporter system to characterise PSH promoter activity using several gene cloning approaches. A PSH promoter-gfp fusion was successfully constructed and inducible GFP expression driven by the PSH promoter under de-repressing conditions in heterotrophic growth media was demonstrated in the recombinant C. necator H16 cells. Here we report the first successful fluorescent reporter system to study PSH promoter activity in C. necator H16. The fusion construct allowed for the design of a simple screening assay to evaluate PSH activity. Furthermore, the constructed reporter system can serve as a model to develop a rapid fluorescent based reporter for subsequent small-scale process optimisation experiments for SH expression. PMID:27547572

Differentiation Induces Dramatic Changes in miRNA Profile, Where Loss of Dicer Diverts Differentiating SH-SY5Y Cells Toward Senescence.

PubMed

Jauhari, Abhishek; Singh, Tanisha; Pandey, Ankita; Singh, Parul; Singh, Nishant; Srivastava, Ankur Kumar; Pant, Aditya Bhushan; Parmar, Devendra; Yadav, Sanjay

2017-09-01

MicroRNAs (miRNAs) are generated by endonuclease activity of Dicer, which also helps in loading of miRNAs to their target sequences. SH-SY5Y, a human neuroblastoma and a cellular model of neurodevelopment, consistently expresses genes related to neurodegenerative disorders at different biological levels (DNA, RNA, and proteins). Using SH-SY5Y cells, we have studied the role of Dicer and miRNAs in neuronal differentiation and explored involvement of P53, a master regulator of gene expression in differentiation-induced induction of miRNAs. Knocking down Dicer gene induced senescence in differentiating SH-SY5Y cells, which indicate the essential role of Dicer in brain development. Differentiation of SH-SY5Y cells by retinoic acid (RA) or RA + brain-derived neurotrophic factor (BDNF) induced dramatic changes in global miRNA expression. Fully differentiated SH-SY5Y cells (5-day RA followed by 3-day BDNF) significantly (p < 0.05 and atleast >3-fold change) upregulated and downregulated the expression of 77 and 17 miRNAs, respectively. Maximum increase was observed in the expression of miR-193-5p, miR-199a-5p, miR-192, miR-145, miR-28-5p, miR-29b, and miR-222 after RA exposure and miR-193-5p, miR-146a, miR-21, miR-199a-5p, miR-153, miR-29b, and miR-222 after RA + BDNF exposure in SH-SY5Y cells. Exploring the role of P53 in differentiating SH-SY5Y cells, we have observed that induction of miR-222, miR-192, and miR-145 is P53 dependent and expression of miR-193a-5p, miR-199a-5p, miR-146a, miR-21, miR-153, and miR-29b is P53 independent. In conclusion, decreased Dicer level enforces differentiating cells to senescence, and differentiating SH-SY5Y cells needs increased expression of P53 to cope up with changes in protein levels of mature neurons.

MeSH Now: automatic MeSH indexing at PubMed scale via learning to rank.

PubMed

Mao, Yuqing; Lu, Zhiyong

2017-04-17

MeSH indexing is the task of assigning relevant MeSH terms based on a manual reading of scholarly publications by human indexers. The task is highly important for improving literature retrieval and many other scientific investigations in biomedical research. Unfortunately, given its manual nature, the process of MeSH indexing is both time-consuming (new articles are not immediately indexed until 2 or 3 months later) and costly (approximately ten dollars per article). In response, automatic indexing by computers has been previously proposed and attempted but remains challenging. In order to advance the state of the art in automatic MeSH indexing, a community-wide shared task called BioASQ was recently organized. We propose MeSH Now, an integrated approach that first uses multiple strategies to generate a combined list of candidate MeSH terms for a target article. Through a novel learning-to-rank framework, MeSH Now then ranks the list of candidate terms based on their relevance to the target article. Finally, MeSH Now selects the highest-ranked MeSH terms via a post-processing module. We assessed MeSH Now on two separate benchmarking datasets using traditional precision, recall and F 1 -score metrics. In both evaluations, MeSH Now consistently achieved over 0.60 in F-score, ranging from 0.610 to 0.612. Furthermore, additional experiments show that MeSH Now can be optimized by parallel computing in order to process MEDLINE documents on a large scale. We conclude that MeSH Now is a robust approach with state-of-the-art performance for automatic MeSH indexing and that MeSH Now is capable of processing PubMed scale documents within a reasonable time frame. http://www.ncbi.nlm.nih.gov/CBBresearch/Lu/Demo/MeSHNow/ .

The influence of curvature configuration on the characteristic of alcohol gel insertion jacket of polymer optical fiber liquid level sensor

NASA Astrophysics Data System (ADS)

Arumnika, N.; Kuswanto, H.

2018-04-01

This study aimed to determine the effect of curvature configuration to sensitivities and linearities of Polymer Optical Fiber (POF) water level sensor. POF type SH-4001-1.3 has been used in this study. The jacket of POF of 20 cm was removed. Transparent piped inserted by alcohol gel has been used to replace the jacket. This is head of a sensor. The head of a sensor is curved with variations of the specified path length, peel length, the width of curvature, the height of curvature and waveform. Configuration A (20 cm, 34 cm, 6 cm, 2 cm, 1 wave), configuration B (20 cm, 34 cm, 8 cm, 2 cm, 1 wave), configuration C (20 cm, 34 cm, 9 cm, 2 cm, ½ wave), configuration D (20 cm, 34 cm, 10 cm, 2 cm, ½ wave). The head of a sensor inserted into the water tank. The light source inserted to one end POF is a He-Ne laser light with a power of 5 mW and a wavelength of 632.8 nm. Power output at the other end received by the Optical Power Meter (OPM). The curvature configuration the head sensor of POF affects the output. Configuration A has good sensitivity, however good linearity given by configuration.

[Magnetic Resonance Imaging Tracing the Biodistribution of SPIO-shRNA Molecular Probe in vivo].

PubMed

Deng, Xiao-Lin; Wu, Xiao-Feng; Liao, Rui-Kun; Zeng, Dan-Ni; Wen, Ming; Li, Shao-Lin

2016-07-01

To investigate the biodistribution of superparamagnetic iron oxide (SPIO)-shRNA molecular probe by magnetic resonance imaging (MRI) in vivo . Six New Zealand white rabbits were injected intravenously with SPIO-shRNA molecular probe (9.6 mg Fe/kg) via ear edge vein. The blood samples were collected to analyse the pharmacokinetic parameters through measuring the iron content by atomic absorption spectrometry (AAS) method at 30 min before and 1 min, 3 min, 5 min, 10 min, 15 min, 30 min and at 1, 2, 3, 6, 12, and 24 h after the injection. Six Kun Ming (KM) mice were injected intravenously with SPIO-shRNA molecular probe (4.8 mg Fe/kg). The biodistribution of SPIO-shRNA molecular probe was traced by MRI in vivo . Ninety six KM mice were randomly divided into control group and experimental group: each mouse in experimental group was injected intravenously with SPIO-shRNA molecular probe (4.8 mg Fe/kg). The liver, spleen, kidney, brain and muscle of the control group and the experimental group on 1, 3, 5, 7, 9, 11 and 14 d after the injection were collected. The organ iron content were measured by AAS method and Prussian blue staining in order to observe the distribution of the SPIO-shRNA molecular probe in the main organ. Our results demonstrated that the pharmacokinetics of the molecular probe complied with two-compartment model, and the blood half-life was (3.692±0.196) h. The data of MRI showed that the probe were distributed in liver and spleen, and the signs were reduced in accord with the increase of probe's doses in liver and spleen. The probe's metabolism was slow, and the probe was cleared from liver and spleen at 2 weeks after the injection. The results of AAS and Prussian blue staining further testified the results of MRI. Our data showed the biodistribution of SPIO-shRNA molecular probe in main organs can be traced by MRI in vivo . Meanwhile, it provides important information for the effectiveness of the probe by MRI at tumor in vivo.

The auto-inhibitory state of Rho guanine nucleotide exchange factor ARHGEF5/TIM can be relieved by targeting its SH3 domain with rationally designed peptide aptamers.

PubMed

He, Ping; Tan, De-Li; Liu, Hong-Xiang; Lv, Feng-Lin; Wu, Wei

2015-04-01

The short isoform of Rho guanine nucleotide exchange factor ARHGEF5 is known as TIM, which plays diverse roles in, for example, tumorigenesis, neuronal development and Src-induced podosome formation through the activation of its substrates, the Rho family of GTPases. The activation is auto-inhibited by a putative helix N-terminal to the DH domain of TIM, which is stabilized by the intramolecular interaction of C-terminal SH3 domain with a poly-proline sequence between the putative helix and the DH domain. In this study, we systematically investigated the structural basis, energetic landscape and biological implication underlying TIM auto-inhibition by using atomistic molecular dynamics simulations and binding free energy analysis. The computational study revealed that the binding of SH3 domain to poly-proline sequence is the prerequisite for the stabilization of TIM auto-inhibition. Thus, it is suggested that targeting SH3 domain with competitors of the poly-proline sequence would be a promising strategy to relieve the auto-inhibitory state of TIM. In this consideration, we rationally designed a number of peptide aptamers for competitively inhibiting the SH3 domain based on modeled TIM structure and computationally generated data. Peptide binding test and guanine nucleotide exchange analysis solidified that these designed peptides can both bind to the SH3 domain potently and activate TIM-catalyzed RhoA exchange reaction effectively. Interestingly, a positive correlation between the peptide affinity and induced exchange activity was observed. In addition, separate mutation of three conserved residues Pro49, Pro52 and Lys54 - they are required for peptide recognition by SH3 domain -- in a designed peptide to Ala would completely abolish the capability of this peptide activating TIM. All these come together to suggest an intrinsic relationship between peptide binding to SH3 domain and the activation of TIM. Copyright © 2015 Elsevier B.V. and Société Française de Biochimie et Biologie Moléculaire (SFBBM). All rights reserved.

SH2 and SH3 domains: elements that control interactions of cytoplasmic signaling proteins.

PubMed

Koch, C A; Anderson, D; Moran, M F; Ellis, C; Pawson, T

1991-05-03

Src homology (SH) regions 2 and 3 are noncatalytic domains that are conserved among a series of cytoplasmic signaling proteins regulated by receptor protein-tyrosine kinases, including phospholipase C-gamma, Ras GTPase (guanosine triphosphatase)-activating protein, and Src-like tyrosine kinases. The SH2 domains of these signaling proteins bind tyrosine phosphorylated polypeptides, implicated in normal signaling and cellular transformation. Tyrosine phosphorylation acts as a switch to induce the binding of SH2 domains, thereby mediating the formation of heteromeric protein complexes at or near the plasma membrane. The formation of these complexes is likely to control the activation of signal transduction pathways by tyrosine kinases. The SH3 domain is a distinct motif that, together with SH2, may modulate interactions with the cytoskeleton and membrane. Some signaling and transforming proteins contain SH2 and SH3 domains unattached to any known catalytic element. These noncatalytic proteins may serve as adaptors to link tyrosine kinases to specific target proteins. These observations suggest that SH2 and SH3 domains participate in the control of intracellular responses to growth factor stimulation.

Quality of pharmacy-specific Medical Subject Headings (MeSH) assignment in pharmacy journals indexed in MEDLINE.

PubMed

Minguet, Fernando; Salgado, Teresa M; van den Boogerd, Lucienne; Fernandez-Llimos, Fernando

2015-01-01

The Medical Subject Headings (MeSH) is the National Library of Medicine (NLM) controlled vocabulary for indexing articles. Inaccuracies in the MeSH thesaurus have been reported for several areas including pharmacy. To assess the quality of pharmacy-specific MeSH assignment to articles indexed in pharmacy journals. The 10 journals containing the highest number of articles published in 2012 indexed under the MeSH 'Pharmacists' were identified. All articles published over a 5-year period (2008-2012) in the 10 previously selected journals were retrieved from PubMed. MeSH terms used to index these articles were extracted and pharmacy-specific MeSH terms were identified. The frequency of use of pharmacy-specific MeSH terms was calculated across journals. A total of 6989 articles were retrieved from the 10 pharmacy journals, of which 328 (4.7%) were articles not fully indexed and therefore did not contain any MeSH terms assigned. Among the 6661 articles fully indexed, the mean number of MeSH terms was 10.1 (SD = 4.0), being 1.0 (SD = 1.3) considered as Major MeSH. Both values significantly varied across journals. The mean number of pharmacy-specific MeSH terms per article was 0.9 (SD = 1.2). A total of 3490 (52.4%) of the 6661 articles were indexed in pharmacy journals without a single pharmacy-specific MeSH. Of the total 67193 MeSH terms assigned to articles, on average 10.5% (SD = 13.9) were pharmacy-specific MeSH. A statistically significant different pattern of pharmacy-specific MeSH assignment was identified across journals (Kruskal-Wallis P < 0.001). The quality of assignment of the existing pharmacy-specific MeSH terms to articles indexed in pharmacy journals can be improved to further enhance evidence gathering in pharmacy. Over half of the articles published in the top-10 journals publishing pharmacy literature were indexed without a single pharmacy-specific MeSH. Copyright © 2015 Elsevier Inc. All rights reserved.

Fast-Response Fiber-Optic Anemometer with Temperature Self-Compensation

DTIC Science & Technology

2015-05-18

be considered to be a function of time only. With a heating source within the sensor, the model for LSA is expressed as [13], ( ) ( ),s w s s shA ... shA C Vρ , in the exponent of the transient term in RHS of Eq. (7) characterizes the response time of the anemometer. Conversion of the temperature...circulator, and the reflected signal night was acquired by a high-speed spectrometer (Ibsen Photonics, I-MON 256 USB) which was connected to a computer

Experimental and Computational Studies on the Scattering of an Edge-Guided Wave by a Hidden Crack on a Racecourse Shaped Hole.

PubMed

Vien, Benjamin Steven; Rose, Louis Raymond Francis; Chiu, Wing Kong

2017-07-01

Reliable and quantitative non-destructive evaluation for small fatigue cracks, in particular those in hard-to-inspect locations, is a challenging problem. Guided waves are advantageous for structural health monitoring due to their slow geometrical decay of amplitude with propagating distance, which is ideal for rapid wide-area inspection. This paper presents a 3D laser vibrometry experimental and finite element analysis of the interaction between an edge-guided wave and a small through-thickness hidden edge crack on a racecourse shaped hole that occurs, in practice, as a fuel vent hole. A piezoelectric transducer is bonded on the straight edge of the hole to generate the incident wave. The excitation signal consists of a 5.5 cycle Hann-windowed tone burst of centre frequency 220 kHz, which is below the cut-off frequency for the first order Lamb wave modes (SH1). Two-dimensional fast Fourier transformation (2D FFT) is applied to the incident and scattered wave field along radial lines emanating from the crack mouth, so as to identify the wave modes and determine their angular variation and amplitude. It is shown experimentally and computationally that mid-plane symmetric edge waves can travel around the hole's edge to detect a hidden crack. Furthermore, the scattered wave field due to a small crack length, a , (compared to the wavelength λ of the incident wave) is shown to be equivalent to a point source consisting of a particular combination of body-force doublets. It is found that the amplitude of the scattered field increases quadratically as a function of a/λ , whereas the scattered wave pattern is independent of crack length for small cracks a < λ . This study of the forward scattering problem from a known crack size provides a useful guide for the inverse problem of hidden crack detection and sizing.

SH2-catalytic domain linker heterogeneity influences allosteric coupling across the SFK family.

PubMed

Register, A C; Leonard, Stephen E; Maly, Dustin J

2014-11-11

Src-family kinases (SFKs) make up a family of nine homologous multidomain tyrosine kinases whose misregulation is responsible for human disease (cancer, diabetes, inflammation, etc.). Despite overall sequence homology and identical domain architecture, differences in SH3 and SH2 regulatory domain accessibility and ability to allosterically autoinhibit the ATP-binding site have been observed for the prototypical SFKs Src and Hck. Biochemical and structural studies indicate that the SH2-catalytic domain (SH2-CD) linker, the intramolecular binding epitope for SFK SH3 domains, is responsible for allosterically coupling SH3 domain engagement to autoinhibition of the ATP-binding site through the conformation of the αC helix. As a relatively unconserved region between SFK family members, SH2-CD linker sequence variability across the SFK family is likely a source of nonredundant cellular functions between individual SFKs via its effect on the availability of SH3 and SH2 domains for intermolecular interactions and post-translational modification. Using a combination of SFKs engineered with enhanced or weakened regulatory domain intramolecular interactions and conformation-selective inhibitors that report αC helix conformation, this study explores how SH2-CD sequence heterogeneity affects allosteric coupling across the SFK family by examining Lyn, Fyn1, and Fyn2. Analyses of Fyn1 and Fyn2, isoforms that are identical but for a 50-residue sequence spanning the SH2-CD linker, demonstrate that SH2-CD linker sequence differences can have profound effects on allosteric coupling between otherwise identical kinases. Most notably, a dampened allosteric connection between the SH3 domain and αC helix leads to greater autoinhibitory phosphorylation by Csk, illustrating the complex effects of SH2-CD linker sequence on cellular function.

Methanethiol Concentrations and Sea-Air Fluxes in the Subarctic NE Pacific Ocean

NASA Astrophysics Data System (ADS)

Kiene, R. P.; Williams, T. E.; Esson, K.; Tortell, P. D.; Dacey, J. W. H.

2017-12-01

Exchange of volatile organic sulfur from the ocean to the atmosphere impacts the global sulfur cycle and the climate system and is thought to occur mainly via the gas dimethylsulfide (DMS). DMS is produced during degradation of the abundant phytoplankton osmolyte dimethylsulfoniopropionate (DMSP) but bacteria can also convert dissolved DMSP into the sulfur gas methanethiol (MeSH). MeSH has been difficult to measure in seawater because of its high chemical and biological reactivity and, thus, information on MeSH concentrations, distribution and sea-air fluxes is limited. We measured MeSH in the northeast subarctic Pacific Ocean in July 2016, along transects with strong phytoplankton abundance gradients. Water samples obtained with Niskin bottles were analyzed for MeSH by purge-and-trap gas chromatography. Depth profiles showed that MeSH concentrations were high near the surface and declined with depth. Surface waters (5 m depth) had an average MeSH concentration of 0.75 nM with concentrations reaching up to 3nM. MeSH concentrations were correlated (r = 0.47) with microbial turnover of dissolved DMSP which ranged up to 236 nM per day. MeSH was also correlated with total DMSP (r = 0.93) and dissolved DMS (r = 0.63), supporting the conclusion that DMSP was a major precursor of MeSH. Surface water MeSH:DMS concentration ratios averaged 0.19 and ranged up to 0.50 indicating that MeSH was a significant fraction of the volatile sulfur pool in surface waters. Sea-air fluxes of MeSH averaged 15% of the combined DMS+MeSH flux, therefore MeSH contributed an important fraction of the sulfur emitted to the atmosphere from the subarctic NE Pacific Ocean.

DLP1-Dependent Mitochondrial Fragmentation Mediates 1-methyl-4-phenylpyridinium Toxicity in Neurons: Implications for Parkinson's Disease

PubMed Central

Wang, Xinglong; Su, Bo; Liu, Wanhong; He, Xiaohua; Gao, Yuan; Castellani, Rudy J.; Perry, George; Smith, Mark A.; Zhu, Xiongwei

2011-01-01

SUMMARY Selective degeneration of nigrostriatal dopaminergic neurons in Parkinson disease (PD) can be modeled by the administration of the neurotoxin 1-methyl-4-phenylpyridinium (MPP+). Since abnormal mitochondrial dynamics are increasingly implicated in the pathogenesis of PD, in this study, we investigated the effect of MPP+ on mitochondrial dynamics and assessed temporal and causal relationship with other toxic effects induced by MPP+ in neuronal cells. In SH-SY5Y cells, MPP+ causes a rapid increase in mitochondrial fragmentation followed by a second wave of increase in mitochondrial fragmentation, along with increased DLP1 expression and mitochondrial translocation. Genetic inactivation of DLP1 completely blocks MPP+-induced mitochondrial fragmentation. Notably, this approach partially rescues MPP+-induced decline in ATP levels and ATP/ADP ratio and increased [Ca2+]i and almost completely prevents increased reactive oxygen species production, loss of mitochondrial membrane potential, enhanced autophagy and cell death, suggesting that mitochondria fragmentation is an upstream event that mediates MPP+-induced toxicity. On the other hand, thiol antioxidant NAC or glutamate receptor antagonist D-AP5 also partially alleviate MPP+-induced mitochondrial fragmentation, suggesting a vicious spiral of events contributes to MPP+-induced toxicity. We further validated our findings in primary rat midbrain dopaminergic neurons that 0.5 μM MPP+ induced mitochondrial fragmentation only in TH-positive dopaminergic neurons in a similar pattern to that in SH-SY5Y cells but had no effects on these mitochondrial parameters in TH-negative neurons. Overall, these findings suggest that DLP1-dependent mitochondrial fragmentation plays a crucial role in mediating MPP+-induced mitochondria abnormalities and cellular dysfunction and may represent a novel therapeutic target for PD. PMID:21615675

Biologically synthesized silver nanoparticles induce neuronal differentiation of SH-SY5Y cells via modulation of reactive oxygen species, phosphatases, and kinase signaling pathways.

PubMed

Dayem, Ahmed Abdal; Kim, BongWoo; Gurunathan, Sangiliyandi; Choi, Hye Yeon; Yang, Gwangmo; Saha, Subbroto Kumar; Han, Dawoon; Han, Jihae; Kim, Kyeongseok; Kim, Jin-Hoi; Cho, Ssang-Goo

2014-07-01

Nano-scale materials are noted for unique properties, distinct from those of their bulk material equivalents. In this study, we prepared spherical silver nanoparticles (AgNPs) with an average size of about 30 nm and tested their potency to induce neuronal differentiation of SH-SY5Y cells. Human neuroblastoma SH-SY5Y cells are considered an ideal in vitro model for studying neurogenesis, as they can be maintained in an undifferentiated state or be induced to differentiate into neuron-like phenotypes in vitro by several differentiation-inducing agents. Treatment of SH-SY5Y cells by biologically synthesized AgNPs led to cell morphological changes and significant increase in neurite length and enhanced the expression of neuronal differentiation markers such as Map-2, β-tubulin III, synaptophysin, neurogenin-1, Gap-43, and Drd-2. Furthermore, we observed an increase in generation of intracellular reactive oxygen species (ROS), activation of several kinases such as ERK and AKT, and downregulation of expression of dual-specificity phosphatases (DUSPs) in AgNPs-exposed SH-SY5Y cells. Our results suggest that AgNPs modulate the intracellular signaling pathways, leading to neuronal differentiation, and could be applied as promising nanomaterials for stem cell research and therapy. Copyright © 2014 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

Pim-3 enhances melanoma cell migration and invasion by promoting STAT3 phosphorylation.

PubMed

Liu, Jing; Qu, Xinyu; Shao, Liwei; Hu, Yuan; Yu, Xin; Lan, Peixiang; Guo, Qie; Han, Qiuju; Zhang, Jian; Zhang, Cai

2018-03-04

Melanoma is the deadliest form of commonly encountered skin cancer, and has fast propagating and highly invasive characteristics. Pim-3, a highly expressed oncogene in melanoma, is a highly conserved serine/threonine kinase with various biological activities, such as proliferation-accelerating and anti-apoptosis effects on cancer progression. However, whether Pim-3 regulates melanoma metastasis has not been determined. Here, we constructed a Pim-3-silencing short hairpin RNA (sh-Pim-3), a TLR7-stimulating ssRNA and a dual-function vector containing a sh-Pim-3 and a ssRNA, and transfected them into the B16F10 melanoma cell line to investigate the effects of Pim-3 on migration and invasion in melanoma. We found that sh-Pim-3 inhibited B16F10 cell migration and invasion in vitro. In a tumor-bearing mouse model, sh-Pim-3 significantly downregulated pulmonary metastasis of B16F10 melanoma cell in vivo. Mechanistically, sh-Pim-3 inhibited metastasis by regulating the expression of genes related to epithelial-mesenchymal transition (EMT). Further study revealed that by promoting the phosphorylation of STAT3 (signal transducer and activator of transcription 3), Pim-3 induced the expression of Slug, Snail, and ZEB1, which enhanced EMT-related changes and induced melanoma migration and invasion. Our study suggests that Pim-3 is a potential effective target for melanoma therapy.

Porphyromonas gingivalis hydrogen sulfide enhances methyl mercaptan-induced pathogenicity in mouse abscess formation.

PubMed

Nakamura, Suguru; Shioya, Koki; Hiraoka, B Yukihiro; Suzuki, Nao; Hoshino, Tomonori; Fujiwara, Taku; Yoshinari, Nobuo; Ansai, Toshihiro; Yoshida, Akihiro

2018-04-01

Porphyromonas gingivalis produces hydrogen sulfide (H2S) from l-cysteine. However, the role of H2S produced by P. gingivalis in periodontal inflammation is unclear. In this study, we identified the enzyme that catalyses H2S production from l-cysteine and analysed the role of H2S using a mouse abscess model. The enzyme identified was identical to methionine γ-lyase (PG0343), which produces methyl mercaptan (CH3SH) from l-methionine. Therefore, we analysed H2S and CH3SH production by P. gingivalis W83 and a PG0343-deletion mutant (ΔPG0343) with/without l-cysteine and/or l-methionine. The results indicated that CH3SH is produced constitutively irrespective of the presence of l-methionine, while H2S was greatly increased by both P. gingivalis W83 and ΔPG0343 in the presence of l-cysteine. In contrast, CH3SH production by ΔPG0343 was absent irrespective of the presence of l-methionine, and H2S production was eliminated in the absence of l-cysteine. Thus, CH3SH and H2S production involves different substrates, l-methionine or l-cysteine, respectively. Based on these characteristics, we analysed the roles of CH3SH and H2S in abscess formation in mice by P. gingivalis W83 and ΔPG0343. Abscess formation by P. gingivalis W83, but not ΔPG0343, differed significantly in the presence and absence of l-cysteine. In addition, the presence of l-methionine did not affect the size of abscesses generated by P. gingivalis W83 and ΔPG0343. Therefore, we conclude that H2S produced by P. gingivalis does not induce inflammation; however, H2S enhances inflammation caused by CH3SH. Thus, these results suggest the H2S produced by P. gingivalis plays a supportive role in inflammation caused by methionine γ-lyase.

Polar Desolvation and Position 226 of Pancreatic and Neutrophil Elastases Are Crucial to their Affinity for the Kunitz-Type Inhibitors ShPI-1 and ShPI-1/K13L.

PubMed

Hernández González, Jorge Enrique; García-Fernández, Rossana; Valiente, Pedro Alberto

2015-01-01

The Kunitz-type protease inhibitor ShPI-1 inhibits human neutrophil elastase (HNE, Ki = 2.35·10-8 M) but does not interact with the porcine pancreatic elastase (PPE); whereas its P1 site variant, ShPI-1/K13L, inhibits both HNE and PPE (Ki = 1.3·10-9 M, and Ki = 1.2·10-8 M, respectively). By employing a combination of molecular modeling tools, e.g., structural alignment, molecular dynamics simulations and Molecular Mechanics Generalized-Born/Poisson-Boltzmann Surface Area free energy calculations, we showed that D226 of HNE plays a critical role in the interaction of this enzyme with ShPI-1 through the formation of a strong salt bridge and hydrogen bonds with K13 at the inhibitor's P1 site, which compensate the unfavorable polar-desolvation penalty of the latter residue. Conversely, T226 of PPE is unable to establish strong interactions with K13, thereby precluding the insertion of K13 side-chain into the S1 subsite of this enzyme. An alternative conformation of K13 site-chain placed at the entrance of the S1 subsite of PPE, similar to that observed in the crystal structure of ShPI-1 in complex with chymotrypsin (PDB: 3T62), is also unfavorable due to the lack of stabilizing pair-wise interactions. In addition, our results suggest that the higher affinity of ShPI-1/K13L for both elastases mainly arises from the lower polar-desolvation penalty of L13 compared to that of K13, and not from stronger pair-wise interactions of the former residue with those of each enzyme. These results provide insights into the PPE and HNE inhibition and may contribute to the design of more potent and/or specific inhibitors toward one of these proteases.

SU-E-T-22: A Deterministic Solver of the Boltzmann-Fokker-Planck Equation for Dose Calculation

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

Hong, X; Gao, H; Paganetti, H

2015-06-15

Purpose: The Boltzmann-Fokker-Planck equation (BFPE) accurately models the migration of photons/charged particles in tissues. While the Monte Carlo (MC) method is popular for solving BFPE in a statistical manner, we aim to develop a deterministic BFPE solver based on various state-of-art numerical acceleration techniques for rapid and accurate dose calculation. Methods: Our BFPE solver is based on the structured grid that is maximally parallelizable, with the discretization in energy, angle and space, and its cross section coefficients are derived or directly imported from the Geant4 database. The physical processes that are taken into account are Compton scattering, photoelectric effect, pairmore » production for photons, and elastic scattering, ionization and bremsstrahlung for charged particles.While the spatial discretization is based on the diamond scheme, the angular discretization synergizes finite element method (FEM) and spherical harmonics (SH). Thus, SH is used to globally expand the scattering kernel and FFM is used to locally discretize the angular sphere. As a Result, this hybrid method (FEM-SH) is both accurate in dealing with forward-peaking scattering via FEM, and efficient for multi-energy-group computation via SH. In addition, FEM-SH enables the analytical integration in energy variable of delta scattering kernel for elastic scattering with reduced truncation error from the numerical integration based on the classic SH-based multi-energy-group method. Results: The accuracy of the proposed BFPE solver was benchmarked against Geant4 for photon dose calculation. In particular, FEM-SH had improved accuracy compared to FEM, while both were within 2% of the results obtained with Geant4. Conclusion: A deterministic solver of the Boltzmann-Fokker-Planck equation is developed for dose calculation, and benchmarked against Geant4. Xiang Hong and Hao Gao were partially supported by the NSFC (#11405105), the 973 Program (#2015CB856000) and the Shanghai Pujiang Talent Program (#14PJ1404500)« less

SH2 Binding Site Protection Assay: A Method for Identification of SH2 Domain Interaction Partners by Exploiting SH2 Mediated Phosphosite Protection.

PubMed

Jadwin, Joshua A

2017-01-01

Over the last two decades there has been a significant effort in the field to characterize the phosphosite binding specificities of SH2 domains with the goal of deciphering the pY signaling code. Although high throughput studies in various formats using most SH2 domains have collectively provided a rich resource of in vitro SH2-pTyr site specificity maps, this data can only be used approximate what is happening in the cell where protein concentrations and localization are not homogenous, as they are for in vitro experiments. Here we describe an in vivo approach, SH2 site protection assay, which can capture the pTyr binding specificity of SH2 domains in the cell. The basis of this approach is SH2-pY site protection, the ability of SH2 domains to prevent the PTP-dependent dephosphorylation of their pY site binding partners. We overexpress a tracer SH2 domain in cells and quantify the change in abundance of tyrosine phosphorylated sites using MS. Since the method is performed in vivo, it has the advantage of identifying SH2-pY interactions as they occur within in the cell.

Structure of lipid kinase p110β/p85β elucidates an unusual SH2-domain-mediated inhibitory mechanism.

PubMed

Zhang, Xuxiao; Vadas, Oscar; Perisic, Olga; Anderson, Karen E; Clark, Jonathan; Hawkins, Phillip T; Stephens, Len R; Williams, Roger L

2011-03-04

Phosphoinositide 3-kinases (PI3Ks) are essential for cell growth, migration, and survival. The structure of a p110β/p85β complex identifies an inhibitory function for the C-terminal SH2 domain (cSH2) of the p85 regulatory subunit. Mutagenesis of a cSH2 contact residue activates downstream signaling in cells. This inhibitory contact ties up the C-terminal region of the p110β catalytic subunit, which is essential for lipid kinase activity. In vitro, p110β basal activity is tightly restrained by contacts with three p85 domains: the cSH2, nSH2, and iSH2. RTK phosphopeptides relieve inhibition by nSH2 and cSH2 using completely different mechanisms. The binding site for the RTK's pYXXM motif is exposed on the cSH2, requiring an extended RTK motif to reach and disrupt the inhibitory contact with p110β. This contrasts with the nSH2 where the pY-binding site itself forms the inhibitory contact. This establishes an unusual mechanism by which p85 SH2 domains contribute to RTK signaling specificities. Copyright © 2011 Elsevier Inc. All rights reserved.

Influence of Sodium Hyaluronate Concentration on Corneal Aberrations in Soft Contact Lens Wearers

PubMed Central

Lee, Jong Soo; Park, Jong Moon; Cho, Hyun Kyung; Kim, Su Jin; Huh, Hyoun Do

2018-01-01

Purpose This study aimed to evaluate the influence of varying concentrations of sodium hyaluronate (SH) eye drops on corneal aberrations in normal individuals wearing silicone hydrogel contact lenses. Methods Normal individuals wearing silicone hydrogel contact lenses were enrolled in this study. Subjects were classified into two groups depending on the concentration of the preservative-free SH used (group 1, 0.1% SH; group 2, 0.3% SH). All subjects were asked to blink five times after instillation of the SH eye drop and before the Galilei measurements. Corneal aberrations were measured over the contact lenses before and after SH eye drop instillation. Visual acuity (VA) over the contact lenses was also measured both before instillation of the SH eye drop and after the subjects completed the five blinks. Results There was no change in VA after SH instillation in group 1; however, group 2's VA significantly deteriorated after SH instillation. Changes in VA after SH instillation compared to baseline were significantly higher in group 2 than in group 1. Similarly, the increase in corneal aberrations after SH instillation was significant in group 2 but not significant in group 1. Among the significantly increased corneal aberration parameters, defocus was the main type in group 2. Changes in corneal aberrations after SH instillation compared to baseline were significantly higher in group 2 than in group 1. Conclusions A 0.3%-concentration of SH increases corneal aberration and decreases VA in soft contact lens wearers. Defocus is the main type of aberration that increased in the 0.3% SH instillation group. PMID:29611370

Optical label-free and model-free probe of the surface potential of nanoscale and microscopic objects in aqueous solution

NASA Astrophysics Data System (ADS)

Lütgebaucks, Cornelis; Gonella, Grazia; Roke, Sylvie

2016-11-01

The electrostatic environment of aqueous systems is an essential ingredient for the function of any living system. To understand the electrostatic properties and their molecular foundation in soft, living, and three-dimensional systems, we developed a table-top model-free method to determine the surface potential of nano- and microscopic objects in aqueous solutions. Angle-resolved nonresonant second harmonic (SH) scattering measurements contain enough information to determine the surface potential unambiguously, without making assumptions on the structure of the interfacial region. The scattered SH light that is emitted from both the particle interface and the diffuse double layer can be detected in two different polarization states that have independent scattering patterns. The angular shape and intensity are determined by the surface potential and the second-order surface susceptibility. Calibrating the response with the SH intensity of bulk water, a single, unique surface potential value can be extracted. We demonstrate the method with 80 nm bare oil droplets in water and ˜50 nm dioleoylphosphatidylcholine (DOPC) and dioleoylphosphatidylserine (DOPS) liposomes at various ionic strengths.

Two-state dynamics of the SH3–SH2 tandem of Abl kinase and the allosteric role of the N-cap

PubMed Central

Corbi-Verge, Carles; Marinelli, Fabrizio; Zafra-Ruano, Ana; Ruiz-Sanz, Javier; Luque, Irene; Faraldo-Gómez, José D.

2013-01-01

The regulation and localization of signaling enzymes is often mediated by accessory modular domains, which frequently function in tandems. The ability of these tandems to adopt multiple conformations is as important for proper regulation as the individual domain specificity. A paradigmatic example is Abl, a ubiquitous tyrosine kinase of significant pharmacological interest. SH3 and SH2 domains inhibit Abl by assembling onto the catalytic domain, allosterically clamping it in an inactive state. We investigate the dynamics of this SH3–SH2 tandem, using microsecond all-atom simulations and differential scanning calorimetry. Our results indicate that the Abl tandem is a two-state switch, alternating between the conformation observed in the structure of the autoinhibited enzyme and another configuration that is consistent with existing scattering data for an activated form. Intriguingly, we find that the latter is the most probable when the tandem is disengaged from the catalytic domain. Nevertheless, an amino acid stretch preceding the SH3 domain, the so-called N-cap, reshapes the free-energy landscape of the tandem and favors the interaction of this domain with the SH2-kinase linker, an intermediate step necessary for assembly of the autoinhibited complex. This allosteric effect arises from interactions between N-cap and the SH2 domain and SH3–SH2 connector, which involve a phosphorylation site. We also show that the SH3–SH2 connector plays a determinant role in the assembly equilibrium of Abl, because mutations thereof hinder the engagement of the SH2-kinase linker. These results provide a thermodynamic rationale for the involvement of N-cap and SH3–SH2 connector in Abl regulation and expand our understanding of the principles of modular domain organization. PMID:23959873

The relationship between sitting height, sitting height to height ratio with blood pressure among Polokwane private school children aged 6-13 years.

PubMed

Ramoshaba, Nthai E; Monyeki, Kotsedi D; Mpya, Joyce; Monyeki, Mafolwa S

2018-01-04

It is notable that sitting height (SH) correlates with blood pressure (BP) in children and adolescents of developed countries. However, little is known about the relationships between SH and SH to height ratio (SH/H) with BP in South African children from middle and upper socio-economic groups. The purpose of this study was to compare SH and SH/H of private school attending children in the Polokwane area with National Health and Nutrition Examination Survey III (NHANES III) reference population and to determine the relationship between SH, SH/H with BP among private school attending children. A total of 1665 children (846 boys and 819 girls) aged between 6 and 13 years attending three private schools in Polokwane, underwent anthropometric and BP measurements using standard procedures. Linear regression was used to determine the relationship between height, SH, SH/H with BP among these children. Polokwane private school attending boys from age 7 to 13 years displayed a lower mean SH compared to the NHANES III whereas NHANHES III girls from age 10 to 13 years had a higher mean SH compared to those in private school. In the simple regression analysis, SH was positively associated with SBP (β =1.318; 95% CI = 1.217-1.418) and DBP (β = 0.641; 95% Cl = 0.555-0.727). The findings remains statistically significant only for SH with both SBP (β = 1.025; 95% Cl = 0.844-1.201) and DBP (β = 0.585; 95% Cl 0.434-0.736) after adjusting for age, gender and BMI among these children. In South African children, SH and SH/H were lower compared to the NHANES III children. There was a significant positive association between DBP and SBP together with the components of height among Polokwane private school children.