WorldWideScience

Sample records for surface skimming sh

  1. Skimming the surface with Burgess Shale arthropod locomotion.

    Science.gov (United States)

    Minter, Nicholas J; Mángano, M Gabriela; Caron, Jean-Bernard

    2012-04-22

    The first arthropod trackways are described from the Middle Cambrian Burgess Shale Formation of Canada. Trace fossils, including trackways, provide a rich source of biological and ecological information, including direct evidence of behaviour not commonly available from body fossils alone. The discovery of large arthropod trackways is unique for Burgess Shale-type deposits. Trackway dimensions and the requisite number of limbs are matched with the body plan of a tegopeltid arthropod. Tegopelte, one of the rarest Burgess Shale animals, is over twice the size of all other benthic arthropods known from this locality, and only its sister taxon, Saperion, from the Lower Cambrian Chengjiang biota of China, approaches a similar size. Biomechanical trackway analysis demonstrates that tegopeltids were capable of rapidly skimming across the seafloor and, in conjunction with the identification of gut diverticulae in Tegopelte, supports previous hypotheses on the locomotory capabilities and carnivorous mode of life of such arthropods. The trackways occur in the oldest part (Kicking Horse Shale Member) of the Burgess Shale Formation, which is also known for its scarce assemblage of soft-bodied organisms, and indicate at least intermittent oxygenated bottom waters and low sedimentation rates.

  2. Skimming the surface. Verbal overshadowing of analogical retrieval.

    Science.gov (United States)

    Lane, Sean M; Schooler, Jonathan W

    2004-11-01

    It has become almost a maxim that "talking through" a problem is advantageous. Contrary to this wisdom, studies from numerous domains have demonstrated that describing one's thought processes or analyzing a judgment may, in some circumstances, actually impair performance. The two experiments reported here built upon prior work by examining the effect of verbalization on the retrieval of analogies. Participants read a series of 16 short stories. Later, they were presented with 8 test stories and indicated whether these stories were analogies of the stories they had read previously. Each test story shared the same deep structure with one prior story and only surface characteristics with another prior story. Half of the participants completed the test while thinking aloud, and half did not think aloud. In both experiments, participants who thought aloud were more likely to retrieve surface matches and less likely to retrieve true analogies than participants who did not verbalize their thoughts during the test.

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

    Science.gov (United States)

    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.

  4. Antiplane SH-deformations near a surface rigid foundation above a subsurface rigid circular tunnel

    Science.gov (United States)

    Lee, V. W.; Manoogian, M. E.; Chen, S.

    2002-06-01

    The problem on the dynamic response of a rigid embedded foundation in the presence of an underground rigid tunnel and subjected to excitation of incident anti-plane SH waves is analyzed. By using the exact analytical solution for the two-dimensional SH-wave propagation in and around both the surface rigid foundation and subsurface rigid tunnel, those aspects of the resulting ground motions that are of special interest and importance for seismic resistant design in earthquake analyses have been examined. The computed amplitudes of the resulting periodic ground motions display a very complicated wave-interference between the surface foundation and underground tunnel that lead to observed standing wave patterns, together with abrupt changes in the wave amplitudes and large amplification of the incident motions.

  5. Antiplane SH-deformations near a surface rigid foundation above a subsurface rigid circular tunnel

    Institute of Scientific and Technical Information of China (English)

    2002-01-01

    The problem on the dynamic response of a rigid embedded foundation in the presence of an underground rigidtunnel and subjected to excitation of incident anti-plane SH waves is analyzed. By using the exact analytical solution for thetwo-dimensional SH-wave propagation in and around both the surface rigid foundation and subsurface rigid tunnel, thoseaspects of the resulting ground motions that are of special interest and importance for seismic resistant design in earthquakeanalyses have been examined. The computed amplitudes of the resulting periodic ground motions display a very complicatedwave-interference between the surface foundation and underground tunnel that lead to observed standing wave patterns,together with abrupt changes in the wave amplitudes and large amplification of the incident motions.

  6. On evaluation of ShARP passive rainfall retrievals over snow-covered land surfaces and coastal zones

    CERN Document Server

    Ebtehaj, Ardeshir M; Foufoula-Georgiou, Efi

    2015-01-01

    For precipitation retrievals over land, using satellite measurements in microwave bands, it is important to properly discriminate the weak rainfall signals from strong and highly variable background surface emission. Traditionally, land rainfall retrieval methods often rely on a weak signal of rainfall scattering on high-frequency channels (85 GHz) and make use of empirical thresholding and regression-based techniques. Due to the increased ground surface signal interference, precipitation retrieval over radiometrically complex land surfaces, especially over snow-covered lands, deserts and coastal areas, is of particular challenge for this class of retrieval techniques. This paper evaluates the results by the recently proposed Shrunken locally linear embedding Algorithm for Retrieval of Precipitation (ShARP), over a radiometrically complex terrain and coastal areas using the data provided by the Tropical Rainfall Measuring Mission (TRMM) satellite. To this end, the ShARP retrieval experiments are performed ove...

  7. 7 CFR 58.233 - Skim milk.

    Science.gov (United States)

    2010-01-01

    ... 7 Agriculture 3 2010-01-01 2010-01-01 false Skim milk. 58.233 Section 58.233 Agriculture Regulations of the Department of Agriculture (Continued) AGRICULTURAL MARKETING SERVICE (Standards... Materials § 58.233 Skim milk. The skim milk shall be separated from whole milk meeting the requirements as...

  8. On propagation characteristics of SH-type surface acoustic waves in periodic metal gratings by variational principle

    Institute of Scientific and Technical Information of China (English)

    XU Fangqian; HE Shitang; LIU Jiansheng; CHEN Yixiang

    2009-01-01

    Based on D.P. Chen and Haus' theory, a theoretical method was presented to analyze dispersion characteristics of SH-type surface acoustic waves (SAWs) propagating on periodic metallic grating structures with a variational principle and coupling-of-modes equation. Without using complicated Green's function, the calculating results of the method agree well with those of Hashimoto's theory. On the other hand, Hashimoto's method is helpless for calculating the dispersion relation of short-circuited gratings on ST-90°X quartz etc. However, the method developed in this paper can successfully calculate it.

  9. FOB-SH: Fragment orbital-based surface hopping for charge carrier transport in organic and biological molecules and materials

    Science.gov (United States)

    Spencer, J.; Gajdos, F.; Blumberger, J.

    2016-08-01

    We introduce a fragment orbital-based fewest switches surface hopping method, FOB-SH, designed to efficiently simulate charge carrier transport in strongly fluctuating condensed phase systems such as organic semiconductors and biomolecules. The charge carrier wavefunction is expanded and the electronic Hamiltonian constructed in a set of singly occupied molecular orbitals of the molecular sites that mediate the charge transfer. Diagonal elements of the electronic Hamiltonian (site energies) are obtained from a force field, whereas the off-diagonal or electronic coupling matrix elements are obtained using our recently developed analytic overlap method. We derive a general expression for the exact forces on the adiabatic ground and excited electronic state surfaces from the nuclear gradients of the charge localized electronic states. Applications to electron hole transfer in a model ethylene dimer and through a chain of ten model ethylenes validate our implementation and demonstrate its computational efficiency. On the larger system, we calculate the qualitative behaviour of charge mobility with change in temperature T for different regimes of the intermolecular electronic coupling. For small couplings, FOB-SH predicts a crossover from a thermally activated regime at low temperatures to a band-like transport regime at higher temperatures. For higher electronic couplings, the thermally activated regime disappears and the mobility decreases according to a power law. This is interpreted by a gradual loss in probability for resonance between the sites as the temperature increases. The polaron hopping model solved for the same system gives a qualitatively different result and underestimates the mobility decay at higher temperatures. Taken together, the FOB-SH methodology introduced here shows promise for a realistic investigation of charge carrier transport in complex organic, aqueous, and biological systems.

  10. Propagation of surface SH waves on a nonlinear half space coated with a layer of nonuniform thickness

    Science.gov (United States)

    Deliktaş, Ekin; Teymür, Mevlüt

    2017-07-01

    In this study, the propagation of shear horizontal (SH) waves in a nonlinear elastic half space covered by a nonlinear elastic layer with a slowly varying interface is examined. The constituent materials are assumed to be homogenous, isotropic, elastic and having different mechanical properties. By employing the method of multiple scales, a nonlinear Schrödinger equation (NLS) with variable coefficients is derived for the nonlinear self-modulation of SH waves. We examine the effects of dispersion, irregularity of the interface and nonlinearity on the propagation characteristics of SH waves.

  11. Turbulence characteristics in skimming flows on stepped spillways

    Energy Technology Data Exchange (ETDEWEB)

    Carosi, G.; Chanson, H. [Queensland Univ., Brisbane (Australia). Div. of Civil Engineering

    2008-09-15

    Stepped spillways are used to increase the rate of energy dissipation of reinforced cement concrete (RCC) dams. Modern stepped spillways are often designed for large discharge capacities that correspond to skimming flow regimes. Skimming flows are non-aerated at the upstream end of the chute, while free-surface aeration occurs when turbulent shear next to the free surface is larger than the bubble resistance created by surface tension and buoyancy. This study investigated the air-water flow properties in skimming flows related to turbulent characteristics. Experiments were conducted at a hydraulics laboratory using a broad-crested weir with a stepped chute. Measurements were conducted using phase-detection intrusive probes. Air-water flow properties were recorded for several flow rates in order to determine the distributions of turbulence intensity and integral length scales. Air-water interfacial velocities were obtained using a basic correlation analysis between the 2 sensors of a double-tip probe. Turbulence levels were derived from the relative width of a cross-correlation function. Probability distribution functions of the air bubbles and water droplet chords were analyzed in terms of bubble chords in the bubbly flow. The study demonstrated that some turbulent energy was dissipated in the form of large vortices in the bull of the flow, while the stepped cavities contributed to turbulence production. It was concluded that the rate of energy dissipation on stepped spillways is related to high turbulence levels and large-scale vortical structures. 43 refs., 3 tabs., 9 figs.

  12. 21 CFR 133.189 - Skim milk cheese for manufacturing.

    Science.gov (United States)

    2010-04-01

    ... 21 Food and Drugs 2 2010-04-01 2010-04-01 false Skim milk cheese for manufacturing. 133.189... Standardized Cheese and Related Products § 133.189 Skim milk cheese for manufacturing. (a) Skim milk cheese for manufacturing is the food prepared from skim milk and other ingredients specified in this section, by the...

  13. NUMERICAL SIMULATION OF SKIMMING FLOW OVER MILD STEPPED CHANNEL

    Institute of Scientific and Technical Information of China (English)

    DONG Zhi-yong; LEE Joseph Hun-wei

    2006-01-01

    Numerical simulation of stepped channel flow was conducted using turbulence models based on the VOF technique. Stepped channel flow is a complicated air-water two-phase flow with free surface, which can be divided into three flow regimes: skimming flow, nappe flow and transition flow. The characteristics of skimming flow over mild stepped channel was investigated, including friction factors, air concentration profiles velocity field, clear-water and bulked depths, static pressure, etc. Smooth channel flow was also simulated to compare the hydraulic characteristics of the stepped channel flow with the smooth one. Comparisons between the computed and the measured were made. Furthermore, comparison of the computed air concentration with Straub and Anderson's data was also performed. The Fluent 6.1 software was employed to conduct this numerical simulation work.

  14. Near-surface mapping using SH-wave and P-wave seismic land-streamer data acquisition in Illinois, U.S

    Science.gov (United States)

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

    2004-01-01

    SH-wave and P-wave high-resolution seismic reflection combined with land-streamer technology provide 3D regional maps of geologic formations that can be associated with aquifers and aquitards. Examples for three study areas are considered to demonstrate this. In these areas, reflection profiling detected near-surface faulting and mapped a buried glacial valley and its aquifers in two settings. The resulting seismic data can be used directly to constrain hydrogeologic modeling of shallow aquifers.

  15. Skimming behaviour and spreading potential of Stenus species and Dianous coerulescens (Coleoptera: Staphylinidae)

    Science.gov (United States)

    Lang, Carolin; Seifert, Karlheinz; Dettner, Konrad

    2012-11-01

    Rove beetles of the genus Stenus Latreille and the genus Dianous Leach possess pygidial glands containing a multifunctional secretion of piperidine and pyridine-derived alkaloids as well as several terpenes. One important character of this secretion is the spreading potential of its different compounds, stenusine, norstenusine, 3-(2-methyl-1-butenyl)pyridine, cicindeloine, α-pinene, 1,8-cineole and 6-methyl-5-heptene-2-one. The individual secretion composition enables the beetles to skim rapidly and far over the water surface, even when just a small amount of secretion is emitted. Ethological investigations of several Stenus species revealed that the skimming ability, skimming velocity and the skimming behaviour differ between the Stenus species. These differences can be linked to varied habitat claims and secretion saving mechanisms. By means of tensiometer measurements using the pendant drop method, the spreading pressure of all secretion constituents as well as some naturally identical beetle secretions on the water surface could be established. The compound 3-(2-methyl-1-butenyl)pyridine excelled stenusine believed to date to be mainly responsible for skimming relating to its surface activity. The naturally identical secretions are not subject to synergistic effects of the single compounds concerning the spreading potential. Furthermore, evolutionary aspects of the Steninae's pygidial gland secretion are discussed.

  16. Heat stability of concentrated skim milk.

    NARCIS (Netherlands)

    Nieuwenhuijse, J.A.

    1992-01-01

    Heat-induced coagulation of concentrated skim milk was studied. Heat-induced changes in partition between serum and colloidal particles of calcium and phosphate and of the various proteins were investigated as a function of heating time and conditions like pH, addition of phosphate and preheating. A

  17. 压电功能梯度材料中的SH表面波%SH surface wave in piezoelec-elastic functionally graded materials

    Institute of Scientific and Technical Information of China (English)

    董小峰; 禹建功; 丁俊才

    2011-01-01

    Functionally graded piezoelectric materials (FGPM) have been widely used in SAW devices in order to improve their efficiency and features. The research on surface wave propagation behavior becoming more and more important, in this paper, the propagation behavior of SH surface waves in FGPM is studied. Based on electro-elasticity, the SH wave equation of transversely isotropy piezoelectric-piezomagnetic graded plate is obtained. The Laguerre orthogonal polynomial series expansion approach is employed to derive its solution, and the dispersion curves, displacement curves and electric potential in cases of linear, quadratic and cubic material characteristics variation are obtained. The influence of material constant gradient on the SH wave is investigated and the results have been compared with the ones early.%为了提高声表面波器件的性能,压电功能梯度材料(FGPM)被广泛应用在声表面波(SAW)技术上,因此,压电功能梯度材料中表面波的传播特性研究变得十分重要.研究了压电功能梯度材料中SH(Shear Horizontal)波的传播特性.对于材料特性沿厚度方向为线性函数、二次函数和三次函数变化的三种形式,基于压电-弹性理论,得到了横向各向同性压电功能梯度材料半空间中的SH表面波的控制方程,并利用拉盖尔正交多项式法求得了三种不同特性梯度材料中波的频散曲线、质点位移和电势.与已知的结果比较,证明了这种方法的可行性;并且对不同特性梯度材料中波的特性的比较,研究了材料梯度对SH表面波传播特性的影响.

  18. Cartographic production for the Florida Shelf Habitat (FLaSH) map study: generation of surface grids, contours, and KMZ files

    Science.gov (United States)

    Robbins, Lisa L.; Hansen, Mark; Raabe, Ellen; Knorr, Paul O.; Browne, Joseph

    2007-01-01

    The Florida shelf represents a finite source of economic resources, including commercial and recreational fisheries, tourism, recreation, sand and gravel resources, phosphate, and freshwater reserves. Yet the basic information needed to locate resources, or to interpret and utilize existing data, comes from many sources, dates, and formats. A multi-agency effort is underway to coordinate and prioritize the compilation of suitable datasets for an integrated information system of Florida’s coastal and ocean resources. This report and the associated data files represent part of the effort to make data accessible and useable with computer-mapping systems, web-based technologies, and user-friendly visualization tools. Among the datasets compiled and developed are seafloor imagery, marine sediment data, and existing bathymetric data. A U.S. Geological Survey-sponsored workshop in January 2007 resulted in the establishment of mapping priorities for the state. Bathymetry was identified as a common priority among agencies and researchers. State-of-the-art computer-mapping techniques and data-processing tools were used to develop shelf-wide raster and vector data layers. Florida Shelf Habitat (FLaSH) Mapping Project (http://coastal.er.usgs.gov/flash) endeavors to locate available data, identify data gaps, synthesize existing information, and expand our understanding of geologic processes in our dynamic coastal and marine systems.

  19. Characterization of an earth-filled dam through the combined use of electrical resistivity tomography, P- and SH-wave seismic tomography and surface wave data

    Science.gov (United States)

    Cardarelli, E.; Cercato, M.; De Donno, G.

    2014-07-01

    The determination of the current state of buildings and infrastructures through non-invasive geophysical methods is a topic not yet covered by technical standards, since the application of high resolution geophysical investigations to structural targets is a relatively new technology. Earth-filled dam investigation is a typical engineering application of this type. We propose the integration of Electrical Resistivity Tomography and P- and SH-wave seismic measurements for imaging the geometry of the dam's body and the underlying soil foundations and to characterize the low strain elastic properties. Because S-wave velocity is closely tied to engineering properties such as shear strength, low-velocity zones in the S-wave velocity models are of particular interest. When acquiring seismic data on earth filled dams, it is not uncommon to encounter highly attenuative surface layers. If only lightweight seismic sources are available, the seismic data generally exhibit a narrow frequency bandwidth: the lack of high frequency components generally prevents from having good quality shallow reflections. If there is no possibility to increase the power as well as the frequency content of the seismic source, the integration of other seismic methods than reflection may be the only available way to achieve a reliable near surface seismic characterization. For these reasons, we combined P- and SH-wave tomography with Multichannel Analysis of Surface Waves to image the internal and the underlying soil foundations of an earth filled dam located in Central Italy. In the presence of moderate velocity contrasts, tomographic methods have proven successful in imaging near surface variations along both the horizontal and vertical directions. On the other hand, body wave propagation is severely affected by attenuation under the previously described conditions, so that the quality of picked traveltimes dramatically decreases with offset and, consequently, the tomographic investigation

  20. Detection of cellular damage by hydrogen peroxide using SV40-T2 cells on shear horizontal surface acoustic wave (SH-SAW) sensor.

    Science.gov (United States)

    Higashiyama, Takumi; Katsuyama, Akihiro; Otori, Hideki; Kamimura, Toru; Uehara, Atsushi; Kainuma, Miho; Takumi, Ryo; Kudo, Yukako; Ebina, Masayuki; Mochitate, Katsumi; Kon, Tasuku; Furuya, Yasubumi; Kikuchi, Hideaki

    2014-08-01

    The rat lung epithelial cell line SV40-T2 was used to develop a cellular biosensing system to assay for environmental toxicants. The novel approach on which this system is based involves direct attachment of cultured rat or human cells onto a cell-adhesive matrix on the device through which shear horizontal surface acoustic waves (SH-SAW) are transmitted using 50 MHz SAW resonator. This novel design enables sensitive monitoring of changes of the electrophysical characteristics of cells, such as their conductivity and relative permittivity. A time-dependent change of phase of SAW and change of insertion loss (change of amplitude) were observed when the cells were treated with 0.5 or 1.0 mM H2O2. The change of insertion loss was biphasic, with an early phase (1-3 h) and a late phase (3-6 h). The late phase coincided with the destruction of cell-cell tight junctions detected by measurement of the transepithelial electrical resistance and paracellular permeability; in contrast, the early phase coincided with the destruction of intracellular actin filaments by H2O2. The early-phase effect of H2O2 on phase shift may be attributable to the change of intracellular permittivity by a change of cellular polarity. Immunofluorescence microscopy showed the disappearance of zonula occludens protein 1 from the region of cell-cell contact. These results suggest the correlation between the change of insertion loss as an SAW parameter and the destruction of tight junctions of the cells on the SH-SAW device in the late phase. Copyright © 2014 Elsevier B.V. All rights reserved.

  1. 21 CFR 163.140 - Skim milk chocolate.

    Science.gov (United States)

    2010-04-01

    ... 21 Food and Drugs 2 2010-04-01 2010-04-01 false Skim milk chocolate. 163.140 Section 163.140 Food... milk chocolate. (a) Description. Skim milk chocolate is the food that conforms to the standard of identity, and is subject to the requirements for label declaration of ingredients for milk chocolate in...

  2. Preservation of Malassezia pachydermatis using skimmed milk as cryoprotective agent.

    Science.gov (United States)

    Silva Sergent, F A; Acosta-Hernández, B; Raduán Jaber, J; Rosario Medina, I; Ferrer Quintana, O; Real Valcárcel, F; Padilla Castillo, D; Déniz Suárez, S

    2017-01-01

    This study evaluated the effect of skimmed milk as a cryoprotectant for the maintenance and long-term preservation of 70 Malassezia pachydermatis strains. An initial suspension of each strain was prepared in sterile distilled water with skimmed milk. The most effective method was cryopreservation that ensured 100% viability for 2years.

  3. Mass sensitivity of layered shear-horizontal surface acoustic wave devices for sensing applications

    Science.gov (United States)

    Kalantar-Zadeh, Kourosh; Trinchi, Adrian; Wlodarski, Wojtek; Holland, Anthony; Galatsis, Kosmas

    2001-11-01

    Layered Surface Acoustic Wave (SAW) devices that allow the propagation of Love mode acoustic waves will be studied in this paper. In these devices, the substrate allows the propagation of Surface Skimming Bulks Waves (SSBWs). By depositing layers, that the speed of Shear Horizontal (SH) acoustic wave propagation is less than that of the substrate, the propagation mode transforms to Love mode. Love mode devices which will be studied in this paper, have SiO2 and ZnO acoustic guiding layers. As Love mode of propagation has no movement of particles component normal to the active sensor surface, they can be employed for the sensing applications in the liquid media.

  4. Effect of surface stress and irregularity of the interface on the propagation of SH-waves in the magneto-elastic crustal layer based on a solid semi space

    Indian Academy of Sciences (India)

    D P Acharya; Indrajit Roy

    2009-04-01

    The object of the present paper is to investigate plane SH waves through a magneto-elastic crustal layer based over an elastic, solid semi space under the influence of surface stress on the free surface of the crustal layer and irregularity of the interface. Two types of irregularities of the interface namely, rectangular and parabolic have been considered. Modulations of wave velocity due to the presence of surface stress, irregularity and the magnetic field have been studied separately. Their combined effect has also been investigated. Graphs are drawn to highlight some important peculiarities. It is observed that surface stress, irregularity and magnetic field have their respective role to play in the propagation of SH waves in the crustal layer. Further modulation of wave velocity occurs due to their combined effect.

  5. Sh Contemporary 2007

    Institute of Scientific and Technical Information of China (English)

    Jade; Franklin

    2007-01-01

    ■ "The Asian continent shows us impressively that there is a globalization of art, but not of the art market...Asia is ready for its own international art fair." Pierre Huber,Art Director of ShContemporary.

  6. UHT Skim Coconut Milk Production and Its Quality

    Directory of Open Access Journals (Sweden)

    Khuenpet Krittiya

    2016-01-01

    Full Text Available The current study is based upon the potential value of low-fat coconut milk in market due to increasing health concerns in people nowadays. Skim coconut milk can be used as a food ingredient that requires coconut milk flavor but excluding fat. The fundamental objectives of this study were to examine the methods for skim coconut milk production and comparison of its quality with normal coconut milk. The results of this study indicated that the UHT skim coconut milk can be prepared by separating fat through a cream separator, adding CMC and Montanox 60 at 0.6 and 0.6 %w/v respectively, two-stage homogenizing at 1,500/500 psi, and then UHT sterilizing at 140 °C for 4 s (Fo ≈ 5 min. It appeared that the remaining fat content in skim coconut milk was less than 1%. The addition of the CMC and Montanox 60 could obviously raise the stability of coconut milk emulsion and caused the increase of viscosity of the skim coconut milk specimen. The skim coconut milk had higher specific gravity and obviously darker than the higher-fat samples. The sensorial characteristic of skim coconut milk samples were different from the normal coconut milk.

  7. ShCG 245

    Directory of Open Access Journals (Sweden)

    Hrant M. Tovmassian

    2007-01-01

    Full Text Available Los grupos compactos de galaxias Shakhbazian son las configuraciones más densas que se conocen. Hace algunos años iniciamos un estudio fotométrico y espectroscópico de estos grupos. En este artículo presentamos los resultados de la investigación en los grupos ShCG 104, ShCG 120, ShCG 243 y ShCG 245. Presentamos los corrimientos al rojo de las galaxias miembro, los resultados de la fotometría R, las curvas de brillo superficial-radio efectivo, las masas estimadas, las luminosidades y las razones masa-luminosidad de los grupos, además de algunos parámetros dinámicos como la dispersión de velocidad radial y el tiempo de cruce. Los ShCGs estudiados consisten principalmente de galaxias elípticas y lenticulares. Se muestra que algunas galaxias en estos grupos están en proceso de interacción.

  8. Inactivation of Enterobacter aerogenes in reconstituted skim milk by high- and low-frequency ultrasound.

    Science.gov (United States)

    Gao, Shengpu; Hemar, Yacine; Lewis, Gillian D; Ashokkumar, Muthupandian

    2014-11-01

    The inactivation of Enterobacter aerogenes in skim milk using low-frequency (20kHz) and high-frequency (850kHz) ultrasonication was investigated. It was found that low-frequency acoustic cavitation resulted in lethal damage to E. aerogenes. The bacteria were more sensitive to ultrasound in water than in reconstituted skim milk having different protein concentrations. However, high-frequency ultrasound was not able to inactivate E. aerogenes in milk even when powers as high as 50W for 60min were used. This study also showed that high-frequency ultrasonication had no influence on the viscosity and particle size of skim milk, whereas low-frequency ultrasonication resulted in the decrease in viscosity and particle size of milk. The decrease in particle size is believed to be due to the breakup of the fat globules, and possibly to the cleavage of the κ-casein present at the surface of the casein micelles. Whey proteins were also found to be slightly affected by low-frequency ultrasound, with the amounts of α-lactalbumin and β-lactoglobulin slightly decreasing.

  9. Concentration of field and skim latex by microfiltration - membrane fouling and biochemical methane potential of serum.

    Science.gov (United States)

    Thongmak, Narumol; Sridang, Porntip; Puetpaiboon, Udomphon; Grasmick, Alain

    2015-01-01

    Cross-flow microfiltration was used to concentrate field and skim latex suspensions and recover the smallest compounds (proteins, sugars, etc.) in permeate (serum solutions). The experiments were performed in a lab-scale microfiltration unit equipped with ceramic membranes. In continuous mode, the operations were performed at constant trans-membrane pressure (0.5 bars), constant cross-flow velocity (3 m/s) and constant temperature (28 ± 2°C). In retentate, the volumetric concentration factor was only close to 2 (about 54% of total solid content, TSC) when concentrating the field latex suspensions, and it reached 10 (close to 40% TSC) when concentrating skim latex suspensions. The quality of retentate suspensions let envisage a significant potential of industrial valorization. The membrane fouling rates appeared as an increasing function of dry rubber content suspension, and the main fouling origin (94%) was linked to a reversible accumulation of suspended compounds on the membrane surface. Permeate appeared as a clear yellow solution containing the smallest soluble organic fractions that show a high degree of biodegradability when using biochemical methane potential tests. The chemical oxygen demand (COD) removal was then higher than 92% and the methane production yield was close to 0.29 NLCH4/gCODremoved. The association of a membrane separation step and anaerobic digestion appeared, then, as a relevant solution to recover rubber content from skim latex suspensions and energy from the anaerobic digestion of serum.

  10. Effect of soluble calcium and lactose on limiting flux and serum protein removal during skim milk microfiltration.

    Science.gov (United States)

    Adams, Michael C; Hurt, Emily E; Barbano, David M

    2015-11-01

    3 feeds below the LF. As the fluxes approached the LF, SP removal factors decreased due to fouling. Feeding a MF system with MPC instead of skim milk will reduce the required membrane surface area, but the permeate protein composition will be slightly higher in casein content.

  11. Analysis and Application of Whey Protein Depleted Skim Milk Systems

    DEFF Research Database (Denmark)

    Sørensen, Hanne

    homogenisation (UHPH). The microfiltration will result in a milk fraction more or less depleted from whey protein, and could probably in combination with UHPH treatment contribute to milk fractions and cheeses with novel micro and macrostructures. These novel fractions could be used as new ingredients to improve......-destructive methods for this purpose. A significant changed structure was observed in skim milk depleted or partly depleted for whey protein, acidified and UHPH treated. Some of the properties of the UHPH treated skim milk depleted from whey protein observed in this study support the idea, that UHPH treatment has...... this. LF-NMR relaxation were utilised to obtain information about the water mobility (relaxation time), in diluted skim milk systems depleted from whey protein. Obtained results indicate that measuring relaxation times with LF-NMR could be difficult to utilize, since no clear relationship between...

  12. Automatic movie skimming with story units via general tempo analysis

    Science.gov (United States)

    Lee, Shih-Hung; Yeh, Chia H.; Kuo, C.-C. J.

    2003-12-01

    A skimming system for movie content exploration is proposed using story units extracted via general tempo analysis of audio and visual data. Quite a few schemes have been proposed to segment video data into shots with low-level features, yet the grouping of shots into meaningful units, called story units here, is important and challenging. In this work, we detect similar shots using key frames and include these similar shots as a node in the scene transition graph. Then, an importance measure is calculated based on the total length of each node. Finally, we select sinks and shots according to this measure. Based on these semantic shots, a meaningful skims can be successfully generated. Simulation results will be presented to show that the proposed video skimming scheme can preserve the essential and significant content of the original video data.

  13. A data skimming service for locally resident analysis data

    Energy Technology Data Exchange (ETDEWEB)

    Cranshaw, J; Gieraltowski, J; Malon, D; May, E [Argonne National Laboratory, Argonne, IL 60439 (United States); Gardner, R W; Mambelli, M [Enrico Fermi Institute, University of Chicago, Chicago, IL 60637 (United States)], E-mail: marco@hep.uchciago.edu

    2008-07-15

    A Data Skimming Service (DSS) is a site-level service for rapid event filtering and selection from locally resident datasets based on metadata queries to associated 'tag' databases. In US ATLAS, we expect most if not all of the AOD-based datasets to be replicated to each of the five Tier 2 regional facilities in the US Tier 1 'cloud' coordinated by Brookhaven National Laboratory. Entire datasets will consist of on the order of several terabytes of data, and providing easy, quick access to skimmed subsets of these data will be vital to physics working groups. Typically, physicists will be interested in portions of the complete datasets, selected according to event-level attributes (number of jets, missing Et, etc) and content (specific analysis objects for subsequent processing). In this paper we describe methods used to classify data (metadata tag generation) and to store these results in a local database. Next we discuss a general framework which includes methods for accessing this information, defining skims, specifying event output content, accessing locally available storage through a variety of interfaces (SRM, dCache/dccp, gridftp), accessing remote storage elements as specified, and user job submission tools through local or grid schedulers. The advantages of the DSS are the ability to quickly 'browse' datasets and design skims, for example, pre-adjusting cuts to get to a desired skim level with minimal use of compute resources, and to encode these analysis operations in a database for re-analysis and archival purposes. Additionally the framework has provisions to operate autonomously in the event that external, central resources are not available, and to provide, as a reduced package, a minimal skimming service tailored to the needs of small Tier 3 centres or individual users.

  14. A data skimming service for locally resident analysis data

    Science.gov (United States)

    Cranshaw, J.; Gardner, R. W.; Gieraltowski, J.; Malon, D.; Mambelli, M.; May, E.

    2008-07-01

    A Data Skimming Service (DSS) is a site-level service for rapid event filtering and selection from locally resident datasets based on metadata queries to associated 'tag' databases. In US ATLAS, we expect most if not all of the AOD-based datasets to be replicated to each of the five Tier 2 regional facilities in the US Tier 1 'cloud' coordinated by Brookhaven National Laboratory. Entire datasets will consist of on the order of several terabytes of data, and providing easy, quick access to skimmed subsets of these data will be vital to physics working groups. Typically, physicists will be interested in portions of the complete datasets, selected according to event-level attributes (number of jets, missing Et, etc) and content (specific analysis objects for subsequent processing). In this paper we describe methods used to classify data (metadata tag generation) and to store these results in a local database. Next we discuss a general framework which includes methods for accessing this information, defining skims, specifying event output content, accessing locally available storage through a variety of interfaces (SRM, dCache/dccp, gridftp), accessing remote storage elements as specified, and user job submission tools through local or grid schedulers. The advantages of the DSS are the ability to quickly 'browse' datasets and design skims, for example, pre-adjusting cuts to get to a desired skim level with minimal use of compute resources, and to encode these analysis operations in a database for re-analysis and archival purposes. Additionally the framework has provisions to operate autonomously in the event that external, central resources are not available, and to provide, as a reduced package, a minimal skimming service tailored to the needs of small Tier 3 centres or individual users.

  15. Proses Pengolahan Dross (Zat Pengotor) Setelah Skimming Off Di PT.Inalum Kuala Tanjung

    OpenAIRE

    Evitriwulan

    2009-01-01

    Skimming off adalah proses penarikan dross yang mengapung diatas permukaan molten. Dross yang dihasilkan dari proses skimming off ini kemudian diolah di DPE (Dross Processing Equipment). Yang dilakukan dengan penambahan fluks (suhu dross < 800 oC) dan tidak dengan penambahan fluks (suhu dross ? 800 oC). Dari hasil analisa data diketahui bahwa dross skimming off yang tidak menggunakan fluks memiliki kadar aluminium 18,32% dan dross skimming off yang menggunakan fluks memiliki kadar aluminium18...

  16. 21 CFR 133.188 - Semisoft part-skim cheeses.

    Science.gov (United States)

    2010-04-01

    ... lactic-acid-producing bacteria or other harmless flavor-producing bacteria, present in such milk or added... mold-inhibiting ingredient consisting of sorbic acid, potassium sorbate, sodium sorbate, or any... acid. (e) The name of each semisoft part-skim cheese for which a definition and standard of identity...

  17. Rheological properties of rennet-induced skim milk gels.

    NARCIS (Netherlands)

    Zoon, P.

    1988-01-01

    The rheological properties of rennet-induced skim milk gels, which are viscoelastic materials, were studied under various conditions.Dynamic and stress relaxation experiments were performed at small deformations of the gel network, whereas constant stress (creep) experiments were performed at large

  18. The Comparison and Contrast Between Skimming and Scanning

    Institute of Scientific and Technical Information of China (English)

    丁农

    2000-01-01

    This parer illustrates the similarity and dissimilarity between two basic reading skills- skimming and scanning from different ways.It advises readers to understand and make full use of them in their everyday reading.They will make reading easier and help improve reading comprehension to a certain extent.

  19. Nisin Production Utilizing Skimmed Milk Aiming to Reduce Process Cost

    Science.gov (United States)

    Jozala, Angela Faustino; de Andrade, Maura Sayuri; de Arauz, Luciana Juncioni; Pessoa, Adalberto; Penna, Thereza Christina Vessoni

    Nisin is a natural additive for conservation of food, pharmaceutical, and dental products and can be used as a therapeutic agent. Nisin inhibits the outgrowth of spores, the growth of a variety of Gram-positive and Gram-negative bacteria. This study was performed to optimize large-scale nisin production in skimmed milk and subproducts aiming at low-costs process and stimulating its utilization. Lactococcus lactis American Type Culture Collection (ATCC) 11454 was developed in a rotary shaker (30°C/36 h/100 rpm) in diluted skimmed milk and nisin activity, growth parameters, and media components were also studied. Nisin activity in growth media was expressed in arbitrary units (AU/mL) and converted to standard nisin concentration (Nisaplin®, 25 mg of pure nisin is 1.0×106 AU/mL). Nisin activity in skimmed milk 2.27 gtotal solids was up to threefold higher than transfers in skimmed milk 4.54 gtotal solids and was up to 85-fold higher than transfers in skimmed milk 1.14 gtotal solids. L. lactis was assayed in a New Brunswick fermentor with 1.5 L of diluted skimmed milk (2.27 gtotal solids) and airflow of 1.5 mL/min (30°C/36/200 rpm), without pH control. In this condition nisin activity was observed after 4 h (45.07 AU/mL) and in the end of 36 h process (3312.07 AU/mL). This work shows the utilization of a low-cost growth medium (diluted skimmed milk) to nisin production with wide applications. Furthermore, milk subproducts (milk whey) can be exploited in nisin production, because in Brazil 50% of milk whey is disposed with no treatment in rivers and because of high organic matter concentrations it is considered an important pollutant. In this particular case an optimized production of an antimicrobial would be lined up with industrial disposal recycling.

  20. Effect of microfiltration concentration factor on serum protein removal from skim milk using spiral-wound polymeric membranes.

    Science.gov (United States)

    Beckman, S L; Barbano, D M

    2013-10-01

    Our objective was to determine the effect of concentration factor (CF) on the removal of serum protein (SP) from skim milk during microfiltration (MF) at 50 °C using a 0.3-μm-pore-size spiral-wound (SW) polymeric polyvinylidene fluoride (PVDF) membrane. Pasteurized (72°C for 16 s) skim milk was MF (50 °C) at 3 CF (1.50, 2.25, and 3.00×), each on a separate day of processing starting with skim milk. Two phases of MF were used at each CF, with an initial startup-stabilization phase (40 min in full recycle mode) to achieve the desired CF, followed by a steady-state phase (90-min feed-and-bleed with recycle) where data was collected. The experiment was replicated 3 times, and SP removal from skim milk was quantified at each CF. System pressures, flow rates, CF, and fluxes were monitored during the 90-min run. Permeate flux increased (12.8, 15.3, and 19.0 kg/m(2) per hour) with decreasing CF from 3.00 to 1.50×, whereas fouled water flux did not differ among CF, indicating that the effect of membrane fouling on hydraulic resistance of the membrane was similar at all CF. However, the CF used when microfiltering skim milk (50°C) with a 0.3-μm polymeric SW PVDF membrane did affect the percentage of SP removed. As CF increased from 1.50 to 3.00×, the percentage of SP removed from skim milk increased from 10.56 to 35.57%, in a single stage bleed-and-feed MF system. Percentage SP removal from skim milk was lower than the theoretical value. Rejection of SP during MF of skim milk with SW PVDF membranes was caused by fouling of the membrane, not by the membrane itself and differences in the foulant characteristic among CF influenced SP rejection more than it influenced hydraulic resistance. We hypothesize that differences in the conditions near the surface of the membrane and within the pores during the first few minutes of processing, when casein micelles pass through the membrane, influenced the rejection of SP because more pore size narrowing and plugging occurred at

  1. Effect of soy skim from soybean aqueous processing on the performance of corn ethanol fermentation.

    Science.gov (United States)

    Yao, Linxing; Wang, Tong; Wang, Hui

    2011-10-01

    The feasibility of using soy skim, a co-product of the aqueous processing of soybeans, in ethanol production from corn was evaluated. Specific growth rates were compared when Saccharomyces cerevisiae was grown in soy skim and peptone-yeast extract media supplemented with glucose. Such soy skim was proved to be a good nitrogen source for yeast growth. Next, fermentation of dry-ground corn to ethanol using soy skim as the media was simulated on 1.5-L scale. Replacing water with soy skim increased the initial ethanol production rates by 4-32% while final ethanol yield was about 39 g/100 g dry corn, similar to the result when water was used. Solid and protein contents in the finished beer increased with the addition of soy skim. Thus, replacing water in corn-ethanol fermentation with soy skim is feasible, and may improve the economics of both aqueous soybean processing and corn ethanol fermentation.

  2. Did pterosaurs feed by skimming? Physical modelling and anatomical evaluation of an unusual feeding method.

    Directory of Open Access Journals (Sweden)

    Stuart Humphries

    2007-08-01

    Full Text Available Similarities between the anatomies of living organisms are often used to draw conclusions regarding the ecology and behaviour of extinct animals. Several pterosaur taxa are postulated to have been skim-feeders based largely on supposed convergences of their jaw anatomy with that of the modern skimming bird, Rynchops spp. Using physical and mathematical models of Rynchops bills and pterosaur jaws, we show that skimming is considerably more energetically costly than previously thought for Rynchops and that pterosaurs weighing more than one kilogram would not have been able to skim at all. Furthermore, anatomical comparisons between the highly specialised skull of Rynchops and those of postulated skimming pterosaurs suggest that even smaller forms were poorly adapted for skim-feeding. Our results refute the hypothesis that some pterosaurs commonly used skimming as a foraging method and illustrate the pitfalls involved in extrapolating from limited morphological convergence.

  3. Surface Quality Multicriteria Optimization of Flat Parts from 06Cr14Ni6Cu2MoVaTi-SH Steel While Grinding by Varigrain High Porosity CBN Wheels

    Science.gov (United States)

    Soler, Y. I.; Nguyen, M. T.

    2016-04-01

    The grinding of flat parts from 06Cr14Ni6Cu2MoVaTi-SH high-strength corrosion-resistant steel was made by the highly porous wheel (HPW) of CBN30 (B76, B107, B126, V151) 100 OVK27-KF40 (GOST R 53922-2010, GOST R 53923-2010). As input variables for fuzzy logic modeling in the Matlab the following description of the surface quality is chosen: the microrelief parameters (GOST 25142-82) - Ra1, Rmax1 in the cross-feed direction, Sm2 in the length feed direction, flatness deviation (GOST 24642-81) are introduced with the EFEmax , EFEa and EFEq ; microhardness HV. Every parameter at the model input is presented with position measures (medians) and scattering measures (quartile latitude). The Matlab modeling has shown that the best quality of the part surfaces is provided with HPW CBN30 B151 during the multicriteria optimization.

  4. SH-wave refraction/reflection and site characterization

    Science.gov (United States)

    Wang, Z.; Street, R.L.; Woolery, E.W.; Madin, I.P.

    2000-01-01

    Traditionally, nonintrusive techniques used to characterize soils have been based on P-wave refraction/reflection methods. However, near-surface unconsolidated soils are oftentimes water-saturated, and when groundwater is present at a site, the velocity of the P-waves is more related to the compressibility of the pore water than to the matrix of the unconsolidated soils. Conversely, SH-waves are directly relatable to the soil matrix. This makes SH-wave refraction/reflection methods effective in site characterizations where groundwater is present. SH-wave methods have been used extensively in site characterization and subsurface imaging for earthquake hazard assessments in the central United States and western Oregon. Comparison of SH-wave investigations with geotechnical investigations shows that SH-wave refraction/reflection techniques are viable and cost-effective for engineering site characterization.

  5. Skimming the Surface: Teaching Kayak Support Strokes and Rolls.

    Science.gov (United States)

    Higgins, Peter; Morgan, Alastair

    1997-01-01

    Teaching novice kayakers only the biomechanics of a roll and other "closed" (nonadaptable) skills does not create opportunities for flexible skill development. A wider approach teaches support strokes and rolls by focusing on "open" skills that can be transferred or adapted to any situation, including emergency decision making,…

  6. Skimming the surface with Burgess Shale arthropod locomotion

    OpenAIRE

    Minter, Nicholas J.; Mángano, M. Gabriela; Caron, Jean-Bernard

    2011-01-01

    The first arthropod trackways are described from the Middle Cambrian Burgess Shale Formation of Canada. Trace fossils, including trackways, provide a rich source of biological and ecological information, including direct evidence of behaviour not commonly available from body fossils alone. The discovery of large arthropod trackways is unique for Burgess Shale-type deposits. Trackway dimensions and the requisite number of limbs are matched with the body plan of a tegopeltid arthropod. Tegopelt...

  7. Cream-skimming in deregulated social health insurance: evidence from Switzerland.

    Science.gov (United States)

    Beck, K; Zweifel, P

    1998-01-01

    Policymakers fear that health insurers when exposed to competition will engage in cream-skimming (i.e. selection of good risks) rather than trying to improve their benefit to premium ratio. This fear surfaced also when Swiss federal government proposed pro-competitive Law on social health insurance, which barely passed a popular referendum in 1994. While a risk equalization mechanism based on age, gender, and place of residence has already been created, there is a considerable interest in improving its formula. This paper shows that a dummy variable indicating an individual's death during the period of observation causes the coefficient of determination to jump from 0.039 to 0.111. More-over, simulations of the risk selection process suggest that risk equalization should be made a permanent institution rather than being limited to a life of 10 years as prescribed by present legislation. In fact, the formula in use, with all its shortcomings, can be shown to neutralize to a great extent insurer interest in cream skimming provided he takes a longer-run view.

  8. Construction of shRNA lentiviral vector

    Directory of Open Access Journals (Sweden)

    Hong Song

    2010-12-01

    Full Text Available Lentiviruses have been adapted as gene delivery vehicles. This article summarized shRNA lentiviral vector methods generally used in research laboratories. The main procedures of shRNA lentiviral vector include that (1 Target sequences screening and shRNA oligonucleotides designing, (2 insert designed oligonucleotides into lentiviral vectors, (3 using packaging cells to produce shRNA lentivirus, and (4 transducing target cells with shRNA lentivirus.

  9. The effect of linear velocity and flux on performance of ceramic graded permeability membranes when processing skim milk at 50°C.

    Science.gov (United States)

    Zulewska, Justyna; Barbano, David M

    2014-05-01

    Raw milk (about 500 kg) was cold (4°C) separated and then the skim milk was pasteurized at 72°C and a holding time of 16s. The milk was cooled to 4°C and stored at ≤ 4°C until processing. The skim milk was microfiltered using a pilot-scale ceramic graded permeability (GP) microfilter system equipped with 0.1-µm nominal pore diameter ceramic Membralox membranes. First, about 155 kg of pasteurized skim milk was flushed through the system to push the water out of the system. Then, additional pasteurized skim milk (about 320 kg) was microfiltered (stage 1) in a continuous feed-and-bleed 3× process using the same membranes. The retentate from stage 1 was diluted with pasteurized reverse osmosis water in a 1:2 ratio and microfiltered (stage 2) with a GP system. This was repeated 3 times, with total of 3 stages in the process (stage 1 = microfiltration; stages 2 and 3 = diafiltration). The results from first 3 stages of the experiment were compared with previous data when processing skim milk at 50°C using ceramic uniform transmembrane pressure (UTP) membranes. Microfiltration of skim milk using ceramic UTP and GP membranes resulted in similar final retentate in terms of serum proteins (SP) removed. The SP removal rate (expressed by kilogram of SP removed per meter-squared of membrane area) was higher for GP membranes for each stage compared with UTP membranes. A higher passage of SP and SP removal rate for GP than UTP membranes was achieved by using a higher cross-flow velocity when processing skim milk. Increasing flux in subsequent stages did not affect membrane permeability and fouling. We operated under conditions that produced partial membrane fouling, due to using a flux that was less than limiting flux but higher than critical flux. Because the critical flux is a function of the cross-flow velocity, the difference in critical flux between UTP and GP membranes resulted only from operating under different cross-flow velocities (6.6 vs 7.12 for UTP and GP

  10. Nearly horizon skimming orbits of Kerr black holes

    CERN Document Server

    Hughes, S A

    2001-01-01

    An unusual set of orbits about extreme Kerr black holes resides at the Boyer-Lindquist radius $r = M$, the coordinate of the hole's event horizon. These ``horizon skimming'' orbits have the property that their angular momentum $L_z$ {\\it increases} with inclination angle, opposite to the familiar behavior one encounters at larger radius. In this paper, I show that this behavior is characteristic of a larger family of orbits, the ``nearly horizon skimming'' (NHS) orbits. NHS orbits exist in the very strong field of any black hole with spin $a\\agt 0.952412M$. Their unusual behavior is due to the locking of particle motion near the event horizon to the hole's spin, and is therefore a signature of the Kerr metric's extreme strong field. An observational hallmark of NHS orbits is that a small body spiraling into a Kerr black hole due to gravitational-wave emission will be driven into orbits of progressively smaller inclination angle, toward the equator. This is in contrast to the ``normal'' behavior. For circular ...

  11. Text Skimming: The Process and Effectiveness of Foraging through Text under Time Pressure

    Science.gov (United States)

    Duggan, Geoffrey B.; Payne, Stephen J.

    2009-01-01

    Is Skim reading effective? How do readers allocate their attention selectively? The authors report 3 experiments that use expository texts and allow readers only enough time to read half of each document. Experiment 1 found that, relative to reading half the text, skimming improved memory for important ideas from a text but did not improve memory…

  12. Effects of School Choice on the Margin: The Cream Is Already Skimmed

    Science.gov (United States)

    Walsh, Patrick

    2009-01-01

    Critics of school choice argue that cream-skimming will worsen outcomes for those left behind in public schools. Since "high ability" families may have already sorted themselves out of the schools in question, this paper will examine whether existing within-school heterogeneity leaves any scope for cream-skimming to operate. It asks, "given the…

  13. Generalized Plasma Skimming Model for Cells and Drug Carriers in the Microvasculature

    CERN Document Server

    Lee, Tae-Rin; Yang, Jiho

    2016-01-01

    In microvascular transport, where both blood and drug carriers are involved, plasma skimming has a key role on changing hematocrit level and drug carrier concentration in capillary beds after continuous vessel bifurcation in the microvasculature. While there have been numerous studies on modeling the plasma skimming of blood, previous works lacked in consideration of its interaction with drug carriers. In this paper, a generalized plasma skimming model is suggested to predict the redistributions of both the cells and drug carriers at each bifurcation. In order to examine its applicability, this new model was applied on a single bifurcation system to predict the redistribution of red blood cells and drug carriers. Furthermore, this model was tested at microvascular network level under different plasma skimming conditions for predicting the concentration of drug carriers. Based on these results, the applicability of this generalized plasma skimming model is fully discussed and future works along with the model'...

  14. Ultra-high pressure homogenization-induced changes in skim milk: impact on acid coagulation properties.

    Science.gov (United States)

    Serra, Mar; Trujillo, Antonio J; Jaramillo, Pamela D; Guamis, Buenaventura; Ferragut, Victoria

    2008-02-01

    The effects of ultra-high pressure homogenization (UHPH) on skim milk yogurt making properties were investigated. UHPH-treated milk was compared with conventionally homogenised (15 MPa) heat-treated skim milk (90 degrees C for 90 s), and to skim milk treated under the same thermal conditions but fortified with 3% skim milk powder. Results of the present study showed that UHPH is capable of reducing skim milk particle size which leads to the formation of finer dispersions than those obtained by conventional homogenisation combined with heat treatment. In addition, results involving coagulation properties and yogurt characteristics reflected that, when increasing UHPH pressure conditions some parameters such as density of the gel, aggregation rate and water retention are improved.

  15. Effect of transglutaminase treatment on skimmed yogurt properties

    Directory of Open Access Journals (Sweden)

    Iuliana BANU

    2012-12-01

    Full Text Available The aim of the present study was to evaluate the effect of microbial transglutaminase on the stability and rheological properties of skimmed yogurt. The fermentation was carried out with Streptococus theromophilus and Lactobacillus delbrueckii subsp. Bulgaricus after incubating the milk with various enzyme concentrations ranging from 0 to 0.04%, at different setting temperatures (30, 40 and 50°C, for 60, 90 and 120 min. The postacidification process and the stability of the yogurt samples were influenced by the degree of polymerization of the milk proteins which depended on the conditions of the milk treated with microbial transglutaminase. The best results in terms of whey separation and rheological properties were obtained when preincubating the milk with 0.04% transglutaminase for 120 min setting at 40°C. The results indicate that transglutaminase may be successfully used for enhancing the functional properties of yogurt with low fat content.

  16. Metagenome Skimming of Insect Specimen Pools: Potential for Comparative Genomics.

    Science.gov (United States)

    Linard, Benjamin; Crampton-Platt, Alex; Gillett, Conrad P D T; Timmermans, Martijn J T N; Vogler, Alfried P

    2015-05-14

    Metagenomic analyses are challenging in metazoans, but high-copy number and repeat regions can be assembled from low-coverage sequencing by "genome skimming," which is applied here as a new way of characterizing metagenomes obtained in an ecological or taxonomic context. Illumina shotgun sequencing on two pools of Coleoptera (beetles) of approximately 200 species each were assembled into tens of thousands of scaffolds. Repeated low-coverage sequencing recovered similar scaffold sets consistently, although approximately 70% of scaffolds could not be identified against existing genome databases. Identifiable scaffolds included mitochondrial DNA, conserved sequences with hits to expressed sequence tag and protein databases, and known repeat elements of high and low complexity, including numerous copies of rRNA and histone genes. Assemblies of histones captured a diversity of gene order and primary sequence in Coleoptera. Scaffolds with similarity to multiple sites in available coleopteran genome sequences for Dendroctonus and Tribolium revealed high specificity of scaffolds to either of these genomes, in particular for high-copy number repeats. Numerous "clusters" of scaffolds mapped to the same genomic site revealed intra- and/or intergenomic variation within a metagenome pool. In addition to effect of taxonomic composition of the metagenomes, the number of mapped scaffolds also revealed structural differences between the two reference genomes, although the significance of this striking finding remains unclear. Finally, apparently exogenous sequences were recovered, including potential food plants, fungal pathogens, and bacterial symbionts. The "metagenome skimming" approach is useful for capturing the genomic diversity of poorly studied, species-rich lineages and opens new prospects in environmental genomics.

  17. Skim Milk Enhances the Preservation of Thawed -80°C Bacterial Stocks

    Science.gov (United States)

    Cody, William L.; Wilson, James W.; Hendrixson, David R.; McIver, Kevin S.; Hagman, Kayla E.; Ott, C.M.; Nickerson, Cheryl A.; Schurr, Michael J.

    2008-01-01

    The results from bacterial strain recovery efforts following hurricanes Katrina and Rita are reported. Over 90% of strains frozen in 10% skim milk were recovered whereas various recovery rates were observed for glycerol-stored stocks (56% and 94% of E. coli, depending upon the laboratory). These observations led to a viability comparison of Streptococcus pyogenes, Campylobacter jejuni, Borrelia burgdorferi, Salmonella enterica subsp. Typhimurium, Pseudomonas aeruginosa and Escherichia coli strains stored in glycerol or skim milk. In all bacteria examined, 10% skim milk resulted in significantly longer viability after thawing than 15% glycerol solutions currently used in most laboratories. PMID:18573555

  18. SKIMMR: facilitating knowledge discovery in life sciences by machine-aided skim reading

    Directory of Open Access Journals (Sweden)

    Vít Nováček

    2014-07-01

    Full Text Available Background. Unlike full reading, ‘skim-reading’ involves the process of looking quickly over information in an attempt to cover more material whilst still being able to retain a superficial view of the underlying content. Within this work, we specifically emulate this natural human activity by providing a dynamic graph-based view of entities automatically extracted from text. For the extraction, we use shallow parsing, co-occurrence analysis and semantic similarity computation techniques. Our main motivation is to assist biomedical researchers and clinicians in coping with increasingly large amounts of potentially relevant articles that are being published ongoingly in life sciences.Methods. To construct the high-level network overview of articles, we extract weighted binary statements from the text. We consider two types of these statements, co-occurrence and similarity, both organised in the same distributional representation (i.e., in a vector-space model. For the co-occurrence weights, we use point-wise mutual information that indicates the degree of non-random association between two co-occurring entities. For computing the similarity statement weights, we use cosine distance based on the relevant co-occurrence vectors. These statements are used to build fuzzy indices of terms, statements and provenance article identifiers, which support fuzzy querying and subsequent result ranking. These indexing and querying processes are then used to construct a graph-based interface for searching and browsing entity networks extracted from articles, as well as articles relevant to the networks being browsed. Last but not least, we describe a methodology for automated experimental evaluation of the presented approach. The method uses formal comparison of the graphs generated by our tool to relevant gold standards based on manually curated PubMed, TREC challenge and MeSH data.Results. We provide a web-based prototype (called ‘SKIMMR’ that

  19. Shear horizontal (SH) ultrasound wave propagation around smooth corners.

    Science.gov (United States)

    Petcher, P A; Burrows, S E; Dixon, S

    2014-04-01

    Shear horizontal (SH) ultrasound guided waves are being used in an increasing number of non-destructive testing (NDT) applications. One advantage SH waves have over some wave types, is their ability to propagate around curved surfaces with little energy loss; to understand the geometries around which they could propagate, the wave reflection must be quantified. A 0.83mm thick aluminium sheet was placed in a bending machine, and a shallow bend was introduced. Periodically-poled magnet (PPM) electromagnetic acoustic transducers (EMATs), for emission and reception of SH waves, were placed on the same side of the bend, so that reflected waves were received. Additional bending of the sheet demonstrated a clear relationship between bend angles and the reflected signal. Models suggest that the reflection is a linear superposition of the reflections from each bend segment, such that sharp turns lead to a larger peak-to-peak amplitude, in part due to increased phase coherence.

  20. A novel isolation strategy for obtaining crude membrane vesicles from bovine skim milk

    DEFF Research Database (Denmark)

    Blans, Kristine; Larsen, Lotte Bach; Wiking, Lars

    2014-01-01

    Bovine milks content of phospholipid membranes have largely been explored in the cream fraction, and known as the milk fat globule membrane that surrounds fat droplets. In skim milk, the population of phospholipid membranes is reported to constitute membrane vesicles with a soluble content known...... components. Here we present a novel strategy for a short, gentle and non-denaturing isolation of skim milk-derived membrane vesicles. Methods: Untreated fresh bovine milk was defatted to remove milk fat globules. The resulting skim milk was subjected to ultracentrifugation. The resulting ochre...... fraction can be obtained from skim milk by ultracentrifugation. Casein micelle remnants as well as smaller protein components in the crude vesicle fraction can be successfully removed by size chromatography. Electron microscopy of the vesicle isolate reveals circular structures with membrane vesicle...

  1. A novel isolation strategy for obtaining crude membrane vesicles from bovine skim milk

    DEFF Research Database (Denmark)

    Blans, Kristine; Larsen, Lotte Bach; Wiking, Lars

    Bovine milks content of phospholipid membranes have largely been explored in the cream fraction, and known as the milk fat globule membrane that surrounds fat droplets. In skim milk, the population of phospholipid membranes is reported to constitute membrane vesicles with a soluble content known...... components. Here we present a novel strategy for a short, gentle and non-denaturing isolation of skim milk-derived membrane vesicles. Methods: Untreated fresh bovine milk was defatted to remove milk fat globules. The resulting skim milk was subjected to ultracentrifugation. The resulting ochre...... fraction can be obtained from skim milk by ultracentrifugation. Casein micelle remnants as well as smaller protein components in the crude vesicle fraction can be successfully removed by size chromatography. Electron microscopy of the vesicle isolate reveals circular structures with membrane vesicle...

  2. Heat stability of reconstituted, protein-standardized skim milk powders.

    Science.gov (United States)

    Sikand, V; Tong, P S; Walker, J

    2010-12-01

    We determined the effects of standardization material, protein content, and pH on the heat stability of reconstituted milk made from low-heat (LH) and medium-heat (MH) nonfat dry milk (NDM). Low-heat and MH NDM were standardized downward from 35.5% to 34, 32, and 30% protein by adding either edible lactose powder (ELP) or permeate powder (PP) from skim milk ultrafiltration. These powders were called standardized skim milk powders (SSMP). The LH and MH NDM and SSMP were reconstituted to 9% total solids. Furthermore, subsamples of reconstituted NDM and SSMP samples were set aside to measure heat stability at native (unadjusted) pH, and the rest were adjusted to pH 6.3 to 7.0. Heat stability is defined as heat coagulation time at 140°C of the reconstituted LH or MH NDM and SSMP samples. The entire experiment was replicated 3 times at unadjusted pH values and 2 times at adjusted pH values. At an unadjusted pH, powder type, standardization material, and protein content influenced the heat stability of the samples. Heat stability for reconstituted LH NDM and SSMP was higher than reconstituted MH NDM and SSMP. Generally, decreased heat stability was observed in reconstituted LH or MH SSMP as protein content was decreased by standardization. However, adding ELP to MH SSMP did not significantly change its heat stability. When pH was adjusted to values between 6.3 and 7.0, powder type, standardization material, and pH had a significant effect on heat stability, whereas protein content did not. Maximum heat stability was noted at pH 6.7 for both reconstituted LH NDM and SSMP samples, and at pH 6.6 for both reconstituted MH NDM and SSMP samples. Furthermore, for samples with adjusted pH, higher heat stability was observed for reconstituted LH SSMP containing PP compared with reconstituted milk from LH SSMP containing ELP. However, no statistical difference was observed in the heat stability of reconstituted milk from MH NDM and MH SSMP samples. We conclude that powder type

  3. Reading and skimming from computer screens and books: The paperless office revisited?

    OpenAIRE

    1991-01-01

    Past research has demonstrated that reading efficiency is lower from standard computer displays of the 1980s than from paper. In the present experiments, subjects read or skimmed stories, sometimes from a high-quality CRT (cathode ray tube) and sometimes from a book. Skimming was 41% slower from the CRTs than from the book. Possible reasons for this finding are discussed. Reading speed and comprehension were equivalent for the high-quality CRTs and the book. The paperless office may be immine...

  4. EFEK SUSU SKIM YANG DISUPLEMENTASI ISOFLAVON KEDELAI DAN Zn (

    Directory of Open Access Journals (Sweden)

    Hery Winarsi

    2004-12-01

    Full Text Available Premenopause is part of natural aging process in women indicated by the decrease of ovarial estrogen production, and usually followed by development of menopausal syndrome. Susumeno, skim milk fortified with 100 mg of soy isoflavone and 8 mg of Zn was given to premenopausal women for decreasing menopausal syndrome. This research aimed to evaluate the effect of susumeno on menopausal syndrome in premenopausal women. About 33 premenopausal women aged 43-52 years old in Purwokerto were choosen as respondent. Their menopausal syndrome were identified by using questioner. The answers were scored from 1 to 5 ; i.e., 1 = not detected; 2 = less detected; 3 = mildly detected; 4 = detected; 5 = much detected. It was revealed that some of menopausal syndromes had significantly decreased, especially vaginal dryness from less detected to not detected (p=0,01; fatigue from mildly detected to not detected (p=4,07E-05; mindless from mildly detected to not detected (p=0,022; and dyspareunia from less detected to not detected (p=0,036

  5. Rovibrationally resolved photodissociation of SH+

    Science.gov (United States)

    McMillan, E. C.; Shen, G.; McCann, J. F.; McLaughlin, B. M.; Stancil, P. C.

    2016-04-01

    Photodissociation cross sections for the SH+ radical are computed from all rovibrational (RV) levels of the ground electronic state {{X}}{}3{{{Σ }}}- for wavelengths from threshold to 500 Å. The five electronic transitions, 2{}3{{{Σ }}}- ≤ftarrow {{X}}{}3{{{Σ }}}-,3{}3{{{Σ }}}- ≤ftarrow {{X}}{}3{{{Σ }}}-, A{}3{{\\Pi }} ≤ftarrow {{X}}{}3{{{Σ }}}-,2{}3{{\\Pi }} ≤ftarrow {{X}}{}3{{{Σ }}}-, and 3{}3{{\\Pi }} ≤ftarrow {{X}}{}3{{{Σ }}}-, are treated with a fully quantum-mechanical two-state model, i.e. nonadiabatic couplings between excited states were not included. The photodissociation calculations incorporate adiabatic potentials and transition dipole moment functions computed in the multireference configuration interaction approach along with the Davidson correction (MRCI+Q), but adjusted to match available experimental molecular data and asymptotic atomic limits. Local thermodynamic equilibrium (LTE) photodissociation cross sections were computed which assume a Boltzmann distribution of RV levels in the {{X}}{}3{{{Σ }}}- molecular state of the SH+ cation. The LTE cross sections are presented for temperatures in the range 1000-10 000 K. Applications of the current photodissociation cross sections to interstellar gas, photon-dominated regions, and stellar atmospheres are briefly discussed.

  6. Effect of ceramic membrane channel diameter on limiting retentate protein concentration during skim milk microfiltration.

    Science.gov (United States)

    Adams, Michael C; Barbano, David M

    2016-01-01

    Our objective was to determine the effect of retentate flow channel diameter (4 or 6mm) of nongraded permeability 100-nm pore size ceramic membranes operated in nonuniform transmembrane pressure mode on the limiting retentate protein concentration (LRPC) while microfiltering (MF) skim milk at a temperature of 50°C, a flux of 55 kg · m(-2) · h(-1), and an average cross-flow velocity of 7 m · s(-1). At the above conditions, the retentate true protein concentration was incrementally increased from 7 to 11.5%. When temperature, flux, and average cross-flow velocity were controlled, ceramic membrane retentate flow channel diameter did not affect the LRPC. This indicates that LRPC is not a function of the Reynolds number. Computational fluid dynamics data, which indicated that both membranes had similar radial velocity profiles within their retentate flow channels, supported this finding. Membranes with 6-mm flow channels can be operated at a lower pressure decrease from membrane inlet to membrane outlet (ΔP) or at a higher cross-flow velocity, depending on which is controlled, than membranes with 4-mm flow channels. This implies that 6-mm membranes could achieve a higher LRPC than 4-mm membranes at the same ΔP due to an increase in cross-flow velocity. In theory, the higher LRPC of the 6-mm membranes could facilitate 95% serum protein removal in 2 MF stages with diafiltration between stages if no serum protein were rejected by the membrane. At the same flux, retentate protein concentration, and average cross-flow velocity, 4-mm membranes require 21% more energy to remove a given amount of permeate than 6-mm membranes, despite the lower surface area of the 6-mm membranes. Equations to predict skim milk MF retentate viscosity as a function of protein concentration and temperature are provided. Retentate viscosity, retentate recirculation pump frequency required to maintain a given cross-flow velocity at a given retentate viscosity, and retentate protein

  7. Further model experiments with the oil skimming catamaran. Weitere Modellversuche mit dem Oelabschoepfkatamaran

    Energy Technology Data Exchange (ETDEWEB)

    Binek, H.

    1985-07-01

    Model experiments were performed with an oil removing device ([lambda]=10) in a small deep tank of the VDB (inland-ship-building research centre) measuring 1.95 m corresponds to19.5 m in height and containing oil-covered water which was once left unperturbed and one agitated for regular wave generation. The water surface of the small deep tank of 3.0 m width was covered with a red-coloured oil film of d[approx]1.4 mm corresponds to14 mm thickness along a length of 72.0 m. Oil viscosity was 40 cSt at 20 C and a volume weight of [gamma]=0.865 g/cm[sup 3]. After the predefined working section had been skimmed the amount of oil removed in the process was determined in the individual tanks. Oil levels were determined both for smooth water and for regular waves in the front and rear collecting tanks of the oil removing device. At a ship speed of v corresponds to3.0 km in smooth water mean oil film thickness in the front collecting tank was determined as 52 mm corresponds to0.52 m. Despite the evidently inoperative zones along the inner sides of the catamaran, oil flow rate over the weir, i.e. uptake rate of the oil collecting tanks can be rated as good. The lowest test speed of v corresponds to2.0 kn yielded the thickest oil film, 70 mm corresponds to0.7 m, whereas maximum skimming speed, v corresponds to4.0 kn, yielded 50 mm corresponds to0.5 m. High speeds caused strong perturbations in the inner section of the oil collecting trough. It was not clear whether this obstructed the oil flow. Runs without anti-whirl devices led to very strong eddies in the area between the halls. This had a strong influence on oil uptake rate. (orig./HS)

  8. Detection of Earth-skimming UHE tau neutrino with the JEM-EUSO detector

    CERN Document Server

    Vankova, Galina; Bogomilov, Marian; Tsenov, Roumen; Bertaina, Mario; Santangelo, Andrea

    2015-01-01

    The ultra high energy cosmic neutrinos are powerful astrophysical probes for both astrophysical mechanisms of particle acceleration and fundamental interactions. They open a window into the very distant and high-energy Universe that is difficult to access by any human means and devices. The possibility of detecting them in large exposure space-based apparatus, like JEM-EUSO, is an experimental challenge. In this paper we present an estimation of the feasibility of detection of UHE tau neutrino by the JEM-EUSO telescope. The interactions of tau-neutrino in sea water and Earth's crust have been investigated. The estimation of the propagation length and energy of the outgoing tau-lepton shows that if its decay occurs in the atmosphere close enough to the Earth's surface, e.g. below $\\sim$ $5 km$ altitude, the cascade is intensive enough and the generated light can be detected from space. We have evaluated the geometrical aperture of the JEM-EUSO detector for the Earth-skimming (horizontal and upward-going) tau-n...

  9. Ultrasound effects on the assembly of casein micelles in reconstituted skim milk.

    Science.gov (United States)

    Liu, Zheng; Juliano, Pablo; Williams, Roderick P W; Niere, Julie; Augustin, Mary Ann

    2014-05-01

    Reconstituted skim milks (10 % w/w total solids, pH 6·7-8·0) were ultrasonicated (20, 400 or 1600 kHz at a specific energy input of 286 kJ/kg) at a bulk milk temperature of <30 °C. Application of ultrasound to milk at different pH altered the assembly of the casein micelle in milk, with greater effects at higher pH and lower frequency. Low frequency ultrasound caused greater disruption of casein micelles causing release of protein from the micellar to the serum phase than high frequency. The released protein re-associated to form aggregates of smaller size but with surface charge similar to the casein micelles in the original milk. Ultrasound may be used as a physical intervention to alter the size of the micelles and the partitioning of caseins between the micellar and serum phases in milk. The altered protein equilibria induced by ultrasound treatment may have potential for the development of milk with novel functionality.

  10. Effect of Skimmed-Milk and Starter Addition on Lactic Acid Formation in Soyghurt

    Directory of Open Access Journals (Sweden)

    Yanna Syamsuddin

    2013-01-01

    Full Text Available Research on Effect of Skimmed-Milk and Starter Addition on Lactic Acid Formation in Soyghurt has been done. Soyghurt is a probiotic drinking product made from soy-milk produced by fermentation process using lactic acid bacteria. The bacteria used as starter was Lactobacillus bulgaricus and Streptococcus thermophillus. The objective of this research was to evaluate the effect of skimmed-milk and starter addition on the formation of lactic acid. Variables used in this research was skimmed-milk concentration of 5, 10, and 15% and starter concentration of 3, 5, and 7%, based on volume of soy-milk used as raw material. The soy-milk used was analyzed for its carbohydrate and protein content, and the soyghurt produced was analyzed for its lactic acid, pH and syneresis. The result showed that carbohydrate and protein content in soy-milk was 122.39 mg/L and 2.75%, respectively. The best condition of this process was the addition of 15% skimmed-milk and 5% starter, which yielded the highest lactic acid of 15% with pH of 4.23 and syneresis of 15%. It can be concluded that increasing skimmed-milk concentration cause the increase in lactic acid formation and decrease pH and syneresis. While effect of starter concentration on product analysis was influenced by the amount of nutrition contain in soy-milk.

  11. Leptin Levels Are Higher in Whole Compared to Skim Human Milk, Supporting a Cellular Contribution

    Directory of Open Access Journals (Sweden)

    Sambavi Kugananthan

    2016-11-01

    Full Text Available Human milk (HM contains a plethora of metabolic hormones, including leptin, which is thought to participate in the regulation of the appetite of the developing infant. Leptin in HM is derived from a combination of de novo mammary synthesis and transfer from the maternal serum. Moreover, leptin is partially lipophilic and is also present in HM cells. However, leptin has predominately been measured in skim HM, which contains neither fat nor cells. We optimised an enzyme-linked immunosorbent assay for leptin measurement in both whole and skim HM and compared leptin levels between both HM preparations collected from 61 lactating mothers. Whole HM leptin ranged from 0.2 to 1.47 ng/mL, whilst skim HM leptin ranged from 0.19 to 0.9 ng/mL. Whole HM contained, on average, 0.24 ± 0.01 ng/mL more leptin than skim HM (p < 0.0001, n = 287. No association was found between whole HM leptin and fat content (p = 0.17, n = 287, supporting a cellular contribution to HM leptin. No difference was found between pre- and post-feed samples (whole HM: p = 0.29, skim HM: p = 0.89. These findings highlight the importance of optimising HM leptin measurement and assaying it in whole HM to accurately examine the amount of leptin received by the infant during breastfeeding.

  12. Leptin Levels Are Higher in Whole Compared to Skim Human Milk, Supporting a Cellular Contribution.

    Science.gov (United States)

    Kugananthan, Sambavi; Lai, Ching Tat; Gridneva, Zoya; Mark, Peter J; Geddes, Donna T; Kakulas, Foteini

    2016-11-08

    Human milk (HM) contains a plethora of metabolic hormones, including leptin, which is thought to participate in the regulation of the appetite of the developing infant. Leptin in HM is derived from a combination of de novo mammary synthesis and transfer from the maternal serum. Moreover, leptin is partially lipophilic and is also present in HM cells. However, leptin has predominately been measured in skim HM, which contains neither fat nor cells. We optimised an enzyme-linked immunosorbent assay for leptin measurement in both whole and skim HM and compared leptin levels between both HM preparations collected from 61 lactating mothers. Whole HM leptin ranged from 0.2 to 1.47 ng/mL, whilst skim HM leptin ranged from 0.19 to 0.9 ng/mL. Whole HM contained, on average, 0.24 ± 0.01 ng/mL more leptin than skim HM (p leptin and fat content (p = 0.17, n = 287), supporting a cellular contribution to HM leptin. No difference was found between pre- and post-feed samples (whole HM: p = 0.29, skim HM: p = 0.89). These findings highlight the importance of optimising HM leptin measurement and assaying it in whole HM to accurately examine the amount of leptin received by the infant during breastfeeding.

  13. CD150 association with either the SH2-containing inositol phosphatase or the SH2-containing protein tyrosine phosphatase is regulated by the adaptor protein SH2D1A.

    Science.gov (United States)

    Shlapatska, L M; Mikhalap, S V; Berdova, A G; Zelensky, O M; Yun, T J; Nichols, K E; Clark, E A; Sidorenko, S P

    2001-05-01

    CD150 (SLAM/IPO-3) is a cell surface receptor that, like the B cell receptor, CD40, and CD95, can transmit positive or negative signals. CD150 can associate with the SH2-containing inositol phosphatase (SHIP), the SH2-containing protein tyrosine phosphatase (SHP-2), and the adaptor protein SH2 domain protein 1A (SH2D1A/DSHP/SAP, also called Duncan's disease SH2-protein (DSHP) or SLAM-associated protein (SAP)). Mutations in SH2D1A are found in X-linked lymphoproliferative syndrome and non-Hodgkin's lymphomas. Here we report that SH2D1A is expressed in tonsillar B cells and in some B lymphoblastoid cell lines, where CD150 coprecipitates with SH2D1A and SHIP. However, in SH2D1A-negative B cell lines, including B cell lines from X-linked lymphoproliferative syndrome patients, CD150 associates only with SHP-2. SH2D1A protein levels are up-regulated by CD40 cross-linking and down-regulated by B cell receptor ligation. Using GST-fusion proteins with single replacements of tyrosine at Y269F, Y281F, Y307F, or Y327F in the CD150 cytoplasmic tail, we found that the same phosphorylated Y281 and Y327 are essential for both SHP-2 and SHIP binding. The presence of SH2D1A facilitates binding of SHIP to CD150. Apparently, SH2D1A may function as a regulator of alternative interactions of CD150 with SHP-2 or SHIP via a novel TxYxxV/I motif (immunoreceptor tyrosine-based switch motif (ITSM)). Multiple sequence alignments revealed the presence of this TxYxxV/I motif not only in CD2 subfamily members but also in the cytoplasmic domains of the members of the SHP-2 substrate 1, sialic acid-binding Ig-like lectin, carcinoembryonic Ag, and leukocyte-inhibitory receptor families.

  14. Use of fluorometry for determination of skim milk powder adulteration in fresh milk

    Institute of Scientific and Technical Information of China (English)

    GUAN Rong-fa; LIU Dong-hong; YE Xing-qian; YANG Kai

    2005-01-01

    A FAST (fluorescence of advanced Maillard products and Soluble Tryptophan) method for identification of reconstituted milk made from skim milk powder in the fresh milk was developed. Considering milk and skim milk powders variations from different seasons and countries, milk was collected from different dairy farms in different seasons and skim milk powders were collected from different countries to measure the Tryptophan (Trp), advanced Maillard products (AMP) fluorescence values.The results showed that there were differences (P<0.01) between raw and reconstituted milk. The plot of values in each mixed level of raw and reconstituted milk had a correlation coefficient >0.97. The FAST method is a simple, rapid, low-cost and sensitive method enabling the detection of 5% reconstituted milk in fresh milk. The measurement of the Trp, AMP fluorescence values and calculation of the FAST index is a suitable method for large-scale monitoring of fresh milk samples.

  15. Characterization of Oxidative Stability of Fish Oil- and Plant Oil-Enriched Skimmed Milk

    DEFF Research Database (Denmark)

    Saga, Linda C.; Kristinova, Vera; Kirkhus, Bente

    2013-01-01

    The objective of this research was to determine the oxidative stability of fish oil blended with crude plant oils rich in naturally occurring antioxidants, camelina oil and oat oil, respectively, in bulk and after supplementation of 1 wt% of oil blends to skimmed milk emulsions. Ability of crude...... oat oil and camelina oil to protect fish oil in bulk and as fish oil-enriched skimmed milk emulsions was evaluated. Results of oxidative stability of bulk oils and blends assessed by the Schaal oven weight gain test and by the rancimat method showed significant increase in oxidative stability when oat......, skimmed milk supplemented with fish-oat oil blend gave the highest scores for off-flavors in the sensory evaluation, demonstrating that several methods, including sensory analysis, should be combined to illustrate the complete picture of lipid oxidation in emulsions....

  16. Plasma Skimming in a Spiral Groove Bearing of a Centrifugal Blood Pump.

    Science.gov (United States)

    Murashige, Tomotaka; Sakota, Daisuke; Kosaka, Ryo; Nishida, Masahiro; Kawaguchi, Yasuo; Yamane, Takashi; Maruyama, Osamu

    2016-09-01

    Plasma skimming is a phenomenon in which discharge hematocrit is lower than feed hematocrit in microvessels. Plasma skimming has been investigated at a bearing gap in a spiral groove bearing (SGB), as this has the potential to prevent hemolysis in the SGB of a blood pump. However, it is not clear whether plasma skimming occurs in a blood pump with the SGB, because the hematocrit has not been obtained. The purpose of this study is to verify plasma skimming in an SGB of a centrifugal blood pump by developing a hematocrit measurement method in an SGB. Erythrocyte observation using a high-speed microscope and a bearing gap measurement using a laser confocal displacement meter was performed five times. In these tests, bovine blood as a working fluid was diluted with autologous plasma to adjust the hematocrit to 1.0%. A resistor was adjusted to achieve a pressure head of 100 mm Hg and a flow rate of 5.0 L/min at a rotational speed of 2800 rpm. Hematocrit on the ridge region in the SGB was measured using an image analysis based on motion image of erythrocytes, mean corpuscular volume, the measured bearing gap, and a cross-sectional area of erythrocyte. Mean hematocrit on the ridge region in the SGB was linearly reduced from 0.97 to 0.07% with the decreasing mean bearing gap from 38 to 21 μm when the rotational speed was changed from 2250 to 3000 rpm. A maximum plasma skimming efficiency of 93% was obtained with a gap of 21 μm. In conclusion, we succeeded in measuring the hematocrit on the ridge region in the SGB of the blood pump. Hematocrit decreased on the ridge region in the SGB and plasma skimming occurred with a bearing gap of less than 30 μm in the hydrodynamically levitated centrifugal blood pump.

  17. Manufacture of acid gels from skim milk using high-pressure homogenization.

    Science.gov (United States)

    Hernández, A; Harte, F M

    2008-10-01

    The effect of high-pressure homogenization (HPH) alone or in combination with a thermal treatment (TT) was investigated for the manufacture of acid gels from skim milk. Raw skim milk was subjected to HPH (0 to 350 MPa) or a TT (90 degrees C, 5 min), or both, in the following processing combinations: 1) HPH, 2) HPH followed by TT, 3) TT followed by HPH, 4) TT, and 5) raw milk (control). After treatments, L* (lightness) values were measured, and then skim milk was acidified with 3% glucono-delta-lactone and rheological properties (G' and gelation time), and whey holding capacity was evaluated. Treatments in which HPH and TT were combined showed greater L* values than those in which just HPH was applied. In all treatments, the L* values decreased as the pressure was increased up to 300 MPa with little change afterward. Gelation times were lower when HPH was combined with TT compared with the acid skim milk gels that were just pressure treated. The final G' in gels obtained from skim milk subjected to the combined process (HPH and TT) was greater and pressure-dependent compared with all other gels. A maximum G' (~320 Pa) was observed with skim milk subjected to a combination of thermal processing before or after HPH at 350 MPa. Acid gels obtained from HPH milk at 350 MPa showed a linear decrease in whey holding capacity over time, retaining 20% more whey after centrifugation for 25 min compared with samples treated at lower pressures and all other treatments. Our results suggest that HPH in combination with TT can be used to improve the rheological properties and stability of yogurt, thus decreasing the need for additives.

  18. Chemical Composition and Rheological Properties of Set Yoghurt Prepared from Skimmed Milk Treated with Horseradish Peroxidase

    Directory of Open Access Journals (Sweden)

    Yan Wen

    2012-01-01

    Full Text Available The aim of this work is to determine the impact of an enzymatic treatment on the fermentation and rheological properties of set yoghurt prepared from skimmed milk. Skimmed bovine milk was treated with horseradish peroxidase added at the level of 645 U per g of proteins in the presence (addition level of 7.8 mmol per L of milk or absence of ferulic acid as a cross-linking agent, and used to prepare set yoghurt with commercial direct vat set starter culture. The evaluation showed that the treatment of skimmed milk with horseradish peroxidase enhanced its apparent viscosity, and storage and loss moduli. The prepared yoghurt contained protein, fat and total solids at 3.49–3.59, 0.46–0.52 and 15.23–15.43 %, respectively, had titratable acidity of 0.83–0.88 %, and no significant difference in the composition was found among the yoghurt samples (p>0.05. Compared to the control yoghurt, the yoghurt prepared from the milk treated with horseradish peroxidase had a higher apparent viscosity, storage and loss moduli and flow behavior indices, especially when ferulic acid was added. Yoghurt samples from the skimmed milk treated either with horseradish peroxidase only or with the additional ferulic acid treatment had better structural reversibility, because their hysteresis loop area during rheological analysis was larger (p<0.05.

  19. Flavor release of diacetyl and 2-heptanone from skimmed and full fat milk under mouth conditions

    NARCIS (Netherlands)

    Odake, S.; Ruth, van S.M.

    2006-01-01

    To gain insight into the process of retronasal olfaction, flavor release from skimmed milk and full fat milk (containing 3.75% fat) was investigated using a model mouth system with a screw plunger. Large differences were determined in the quantity of flavor released using two different methods: with

  20. Targeted and Untargeted Detection of Skim Milk Powder Adulteration by Near-Infrared Spectroscopy

    NARCIS (Netherlands)

    Capuano, Edoardo; Boerrigter-Eenling, Rita; Koot, Alex; Ruth, van S.M.

    2015-01-01

    In the present study, near-infrared spectroscopy (NIRS) was explored as a fast and reliable screening method for the detection of adulteration of skim milk powder (SMP). Sixty genuine SMP were adulterated with acid whey (1–25 % w/w), starch (2 and 5 %) and maltodextrin (2 and 5 %) for a total of

  1. Flavor release of diacetyl and 2-heptanone from skimmed and full fat milk under mouth conditions

    NARCIS (Netherlands)

    Odake, S.; Ruth, van S.M.

    2006-01-01

    To gain insight into the process of retronasal olfaction, flavor release from skimmed milk and full fat milk (containing 3.75% fat) was investigated using a model mouth system with a screw plunger. Large differences were determined in the quantity of flavor released using two different methods: with

  2. Propagation of SH waves in an infinite/semi-infinite piezoelectric/piezomagnetic periodically layered structure.

    Science.gov (United States)

    Pang, Yu; Liu, Yu-Shan; Liu, Jin-Xi; Feng, Wen-Jie

    2016-04-01

    In this paper, SH bulk/surface waves propagating in the corresponding infinite/semi-infinite piezoelectric (PE)/piezomagnetic (PM) and PM/PE periodically layered composites are investigated by two methods, the stiffness matrix method and the transfer matrix method. For a semi-infinite PE/PM or PM/PE medium, the free surface is parallel to the layer interface. Both PE and PM materials are assumed to be transversely isotropic solids. Dispersion equations are derived by the stiffness/transfer matrix methods, respectively. The effects of electric-magnetic (ME) boundary conditions at the free surface and the layer thickness ratios on dispersion curves are considered in detail. Numerical examples show that the results calculated by the two methods are the same. The dispersion curves of SH surface waves are below the bulk bands or inside the frequency gaps. The ratio of the layer thickness has an important effect not only on the bulk bands but also on the dispersion curves of SH surface waves. Electric and magnetic boundary conditions, respectively, determine the dispersion curves of SH surface waves for the PE/PM and PM/PE semi-infinite structures. The band structures of SH bulk waves are consistent for the PE/PM and PM/PE structures, however, the dispersive behaviors of SH surface waves are indeed different for the two composites. The realization of the above-mentioned characteristics of SH waves will make it possible to design PE/PM acoustic wave devices with periodical structures and achieve the better performance.

  3. Effect of colostrum on gravity separation of milk somatic cells in skim milk.

    Science.gov (United States)

    Geer, S R; Barbano, D M

    2014-02-01

    Our objective was to determine if immunoglobulins play a role in the gravity separation (rising to the top) of somatic cells (SC) in skim milk. Other researchers have shown that gravity separation of milk fat globules is enhanced by IgM. Our recent research found that bacteria and SC gravity separate in both raw whole and skim milk and that heating milk to >76.9 °C for 25s stopped gravity separation of milk fat, SC, and bacteria. Bovine colostrum is a good natural source of immunoglobulins. An experiment was designed where skim milk was heated at high temperatures (76 °C for 7 min) to stop the gravity separation of SC and then colostrum was added back to try to restore the gravity separation of SC in increments to achieve 0, 0.4, 0.8, 2.0, and 4.0 g/L of added immunoglobulins. The milk was allowed to gravity separate for 22 h at 4 °C. The heat treatment of skim milk was sufficient to stop the gravity separation of SC. The treatment of 4.0 g/L of added immunoglobulins was successful in restoring the gravity separation of SC as compared with raw skim milk. Preliminary spore data on the third replicate suggested that bacterial spores gravity separate the same way as the SC in heated skim milk and heated skim milk with 4.0 g/L of added immunoglobulins. Strong evidence exists that immunoglobulins are at least one of the factors necessary for the gravity separation of SC and bacterial spores. It is uncertain at this time whether SC are a necessary component for gravity separation of fat, bacteria, and spores to occur. Further research is needed to determine separately the role of immunoglobulins and SC in gravity separation of bacteria and spores. Understanding the mechanism of gravity separation may allow the development of a continuous flow technology to remove SC, bacteria, and spores from milk.

  4. The Emission Nebula Sh 2-174: A Radio Investigation of the Surrounding Region

    CERN Document Server

    Ransom, R R; Geisbuesch, J; Reich, W; Landecker, T L

    2014-01-01

    Sh 2-174 is believed to be either a planetary nebula (PN) or ionized, ambient interstellar medium (ISM). We present in this paper 1420 MHz polarization, 1420 MHz total intensity (Stokes-I), and neutral hydrogen (HI) images of the region around Sh 2-174. The radio images address not only the nature of the object, but also the history of the relationship between Sh 2-174 and its surrounding environment. The HI images show that Sh 2-174 sits presently at the center of a 1.2 deg x 0.4 deg cloud. The Stokes-I image shows thermal emission peaks coincident with the R-band optical nebula, as well as low-surface-brightness emission from an ionized "halo" around Sh 2-174 and from an ionized "plateau" extending southeast from the cloud. The polarization images reveal Faraday-rotation structures along the projected trajectory of Sh 2-174, including a high-contrast structure with "arms" that run precisely along the eastern edge of the HI cloud and a wide central region which merges with the downstream edge of Sh 2-174. Th...

  5. Effect of adjusted pH prior to ultrafiltration of skim milk on membrane performance and physical functionality of milk protein concentrate.

    Science.gov (United States)

    Luo, X; Vasiljevic, T; Ramchandran, L

    2016-02-01

    Processing conditions during ultrafiltration of skim milk influence properties of the casein micelle and thereby the physical properties of milk protein concentrate (MPC). The aim of the study was to establish the effects of pH adjustment of skim milk feed to obtain MPC with desired emulsification properties. The ultrafiltration was conducted using commercially pasteurized skim milk with the pH adjusted to 6.7 (control), 6.3, 5.9, or 5.5 at 15°C until a volume concentration factor of 5 was reached. Effects of pH adjustment on selected physico-chemical properties (Ca content, particle size, ζ-potential) and functionalities (solubility, heat stability, emulsification capacity, and stability) of MPC were determined. Lowering the feed pH solubilized colloidal calcium phosphate that substantially contributed to modifying the properties of casein. This caused a reduction in the particle size while increasing the net negative charge. The structural modifications in proteins were manifested in the Fourier transform infrared spectra. Subsequent concentration did not induce any further protein structural changes. Such modifications to the casein micelles and colloidal calcium phosphate negatively affected the solubility and heat stability of the corresponding MPC powders. However, the emulsion activity index improved only until the pH of the feed was lowered to 5.9 and declined when pH was dropped to 5.5, followed with the loss of stability. Readjusting the pH of MPC powder dispersions to 6.7 restored their surface properties and thereby their functionality. Lowering the feed pH also negatively affected the membrane performance by clogging the membrane pores and lowering the flux, particularly at pH 5.5. Adjusting pH to 5.9 produced MPC with optimum emulsifying properties with minimal influence on membrane performance. Copyright © 2016 American Dairy Science Association. Published by Elsevier Inc. All rights reserved.

  6. Sedimentação em leite UHT integral, semidesnatado e desnatado durante armazenamento Particle sedimentation in semi-skimmed, skimmed on whole milk UHT, during storage

    Directory of Open Access Journals (Sweden)

    Cintia Neuwald Vesconsi

    2012-04-01

    Full Text Available Um dos maiores problemas do leite UHT é a sedimentação que ocorre durante o período de armazenamento, o que é muito reclamado pelos consumidores. O objetivo deste trabalho foi determinar a sedimentação em leite UHT integral, semidesnatado e desnatado, armazenados a 20°C e 30°C (±1°C durante 120 dias. Nos leites pasteurizados que deram origem aos leites UHT, foram efetuadas análises físico-químicas e microbiológicas (bactérias mesófilas, psicrotróficas e láticas e, nos leites UHT integral, semidesnatado e desnatado, avaliaram-se a acidez, pH, fervura, sensorial, integridade das embalagens e sedimentação, logo depois de embalados e no 30°, 60°, 90° e 120° dia de armazenamento. Os leites pasteurizados integral, semidesnatado e desnatado apresentaram resultados dentro dos padrões estipulados pela indústria para as bactérias mesófilas (log10 4,37 a log10 4,08UFC mL-1, psicrotróficas (log10 3,06 a log10 2,77UFC mL-1 e lácticas (log10 3,10 a log10 2,42UFC mL-1, que diferiram significativamente (POne of the biggest problems of UHT milk is the sedimentation of protein particles that occurs during the storage period, which faces rejection by the consumers. The aim of this study was to evaluate the particle sedimentation in semi-skimmed, skimmed and wholemilk, stored at 20°C, 30°C (±1 for 120 days. In pasteurized milk that yielded UHT milk physico-chemical and microbiological analisys (mesophilic, psychrotrophic and lactic acid bacteria were carried out. In semi-skimmed, skimmed and whole milk, the acidity, pH, boiling, sensory analysis, integrity of packaging and sedimentation tests were carried out shortly after packing and at 30th, 60th, 90th and 120th days of storage. The pasteurized whole milk, semi skimmed and skimmed milk showed results within the required standards by the industry for mesophilic bacteria(log10 4.37 a log10 4.08UFC mL-1, psychrotrophic (log10 3.06 a log10 2.77UFC mL-1 and lactic acid (log10 3.10 a

  7. Photometric and Spectroscopic Study of the Shakhbazian Compact Galaxy Groups ShCG 31, ShCG 38, ShCG 43, and ShCG 282

    Directory of Open Access Journals (Sweden)

    H. M. Tovmassian

    2003-01-01

    Full Text Available Los grupos compactos de galaxias Shakhbazian son las configuraciones más densas que se conocen. Hace unos pocos años iniciamos un estudio fotométrico y espectroscópico de estos grupos. En este artículo presentamos los resultados de la investigación en los grupos ShCG 31, ShCG 38, ShCG 43 y ShCG 282. Presentamos los corrimientos al rojo de las galaxias miembro, los resultados de la fonometría BV R, las curvas de brillo superficial-radio efectivo, las masas estimadas, luminosidades y las razones masa-luminosidad de los grupos, además de algunos parámetros dinámicos como la dispersión de velocidades radiales y el tiempo de cruce. Los ShCGs estudiados consisten principalmente de galaxias elípticas y lenticulares. Se muestra que algunas galaxias en estos grupos están en proceso de interacción.

  8. VARIASI KONSENTRASI BUAH ASAM (Tamarindus indica L. DAN SUSU SKIM TERHADAP KUALITAS YOGHURT KUNIR ASAM

    Directory of Open Access Journals (Sweden)

    Ni Putu Rahayu Artini

    2015-10-01

    Full Text Available ABSTRAK: Penelitian ini bertujuan untuk mengetahui pengaruh variasi konsentrasi buah asam (Tamarindus indica L. dan  susu skim untuk menghasilkan kualitas yoghurt sesuai  dengan SNI 01-2981-2009.Rancangan percobaan yang dilakukan dalam penelitian ini adalah Rancangan Acak Lengkap (RAL yang terdiri atas sembilan perlakuan. Yoghurt kunir asam dibuat dari variasi penambahan variasi konsentrasi Tamarindus indica L. 30%, 40%, dan 50% (b/V dan  susu skim 5%, 10%, dan 15% (b/V. Sifat fisika, kimia, dan mikrobiologi  yoghurt kunir asam diamati. Dihasilkan kualitas terbaik yoghurt kunir asam dengan penambahan 30% Tamarindus indica L. (b/V0dan 15% susu skim (b/V. Dengan hasil analisis penampakan cairan kental; konsistensi homogen; rasa asam; bau khas; viskositas 89,3 cP; pH 4,85; kadar abu 1,52%; kadar lemak total 2,53%; kadar protein total 3,74%; kadar asam laktat 0,223%, kadar kurkumin 0,389%; cemaran logam Pb dan Cu serta Total Coliform dan E. coli negatif. ABSTRACT:.The objective of this research was to determinethe influence of concentrated Tamarindus indica L. and skim milk powder in producing tumuric curcumin yogurt towards its product based on SNI 01-2981-2009. The research was conducted in completely randomized design which consisted of nine treatments. The yogurt mixtures were made from a variation of 30%, 40%, and 50% of Tamarindus indica L. and addition of  5%, 10%, and 15% of skim milk powder.  Physical, chemical, and microbiology properties of the turmeric curcuma yogurts were observed.  The results showed the best quality of turmeric curcumin  yogurt was formulated by the addition of 30% Tamarindus indica L. and 15% skim milk powder,  with the results of the analysis: the appearance of a viscous fluid; homogeneous consistency; sour taste; distinctive smell; viscosity of 89.3 cP; pH of 4.85; ash content of 1.52%; total fat content of 2.53%; total protein content of 3.74%; lactic acid levels of 0.22%, curcumin content of 0

  9. Chemical stability of astaxanthin nanodispersions in orange juice and skimmed milk as model food systems.

    Science.gov (United States)

    Anarjan, Navideh; Tan, Chin Ping

    2013-08-15

    Solubilising astaxanthin in nanodispersion systems is a promising approach to incorporate astaxanthin into water-based food formulations. In this research, the chemical stabilities of astaxanthin nanodispersions diluted in orange juice and skimmed milk as model food systems and in deionised water as a control were evaluated. The nanodispersions displayed significantly (pastaxanthin degradation during storage. In vitro cellular uptake of astaxanthin from diluted astaxanthin nanodispersions in selected food systems was also evaluated. The cellular uptake of astaxanthin nanodispersions in skimmed milk was significantly higher (pastaxanthin nanodispersions in orange juice and deionised water. High in vitro cellular uptake of astaxanthin from the prepared astaxanthin nanodispersions can be achieved via incorporation into protein-based foods such as milk.

  10. Production of BaBar Skimmed Analysis Datasets Using the Grid

    Energy Technology Data Exchange (ETDEWEB)

    Brew, C.A.J.; /Rutherford; Wilson, F.F.; /Rutherford; Castelli, G.; /Rutherford; Adye, T.; /Rutherford; Roethel, W.; /Rutherford; Luppi, E.; /INFN, Ferrara; Andreotti, D.; /INFN, Ferrara; Smith, D.; /SLAC; Khan, A.; /Brunel U.; Barrett, M.; /Brunel U.; Barlow, R.; /Manchester U.; Bailey, D.; /Manchester U.

    2011-11-10

    The BABAR Collaboration, based at Stanford Linear Accelerator Center (SLAC), Stanford, US, has been performing physics reconstruction, simulation studies and data analysis for 8 years using a number of compute farms around the world. Recent developments in Grid technologies could provide a way to manage the distributed resources in a single coherent structure. We describe enhancements to the BABAR experiment's distributed skimmed dataset production system to make use of European Grid resources and present the results with regard to BABAR's latest cycle of skimmed dataset production. We compare the benefits of a local and Grid-based systems, the ease with which the system is managed and the challenges of integrating the Grid with legacy software. We compare job success rates and manageability issues between Grid and non-Grid production.

  11. The use of whey or skimmed milk powder in fortified blended foods for vulnerable groups

    DEFF Research Database (Denmark)

    Hoppe, Camilla; Andersen, Gregers S; Jacobsen, Stine

    2008-01-01

    of antinutrients has not been examined. Different lines of evidence suggest that dairy proteins have beneficial effects on vulnerable groups. Here we review the evidence on the effects of adding whey or skimmed milk powder to FBF used for malnourished infants and young children or people living with HIV or AIDS....... Adding whey or skimmed milk powder to FBF improves the protein quality, allowing a reduction in total amount of protein, which could have potential metabolic advantages. It also allows for a reduced content of soy and cereal and thereby a reduction of potential antinutrients. It is possible that adding...... milk could improve weight gain, linear growth, and recovery from malnutrition, but this needs to be confirmed. Bioactive factors in whey might have beneficial effects on the immune system and muscle synthesis, but evidence from vulnerable groups is lacking. Milk proteins will improve flavor, which...

  12. PENERAPAN TEKNIK SKIMMING YANG DIBERIKAN DI AWAL PEMBELAJARAN FISIKA PADA SISWA SMP SUB POKOK BAHASAN MATA DAN CACAT MATA

    Directory of Open Access Journals (Sweden)

    S. Aji, Sugianto

    2016-09-01

    Full Text Available Ilmu fisika merupakan salah satu ilmu pengetahuan yang erat kaitannya dengan kehidupan sehari-hari. Teknik skimmingmerupakan teknik membaca secara efisien untuk mendapatkan gambaran secara umum dari bahan ajar yang dibaca. Penelitianini bertujuan untuk (1 mengetahui pengaruhnya penerapan teknik skimming yang diberikan di awal pembelajaran fisika padasiswa SMP subpokok bahasan mata dan cacat mata; (2 mengetahui besarnya pengaruh penerapan teknik skimming di awalpembelajaran fisika; (3 serta mengetahui tanggapan siswa setelah pembelajaran. Penelitian bersifat eksperimen denganmenggunakan kelompok kontrol dan kelompok eksperimen. Berdasarkan hasil analisis uji t data hasil belajar dapat disimpulkanbahwa penerapan teknik skimming yang diberikan di awal pembelajaran berpengaruh terhadap hasil belajar siswa SMPsubpokokbahasan mata dan cacat mata. Besarnya pengaruh penerapan teknik skimming yang diberikan di awal pembelajaran 1,49%. Hasilangket tanggapan siswa terhadap pembelajaran menunjukkan bahwa siswa lebih mudah memahami materi setelah melakukanpembelajaran. Physics is one of science having close relation to daily life. Skimming is an efficient reading technique to find general view of thereading material. This research aimed to know (1 influence and (2 the value of the influence of skimming technique given in thebeginning of physics lesson of eyes and eye deffect sub topic to learning achievement of the student and (3 students' commentafter the lesson. In this research control and experiment groups were used. Based on the analysis result of the t-test data of learningachievement, it was concluded that the application of skimming technique given in the beginning of physics lesson of eyes and eyedeffect sub topic gave effect to learning achievement of the student with the value of 1.49%. The result of comment questionaireshowed that the student understand the learning material easier after having the lesson.Keywords: eyes and eye deffect

  13. Fundamental modes of new dispersive SH-waves in piezoelectromagnetic plate

    Indian Academy of Sciences (India)

    A A Zakharenko

    2013-11-01

    Fundamental modes of new dispersive shear-horizontal (SH) acoustic waves propagating in the (6 mm) piezoelectromagnetic plate are studied. These SH-waves can propagate when the following boundary conditions are exploited for both the upper and lower surfaces of the plate: (1) when the surfaces are mechanically free, electrically and magnetically closed and (2) when the surfaces are mechanically free, electrically and magnetically open. The SH-waves depend on the electromagnetic wave speed $V_{\\text{EM}} = 1/\\sqrt{( )}$ and can only exist when the electromagnetic constant ≠ 0. The calculations (first evidence) were performed for the PZT-5H–Terfenol-D which is a composite with a large value of . The limit cases of large values of (2 = 0.5 , 2 = 0.9 ), and 2 = 0.99 ) are studied because they satisfy the limitation condition of 2 < .

  14. Performance assessment of membrane distillation for skim milk and whey processing.

    Science.gov (United States)

    Hausmann, Angela; Sanciolo, Peter; Vasiljevic, Todor; Kulozik, Ulrich; Duke, Mikel

    2014-01-01

    Membrane distillation is an emerging membrane process based on evaporation of a volatile solvent. One of its often stated advantages is the low flux sensitivity toward concentration of the processed fluid, in contrast to reverse osmosis. In the present paper, we looked at 2 high-solids applications of the dairy industry: skim milk and whey. Performance was assessed under various hydrodynamic conditions to investigate the feasibility of fouling mitigation by changing the operating parameters and to compare performance to widespread membrane filtration processes. Whereas filtration processes are hydraulic pressure driven, membrane distillation uses vapor pressure from heat to drive separation and, therefore, operating parameters have a different bearing on the process. Experimental and calculated results identified factors influencing heat and mass transfer under various operating conditions using polytetrafluoroethylene flat-sheet membranes. Linear velocity was found to influence performance during skim milk processing but not during whey processing. Lower feed and higher permeate temperature was found to reduce fouling in the processing of both dairy solutions. Concentration of skim milk and whey by membrane distillation has potential, as it showed high rejection (>99%) of all dairy components and can operate using low electrical energy and pressures (<10 kPa). At higher cross-flow velocities (around 0.141 m/s), fluxes were comparable to those found with reverse osmosis, achieving a sustainable flux of approximately 12 kg/h·m(2) for skim milk of 20% dry matter concentration and approximately 20 kg/h·m(2) after 18 h of operation with whey at 20% dry matter concentration. Copyright © 2014 American Dairy Science Association. Published by Elsevier Inc. All rights reserved.

  15. Cholesterol-loaded cyclodextrin improves ram sperm cryoresistance in skim milk-extender.

    Science.gov (United States)

    Salmon, Vianney M; Castonguay, François; Demers-Caron, Vincent; Leclerc, Pierre; Bailey, Janice L

    2017-02-01

    Cholesterol-loaded cyclodextrin (CLC) is known to improve ram sperm cryosurvival. This study expands on previous research to: (1) determine the mechanism by which CLC improves ram sperm cryosurvival and (2) compare the efficiency of a novel, skim milk-based extender containing CLC to a traditional egg yolk-based extender. Hypothesis #1 was that CLC enhances membrane cholesterol content to increase the resistance of ram sperm to cold and osmotic stress, thereby improving cryosurvival. We first assessed the ability of fresh sperm treated with CLC to withstand cold shock. Second, fresh sperm were treated with CLC to evaluate their tolerance to osmotic stress. Third, to confirm that cholesterol is incorporated into the sperm using CLC, we quantified sperm cholesterol. To test Hypothesis #2 that CLC is most effective in a medium without competing cholesterol, we compared sperm cryosurvival and fertility in skim milk-based extender containing CLC versus in a traditional egg yolk-based freezing extender without CLC. Our data confirmed that CLC treatment improves ram sperm cold shock and osmotic stress resistance, and augments sperm cholesterol content. Semen in skim milk-based extender containing CLC prior to freezing, had more motile sperm with intact acrosomes after thawing compared to semen in egg yolk-based extender. In contrast, sperm plasma membrane integrity and in vivo fertility of the semen cryopreserved in the skim milk-based extender with CLC did not differ from semen that was cryopreserved in egg yolk-based extender. Further research is warranted to combine CLC with other cryoprotection strategies or to modify the insemination protocol.

  16. Acid skim milk gels: The gelation process as affected by preheated pH

    NARCIS (Netherlands)

    Lakemond, C.M.M.; Vliet, van T.

    2008-01-01

    The effect of preheating milk (10 min 80 [degree sign]C) at pH values from 6.20 to 6.90 on formation of acid skim milk gels was studied by dynamic oscillation measurements. Up to pH 6.65 a higher pH of heating (pHheating) resulted in a higher G'. Since below pH 4.9 the development of G'(pH)/G'(pH=4.

  17. Counter-current carbon dioxide extraction of fat from soy skim

    Science.gov (United States)

    This research aims to investigate the use of counter-current carbon dioxide extraction method as a means to reduce residual fat in soy skim after the enzyme-assisted aqueous extraction of soybeans. Extractions with liquid CO2 at 25°C and 10.34 MPa and supercritical CO2 at 50°C and 25.16 MPa are comp...

  18. medinfo quergelesen: Informationen aus dem Weblog medinfo / Skim through medinfo: Information from the medinfo weblog

    Directory of Open Access Journals (Sweden)

    Klein, Diana

    2007-09-01

    Full Text Available Are you up to date? In July 2007 medinfo crossed the limit of 2000 news in the weblog. Many thanks to Oliver Obst for providing medical librarians with that much concentrated information. After the first article with a skim through medinfo including the contents of January to April 2007 here follows the next article with a selection of the most interesting contents of May to August 2007.

  19. Development, chemical and sensory characterization of semi skim yogurt added with whey protein concentrate

    Directory of Open Access Journals (Sweden)

    Andressa Regina Antunes

    2015-04-01

    Full Text Available The aim of this work was to develop, to perform the chemical characterization and verify the acceptability of a semi skim yogurt added with whey protein concentrate (WPC 35 %, and compare it to traditional yogurt, without adding any protein source. For this, two formulations were prepared: 1- traditional semi skim and 2: semi skim added with WPC 35 %, with subsequent evaluation of physicochemical characteristics of acidity, pH and viscosity, as well as the compositional analysis of the levels of humidity, full solids, ash, protein, fat and carbohydrates for both formulations. The sensory analysis was performed with 80 untrained tasters, which was based on parameters of appearance, taste, flavor and consistency. The appearance and consistency parameters showed a significant difference between received grades, and the yogurt added with WPC 35 % the most preferred these aspects, as well as the formulation with the highest widespread acceptance among testers. The results indicate that the use of WPC 35 % in foods is a promising alternative, considering the overall acceptance obtained, the protein content beneficial to the consumers health, the improvement of technological properties provided to food coupled to the extent which it is produced, low cost and reducing the damage caused to the environment. 

  20. Cake layer reduction by gas sparging cross flow ultrafiltration of skim latex serum

    Directory of Open Access Journals (Sweden)

    Harunsyah Nik Meriam Sulaiman

    2002-11-01

    Full Text Available A gas sparged method was investigated for reducing cake layer formation and enhancing the crossflow ultrafiltration process. The injection of nitrogen gas promotes turbulence and increases the permeate flux of the process fluid. Experiments were carried out using a tubular membrane (100 kDa MWCO,mounted vertically with skim latex serum, which results from the coagulation of skim latex by-product. The objective of this research was focused mainly on the observed reversible cake resistance during the cross flow ultrafiltration of skim latex serum. The effect of operating parameters, including feed flow rate, flowrate gas sparging and transmembrane pressure ware investigated. Results obtained thus far show that the use of gas sparged technique has been able to enhance total permeate flux in the range 8.29% to 145.33% compared to non-gas sparged condition. In this research optimum permeate flux was obtained at a feed flowrate of 1400 ml/min, a flowrate gas sparging of 500 ml/min and a transmembrane pressure of 0.89 barg.

  1. Stallion semen cryopreservation using different cryoprotective agents on the skim milk trehalosa extender

    Directory of Open Access Journals (Sweden)

    R.I Arifiantini

    2007-06-01

    Full Text Available Cryoprotective agents (CPAs, protect the sperm during cryopreservation. There are two general classes of CPAs, at first penetrating cryoprotectants, these pass through the sperm membrane and act both intracellular and extracellularly, and the second non-penetrating cryoprotectants, these act only extracellularly. The objective of this study was to evaluate the addition of different CPAs namely glycerol (G, combination of ethylene glycol with glycerol (EG and dimethilformamide (DMF using skim milk trehalosa extender. The semen collected from 3 stallions using artificial vagina twice aweeks. The semen was evaluated, centrifugated and diluted in skim milk extender supplemented with 50 mM trehalose and three different CPAs with the concentration of sperm were 200x106 ml-1. Extended semen was then packed into minitub 0.3 ml and equilibrated at 4oC for 2 hours, freeze in the liquid nitrogen vapor for 10 minutes and stored in liquid nitrogen container -196oC. After 24 hours, the semen was thawed at 37oC for 30 second. Results of this experiment indicated that the percentage of motile and viable sperm in skim trehalosa extender using DMF and glycerol better than combination of ethylene glycol and glycerol.

  2. Use of whey powder and skim milk powder for the production of fermented cream

    Directory of Open Access Journals (Sweden)

    Ceren AKAL

    2016-01-01

    Full Text Available Abstract This study is about the production of fermented cream samples having 18% fat by addition of starter cultures. In order to partialy increase non-fat solid content of fermented cream samples, skim milk powder and demineralized whey powder in two different rates (50% and 70% were used. Samples were analyzed for changes in their biochemical and physicochemical properties (total solid, ash, fat, titratable acidity, pH value, total nitrogen, viscosity, tyrosine, acid number, peroxide and diacetyl values during 29-day of storage period. Samples tested consisted of 7 different groups; control group (without adding any powder, skim milk powder, 50% demineralized whey powder and 70% demineralized whey powder samples were in two different addition rate (2% and 4%. Also samples were analyzed for sensory properties. According to the results obtained, the addition of milk powder products affected titratable acidity and tyrosine values of fermented cream samples. Although powder addition and/or storage period didn’t cause significant variations in total solid, ash, fat, pH value, viscosity, acid number, peroxide, tyrosine and diacetyl values; sensory properties of fermented cream samples were influenced by both powder addition and storage period. Fermented cream containing 2% skim milk powder gets the top score of sensory evaluation among the samples.

  3. Anaerobic co-digestion of sewage sludge and primary clarifier skimmings for increased biogas production.

    Science.gov (United States)

    Alanya, S; Yilmazel, Y D; Park, C; Willis, J L; Keaney, J; Kohl, P M; Hunt, J A; Duran, M

    2013-01-01

    The objective of the study was to identify the impact of co-digesting clarifier skimmings on the overall methane generation from the treatment plant and additional energy value of the increased methane production. Biogas production from co-digesting clarifier skimmings and sewage sludge in pilot-scale fed-batch mesophilic anaerobic digesters has been evaluated. The digester was fed with increasing quantities of clarifier skimmings loads: 1.5, 2.6, 3.5 and 7.0 g COD equivalent/(L·d) (COD: chemical oxygen demand). Average volatile solids reduction of 65% was achieved in the scum-fed digester, compared with 51% in the control digester. Average 69% COD removal was achieved at highest scum loading (7 g COD eq/(L·d)) with approximate methane yield of 250 L CH(4)/kg COD fed (4 ft(3)/lb COD fed). The results show that scum as co-substrate in anaerobic digestion systems improves biogas yields while a 29% increase in specific CH(4) yield could be achieved when scum load is 7 g COD eq/(L·d). Based on the pilot-scale study results and full-scale data from South East Water Pollution Control Plant and Northeast Water Pollution Control Plant the expected annual energy recovery would be approximately 1.7 billion BTUs or nearly 0.5 million kWh.

  4. THE EMISSION NEBULA Sh 2-174: A RADIO INVESTIGATION OF THE SURROUNDING REGION

    Energy Technology Data Exchange (ETDEWEB)

    Ransom, R. R. [Department of Physics and Astronomy, Okanagan College, 583 Duncan Avenue West, Penticton, BC V2A 8E1 (Canada); Kothes, R.; Geisbuesch, J.; Landecker, T. L. [National Research Council Herzberg, Dominion Radio Astrophysical Observatory, P.O. Box 248, Penticton, BC V2A 6J9 (Canada); Reich, W., E-mail: RRansom@okanagan.bc.ca [Max-Planck-Institut für Radioastronomie, Auf dem Hügel 69, D-53121 Bonn (Germany)

    2015-02-01

    Sh 2-174 is believed to be either a planetary nebula (PN) or ionized, ambient interstellar medium (ISM). We present in this paper 1420 MHz polarization, 1420 MHz total intensity (Stokes-I), and neutral hydrogen (H I) images of the region around Sh 2-174. The radio images address not only the nature of the object, but also the history of the relationship between Sh 2-174 and its surrounding environment. The H I images show that Sh 2-174 sits presently at the center of a ∼1.°2 × ∼0.°4 cloud (with peak hydrogen density n {sub H} = 4 ± 2 cm{sup –3}). The Stokes-I image shows thermal-emission peaks (with electron densities n{sub e} = 11 ± 3 cm{sup –3}) coincident with the R-band optical nebula, as well as low-surface-brightness emission from an ionized ''halo'' around Sh 2-174 and from an ionized ''plateau'' extending southeast from the cloud. The polarization images reveal Faraday-rotation structures along the projected trajectory of Sh 2-174, including a high-contrast structure with ''arms'' that run precisely along the eastern edge of the H I cloud and a wide central region that merges with the downstream edge of Sh 2-174. The high-contrast structure is consistent with an ionized tail that has both early-epoch (before Sh 2-174 entered the cloud) and present-epoch (after Sh 2-174 entered the cloud) components. Furthermore, our rotation-measure analysis indicates that the ISM magnetic field is deflected at the leading edge of Sh 2-174. The downstream tail and upstream field deflection point to a PN-ISM interaction. Our estimated space velocity for the host white dwarf (GD 561) demonstrates that Sh 2-174 entered the cloud ∼27,000 yr ago, and gives a PN-ISM interaction timescale ≲ 2.0 × 10{sup 5} yr. We estimate an ambient magnetic field in the cloud of 11 ± 3 μG.

  5. An EMAT-based shear horizontal (SH) wave technique for adhesive bond inspection

    Science.gov (United States)

    Arun, K.; Dhayalan, R.; Balasubramaniam, Krishnan; Maxfield, Bruce; Peres, Patrick; Barnoncel, David

    2012-05-01

    The evaluation of adhesively bonded structures has been a challenge over the several decades that these structures have been used. Applications within the aerospace industry often call for particularly high performance adhesive bonds. Several techniques have been proposed for the detection of disbonds and cohesive weakness but a reliable NDE method for detecting interfacial weakness (also sometimes called a kissing bond) has been elusive. Different techniques, including ultrasonic, thermal imaging and shearographic methods, have been proposed; all have had some degree of success. In particular, ultrasonic methods, including those based upon shear and guided waves, have been explored for the assessment of interfacial bond quality. Since 3-D guided shear horizontal (SH) waves in plates have predominantly shear displacement at the plate surfaces, we conjectured that SH guided waves should be influenced by interfacial conditions when they propagate between adhesively bonded plates of comparable thickness. This paper describes a new technique based on SH guided waves that propagate within and through a lap joint. Through mechanisms we have yet to fully understand, the propagation of an SH wave through a lap joint gives rise to a reverberation signal that is due to one or more reflections of an SH guided wave mode within that lap joint. Based upon a combination of numerical simulations and measurements, this method shows promise for detecting and classifying interfacial bonds. It is also apparent from our measurements that the SH wave modes can discriminate between adhesive and cohesive bond weakness in both Aluminum-Epoxy-Aluminum and Composite-Epoxy-Composite lap joints. All measurements reported here used periodic permanent magnet (PPM) Electro-Magnetic Acoustic Transducers (EMATs) to generate either or both of the two lowest order SH modes in the plates that comprise the lap joint. This exact configuration has been simulated using finite element (FE) models to

  6. The molecular cloud-H II region complexes associated with SH 90 and SH 235

    Science.gov (United States)

    Lafon, G.; Baudry, A.; de La Noe, J.; Deharveng, L.

    1983-07-01

    The Sharpless regions Sh 90 and Sh 235 are characterized on the basis of monochromatic photographs (at H-alpha, N III, and O III) and H-alpha photographic interferograms made at the Observatoire de Haute-Provence and of molecular-cloud maps (at 110.201 and 89.189 GHz) made at the Observatoire de Bordeaux. Sh 90, at a distance of 2.4 kpc, is found to have an evolved-H II-region shell structure, with ionized gas flowing both away from and toward a neutral molecular cloud with a mass of about 60,000 solar mass which lies partly in front of the H II region. Sh 235, at 1.6 kpc, has two extended 100,000-300,000-solar-mass neutral clouds which partly overlap. The northern cloud, identified at -20 km/s, is related to the optical nebula; the southern cloud (at -17 km/s) contains three compact H II regions (A, B, and C) and exhibits recent star-formation processes. The 'champagne' model of H II regions proposed by Tenorio-Tagle (1979) is considered applicable to Sh 90 and to Sh 235C.

  7. Scattering of SH-wave by multiple circular cavities in half space

    Institute of Scientific and Technical Information of China (English)

    王国庆; 刘殿魁

    2002-01-01

    In this paper, an analytic method is developed to address steady SH-wave scattering and perform dynamic analysisof multiple circular cavities in half space. The scattered wave function used for scattering of SH-waves by multiple circularcavities, which automatically satisfies the stress-free condition at the horizontal surface, is constructed by applying thesymmetry of the SH-wave scattering and the method of multi-polar coordinates system. Applying this scattered wave functionand method of moving coordinates, the original problem can be transformed to the problem of SH-wave scattering by multiplecircular cavities in the full space. Finally, the solution of the problem can be reduced to a series of algebraic equations andsolved numerically by truncating the infinite algebraic equations to the finite ones. Numerical examples are provided for casewith two cavities to show the effect of wave number, and the distances between the centers of the cavities and from the centersto the ground surface on the dynamic stress concentration around the cavity impacted by incident steady SH-wave.

  8. Pooled shRNA screenings: computational analysis.

    Science.gov (United States)

    Yu, Jiyang; Putcha, Preeti; Califano, Andrea; Silva, Jose M

    2013-01-01

    Genome-wide RNA interference screening has emerged as a powerful tool for functional genomic studies of disease-related phenotypes and the discovery of molecular therapeutic targets for human diseases. Commercial short hairpin RNA (shRNA) libraries are commonly used in this area, and state-of-the-art technologies including microarray and next-generation sequencing have emerged as powerful methods to analyze shRNA-triggered phenotypes. However, computational analysis of this complex data remains challenging due to noise and small sample size from such large-scaled experiments. In this chapter we discuss the pipelines and statistical methods of processing, quality assessment, and post-analysis for both microarray- and sequencing-based screening data.

  9. Characterization of SH2D1A missense mutations identified in X-linked lymphoproliferative disease patients.

    Science.gov (United States)

    Morra, M; Simarro-Grande, M; Martin, M; Chen, A S; Lanyi, A; Silander, O; Calpe, S; Davis, J; Pawson, T; Eck, M J; Sumegi, J; Engel, P; Li, S C; Terhorst, C

    2001-09-28

    X-linked lymphoproliferative disease (XLP) is a primary immunodeficiency characterized by extreme susceptibility to Epstein-Barr virus. The XLP disease gene product SH2D1A (SAP) interacts via its SH2 domain with a motif (TIYXXV) present in the cytoplasmic tail of the cell-surface receptors CD150/SLAM, CD84, CD229/Ly-9, and CD244/2B4. Characteristically, the SH2D1A three-pronged interaction with Tyr(281) of CD150 can occur in absence of phosphorylation. Here we analyze the effect of SH2D1A protein missense mutations identified in 10 XLP families. Two sets of mutants were found: (i) mutants with a marked decreased protein half-life (e.g. Y7C, S28R, Q99P, P101L, V102G, and X129R) and (ii) mutants with structural changes that differently affect the interaction with the four receptors. In the second group, mutations that disrupt the interaction between the SH2D1A hydrophobic cleft and Val +3 of its binding motif (e.g. T68I) and mutations that interfere with the SH2D1A phosphotyrosine-binding pocket (e.g. C42W) abrogated SH2D1A binding to all four receptors. Surprisingly, a mutation in SH2D1A able to interfere with Thr -2 of the CD150 binding motif (mutant T53I) severely impaired non-phosphotyrosine interactions while preserving unaffected the binding of SH2D1A to phosphorylated CD150. Mutant T53I, however, did not bind to CD229 and CD224, suggesting that SH2D1A controls several critical signaling pathways in T and natural killer cells. Because no correlation is present between identified types of mutations and XLP patient clinical presentation, additional unidentified genetic or environmental factors must play a strong role in XLP disease manifestations.

  10. Potential and pitfalls of eukaryotic metagenome skimming: a test case for lichens.

    Science.gov (United States)

    Greshake, Bastian; Zehr, Simonida; Dal Grande, Francesco; Meiser, Anjuli; Schmitt, Imke; Ebersberger, Ingo

    2016-03-01

    Whole-genome shotgun sequencing of multispecies communities using only a single library layout is commonly used to assess taxonomic and functional diversity of microbial assemblages. Here, we investigate to what extent such metagenome skimming approaches are applicable for in-depth genomic characterizations of eukaryotic communities, for example lichens. We address how to best assemble a particular eukaryotic metagenome skimming data, what pitfalls can occur, and what genome quality can be expected from these data. To facilitate a project-specific benchmarking, we introduce the concept of twin sets, simulated data resembling the outcome of a particular metagenome sequencing study. We show that the quality of genome reconstructions depends essentially on assembler choice. Individual tools, including the metagenome assemblers Omega and MetaVelvet, are surprisingly sensitive to low and uneven coverages. In combination with the routine of assembly parameter choice to optimize the assembly N50 size, these tools can preclude an entire genome from the assembly. In contrast, MIRA, an all-purpose overlap assembler, and SPAdes, a multisized de Bruijn graph assembler, facilitate a comprehensive view on the individual genomes across a wide range of coverage ratios. Testing assemblers on a real-world metagenome skimming data from the lichen Lasallia pustulata demonstrates the applicability of twin sets for guiding method selection. Furthermore, it reveals that the assembly outcome for the photobiont Trebouxia sp. falls behind the a priori expectation given the simulations. Although the underlying reasons remain still unclear, this highlights that further studies on this organism require special attention during sequence data generation and downstream analysis.

  11. A physicochemical investigation of membrane fouling in cold microfiltration of skim milk.

    Science.gov (United States)

    Tan, T J; Wang, D; Moraru, C I

    2014-01-01

    The main challenge in microfiltration (MF) is membrane fouling, which leads to a significant decline in permeate flux and a change in membrane selectivity over time. This work aims to elucidate the mechanisms of membrane fouling in cold MF of skim milk by identifying and quantifying the proteins and minerals involved in external and internal membrane fouling. Microfiltration was conducted using a 1.4-μm ceramic membrane, at a temperature of 6±1°C, cross-flow velocity of 6m/s, and transmembrane pressure of 159kPa, for 90min. Internal and external foulants were extracted from a ceramic membrane both after a brief contact between the membrane and skim milk, to evaluate instantaneous adsorption of foulants, and after MF. Four foulant streams were collected: weakly attached external foulants, weakly attached internal foulants, strongly attached external foulants, and strongly attached internal foulants. Liquid chromatography coupled with tandem mass spectrometry analysis showed that all major milk proteins were present in all foulant streams. Proteins did appear to be the major cause of membrane fouling. Proteomics analysis of the foulants indicated elevated levels of serum proteins as compared with milk in the foulant fractions collected from the adsorption study. Caseins were preferentially introduced into the fouling layer during MF, when transmembrane pressure was applied, as confirmed both by proteomics and mineral analyses. The knowledge generated in this study advances the understanding of fouling mechanisms in cold MF of skim milk and can be used to identify solutions for minimizing membrane fouling and increasing the efficiency of milk MF.

  12. Kualitas Semen Beku Kuda pada Pengencer Susu Skim dengan Konsentrasi Gliserol yang Berbeda

    Directory of Open Access Journals (Sweden)

    Azizah -

    2009-06-01

    Full Text Available Cryoprotectant is one of determining factors for the success of stallion semen cryopreservation. Formost mammalian sperm cryopreservation,glycerol has been widely used as the cryoprotectant. Glycerol inhigh concentration is toxic to the sperm but in low concentration it has protective effect on the semen. Theobjectives of this experiment were to find appropiate glycerol concentration by using skim milk extender inorder to maintain motility and viability of spermatozoa of stallion frozen semen. Semen was collectedfrom three sexually mature stallions by using artificial vagina. The semen characteristics and qualitywere examined both macro and microscopically. Prior to extension, semen was centrifugated at 3000 rpmfor 15 minutes. The pellet was re-extended with skim milk extender with glycerol 5% (G5 7.5% (G7.5, and10% (G10. The extended semen as then packed in mini straw (0.3ml, equilibrated at 5 oC for 2 hours,frozen in the liquid N2 vapor for15 minutes and then stored in liquid N2 container until futher evaluation.The frozen semen, was thawed at 37 oC for 30 seconds. The percentages of sperm motility and viabilitywere examihed. The result of this research showed that the sperm motility and viability in G5 was (23.8 %;35.6 % significantly hihger (P<0.05 as compare a with G7.5 (18.1%; 28.6% and G10. (11.8%; 23.1%. Therecovery Rate in G5 (35.4% was significant high er (P<0.05 than G7.5 (26.9% and G10 (17.6%. In conclusion,glicerol of 5% is recomended for cryopreservation of stallion semen extended with skim milk.

  13. Lactose hydrolysis potential and thermal stability of commercial β-galactosidase in UHT and skimmed milk

    Directory of Open Access Journals (Sweden)

    Alessandra BOSSO

    2016-03-01

    Full Text Available Abstract The commercial enzyme (E.C. = 3.2.1.23 from Kluyveromyces lactis (liquid and Aspergillus oryzae(lyophilized was investigated for its hydrolysis potential in lactose substrate, UHT milk, and skimmed milk at different concentrations (0.7; 1.0 and 1.5%, pH values (5.0; 6.0; 6.5 and 7.0, and temperature (30; 35; 40 and 55 ºC. High hydrolysis rates were observed for the enzyme from K. lactis at pH 7.0 and 40 ºC, and from A. oryzae at pH 5.0 and 55 ºC. The enzyme from K. lactis showed significantly higher hydrolysis rates when compared to A. oryzae. The effect of temperature and β-galactosidase concentration on the lactose hydrolysis in UHT milk was higher than in skimmed milk, for all temperatures tested. With respect to the thermal stability, a decrease in hydrolysis rate was observed at pH 6.0 at 35 ºC for K. lactisenzyme, and at pH 6.0 at 55 ºC for the enzyme from A. oryzae. This study investigate the hydrolysis of β-galactosidase in UHT and skimmed milk. The knowledge about the characteristics of the β-galactosidase fromK. lactis and A. oryzae enables to use it most efficiently to control the enzyme concentration, temperature, and pH in many industrial processes and product formulations.

  14. Cyclic strength of steel 16Kh3NVFBM-Sh (VKS-5) after vacuum carburizing

    Science.gov (United States)

    Ryzhov, N. M.; Fakhurtdinov, R. S.; Smirnov, A. E.

    2010-07-01

    Cyclic strength of steel 16Kh3NVFMB-Sh is studied after vacuum and gas carburizing. It is shown that the fatigue resistance of the steel hardened by the method of vacuum carburizing is higher. The thickness of the layer and the concentration of carbon on the surface at which the cyclic endurance is the highest are determined.

  15. Systems engineering study: tank 241-C-103 organic skimming,storage, treatment and disposal options

    Energy Technology Data Exchange (ETDEWEB)

    Klem, M.J.

    1996-10-23

    This report evaluates alternatives for pumping, storing, treating and disposing of the separable phase organic layer in Hanford Site Tank 241-C-103. The report provides safety and technology based preferences and recommendations. Two major options and several varations of these options were identified. The major options were: 1) transfer both the organic and pumpable aqueous layers to a double-shell tank as part of interim stabilization using existing salt well pumping equipment or 2) skim the organic to an above ground before interim stabilization of Tank 241-C-103. Other options to remove the organic were considered but rejected following preliminary evaluation.

  16. Bovine chromosomal regions affecting rheological traits in rennet-induced skim milk gels

    DEFF Research Database (Denmark)

    Gregersen, Vivi Raundahl; Gustavsson, F; Glantz, M

    2015-01-01

    Optimizing cheese yield and quality is of central importance to cheese manufacturing. The yield is associated with the time it takes before the gel has an optimal consistency for further processing, and it is well known that gel formation differs between individual milk samples. By identifying...... genomic regions affecting traits related to rennet-induced gelation, the aim of this study was to identify potential candidate genes affecting these traits. Hence, rennet-induced gelation, including rennet coagulation time, gel strength, and yield stress, was measured in skim milk samples collected from...

  17. A case study for the handling of data in a skimming control system

    Science.gov (United States)

    Stevanato, Elisa; Stroili, Roberto

    2009-07-01

    This work focuses on the architectural, methodological and technological aspect of handling huge amounts of data. In this summary we particularly focus our attention on the description of a special system built to support large scale data access. The work comes from the need to develop a special purpose skimming control system; this system has been designed as a collaboration between the Stanford Linear Accelerator Center (SLAC, USA), and the Istituto Nazionale di Fisica Nucleare (INFN, National Istitute of Nuclear Physic, Padua, Italy). The goal was to provide the handle of more than 10 7 files, representing Physics data collected by the BaBar experiment.

  18. Soft-film dynamics of SH-SAW sensors in viscous and viscoelastic fluids

    Directory of Open Access Journals (Sweden)

    A. Vikström

    2016-12-01

    Full Text Available We theoretically investigate surface acoustic waves with horizontal polarization (SH-SAWs propagating in a three-layer system consisting of an elastic substrate and two viscoelastic overlayers. For the limiting case of an acoustically thin middle layer and an infinite top layer, we derive analytical expressions for the phase velocity shift and the wave attenuation. These expressions demonstrate the importance of taking into account the viscoelastic coupling between the two overlayers. Numerical calculations using a combined Maxwell/Voigt scheme confirm our analytical results and also indicate that it is possible for viscoelasticity to cause SH-SAWs to vanish.

  19. Solitary SH waves in two-layered traction-free plates

    Science.gov (United States)

    Djeran-Maigre, Irini; Kuznetsov, Sergey

    2008-01-01

    A solitary wave, resembling a soliton wave, is observed when analyzing the linear problem of polarized shear (SH) surface acoustic waves propagating in elastic orthotropic two-layered traction-free plates. The analysis is performed by applying a special complex formalism and the Modified Transfer Matrix (MTM) method. Conditions for the existence of solitary SH waves are obtained. Analytical expressions for the phase speed of the solitary wave are derived. To cite this article: I. Djeran-Maigre, S. Kuznetsov, C. R. Mecanique 336 (2008).

  20. MeSH Now: automatic MeSH indexing at PubMed scale via learning to rank.

    Science.gov (United States)

    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 F1-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/ .

  1. Effect of ceramic membrane channel geometry and uniform transmembrane pressure on limiting flux and serum protein removal during skim milk microfiltration.

    Science.gov (United States)

    Adams, Michael C; Hurt, Emily E; Barbano, David M

    2015-11-01

    Our objectives were to determine the effects of a ceramic microfiltration (MF) membrane's retentate flow channel geometry (round or diamond-shaped) and uniform transmembrane pressure (UTP) on limiting flux (LF) and serum protein (SP) removal during skim milk MF at a temperature of 50°C, a retentate protein concentration of 8.5%, and an average cross-flow velocity of 7 m·s(-1). Performance of membranes with round and diamond flow channels was compared in UTP mode. Performance of the membrane with round flow channels was compared with and without UTP. Using UTP with round flow channel MF membranes increased the LF by 5% when compared with not using UTP, but SP removal was not affected by the use of UTP. Using membranes with round channels instead of diamond-shaped channels in UTP mode increased the LF by 24%. This increase was associated with a 25% increase in Reynolds number and can be explained by lower shear at the vertices of the diamond-shaped channel's surface. The SP removal factor of the diamond channel system was higher than the SP removal factor of the round channel system below the LF. However, the diamond channel system passed more casein into the MF permeate than the round channel system. Because only one batch of each membrane was tested in our study, it was not possible to determine if the differences in protein rejection between channel geometries were due to the membrane design or random manufacturing variation. Despite the lower LF of the diamond channel system, the 47% increase in membrane module surface area of the diamond channel system produced a modular permeate removal rate that was at least 19% higher than the round channel system. Consequently, using diamond channel membranes instead of round channel membranes could reduce some of the costs associated with ceramic MF of skim milk if fewer membrane modules could be used to attain the required membrane area.

  2. Effect of high-pressure homogenisation on rheological properties of rennet-induced skim milk and standardised milk gels.

    Science.gov (United States)

    Lodaite, Kristina; Chevalier, François; Armaforte, Emanuele; Kelly, Alan L

    2009-08-01

    The effects of high-pressure homogenisation (HPH) in the pressure range 100-300 MPa on the gel formation and rheological properties of rennet-induced skim milk (0.08%, fat, w/w) and standardised milk (3.60% fat, w/w) gels at pH 6.60 were studied. The average casein micelle size in skim milk was significantly reduced and the gel formation time decreased when skim milk was subjected to the pressures of 200 and 300 MPa. The storage modulus of rennet-induced skim milk gels at 2700 s after rennet addition was higher for samples homogenised at higher pressures, which contained smaller casein particles. HPH had little effect on the large deformation properties of rennet-induced skim milk gels. The gel formation time of renneted standardised milk was significantly reduced as a result of HPH, while the storage modulus of rennet-induced milk gels 2700 s after rennet addition increased with increasing homogenising pressure. The apparent fracture stress was slightly higher for standardised milk gels formed from HPH-treated milk, whereas the apparent strain at fracture was lower, than that of unhomogenised milk. In conclusion, HPH treatment influenced gel formation processes of skim milk and its small-deformation rheological properties, mainly through modification of casein micelles. HPH also significantly affected the gel formation process of standardised milk gels and its rheological properties as a result of an increase in volume fraction of aggregating particles, while the particle size was of lesser importance.

  3. Development and characterization of an atorvastatin solid dispersion formulation using skimmed milk for improved oral bioavailability

    Directory of Open Access Journals (Sweden)

    Ankush Choudhary

    2012-08-01

    Full Text Available Atorvastatin has low aqueous solubility resulting in low oral bioavailability (12% and thus presents a challenge in formulating a suitable dosage form. To improve the aqueous solubility, a solid dispersion formulation of atorvastatin was prepared by lyophilization utilising skimmed milk as a carrier. Six different formulations were prepared with varying ratios of drug and carrier and the corresponding physical mixtures were also prepared. The formation of a solid dispersion formulation was confirmed by differential scanning calorimetry and X-ray diffraction studies. The optimum drug-to-carrier ratio of 1:9 enhanced solubility nearly 33-fold as compared to pure drug. In vitro drug release studies exhibited a cumulative release of 83.69% as compared to 22.7% for the pure drug. Additionally, scanning electron microscopy studies suggested the conversion of crystalline atorvastatin to an amorphous form. In a Triton-induced hyperlipidemia model, a 3-fold increase in the lipid lowering potential was obtained with the reformulated drug as compared to pure drug. These results suggest that solid dispersion of atorvastatin using skimmed milk as carrier is a promising approach for oral delivery of atorvastatin.

  4. Heat stability and acid gelation properties of calcium-enriched reconstituted skim milk affected by ultrasonication.

    Science.gov (United States)

    Chandrapala, Jayani; Bui, Don; Kentish, Sandra; Ashokkumar, Muthupandian

    2014-05-01

    The aggregation of proteins after heating of calcium-fortified milks has been an ongoing problem in the dairy industry. This undesirable effect restricts the manufacture of calcium rich dairy products. To overcome this problem, a completely new approach in controlling the heat stability of dairy protein solutions, developed in our lab, has been employed. In this approach, high intensity, low frequency ultrasound is applied for a very short duration after a pre-heating step at ⩾70 °C. The ultrasound breaks apart whey/whey and whey/casein aggregates through the process of acoustic cavitation. Protein aggregates do not reform on subsequent post-heating, thereby making the systems heat stable. In this paper, the acid gelation properties of ultrasonicated calcium-enriched skim milks have also been investigated. It is shown that ultrasonication alone does not change the gelation properties significantly whereas a sequence of preheating (72 °C/1 min) followed by ultrasonication leads to decreased gelation times, decreased gel syneresis and increased skim milk viscosity in comparison to heating alone. Overall, ultrasonication has the potential to provide calcium-fortified dairy products with increased heat stability. However, enhanced gelation properties can only be achieved when ultrasonication is completed in conjunction with heating.

  5. Photoprotection of vitamins in skimmed milk by an aqueous soluble lycopene-gum Arabic microcapsule.

    Science.gov (United States)

    Montenegro, Mariana A; Nunes, Itaciara L; Mercadante, Adriana Z; Borsarelli, Claudio D

    2007-01-24

    Riboflavin (Rf)-mediated photosensitized degradation of vitamins A and D3 in skimmed milk under illumination with a white fluorescence lamp was studied by using the HPLC technique. The photosensitized degradation of both vitamins followed first-order kinetics, and the temperature effect on the observed photodegradation rate constant allowed the determination of the activation energy Ea as being 4 and 16 kcal/mol for vitamins A and D3, respectively. The addition of lycopene microencapsulated by spray-drying with a gum arabic-sucrose (8:2) mixture (MIC) produced a reduction of ca. 45% in the photosensitized degradation rate of both vitamins. Front-face fluorescence experiments showed the same photoprotection factor in the degradation of Rf itself, indicating that the photodegradation mechanism involved Rf-mediated reactive species, such as the excited triplet state of Rf, 3Rf*, and/or singlet molecular oxygen, 1O2. The interaction of both 3Rf* and 1O2 with MIC was evaluated in aqueous solutions by using laser-induced time-resolved absorption or emission spectroscopy, and the contribution of an inner-filter effect in the presence of MIC in skimmed milk was evaluated by diffuse reflectance spectroscopy. The main operating mechanism of photoprotection is due to the deactivation of 3Rf* by the proteic component of gum arabic; thus, gum arabic based microcapsules could be used to improve the photostability of milk during its storage and/or processing under light.

  6. Growth and exopolysaccharide production by Streptococcus thermophilus ST1 in skim milk

    Directory of Open Access Journals (Sweden)

    Tiehua Zhang

    2011-12-01

    Full Text Available To analyze the exopolysaccharide (EPS production by Streptococcus thermophilus ST1, cultures were cultivated in 10% (w/v reconstituted skim milk under different growth conditions including various temperatures and pHs of growth medium, supplementation of the medium with various carbon sources (glucose, lactose, sucrose, galactose and fructose and nitrogen source (whey protein concentrate, or WPC. The results showed that most EPS production by strain ST1 was obtained at a temperature (42°C and pH (6.5 optimal for its growth. Supplementation of the skim milk medium with either carbohydrates or WPC increased both growth and polymer formation by different extents, with sucrose being most effective among the carbon sources tested. Under the optimal cultural conditions, i.e. pH 6.5, 42°C with 2% (w/v sucrose and 0.5% (w/v WPC, 135.80 mg l-1 of EPS was produced by strain ST1. The monosaccharide composition of the EPS was determined to be glucose and galactose (2:1, and the molecular mass of the EPS was 3.97 × 10(6 Da. The aqueous solution of the EPS at 1% (w/v showed relatively high viscosity, indicating the potential of this EPS-producing S. thermophilus strain for applications in the improvement of physical properties of fermented milk products.

  7. Production of benzoic acid as a natural compound in fermented skim milk using commercial cheese starter.

    Science.gov (United States)

    Park, Sun-Young; Yoo, Mi-Young; Paik, Hyun-Dong; Lim, Sang-Dong

    2017-06-01

    In this study, we investigated the production of natural benzoic acid (BA) in skim milk fermentation by 5 kinds of commercial cheese starters. Five kinds of starter were inoculated into 10% reconstituted skim milk, and then the culture was incubated at 2-h intervals for 10 h at 30, 35, and 40°C. In fermentation by MW 046 N+LH 13, the starter for making raclette, BA was highly detected after 8 h at 30 and 35°C. In fermentation by LH 13, the starter for making berg, BA steadily increased and was highly detected at 40°C. In fermentation by TCC-3+TCC-4, the starter for making Caciocavallo and mozzarella, BA was detected after 2 h at 40°C. Also, BA was detected after 4 and 8 h at 35 and 30°C, respectively. In fermentation by Flora-Danica, the starter for making Gouda, BA was increased until 6 h and decreased after 6 h at all temperatures. Among the 5 kinds of fermentation, the level of BA was the highest in fermentation by Flora-Danica at 6 h at 35°C, at 14.55 mg/kg. Copyright © 2017 American Dairy Science Association. Published by Elsevier Inc. All rights reserved.

  8. The use of whey or skimmed milk powder in fortified blended foods for vulnerable groups.

    Science.gov (United States)

    Hoppe, Camilla; Andersen, Gregers S; Jacobsen, Stine; Mølgaard, Christian; Friis, Henrik; Sangild, Per T; Michaelsen, Kim F

    2008-01-01

    Fortified blended foods (FBF), especially corn soy blend, are used as food aid for millions of people worldwide, especially malnourished individuals and vulnerable groups. There are only a few studies evaluating the effect of FBF on health outcomes, and the potential negative effect of antinutrients has not been examined. Different lines of evidence suggest that dairy proteins have beneficial effects on vulnerable groups. Here we review the evidence on the effects of adding whey or skimmed milk powder to FBF used for malnourished infants and young children or people living with HIV or AIDS. Adding whey or skimmed milk powder to FBF improves the protein quality, allowing a reduction in total amount of protein, which could have potential metabolic advantages. It also allows for a reduced content of soy and cereal and thereby a reduction of potential antinutrients. It is possible that adding milk could improve weight gain, linear growth, and recovery from malnutrition, but this needs to be confirmed. Bioactive factors in whey might have beneficial effects on the immune system and muscle synthesis, but evidence from vulnerable groups is lacking. Milk proteins will improve flavor, which is important for acceptability in vulnerable groups. The most important disadvantage is a considerable increase in price. Adding 10-15% milk powder would double the price, which means that such a product should be used only in well-defined vulnerable groups with special needs. The potential beneficial effects of adding milk protein and lack of evidence in vulnerable groups call for randomized intervention studies.

  9. Comparative proteomics dataset of skimmed milk samples from Holstein and Jersey dairy cattle

    Directory of Open Access Journals (Sweden)

    Rinske Tacoma

    2016-03-01

    Full Text Available Milk samples were collected from Holstein and Jersey breeds of dairy cattle maintained under the same management practices and environmental conditions over a seven-day period. Milk samples were collected twice daily from six cows of each breed as previously described (Tacoma et al., 2016 [1]. Samples were composited within individual cow over the experimental period and skimmed to remove the fat layer. Skimmed milk samples were fractionated using CaCl2 precipitation, ultracentrifugation and ProteoMiner treatment to remove the high abundance milk proteins. Separation of the low abundance proteins was achieved using SDS-PAGE. Differential protein abundances were analyzed by mass spectrometry-based proteomic approaches followed by statistical analyses of the peptide count data. The complete list of low-abundance proteins identified in both breeds is provided in the dataset as well as the total number of distinct sequenced peptides and gene ontology functions for each protein. The relative abundance of a select few proteins is depicted using the SIEVE software.

  10. Cream skimming and hospital transfers in a mixed public-private system.

    Science.gov (United States)

    Cheng, Terence C; Haisken-DeNew, John P; Yong, Jongsay

    2015-05-01

    The increasing prominence of the private sector in health care provision has generated considerable interest in understanding its implications on quality and cost. This paper investigates the phenomenon of cream skimming in a mixed public-private hospital setting using the novel approach of analysing hospital transfers. We analyse hospital administrative data of patients with ischemic heart disease from the state of Victoria, Australia. The data set contains approximately 1.77 million admission episodes in 309 hospitals, of which 132 are public hospitals, and 177 private hospitals. We ask if patients transferred between public and private hospitals differ systematically in the severity and complexity of their medical conditions; and if so, whether utilisation also differs. We find that patients with higher disease severity are more likely to be transferred from private to public hospitals whereas the opposite is true for patients transferred to private hospitals. We also find that patients transferred from private to public hospitals stayed longer and cost more than private-to-private transfer patients, after controlling for patients' observed health conditions and personal characteristics. Overall, the evidence is suggestive of the presence of cream skimming in the Victorian hospital system, although we cannot conclusively rule out other mechanisms that might influence hospital transfers. Copyright © 2015 Elsevier Ltd. All rights reserved.

  11. Hyb-Seq: Combining Target Enrichment and Genome Skimming for Plant Phylogenomics

    Directory of Open Access Journals (Sweden)

    Kevin Weitemier

    2014-08-01

    Full Text Available Premise of the study: Hyb-Seq, the combination of target enrichment and genome skimming, allows simultaneous data collection for low-copy nuclear genes and high-copy genomic targets for plant systematics and evolution studies. Methods and Results: Genome and transcriptome assemblies for milkweed (Asclepias syriaca were used to design enrichment probes for 3385 exons from 768 genes (>1.6 Mbp followed by Illumina sequencing of enriched libraries. Hyb-Seq of 12 individuals (10 Asclepias species and two related genera resulted in at least partial assembly of 92.6% of exons and 99.7% of genes and an average assembly length >2 Mbp. Importantly, complete plastomes and nuclear ribosomal DNA cistrons were assembled using off-target reads. Phylogenomic analyses demonstrated signal conflict between genomes. Conclusions: The Hyb-Seq approach enables targeted sequencing of thousands of low-copy nuclear exons and flanking regions, as well as genome skimming of high-copy repeats and organellar genomes, to efficiently produce genome-scale data sets for phylogenomics.

  12. PENGARUH PEMBERIAN SUSU SKIM PADA KADAR PREALBUMIN ANAK BALITA YANG MENGIKUTI REHABILITASI GIZI RAWAT JALAN DI PUSKESMAS

    Directory of Open Access Journals (Sweden)

    Rousmala Dewi

    2015-04-01

    Full Text Available ABSTRACTChildren who suffering protein and energy deficiency have low blood protein, particularly prealbumin and transferin. The consequencies of a very low level prealbumin may impact immune system, increase morbidity and mortality. This study aimed assess impact of skim milk supplementation on prealbumin status of malnourished children under five attending out patient community health center( Puskesmas. The research design is before and after for 38 children. The duration of nutrition rehabilitation and supplementation was three months. During the nutrition rehabilitation, the children were treated for infectious diseases, given 200 gram skim milk per week as additional protein rich food, nutrition counseling and child health care. The result of study showed that children consumed low intakes of energy and protein (below minimum level of RDA. Prealbumin concentration before intervention 10,3±5,0 mg/dL and 10,6±3,4 mg/dL. after intervention for 3 months Prealbumin changes was not significant (p=0,695. Supplementary of skim milk 200 gram per week during 3 months in the nutrition rehabilitation outpatients failed to improved prealbumin concentration among malnourished children.Keywords: skim milk supplementation, underweight, out-patient, prealbumin concentrationABSTRAKAnak kurang energy protein (KEP mengalami penurunan kadar protein, terutama prealbumin dan transferin dalam darah. Konsekuensi kadar prealbumin dan transferin rendah antara lain daya tahan tubuh menurun, risiko kesakitan meningkat dan kematian. Tujuan penelitian adalah mengetahui pengaruh pemberian makanan tambahan susu skim terhadap kadar prealbumin anak berusia di bawah lima tahun (balita yang mengikuti rehabilitasi rawat jalan di Puskesmas. Desain penelitian before-after study. Rehabilitasi gizi rawat jalan pada anak balita dengan berat badan kurang dilakukan di Puskesmas Sukaraja selama 3 bulan. Selama mengikuti rehabilitasi gizi, anak balita mendapat pengobatan penyakit

  13. MeSH Up: effective MeSH text classification for improved document retrieval

    NARCIS (Netherlands)

    Trieschnigg, Dolf; Pezik, Piotr; Lee, Vivian; Jong, de Franciska; Kraaij, Wessel; Rebholz-Schuhmann, Dietrich

    2009-01-01

    Motivation: Controlled vocabularies such as the Medical Subject Headings (MeSH) thesaurus and the Gene Ontology (GO) provide an efficient way of accessing and organizing biomedical information by reducing the ambiguity inherent to free-text data. Different methods of automating the assignment of MeS

  14. A unique set of SH3-SH3 interactions controls IB1 homodimerization

    DEFF Research Database (Denmark)

    Kristensen, Ole; Guenat, Sylvie; Dar, Imran

    2006-01-01

    reduces IB1-dependent basal JNK activity in 293T cells. Impaired dimerization also results in a reduction in glucose transporter type 2 expression and in glucose-dependent insulin secretion in pancreatic beta-cells. Taken together, these results indicate that IB1 homodimerization through its SH3 domain...

  15. MeSH Up: Effective MeSH text classification for improved document retrieval

    NARCIS (Netherlands)

    Trieschnigg, D.; Pezik, P.; Lee, V.; Jong, F.de; Kraaij, W.; Rebholz-Schuhmann, D.

    2009-01-01

    Motivation: Controlled vocabularies such as the Medical Subject Headings (MeSH) thesaurus and the Gene Ontology (GO) provide an efficient way of accessing and organizing biomedical information by reducing the ambiguity inherent to free-text data. Different methods of automating the assignment of MeS

  16. Structural basis for the interaction of the free SH2 domain EAT-2 with SLAM receptors in hematopoietic cells.

    Science.gov (United States)

    Morra, M; Lu, J; Poy, F; Martin, M; Sayos, J; Calpe, S; Gullo, C; Howie, D; Rietdijk, S; Thompson, A; Coyle, A J; Denny, C; Yaffe, M B; Engel, P; Eck, M J; Terhorst, C

    2001-11-01

    The T and natural killer (NK) cell-specific gene SAP (SH2D1A) encodes a 'free SH2 domain' that binds a specific tyrosine motif in the cytoplasmic tail of SLAM (CD150) and related cell surface proteins. Mutations in SH2D1A cause the X-linked lymphoproliferative disease, a primary immunodeficiency. Here we report that a second gene encoding a free SH2 domain, EAT-2, is expressed in macrophages and B lympho cytes. The EAT-2 structure in complex with a phosphotyrosine peptide containing a sequence motif with Tyr281 of the cytoplasmic tail of CD150 is very similar to the structure of SH2D1A complexed with the same peptide. This explains the high affinity of EAT-2 for the pTyr motif in the cytoplasmic tail of CD150 but, unlike SH2D1A, EAT-2 does not bind to non-phosphorylated CD150. EAT-2 binds to the phosphorylated receptors CD84, CD150, CD229 and CD244, and acts as a natural inhibitor, which interferes with the recruitment of the tyrosine phosphatase SHP-2. We conclude that EAT-2 plays a role in controlling signal transduction through at least four receptors expressed on the surface of professional antigen-presenting cells.

  17. Meshable: searching PubMed abstracts by utilizing MeSH and MeSH-derived topical terms.

    Science.gov (United States)

    Kim, Sun; Yeganova, Lana; Wilbur, W John

    2016-10-01

    Medical Subject Headings (MeSH(®)) is a controlled vocabulary for indexing and searching biomedical literature. MeSH terms and subheadings are organized in a hierarchical structure and are used to indicate the topics of an article. Biologists can use either MeSH terms as queries or the MeSH interface provided in PubMed(®) for searching PubMed abstracts. However, these are rarely used, and there is no convenient way to link standardized MeSH terms to user queries. Here, we introduce a web interface which allows users to enter queries to find MeSH terms closely related to the queries. Our method relies on co-occurrence of text words and MeSH terms to find keywords that are related to each MeSH term. A query is then matched with the keywords for MeSH terms, and candidate MeSH terms are ranked based on their relatedness to the query. The experimental results show that our method achieves the best performance among several term extraction approaches in terms of topic coherence. Moreover, the interface can be effectively used to find full names of abbreviations and to disambiguate user queries. https://www.ncbi.nlm.nih.gov/IRET/MESHABLE/ CONTACT: sun.kim@nih.gov Supplementary data are available at Bioinformatics online. © The Author 2016. Published by Oxford University Press.

  18. Disruption of c-Kit Signaling in Kit(W-sh/W-sh) Growing Mice Increases Bone Turnover.

    Science.gov (United States)

    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.

  19. Rayleigh SAW-Assisted SH-SAW Immunosensor on X-Cut 148-Y LiTaO3.

    Science.gov (United States)

    Kogai, Takashi; Yatsuda, Hiromi; Kondoh, Jun

    2017-09-01

    In this paper, we describe a shear horizontal surface acoustic wave (SH-SAW) immunosensor that utilizes induce agitation by a Rayleigh SAW (R-SAW) on an X-cut 148-Y LiTaO3 substrate. On this substrate, SH-SAWs and R-SAWs with different frequencies can be effectively generated at an interdigital transducer (IDT). First, to consider the power flow angles of SH-SAWs and R-SAWs on this substrate, the 360-MHz delay lines with six different tilt angles were designed and fabricated. From the experiments, an optimal power flow angle of 9° for the SH-SAW on this substrate is obtained. Second, in order to consider the immunoreactions of the SH-SAW immunosensors, a delay line with a tilt angle of 9° was designed and fabricated on this substrate. The delay line, which can generate two SAWs, namely, a 100-MHz SH-SAW and an 88.8-MHz R-SAW, has a propagation area covered with antigens of human serum albumin between transmitting and receiving IDTs. The immunoreactions caused by antigen-antibody binding events on the surface of the delay line were investigated on the basis of the velocity changes of the SH-SAWs for sensing with and without the assistance of an R-SAW. As a result, it was confirmed that the SH-SAW velocity changes due to antigen-antibody reactions can be markedly increased by the assistance of R-SAW agitation.

  20. Inactivation of Listeria monocytogenes in Skim Milk and Liquid Egg White by Antimicrobial Bottle Coating with Polylactic Acid and Nisin

    Science.gov (United States)

    This study was to develop an antimicrobial bottle coating method to reduce the risk of outbreaks of human listeriosis caused by contaminated liquid foods. Liquid egg white and skim milk were inoculated with Listeria monocytogenes Scott A and stored in glass jars that were coated with a mixture of po...

  1. Identification of plant proteins in adulterated skimmed milk powder by high-performance liquid chromatography-mass spectrometry

    NARCIS (Netherlands)

    Luykx, D.M.A.M.; Cordewener, J.H.G.; Ferranti, P.; Frankhuizen, R.; Bremer, M.G.E.G.; Hooijerink, H.; America, A.H.P.

    2007-01-01

    The EU subsidises the use of skimmed-milk powder (SMP) in compound feeding stuffs. There are indications of falsified SMP content due to the addition of plant proteins. These proteins are not allowed in SMP and cannot be identified by the official reference method. Since soy and pea proteins are mos

  2. Untargeted LC-Q-TOF mass spectrometry method for the detection of adulterations in skimmed-milk powder

    NARCIS (Netherlands)

    Cordewener, J.H.G.; Luykx, D.M.A.M.; Frankhuizen, R.; Bremer, M.G.E.G.; Hooijerink, H.; America, A.H.P.

    2009-01-01

    A nontargeted protein identification method was developed to screen for adulterations in skimmed-milk powder (SMP). There are indications of falsified SMP content due to the addition of plant proteins. To demonstrate the reliability and accuracy of the developed comparative LC-MS method using a quad

  3. Untargeted LC-Q-TOF mass spectrometry method for the detection of adulterations in skimmed-milk powder

    NARCIS (Netherlands)

    Cordewener, J.H.G.; Luykx, D.M.A.M.; Frankhuizen, R.; Bremer, M.G.E.G.; Hooijerink, H.; America, A.H.P.

    2009-01-01

    A nontargeted protein identification method was developed to screen for adulterations in skimmed-milk powder (SMP). There are indications of falsified SMP content due to the addition of plant proteins. To demonstrate the reliability and accuracy of the developed comparative LC-MS method using a

  4. Rovibrationally-Resolved Photodissociaton of SH$^+$

    CERN Document Server

    McMillan, E C; McCann, J F; McLaughlin, B M; Stancil, P C

    2016-01-01

    Photodissociation cross sections for the SH$^+$ radical are computed from all rovibrational (RV) levels of the ground electronic state X$~^3\\Sigma^-$ for wavelengths from threshold to 500~\\AA. The five electronic transitions, $2~ ^3\\Sigma^- \\leftarrow$ X$~^3\\Sigma^-$, $3~ ^3\\Sigma^- \\leftarrow$ X$~^3\\Sigma^-$, $A~ ^3\\Pi \\leftarrow$ X$~^3\\Sigma^-$, $2~ ^3\\Pi \\leftarrow$ X$~^3\\Sigma^-$, and $3~ ^3\\Pi \\leftarrow$ X$~^3\\Sigma^-$, are treated with a fully quantum-mechanical two-state model, {i.e. no non-adiabatic coupling between excited states was included in our work.}. The photodissociation calculations incorporate adiabatic potentials and transition dipole moment functions computed in the multireference configuration interaction approach along with the Davidson correction (MRCI+Q), but adjusted to match available experimental molecular data and asymptotic atomic limits. Local thermodynamic equilibrium (LTE) photodissociation cross sections were computed which assume a Boltzmann distribution of RV levels in the...

  5. Impact of the Skim Milk Powder Manufacturing Process on the Flavor of Model White Chocolate.

    Science.gov (United States)

    Stewart, Ashleigh; Grandison, Alistair S; Ryan, Angela; Festring, Daniel; Methven, Lisa; Parker, Jane K

    2017-02-15

    Milk powder is an important ingredient in the confectionery industry, but its variable nature has consequences for the quality of the final confectionary product. This paper demonstrates that skim milk powders (SMP) produced using different (but typical) manufacturing processes, when used as ingredients in the manufacture of model white chocolates, had a significant impact on the sensory and volatile profiles of the chocolate. SMP was produced from raw bovine milk using either low or high heat treatment, and a model white chocolate was prepared from each SMP. A directional discrimination test with naïve panelists showed that the chocolate prepared from the high heat SMP had more caramel/fudge character (p chocolates showed a concomitant increase in Maillard-derived volatiles which are likely to account for this change in flavor.

  6. Change in Color and Volatile Composition of Skim Milk Processed with Pulsed Electric Field and Microfiltration Treatments or Heat Pasteurization

    Directory of Open Access Journals (Sweden)

    Anupam Chugh

    2014-04-01

    Full Text Available Non-thermal processing methods, such as pulsed electric field (PEF and tangential-flow microfiltration (TFMF, are emerging processing technologies that can minimize the deleterious effects of high temperature short time (HTST pasteurization on quality attributes of skim milk. The present study investigates the impact of PEF and TFMF, alone or in combination, on color and volatile compounds in skim milk. PEF was applied at 28 or 40 kV/cm for 1122 to 2805 µs, while microfiltration (MF was conducted using membranes with three pore sizes (lab-scale 0.65 and 1.2 µm TFMF, and pilot-scale 1.4 µm MF. HTST control treatments were applied at 75 or 95 °C for 20 and 45 s, respectively. Noticeable color changes were observed with the 0.65 µm TFMF treatment. No significant color changes were observed in PEF-treated, 1.2 µm TFMF-treated, HTST-treated, and 1.4 µm MF-treated skim milk (p ≥ 0.05 but the total color difference indicated better color retention with non-thermal preservation. The latter did not affect raw skim milk volatiles significantly after single or combined processing (p ≥ 0.05, but HTST caused considerable changes in their composition, including ketones, free fatty acids, hydrocarbons, and sulfur compounds (p < 0.05. The findings indicate that for the particular thermal and non-thermal treatments selected for this study, better retention of skim milk color and flavor components were obtained for the non-thermal treatments.

  7. Performance of a commercial serum ELISA for the detection of antibodies to Neospora caninum in whole and skim milk samples.

    Science.gov (United States)

    Byrem, T M; Bartlett, P C; Donohue, H; Voisinet, B D; Houseman, J T

    2012-11-23

    Control of Neospora caninum infection in cattle depends on specific, ante-mortem detection of infected animals and limiting their use as breeding stock or by culling. The objective of the present study was to determine appropriate cut-off values and diagnostic performance of a milk ELISA test using whole and skim milk in a commercial serum ELISA test (IDEXX Neospora Ab). Serum and milk samples were obtained from a total of 475 lactating cows from two herds with and two herds without a previous history of N. caninum-associated abortion. Overall seroprevalence determined by the ELISA was 18.3%. Compared to serum ELISA values, correlation and overall performance assessed by receiver operating characteristic analysis was higher when either whole or skim milk samples were diluted 1:2 compared to undiluted or 1:5 diluted samples. Diagnostic performance for analysis of whole and skim milk was compared at cut-off values that achieved a desired operating characteristic of at least 95% specificity. For whole milk diluted 1:2 and a cut-off of 0.14 (S/P ratio), sensitivity and kappa values were 74.7% (95% CI 64.3-83.4) and 0.70 (95% CI 0.61-0.78), respectively. For skim milk diluted 1:2 and a cut-off of 0.30, sensitivity and kappa values were 77.0% (95% CI 66.8-85.4) and 0.72 (95% CI 0.64-0.80), respectively. Using the selected cut-offs, the IDEXX Neospora Ab Test is equally suited for the analysis of whole and skim milk as a screening tool in neosporosis control programs.

  8. IMPROVING STUDENTS’ SKIMMING AND SCANNING IN READING SKILL BY APPLYING METACOGNITIVE STRATEGY

    Directory of Open Access Journals (Sweden)

    Siti Mariam

    2016-07-01

    Full Text Available Reading is one of the main four language skills that a learner needs to master in order to ensure success in learning English. To facilitate students in comprehending a text, the effective strategies should be used. One of the strategies is Meta-cognitive strategies. The objectives of the research are to identify students’ responses during learned process by using Meta-cognitive strategies and to investigate how high students’ improvement of skimming and scanning reading skill after learned by using Meta-cognitive strategies in recount text. Meta-cognitive strategies improve students to reflect on thought processes and to plan, monitor, and evaluate aspects of their learning. The participants were third semester of English department students of Islamic Education and Teacher Training Faculty of Walisongo State Islamic University.The reserch design was Classroom Action Research with 1 preliminary cycle and 2 cycles. This research was conducted from March, 2th 2015 until March, 21th 2015. Data collection technique was tests. Observations were done in each cycle. Tests form was given the students, they should answer 20 questions of multiple choice test. Then, the data were analyzed using mean (descriptive statistics to find out the improvements. Meta-cognitive strategies were applied in the teaching learning process by giving plan (giving task for students, monitoring, evaluating, and problem solving to the students. After collecting the data, the result showed the improvements of the students. Students’ average score in pre cycle test was 60. In the first cycle, the average score increased became 70. This score hadn’t met the minimum standard score yet 75. Therefore, second cycle was conducted. Students’ average score increased became 82.16. Students’ engagements also increased since the first cycle. Consequently, the objectives were reached. Based on the result, it could be concluded that Meta-cognitive strategy can improve the

  9. Improving Students’ Skimming and Scanning in Reading Skill by Applying Metacognitive Strategy

    Directory of Open Access Journals (Sweden)

    Siti Mariam

    2016-07-01

    Full Text Available Reading is one of the main four language skills that a learner needs to master in order to ensure success in learning English. To facilitate students in comprehending a text, the effective strategies should be used. One of the strategies is Meta-cognitive strategies. The objectives of the research are to identify students’ responses during learned process by using Meta-cognitive strategies and to investigate how high students’ improvement of skimming and scanning reading skill after learned by using Meta-cognitive strategies in recount text. Meta-cognitive strategies improve students to reflect on thought processes and to plan, monitor, and evaluate aspects of their learning. The participants were third semester of English department students of Islamic Education and Teacher Training Faculty of Walisongo State Islamic University.The reserch design was Classroom Action Research with 1 preliminary cycle and 2 cycles. This research was conducted from March, 2th 2015 until March, 21th 2015. Data collection technique was tests. Observations were done in each cycle. Tests form was given the students, they should answer 20 questions of multiple choice test. Then, the data were analyzed using mean (descriptive statistics to find out the improvements. Meta-cognitive strategies were applied in the teaching learning process by giving plan (giving task for students, monitoring, evaluating, and problem solving to the students. After collecting the data, the result showed the improvements of the students. Students’ average score in pre cycle test was 60. In the first cycle, the average score increased became 70. This score hadn’t met the minimum standard score yet 75. Therefore, second cycle was conducted. Students’ average score increased became 82.16. Students’ engagements also increased since the first cycle. Consequently, the objectives were reached. Based on the result, it could be concluded that Meta-cognitive strategy can improve the

  10. Input-output characterization of fiber composites by SH waves

    Science.gov (United States)

    Renneisen, John D.; Williams, James H., Jr.

    1988-01-01

    Input-output characterization of fiber composites is studied theoretically by tracing SH waves in the media. A fiberglass epoxy composite is modeled as a homogeneous transversely isotropic continuum plate. The reflection of an SH wave at a stress-free plane boundary in a semi-infinite transversely isotropic medium is considered first. It is found that an incident SH wave reflects only a similar SH wave back into the medium. It is also established that the angle of reflection of the reflected wave is equal to the angle of incidence of the incident wave. The phase velocity of the SH waves and the delay time of the SH waves in reaching the receiving transducer are computed as functions of a reflection index, defined as the number of reflections of the SH waves from the bottom face of the continuum plate. The directivity function corresponding to the shear stress associated with the SH waves in the continuum plate is also derived as a function of the reflection index. A theoretical output voltage from the receiving transducer is calculated for a tone burst (a periodic input voltage of finite duration). The output voltage is shown for tone bursts of duration 60 microseconds and center frequencies of 0.75, 1.00, and 1.25 MHz. The study enhances the quantitative and qualitative understanding of the nondestructive evaluation (NDE) of fiber composites which can be modeled as transversely isotropic media.

  11. Designing a dataflow processor using CλaSH

    NARCIS (Netherlands)

    Niedermeier, Anja; Wester, Rinse; Rovers, Kenneth; Baaij, Christiaan; Kuper, Jan; Smit, Gerard

    2010-01-01

    In this paper we show how a simple dataflow processor can be fully implemented using CλaSH, a high level HDL based on the functional programming language Haskell. The processor was described using Haskell, the CλaSH compiler was then used to translate the design into a fully synthesisable VHDL code.

  12. The Electrochemical Behavior of Au/AuNPs/PNA/ZnSe-QD/ACA Electrode Towards CySH Oxidation

    Institute of Scientific and Technical Information of China (English)

    Azadeh Azadbakht; Amir Reza Abbasi; Zohreh Derikvand; Ziba Karimi

    2015-01-01

    This work describes the electrochemical behavior of azodicarboxamide (ACA) film immobilized on the surface of penicillamine (PNA)/ZnSe-quantum dot (ZnSe-QD) gold nanoparticle (AuNPs) Au electrode. Electrocatalytic activity of modified electrode toward the oxidation of cysteine (CySH) was investigated. The surface structure and composition of the sensor were characterized by scanning electron microscopy (SEM). Oxidation of CySH on the surface of modified electrode was investigated with cyclic voltammetry, electrochemical impedance spectroscopy (EIS), hydrodynamic voltammetry and chronoamperometry methods. The results show that the PNA/ZnSe-QD/ACA film displays excellent electrochemical catalytic activities towards CySH oxidation. The modified electrode shows repro-ducible behavior and high level of stability during the electrochemical experiments. Also it has short response time, low detection limit, high sensitivity and low operation potential, which can be used as an amperometric sensor for moni-toring of CySH. The proposed modified electrode was successfully used for determination of CySH in real sample such as human serum.

  13. Assessment of interplay between UV wavelengths, material surfaces and food residues in open surface hygiene validation

    DEFF Research Database (Denmark)

    Abban, Stephen; Jakobsen, Mogens; Jespersen, Lene

    2014-01-01

    The use of UV-visible radiation for detecting invisible residue on different surfaces as a means of validating cleanliness was investigated. Wavelengths at 365, 395, 435, 445, 470 and 490 nm from a monochromator were used to detect residues of beef, chicken, apple, mango and skim milk. These were......-time hygiene validation of surfaces....

  14. Comparison and combination of several MeSH indexing approaches.

    Science.gov (United States)

    Yepes, Antonio Jose Jimeno; Mork, James G; Demner-Fushman, Dina; Aronson, Alan R

    2013-01-01

    MeSH indexing of MEDLINE is becoming a more difficult task for the group of highly qualified indexing staff at the US National Library of Medicine, due to the large yearly growth of MEDLINE and the increasing size of MeSH. Since 2002, this task has been assisted by the Medical Text Indexer or MTI program. We extend previous machine learning analysis by adding a more diverse set of MeSH headings targeting examples where MTI has been shown to perform poorly. Machine learning algorithms exceed MTI's performance on MeSH headings that are used very frequently and headings for which the indexing frequency is very low. We find that when we combine the MTI suggestions and the prediction of the learning algorithms, the performance improves compared to any single method for most of the evaluated MeSH headings.

  15. Energy profile and secondary structure impact shRNA efficacy

    Directory of Open Access Journals (Sweden)

    Zeng Xiao

    2009-07-01

    Full Text Available Abstract Background RNA interference (RNAi is a cellular mechanism in which a short/small double stranded RNA induces the degradation of its sequence specific target mRNA, leading to specific gene silencing. Since its discovery, RNAi has become a powerful biological technique for gene function studies and drug discovery. The very first requirement of applying RNAi is to design functional small interfering RNA (siRNA that can uniquely induce the degradation of the targeted mRNA. It has been shown that many functional synthetic siRNAs share some common characteristics, such as GC content limitation and free energy preferences at both terminals, etc. Results Our three-phase algorithm was developed to design siRNA on a whole-genome scale based on those identified characteristics of functional siRNA. When this algorithm was applied to design short hairpin RNA (shRNA, the validated success rate of shRNAs was over 70%, which was almost double the rate reported for TRC library. This indicates that the designs of siRNA and shRNA may share the same concerns. Further analysis of the shRNA dataset of 444 designs reveals that the high free energy states of the two terminals have the largest positive impact on the shRNA efficacy. Enforcing these energy characteristics of both terminals can further improve the shRNA design success rate to 83.1%. We also found that functional shRNAs have less probability for their 3' terminals to be involved in mRNA secondary structure formation. Conclusion Functional shRNAs prefer high free energy states at both terminals. High free energy states of the two terminals were found to be the largest positive impact factor on shRNA efficacy. In addition, the accessibility of the 3' terminal is another key factor to shRNA efficacy.

  16. The high-resolution NMR structure of the R21A Spc-SH3:P41 complex: Understanding the determinants of binding affinity by comparison with Abl-SH3

    Directory of Open Access Journals (Sweden)

    van Nuland Nico AJ

    2007-04-01

    Full Text Available Abstract Background SH3 domains are small protein modules of 60–85 amino acids that bind to short proline-rich sequences with moderate-to-low affinity and specificity. Interactions with SH3 domains play a crucial role in regulation of many cellular processes (some are related to cancer and AIDS and have thus been interesting targets in drug design. The decapeptide APSYSPPPPP (p41 binds with relatively high affinity to the SH3 domain of the Abl tyrosine kinase (Abl-SH3, while it has a 100 times lower affinity for the α-spectrin SH3 domain (Spc-SH3. Results Here we present the high-resolution structure of the complex between the R21A mutant of Spc-SH3 and p41 derived from NMR data. Thermodynamic parameters of binding of p41 to both WT and R21A Spc-SH3 were measured by a combination of isothermal titration and differential scanning calorimetry. Mutation of arginine 21 to alanine in Spc-SH3 increases 3- to 4-fold the binding affinity for p41 due to elimination at the binding-site interface of the steric clash produced by the longer arginine side chain. Amide hydrogen-deuterium experiments on the free and p41-bound R21A Spc-SH3 domain indicate that binding elicits a strong reduction in the conformational flexibility of the domain. Despite the great differences in the thermodynamic magnitudes of binding, the structure of the R21A Spc-SH3:P41 complex is remarkably similar to that of the Abl-SH3:P41 complex, with only few differences in protein-ligand contacts at the specificity pocket. Using empirical methods for the prediction of binding energetics based on solvent-accessible surface area calculations, the differences in experimental energetics of binding between the two complexes could not be properly explained only on the basis of the structural differences observed between the complexes. We suggest that the experimental differences in binding energetics can be at least partially ascribed to the absence in the R21A Spc-SH3:P41 complex of several

  17. ¬¬¬¬ SURVIVAL OF Cronobacter sakazakii IN SKIM MILK DURING SPRAY DRYING, STORAGE AND RECONSTITUTION [Ketahanan Hidup Cronobacter sakazakii dalam Susu Skim selama Proses Pengeringan Semprot, Penyimpanan dan Rekonstitusi

    OpenAIRE

    2012-01-01

    Cronobacter sakazakii is an emerging pathogen known to survive dry conditions and its presence in powder infant formula (PIF) has been linked to several outbreaks. In Indonesia, isolation of this bacterium from various foods have been reported. The objective of this study was to determine the effect of spray drying and storage humidity on the survival of C. sakazakii YRc3a in skim milk and their viability upon reconstitution. The survival of Cronobacter during spray drying was determined by c...

  18. Distribution of animal drugs between skim milk and milk fat fractions in spiked whole milk: Understanding the potential impact on commercial milk products

    Science.gov (United States)

    Seven animal drugs [penicillin G (PENG), sulfadimethoxine (SDMX), oxytetracycline (OTET), erythromycin (ERY), ketoprofen (KETO), thiabendazole (THIA) and ivermectin (IVR)] were used to evaluate drug distribution between milk fat and skim milk fractions of cow milk. Greater than 90% of radioactivity...

  19. Properties and stability of oil-in-water emulsions stabilized by coconut skim milk proteins.

    Science.gov (United States)

    Onsaard, Ekasit; Vittayanont, Manee; Srigam, Sukoncheun; McClements, D Julian

    2005-07-13

    Protein fractions were isolated from coconut: coconut skim milk protein isolate (CSPI) and coconut skim milk protein concentrate (CSPC). The ability of these proteins to form and stabilize oil-in-water emulsions was compared with that of whey protein isolate (WPI). The solubility of the proteins in CSPI, CSPC, and WPI was determined in aqueous solutions containing 0, 100, and 200 mM NaCl from pH 3 to 8. In the absence of salt, the minimum protein solubility occurred between pH 4 and 5 for CSPI and CSPC and around pH 5 for WPI. In the presence of salt (100 and 200 mM NaCl), all proteins had a higher solubility than in distilled water. Corn oil-in-water emulsions (10 wt %) with relatively small droplet diameters (d32 approximately 0.46, 1.0, and 0.5 mum for CSPI, CSPC, and WPI, respectively) could be produced using 0.2 wt % protein fraction. Emulsions were prepared with different pH values (3-8), salt concentrations (0-500 mM NaCl), and thermal treatments (30-90 degrees C for 30 min), and the mean particle diameter, particle size distribution, zeta-potential, and creaming stability were measured. Considerable droplet flocculation occurred in the emulsions near the isoelectric point of the proteins: CSPI, pH approximately 4.0; CSPC, pH approximately 4.5; WPI, pH approximately 4.8. Emulsions with monomodal particle size distributions, small mean droplet diameters, and good creaming stability could be produced at pH 7 for CSPI and WPI, whereas CSPC produced bimodal distributions. The CSPI and WPI emulsions remained relatively stable to droplet aggregation and creaming at NaCl concentrations of < or =50 and < or =100 mM, respectively. In the absence salt, the CSPI and WPI emulsions were also stable to thermal treatments at < or =80 and < or =90 degrees C for 30 min, respectively. These results suggest that CSPI may be suitable for use as an emulsifier in the food industry.

  20. BabelMeSH and PICO Linguist in Arabic.

    Science.gov (United States)

    Mahmoud, Mai A; Al-Khafaji, Jawad Thamer Jawad; Al-Shorbaji, Najeeb; Sara, Kaseem; Al-Ubaydli, Mohammad; Ghazzaoui, Ramez; Liu, Fang; Fontelo, Paul

    2008-11-06

    BabelMeSH is a multilanguage search for MEDLINE/PubMed. We created a database of Arabic translations of MeSH terms and other medical terms using MySQL and developed a Web interface for searching MEDLINE/PubMed in Arabic. We evaluated the accuracy of BabelMeSH using a list of medical terms from BMJ Clinical Evidence. The accuracy was 58% (machine scoring) and 65% human review.) The result obtained may be explained by variations in expressing medical terms in Arabic.

  1. Rejection of salts in nanofiltration of skim milk; Dasshinyu no nano roka ni okeru enrui no soshiritsu

    Energy Technology Data Exchange (ETDEWEB)

    Sato, I.; Kikuchi, M.; Sakurai, K. [Morinaga Milk Industry Co., Ltd., Tokyo (Japan)

    2000-11-10

    The authors carried out nanofiltration of skim milk and analyzed the salt rejection data using the extended Nernst-Planck equation. The following observed rejections of major constituents in salts were obtained. Na and K: 50 to 60 %, Cl: -5 to 15 %, Ca, Mg and P: > 97 %. It is considered that since Ca and Mg are mostly combined with phosphate and citrate in milk, they were rejected by a sieving effect, thus producing high rejections. Electroneutrality in permeate, and no-electric-current condition in solute flux are observed, respectively. In the subsequent analysis, the authors used a set of proposed assumptions, (1) a complete rejection of solute except Na, K and Cl by the membrane, (2) existence of a fixed charge in skim milk due to impermeable ions of proteins, etc. Rejection of Na, K and Cl calculated from the analysis are in good agreement with those of the experimental data. (author)

  2. 脱脂凝固型酸奶的研制%Preparation of a Solidified Skim Yogurt

    Institute of Scientific and Technical Information of China (English)

    赖钞艺; 周雪松; 曾建新

    2011-01-01

    Effects of skim milk powder resetting methods, protein content, starter culture amount, fermentation temperature, milk powder flavor type and stabilizer amount on the sensory quality of the skimmed set yogurt were studied. The results showed that the best reconsu'tution temperature and time for skim milk powder were 50℃ and 30min, respectively. The best protein content, starter culture amount, stabilizer amount, fermentation temperature and flavoring were 3.3%, 2%, 0.8%, 43℃, and milk powder flavor rutenong 3#. Under the optimum conditions, the skimmed set yogurt can be prepared with good sense and taste.%研究了脱脂奶粉的复原方法、蛋白质含量、发酵剂接种量、发酵温度、牛奶粉末香精、稳定剂用量等对脱脂凝固型酸奶产品感官品质的影响,结果表明,采用优化条件为:脱脂奶粉在50℃下复原30 min,复原乳的蛋白含量为3.3%,发酵剂接种量为2%,稳定剂的添加量为0.8%,发酵温度为43℃,添加牛奶粉末香精乳特浓3#,可开发出风味口感良好的脱脂凝固型酸奶.

  3. Pengaruh Temperatur Skimming Off Pada Penambahan Dross Treatment Flux Untuk Mengetahui Jumlah Metal Dalam Dross Di PT Inalum

    OpenAIRE

    Rina Zahara Hasibuan

    2009-01-01

    Bauksit mengandung alumina (Al2O3) sebagai bahan baku dalam peleburan aluminium dengan menggunakan proses elektrolisa Hall-Heroult. Kriolit digunakan sebagai elektrolit dan dapat melarutkan alumina. Kriolit dapat menurunkan titik lebur alumina tanpa mengurangi kualitas aluminium yang dihasilkan. Aluminium cair yang akan diproses menjadi aluminium batangan harus bebas dari unsur-unsur zat pengotor. Oleh karena itu dilakukan proses skimming off, dimana zat pengotor atau dross dikeluarkan dari a...

  4. Microfiltration of skim milk and modified skim milk using a 0.1-µm ceramic uniform transmembrane pressure system at temperatures of 50, 55, 60, and 65°C.

    Science.gov (United States)

    Hurt, E E; Adams, M C; Barbano, D M

    2015-02-01

    Increasing the temperature of microfiltration (MF) to >50°C may allow for operation at higher fluxes and reduce the bacterial growth during MF. However, there is a concern that operating at higher temperatures could cause calcium phosphate precipitation that would lead to membrane fouling. Our objective was to determine the effect of operating a 0.1-µm ceramic uniform transmembrane pressure MF unit at temperatures of 50, 55, 60, and 65°C on membrane fouling and serum protein (SP) removal from skim milk with and without removal of low-molecular-weight soluble milk components by ultrafiltration (UF) before MF at a flux of 54kg/m(2) per hour. For each replicate, 1,000kg of pasteurized skim milk was split into 2 batches. One batch was ultrafiltered (with diafiltration) to remove an average of 89±2% of the lactose and a percentage of the soluble calcium and phosphorus. The retentate from UF was diluted back to the protein concentration of skim milk, creating the diluted UF retentate (DUR). On subsequent days, both the DUR and skim milk were run on the MF unit with the flux maintained at 54kg/m(2) per hour and a concentration factor of 3× and the system run in recycle mode. The temperature of MF was increased in 5°C steps from 50 to 65°C, with a 1-h stabilization period after each increase. During the run, transmembrane pressure was monitored and permeate and retentate samples were taken and analyzed to determine if any changes in SP, calcium, or phosphorus passage through the membrane occurred. Increasing temperature of MF from 50 to 65°C at a flux of 54kg/m(2) per hour did not produce a large increase in membrane fouling when using either skim milk or a DUR as the MF feed type as measured by changes in transmembrane pressure. Increasing the temperature to 65°C only caused a slight reduction in calcium concentration in the permeate (11±3%) that was similar between the 2MF feed types. Increasing processing temperature reduced the percentage of SP removal by the

  5. SH-guided waves in layered piezoelectric/piezomagnetic plates

    Institute of Scientific and Technical Information of China (English)

    Guoquan Nie; Zijun An; Jinxi Liu

    2009-01-01

    The propagation of shear horizontal (SH) guided waves in a coupled plate consisting of a piezoelectric layer and a piezomagnetic layer is studied. Both the layers are transversely isotropic and perfectly bonded along the interface. The upper and the lower surfaces of the plate are assumed to be mechanically free, electrically open and magnetically dosed. Two different cases are considered. One is that the bulk shear wave velocity of piezoelectric material is larger than that of piezomagnetic material. The other is that the bulk shear wave velocity of piezomagnetic material is larger than that of piezoelectric material. The dispersion relation is obtained while the phase velocity is among the bulk shear wave velocity of two different layers. The numerical results show that the phase velocity approaches the smaller bulk shear wave velocity of the material in the system with the increase in the wave number for different modes. The thickness ratio and the properties of the piezoelectric material have great effect on the dispersion behaviors. The results of this paper can offer some funda-mental theory to the application of piezoelectric/piezomagnetic composites or structures.

  6. Short communication: Change of naturally occurring benzoic acid during skim milk fermentation by commercial cheese starters.

    Science.gov (United States)

    Han, Noori; Park, Sun-Young; Kim, Sun-Young; Yoo, Mi-Young; Paik, Hyun-Dong; Lim, Sang-Dong

    2016-11-01

    This study sought to investigate the change of naturally occurring benzoic acid (BA) during skim milk fermentation by 4 kinds of commercial cheese starters used in domestic cheese. The culture was incubated at 3-h intervals for 24h at 30, 35, and 40°C. The BA content during fermentation by Streptococcus thermophilus STB-01 was detected after 12h at all temperatures, sharply increasing at 30°C. In Lactobacillus paracasei LC431, BA was detected after 9h at all temperatures, sharply increasing until 18h and decreasing after 18h at 30 and 35°C. In the case of R707 (consisting of Lactococcus lactis ssp. lactis and Lactococcus lactis ssp. cremoris), BA increased from 6h to 15h and decreased after 15h at 40°C. The BA during STB-01 and CHN-11 (1:1; mixture of S. thermophilus, Lc. lactis ssp. lactis, Lc. lactis ssp. cremoris, Lc. lactis ssp. diacetylactis, Leuconostoc mesenteroides ssp. cremoris) fermentation was detected after 3h at 35 and 40°C, sharply increasing up to 12h and decreasing after 15h at 35°C, and after 6h, increasing up to 9h at 30°C. After 3h, it steadily decreased at 40°C. The highest amount of BA was found during the fermentation by R707 at 30°C; 15h with 12.46mg/kg.

  7. Short communication: The water footprint of dairy products: case study involving skim milk powder.

    Science.gov (United States)

    Ridoutt, B G; Williams, S R O; Baud, S; Fraval, S; Marks, N

    2010-11-01

    In the context of global water scarcity and food security concerns, water footprints are emerging as an important sustainability indicator in the agriculture and food sectors. Using a recently developed life cycle assessment-based methodology that takes into account local water stress where operations occur, the normalized water footprints of milk products from South Gippsland, one of Australia's major dairy regions, were 14.4 L/kg of total milk solids in whole milk (at farm gate) and 15.8 L/kg of total milk solids in skim milk powder (delivered to export destination). These results demonstrate that dairy products can be produced with minimal potential to contribute to freshwater scarcity. However, not all dairy production systems are alike and the variability in water footprints between systems and products should be explored to obtain strategic insights that will enable the dairy sector to minimize its burden on freshwater systems from consumptive water use. Copyright © 2010 American Dairy Science Association. Published by Elsevier Inc. All rights reserved.

  8. Effect of carrageenan addition on the rennet-induced gelation of skim milk.

    Science.gov (United States)

    Wang, Fang; Zhang, Wei; Ren, Fazheng

    2016-09-01

    Carrageenan (CG) (κ-CG, ι-CG and λ-CG) was added to skim milk and the rennet-induced aggregation was studied. Caseinomacropeptide (CMP) release, diffusing wave spectroscopy (DWS) and rheology were used to follow the structural dynamics of casein micelles during gelation. The influence of carrageenan on the nature of protein interactions in the gels was investigated using a combination of ultracentrifugation and specific dissociating agents. For the recombined samples containing κ-CG and low concentrations of ι-CG and λ-CG, the CMP release was slowed down; however, the development of DWS and rheological parameters was similar to that of the control sample, and the increase in the incorporation of proteins through calcium bridges and hydrophobic interactions may be the most likely contributors. For the recombined samples containing high concentrations of ι-CG and λ-CG, other factors may impede the gel formation process. High concentrations of ι-CG and λ-CG strongly interfered with the rennet-induced aggregation, interrupted the interaction of caseins and therefore may contribute to good quality of low-fat cheese. © 2016 Society of Chemical Industry. © 2016 Society of Chemical Industry.

  9. Production of bacteriocin-like inhibitory substance by Bifidobacterium lactis in skim milk supplemented with additives.

    Science.gov (United States)

    Martinez, Fabio Andres Castillo; Domínguez, José Manuel; Converti, Attilio; Oliveira, Ricardo Pinheiro de Souza

    2015-08-01

    Bacteriocins are natural compounds used as food biopreservatives instead of chemical preservatives. Bifidobacterium animalis subsp. lactis (Bifid. lactis) was shown to produce a bacteriocin-like inhibitory substance (BLIS) able to inhibit the growth of Listeria monocytogenes selected as an indicator microorganism. To enhance this production by the strain Bifid. lactis BL 04, skim milk (SM) was used as a fermentation medium either in the presence or in the absence of yeast extract, Tween 80 or inulin as stimulating additives, and the results in terms of bacterial growth and BLIS production were compared with those obtained in a traditional high cost complex medium such as Man, Rogosa and Sharpe (MRS). To this purpose, all the cultivations were carried out in flasks at 200 rpm under anaerobic conditions ensured by a nitrogen flowrate of 1.0 L/min for 48 h, and BLIS production was quantified by means of a modified agar diffusion assay at low values of both temperature and concentration of List. monocytogenes. Although all these ingredients were shown to exert positive influence on BLIS production in both media, yeast extract and SM were by far the best ingredient and the best medium, respectively, allowing for a BLIS production at the late exponential phase of 2000 AU/ml.

  10. EFFECT OF DIFFERENT CRYOPROTECTIVE AGENTS ON SKIM MILK AND DIMITROPOULUS EXTENDER FOR STALLION SEMEN CRYOPRESERVATION

    Directory of Open Access Journals (Sweden)

    R.I. Arifiantini

    2014-10-01

    Full Text Available s to assess different CPAs on stallion semen cryopreservation. Skim milk (SM and Dimitropoulos(DV were the extenders used in this study; each was added by glycerol (Gly, combination of ethyleneglycol-glycerol (EG+Gly or dimethilformamide (DMF. Each semen sample was evaluated and dividedequally into six tubes; semen in the three tubes was diluted 1:1 with (SM, while in the remaining tubesthe semen was diluted 1:1 by DV. After being diluted, all tubes were centrifuged at 1006xg for 10minutes. The supernatan discarded, the pellet was rediluted by SM trehalosa or DV trehalose, and addedby G, EG+Gly, or DMF to reach the final sperm concentration of 200x106/ml. The extended semen wasindividually packed in 0.3 ml minitube, equilibrated at 4oC for 2 hours, frozen in liquid nitrogen vaporfor 10 minutes, and then was stored in liquid nitrogen container at -196 oC. After 24 hours, the semenwas thawed at 37 oC for 30 second. There were no significantly different (p>0.05 on the percentages ofmotile and viable sperm in SMT (21.7% and 43.4%, respectively compared with those extended withDV T extender (26.9% and 50.8%, respectively. DMF demonstrated better results as CPA compared tothe others; and DVTDMF combination had the best protection during cryopreservation in this study.

  11. The Role of Ammonia in Synthesis of Silver Nanoparticles in Skim Natural Rubber Latex

    Directory of Open Access Journals (Sweden)

    Panu Danwanichakul

    2016-01-01

    Full Text Available Silver nanoparticles (AgNPs were synthesized in skim natural rubber latex, the by-product from concentrated latex production. The role of ammonia was investigated by varying the concentration to be 0.217, 0.362, 0.377, 0.392, and 0.406 wt%. The emergence of AgNPs was detected by UV-visible spectrophotometer and electrical conductivity meter. Upon increasing ammonia concentration, the ABS peak increased to a maximum and slightly shifted to a higher wavelength and then it decreased afterward and slightly shifted to a lower wavelength. The shift of the ABS peak was consistent with the conductivity result. The kinetic model was proposed to explain the competition between the reducing effect and size-controlling effect of ammonia. The reducing effect seemed to dominate in the low range of concentration while the size-controlling effect via the formation of AgNH32+ complex ion was important in the higher range. The TEM figures evidently confirmed the effects.

  12. Holographic Wavefront Correction for ShADOE LIDAR Receivers Project

    Data.gov (United States)

    National Aeronautics and Space Administration — Current shared aperture diffractive optical elements (ShADOE) have intrinsic residual wavefront errors on the order of 50 waves which limits the angular resolution...

  13. Interproximal grooving in the Atapuerca-SH hominid dentitions.

    Science.gov (United States)

    Bermúdez de Castro, J M; Arsuaga, J L; Pérez, P J

    1997-03-01

    The dental sample recovered from the Sima de los Huesos (SH) Middle Pleistocene cave site of the Sierra de Atapuerca (Spain) includes 296 specimens. Interproximal wear grooves have been observed in 20 maxillary and mandibular posterior teeth belonging to at least five of the 32 individuals identified so far in the SH hypodigm. Interproximal grooving affected only the adults, and at an age between 25 and 40 years. The appearance, morphology, and location pattern of the SH wear grooves are similar to those reported in other fossil hominids and in more recent human populations. Two alternative proposals, the toothpicking and the fiber or sinew processing hypotheses, compete for explaining the formation of this anomalous wear. The characteristics observed in the wear grooves of the SH teeth are compatible only with the habitual probing of interdental spaces by means of hard and inflexible objects. Dietary grit may also have contributed to the abrasion of the root walls during the motion of the dental probes.

  14. An application of MeSH enrichment analysis in livestock.

    Science.gov (United States)

    Morota, G; Peñagaricano, F; Petersen, J L; Ciobanu, D C; Tsuyuzaki, K; Nikaido, I

    2015-08-01

    An integral part of functional genomics studies is to assess the enrichment of specific biological terms in lists of genes found to be playing an important role in biological phenomena. Contrasting the observed frequency of annotated terms with those of the background is at the core of overrepresentation analysis (ORA). Gene Ontology (GO) is a means to consistently classify and annotate gene products and has become a mainstay in ORA. Alternatively, Medical Subject Headings (MeSH) offers a comprehensive life science vocabulary including additional categories that are not covered by GO. Although MeSH is applied predominantly in human and model organism research, its full potential in livestock genetics is yet to be explored. In this study, MeSH ORA was evaluated to discern biological properties of identified genes and contrast them with the results obtained from GO enrichment analysis. Three published datasets were employed for this purpose, representing a gene expression study in dairy cattle, the use of SNPs for genome-wide prediction in swine and the identification of genomic regions targeted by selection in horses. We found that several overrepresented MeSH annotations linked to these gene sets share similar concepts with those of GO terms. Moreover, MeSH yielded unique annotations, which are not directly provided by GO terms, suggesting that MeSH has the potential to refine and enrich the representation of biological knowledge. We demonstrated that MeSH can be regarded as another choice of annotation to draw biological inferences from genes identified via experimental analyses. When used in combination with GO terms, our results indicate that MeSH can enhance our functional interpretations for specific biological conditions or the genetic basis of complex traits in livestock species.

  15. Sh2-205: I. The surrounding interstellar medium

    CERN Document Server

    Romero, G A

    2008-01-01

    We present a study of the HII region Sh2-205 and its environs, based on data obtained from the CGPS, 12CO observations, and MSX data. We find that Sh2-205 can be separated in three independent optical structures: SH149.25--0.0, SH 148.83-0.67, and LBN 148.11-0.45. The derived spectral indices show the thermal nature of SH 148.83--0.67 and LBN 148.11--0.45. The morphology of SH 148.83--0.67, both in the optical and radio data, along with the energetic requ irements indicate that this feature is an interstellar bubble powered by the UV photons of HD 24431 (O9 III). LBN 148.11--0.45 has the morphology of a classic al HII region and their ionizing sources remain uncertain. Dust and molecular gas are found related to LBN 148.11-0.45.Particularly, a photodissociation region is detected at the interface between the ionized and molecular regions. If the proposed exciting star HD 24094 were an O8--O9 type star, as suggested by its near-infrared colors, its UV photon flux would be enough to explain the ionization of th...

  16. Nondestructive Evaluation of Functionally Graded Subsurface Damage on Cylinders in Nuclear Installations Based on Circumferential SH Waves

    Directory of Open Access Journals (Sweden)

    Zhen Qu

    2016-01-01

    Full Text Available Subsurface damage could affect the service life of structures. In nuclear engineering, nondestructive evaluation and detection of the evaluation of the subsurface damage region are of great importance to ensure the safety of nuclear installations. In this paper, we propose the use of circumferential horizontal shear (SH waves to detect mechanical properties of subsurface regions of damage on cylindrical structures. The regions of surface damage are considered to be functionally graded material (FGM and the cylinder is considered to be a layered structure. The Bessel functions and the power series technique are employed to solve the governing equations. By analyzing the SH waves in the 12Cr-ODS ferritic steel cylinder, which is frequently applied in the nuclear installations, we discuss the relationship between the phase velocities of SH waves in the cylinder with subsurface layers of damage and the mechanical properties of the subsurface damaged regions. The results show that the subsurface damage could lead to decrease of the SH waves’ phase velocity. The gradient parameters, which represent the degree of subsurface damage, can be evaluated by the variation of the SH waves’ phase velocity. Research results of this study can provide theoretical guidance in nondestructive evaluation for use in the analysis of the reliability and durability of nuclear installations.

  17. Allosteric Inhibition of Bcr-Abl Kinase by High Affinity Monobody Inhibitors Directed to the Src Homology 2 (SH2)-Kinase Interface.

    Science.gov (United States)

    Wojcik, John; Lamontanara, Allan Joaquim; Grabe, Grzegorz; Koide, Akiko; Akin, Louesa; Gerig, Barbara; Hantschel, Oliver; Koide, Shohei

    2016-04-15

    Bcr-Abl is a constitutively active kinase that causes chronic myelogenous leukemia. We have shown that a tandem fusion of two designed binding proteins, termed monobodies, directed to the interaction interface between the Src homology 2 (SH2) and kinase domains and to the phosphotyrosine-binding site of the SH2 domain, respectively, inhibits the Bcr-Abl kinase activity. Because the latter monobody inhibits processive phosphorylation by Bcr-Abl and the SH2-kinase interface is occluded in the active kinase, it remained undetermined whether targeting the SH2-kinase interface alone was sufficient for Bcr-Abl inhibition. To address this question, we generated new, higher affinity monobodies with single nanomolar KD values targeting the kinase-binding surface of SH2. Structural and mutagenesis studies revealed the molecular underpinnings of the monobody-SH2 interactions. Importantly, the new monobodies inhibited Bcr-Abl kinase activity in vitro and in cells, and they potently induced cell death in chronic myelogenous leukemia cell lines. This work provides strong evidence for the SH2-kinase interface as a pharmacologically tractable site for allosteric inhibition of Bcr-Abl.

  18. Grb7 SH2 domain structure and interactions with a cyclic peptide inhibitor of cancer cell migration and proliferation

    Directory of Open Access Journals (Sweden)

    Pero Stephanie C

    2007-09-01

    Full Text Available Abstract Background Human growth factor receptor bound protein 7 (Grb7 is an adapter protein that mediates the coupling of tyrosine kinases with their downstream signaling pathways. Grb7 is frequently overexpressed in invasive and metastatic human cancers and is implicated in cancer progression via its interaction with the ErbB2 receptor and focal adhesion kinase (FAK that play critical roles in cell proliferation and migration. It is thus a prime target for the development of novel anti-cancer therapies. Recently, an inhibitory peptide (G7-18NATE has been developed which binds specifically to the Grb7 SH2 domain and is able to attenuate cancer cell proliferation and migration in various cancer cell lines. Results As a first step towards understanding how Grb7 may be inhibited by G7-18NATE, we solved the crystal structure of the Grb7 SH2 domain to 2.1 Å resolution. We describe the details of the peptide binding site underlying target specificity, as well as the dimer interface of Grb 7 SH2. Dimer formation of Grb7 was determined to be in the μM range using analytical ultracentrifugation for both full-length Grb7 and the SH2 domain alone, suggesting the SH2 domain forms the basis of a physiological dimer. ITC measurements of the interaction of the G7-18NATE peptide with the Grb7 SH2 domain revealed that it binds with a binding affinity of Kd = ~35.7 μM and NMR spectroscopy titration experiments revealed that peptide binding causes perturbations to both the ligand binding surface of the Grb7 SH2 domain as well as to the dimer interface, suggesting that dimerisation of Grb7 is impacted on by peptide binding. Conclusion Together the data allow us to propose a model of the Grb7 SH2 domain/G7-18NATE interaction and to rationalize the basis for the observed binding specificity and affinity. We propose that the current study will assist with the development of second generation Grb7 SH2 domain inhibitors, potentially leading to novel inhibitors of

  19. Effect of transmembrane pressure control on energy efficiency during skim milk concentration by ultrafiltration at 10 and 50°C.

    Science.gov (United States)

    Méthot-Hains, S; Benoit, S; Bouchard, C; Doyen, A; Bazinet, L; Pouliot, Y

    2016-11-01

    The efficiency of the ultrafiltration process during skim milk concentration was studied using both dynamic and constant (465 or 672kPa) transmembrane pressure experiments at refrigerated temperature (10°C) and high temperature (50°C). The pilot-scale module was equipped with a 10-kDa polyethersulfone spiral-wound membrane element with a surface area of 2.04m(2). Permeation flux, resistance-in-series model, mineral and protein rejection, and energy consumption were studied as a function of temperature and transmembrane pressure applied. Higher permeation flux values were systematically obtained at 50°C. Also, a significant temperature effect was found for calcium rejection, which was lower at 10°C compared with 50°C. Total hydraulic resistance and reversible fouling resistance were higher at 50°C than at 10°C. No change in protein rejection was observed, depending on the operating mode studied. Permeation flux, which was higher at 50°C, had lower pumping energy consumption compared with ultrafiltration at the colder temperature. Also, the low ultrafiltration temperature required a higher total energy consumption to reach the 3.6× retentate compared with ultrafiltration at 50°C. Overall, our study shows that the operating parameters and temperature can be optimized using an energy efficiency ratio.

  20. Development and shelf-life determination of pasteurized, microfiltered, lactose hydrolyzed skim milk.

    Science.gov (United States)

    Antunes, A E C; Silva E Alves, A T; Gallina, D A; Trento, F K H S; Zacarchenco, P B; Van Dender, A G F; Moreno, I; Ormenese, R C S C; Spadoti, L M

    2014-09-01

    The segment of the world population showing permanent or temporary lactose intolerance is quite significant. Because milk is a widely consumed food with an high nutritional value, technological alternatives have been sought to overcome this dilemma. Microfiltration combined with pasteurization can not only extend the shelf life of milk but can also maintain the sensory, functional, and nutritional properties of the product. This studied developed a pasteurized, microfiltered, lactose hydrolyzed (delactosed) skim milk (PMLHSM). Hydrolysis was performed using β-galactosidase at a concentration of 0.4mL/L and incubation for approximately 21h at 10±1°C. During these procedures, the degree of hydrolysis obtained (>90%) was accompanied by evaluation of freezing point depression, and the remaining quantity of lactose was confirmed by HPLC. Milk was processed using a microfiltration pilot unit equipped with uniform transmembrane pressure (UTP) ceramic membranes with a mean pore size of 1.4 μm and UTP of 60 kPa. The product was submitted to physicochemical, microbiological, and sensory evaluations, and its shelf life was estimated. Microfiltration reduced the aerobic mesophilic count by more than 4 log cycles. We were able to produce high-quality PMLHSM with a shelf life of 21 to 27d when stored at 5±1°C in terms of sensory analysis and proteolysis index and a shelf life of 50d in regard to total aerobic mesophile count and titratable acidity. Copyright © 2014 American Dairy Science Association. Published by Elsevier Inc. All rights reserved.

  1. Parents' and children's acceptance of skim chocolate milks sweetened by monk fruit and stevia leaf extracts.

    Science.gov (United States)

    Li, X E; Lopetcharat, K; Drake, M A

    2015-05-01

    Chocolate milk increases milk consumption of children, but high sugar content raises health concerns. Interest in sugar reduction and parents' preference for natural sweeteners necessitates further research on natural nonnutritive sweeteners. However, it is important to maintain consumer acceptability, especially for children, while reducing sugar in chocolate milk. The objectives of this study were to identify the sweetness intensity perception of stevia leaf (STV) and monk fruit (MK) extracts in skim chocolate milk (SCM), to evaluate STV and MK as the sole or partial sweetener source for SCM for young adults (19 to 35 y) and children (5 to 13 y), and to determine if information on natural nonnutritive sweeteners impacted parents' acceptability of SCM. Power function and 2-alternative forced choice studies were used to determine the iso-sweetness of nonnutritive sweeteners to a sucrose control in SCM (51.4 g/L, SUC control). Young adults (n = 131) evaluated 9 different SCM (SUC control, STV, MK, STV:sucrose blends, or MK:sucrose blends) in a completely randomized 2-d test. Children (n = 167) evaluated SUC control SCM and SCM with 39.7 g/L sucrose and 46 mg/L MK (MK25) or 30 mg/L STV (STV25). Parents evaluated SUC control, MK25, and STV25 in a balanced crossover design with a 40-d wait time between primed or unprimed ballots. Chocolate milks solely sweetened by nonnutritive sweeteners were less acceptable compared with SUC control by young adults. MK25 and STV25 were acceptable by young adults and children. The presentation of chocolate milk label information had different effects on parental acceptance. Traditional parents preferred sucrose sweetened SCM, and label conscious parents preferred SCM with natural nonnutritive sweeteners. © 2015 Institute of Food Technologists®

  2. The effect of initial stress on the propagation behavior of SH waves in piezoelectric coupled plates.

    Science.gov (United States)

    Son, Myung Seob; Kang, Yeon June

    2011-05-01

    This study analytically investigates the propagation of shear waves (SH waves) in a coupled plate consisting of a piezoelectric layer and an elastic layer with initial stress. The piezoelectric material is polarized in z-axis direction and perfectly bonded to an elastic layer. The mechanical displacement and electrical potential function are derived for the piezoelectric coupled plates by solving the electromechanical field equations. The effects of the thickness ratio and the initial stress on the dispersion relations and the phase and group velocities are obtained for electrically open and mechanically free situations. The numerical examples are provided to illustrate graphically the variations of the phase and group velocities versus the wave number for the different layers comparatively. It is seen that the phase velocity of SH waves decreases with the increase of the magnitude of the initial compression stress, while it increases with the increase of the magnitude of the initial tensile stress. The initial stress has a great effect on the propagation of SH waves with the decrease of the thickness ratio. This research is theoretically useful for the design of surface acoustic wave (SAW) devices with high performance.

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

    Science.gov (United States)

    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.

  4. Comparison of high-resolution P- and SH-wave reflection seismic data in alluvial and pyroclastic deposits in Indonesia

    Science.gov (United States)

    Wiyono, Wiyono; Polom, Ulrich; Krawczyk, Charlotte M.

    2013-04-01

    Seismic reflection is one of the stable methods to investigate subsurface conditions. However, there are still many unresolved issues, especially for areas with specific and complex geological environments. Here, each location has an own characteristic due to material compounds and the geological structure. We acquired high-resolution, P-and SH-wave seismic reflection profiles at two different locations in Indonesia. The first location was in Semarang (Central Java) and the second one was in Tiris (East Java). The first region is located on an alluvial plain with thick alluvial deposits of more than 100 m estimated thickness, and the second location was located on pyroclastic deposit material. The seismic measurements for both locations were carried out using a 48-channel recording system (14-Hz P-wave, 10-Hz SH-wave geophones) with geophone intervals of 5 m (P-waves) and 1 m (SH-waves), respectively. The seismic source for the P-wave was a ca. 4 kg sledge hammer which generated a seismic signal by by hitting on an aluminum plate of 30x30 cm, whereas the SH-wave source was a mini-vibrator ELVIS (Electrodynamic Vibrator System), version 3. Thirteen seismic profiles at Semarang and eighth profiles at Tiris were acquired. The results of seismic data in Semarang show fair to good seismic records for both P-and SH-waves. The raw data contain high signal-to-noise-ratio. Many clear reflectors can be detected. The P-wave data shows reflectors down to 250 ms two-way time while the SH-wave records show seismic events up to 600 ms two-way time. This result is in strong contrast to the seismic data result from the Tiris region. The P-wave data show very low signal to noise ratio, there is no reflection signal visible, only the surface waves and the ambient noise from the surrounding area are visible. The SH-waves give a fair to good result which enables reflector detection down to 300 ms two-way time. The results from the two seismic campaigns show that SH-wave reflection

  5. Assembling cyavanaprāsh, Ayurveda's best-selling medicine.

    Science.gov (United States)

    Bode, Maarten

    2015-04-01

    The paper discusses the many forms and representations of cyavanaprāsh, Ayurveda's best-selling medicine, already mentioned in Caraka's Compendium (c. 200 CE). The medicine's compositions, applications, and meanings, change over time and from locality to locality. Cyavanaprāsh is, for example, a patriotic formula, a booster of the immune system, a modern geriatric drug, and one of the elements in canonical Ayurvedic treatments. In the beginning of the 19th century cyavanaprāsh was a patriotic formula for fortifying Indian bodies and the nascent Indian nation. Nowadays the medicine is a Fast Moving Consumer Good (FMCG) and a money maker for Dabur India Ltd., the world largest Ayurvedic manufacturer. Instead of vitalising the nation its consumption now promises to make urban middle class consumers effectively modern. Branding and modern science must make Dabur Chyawanprash attractive in the eyes of these consumers. Ayurveda and cyavanaprāsh are also part of a global counter culture marked by neo-Orientalism and Ayurvedic medicines as facilitators of spirituality. The marketing of cyavanaprāsh by India's largest Ayurvedic manufacturer is used as a case study for discussing the proliferation of Ayurvedic brands and its critics. The imaging of Ayurvedic brands such as Dabur Chyawanprash threatens to obscure the fact that Ayurveda represents a unique way of looking upon health, disease and the human body. The proliferation of brands also makes Ayurvedic medicines more expensive and puts pressure on the natural environment as the main supplier of Ayurvedic ingredients.

  6. Optimization of protein fractionation by skim milk microfiltration: Choice of ceramic membrane pore size and filtration temperature.

    Science.gov (United States)

    Jørgensen, Camilla Elise; Abrahamsen, Roger K; Rukke, Elling-Olav; Johansen, Anne-Grethe; Schüller, Reidar B; Skeie, Siv B

    2016-08-01

    The objective of this study was to investigate how ceramic membrane pore size and filtration temperature influence the protein fractionation of skim milk by cross flow microfiltration (MF). Microfiltration was performed at a uniform transmembrane pressure with constant permeate flux to a volume concentration factor of 2.5. Three different membrane pore sizes, 0.05, 0.10, and 0.20µm, were used at a filtration temperature of 50°C. Furthermore, at pore size 0.10µm, 2 different filtration temperatures were investigated: 50 and 60°C. The transmission of proteins increased with increasing pore size, giving the permeate from MF with the 0.20-µm membrane a significantly higher concentration of native whey proteins compared with the permeates from the 0.05- and 0.10-µm membranes (0.50, 0.24, and 0.39%, respectively). Significant amounts of caseins permeated the 0.20-µm membrane (1.4%), giving a permeate with a whitish appearance and a casein distribution (αS2-CN: αS1-CN: κ-CN: β-CN) similar to that of skim milk. The 0.05- and 0.10-µm membranes were able to retain all caseins (only negligible amounts were detected). A permeate free from casein is beneficial in the production of native whey protein concentrates and in applications where transparency is an important functional characteristic. Microfiltration of skim milk at 50°C with the 0.10-µm membrane resulted in a permeate containing significantly more native whey proteins than the permeate from MF at 60°C. The more rapid increase in transmembrane pressure and the significantly lower concentration of caseins in the retentate at 60°C indicated that a higher concentration of caseins deposited on the membrane, and consequently reduced the native whey protein transmission. Optimal protein fractionation of skim milk into a casein-rich retentate and a permeate with native whey proteins were obtained by 0.10-µm MF at 50°C.

  7. Zmienność cyrkulacji atmosferycznej w regionie Bydgosko-Toruńskim w latach 1881-2005

    OpenAIRE

    Przybylak, Rajmund; Maszewski, Rafał

    2009-01-01

    W niniejszym artykule zaprezentowano wyniki badań dotyczących zmian cyrkulacji atmosferycznej w regionie Bydgosko-Toruńskim w okresie 1881-2005. Do tego celu wykorzystano kalendarz typów sytuacji synoptycznych sporządzony na podstawie codziennych dolnych map synoptycznych opublikowanych przez Niemiecką Służbę Meteorologiczną. W badanym okresie zaobserwowano istotny statystycznie wzrost częstości występowania sytuacji cyklonalnych (0,60 dnia/10 lat) w chłodnej porze roku i ich spadek w pozosta...

  8. SH2B1 regulation of energy balance, body weight, and glucose metabolism

    Institute of Scientific and Technical Information of China (English)

    Liangyou; Rui

    2014-01-01

    The Src homology 2B(SH2B)family members(SH2B1,SH2B2 and SH2B3)are adaptor signaling proteins containing characteristic SH2 and PH domains.SH2B1(also called SH2-B and PSM)and SH2B2(also called APS)are able to form homo-or hetero-dimers via their N-terminal dimerization domains.Their C-terminal SH2 domains bind to tyrosyl phosphorylated proteins,including Janus kinase 2(JAK2),TrkA,insulin receptors,insulin-like growth factor-1 receptors,insulin receptor substrate-1(IRS1),and IRS2.SH2B1 enhances leptin signaling by both stimulating JAK2 activity and assembling a JAK2/IRS1/2 signaling complex.SH2B1 promotes insulin signaling by both enhancing insulin receptor catalytic activity and protecting against dephosphorylation of IRS proteins.Accordingly,genetic deletion of SH2B1 results in severe leptin resistance,insulin resistance,hyperphagia,obesity,and type 2 diabetes in mice.Neuronspecific overexpression of SH2B1βtransgenes protects against diet-induced obesity and insulin resistance.SH2B1 in pancreaticβcells promotesβcell expansion and insulin secretion to counteract insulin resistance in obesity.Moreover,numerous SH2B1 mutations are genetically linked to leptin resistance,insulin resistance,obesity,and type 2 diabetes in humans.Unlike SH2B1,SH2B2 and SH2B3 are not required for the maintenance of normal energy and glucose homeostasis.The metabolic function of the SH2B family is conserved from insects to humans.

  9. Effect of Austenite Deformation on Continuous Cooling Transformation Microstructures for 22CrSH Gear Steel

    Institute of Scientific and Technical Information of China (English)

    WANG Bing-xin; JIANG Ying-tian; XU Xu-dong; LIU Xiang-hua; WANG Guo-dong

    2007-01-01

    The effect of compressive deformation of austenite on continuous cooling transformation microstructures for 22CrSH gear steel has been investigated using a Gleeble 1500 thermal simulator. The experimental results show that the deformation of austenite promotes the formation of proeutectoid ferrite and pearlite, and leads to the increase of critical cooling rate of proeutectoid ferrite plus pearlite microstructure. The grain boundary allotriomorphic ferrite occupies the austenite grain surfaces when the prior deformation takes place or the cooling rate is decreased, which causes a transition from bainite to acicular ferrite. The deformation enhances the stability of transformation from austenite to acicular ferrite, which results in an increase of M/A constituent.

  10. Scattering of plane SH waves by a circular-arc hill with a circular tunnel

    Institute of Scientific and Technical Information of China (English)

    LIANG Jian-wen(梁建文); LUO Hao(罗昊); Vincent W. Lee

    2004-01-01

    An analytical solution for scattering of incident SH waves by a circular-arc hill with a concentric circular tunnel was derived by Fourier-Bessel series expansion and auxiliary functions technique. The solution is reduced to solving a set of infinite linear algebraic equations finally. The accuracies of the numerical results are checked by the residual errors of boundary conditions with the truncation order increasing. The numerical results show that the existence and dimension of the tunnel have great effect on motion of the ground surface nearby and dynamic stress concentration of the tunnel.

  11. SCATTERING OF PLANE SH-WAVE BY A CYLINDRICAL HILL OF ARBITRARY SHAPE

    Institute of Scientific and Technical Information of China (English)

    曹欣荣; 宋天舒; 刘殿魁

    2001-01-01

    The problems of scattering of plane SH-wave by a cylindrical hill of arbitrary shape is studied based on the methods of conjunction and division of solution zone. The scattering wave function is given by using the complex variable and conformal mapping methods. The conjunction boundary conditions are satisfied. Furthermore appling orthogonal function expanding technique, the problems can finally be summarized into the solution of a series of infinite algebraic equations. At last, numerical results of surface displacements of a cylindrical arc hill and of a semi-ellipse hill are obtained. And those computational results are compared with the results of finite element method (FEM).

  12. Synthesis of reduced-size gold nanostars and internalization in SH-SY5Y cells

    KAUST Repository

    Dacarro, Giacomo

    2017-07-01

    The synthesis of large pentatwinned five-branched gold nanostars (GNS) has been modified so to obtain overall dimensions shrunk to 60% and a lower branches aspect ratio, leading to a dramatic blue shift of their two near-infrared (NIR) localized surface plasmon resonances (LSPR) absorptions but still maintaining one LSPR in the biotransparent NIR range. The interactions of polyethylene glycol (PEG) coated large and shrunk GNS with SH-SY5Y cells revealed that the large ones (DCI - diameter of the circumference in which GNS can be inscribed = 76 nm) are internalized more efficiently than the shrunk ones (DCI = 46 nm), correlating with a decreased cells surving fraction.

  13. MeSH-Informed Enrichment Analysis and MeSH-Guided Semantic Similarity Among Functional Terms and Gene Products in Chicken.

    Science.gov (United States)

    Morota, Gota; Beissinger, Timothy M; Peñagaricano, Francisco

    2016-01-01

    Biomedical vocabularies and ontologies aid in recapitulating biological knowledge. The annotation of gene products is mainly accelerated by Gene Ontology (GO), and more recently by Medical Subject Headings (MeSH). Here, we report a suite of MeSH packages for chicken in Bioconductor, and illustrate some features of different MeSH-based analyses, including MeSH-informed enrichment analysis and MeSH-guided semantic similarity among terms and gene products, using two lists of chicken genes available in public repositories. The two published datasets that were employed represent (i) differentially expressed genes, and (ii) candidate genes under selective sweep or epistatic selection. The comparison of MeSH with GO overrepresentation analyses suggested not only that MeSH supports the findings obtained from GO analysis, but also that MeSH is able to further enrich the representation of biological knowledge and often provide more interpretable results. Based on the hierarchical structures of MeSH and GO, we computed semantic similarities among vocabularies, as well as semantic similarities among selected genes. These yielded the similarity levels between significant functional terms, and the annotation of each gene yielded the measures of gene similarity. Our findings show the benefits of using MeSH as an alternative choice of annotation in order to draw biological inferences from a list of genes of interest. We argue that the use of MeSH in conjunction with GO will be instrumental in facilitating the understanding of the genetic basis of complex traits.

  14. Hydrocolloids Decrease the Digestibility of Corn Starch, Soy Protein, and Skim Milk and the Antioxidant Capacity of Grape Juice.

    Science.gov (United States)

    Yi, Yue; Jeon, Hyeong-Ju; Yoon, Sun; Lee, Seung-Min

    2015-12-01

    Hydrocolloids have many applications in foods including their use in dysphagia diets. We aimed to evaluate whether hydrocolloids in foods affect the digestibility of starch and protein, and their effects on antioxidant capacity. The thickening hydrocolloids: locust bean gum and carboxymethyl cellulose, and the gel-forming agents: agar agar, konjac-glucomannan, and Hot & Soft Plus were blended with corn starch and soy protein, skim milk, or grape juice and were examined for their in vitro-digestability by comparing the reducing sugar and trichloroacetic acid (TCA)-soluble peptide, for antioxidant capacity by total polyphenol contents and the 2,2-diphenyl-1-picrylhydrazyl radical scavenging activity. The hydrocolloids resulted in a decrease in starch digestibility with the gel-forming agents. Hydrocolloids diminished TCA-soluble peptides in skim milk compared to soy protein with the exception of locust bean gum and decreased free radical scavenging capacities and total phenolic contents in grape juice. Our findings may provide evidence for the use of hydro-colloids for people at risk of nutritional deficiencies such as dysphagia patients.

  15. Short communication: Proteins in heat-processed skim milk powder have no positive effects on bone loss of ovariectomized rats.

    Science.gov (United States)

    Du, M; Kong, Y; Wang, C; Gao, H; Han, X; Yi, H; Zhang, L

    2011-06-01

    Milk has positive effects on bone growth. However, the effect of skim milk powder (SMP) on bone properties has not been reported. This study investigated the effect of SMP on bone loss in ovariectomized (OVX) rats. Forty female Sprague-Dawley rats were ovariectomized and another 10 rats received a sham operation. The OVX rats were randomly separated into 4 groups: OVX control, OVX SMP1 (SMP at 0.04 g/d), OVX SMP2 (SMP at 0.20 g/d), and OVX SMP3 (SMP at 0.40 g/d). Skim milk powder was supplied in the rat diet for 12 wk, and the rats were gavaged once per day. The effects of SMP on calcium content and bone mineral density of femur were determined by atomic absorption spectrophotometry and dual-energy x-ray absorptiometry, respectively. Compared with the control, SMP at all dose levels tested had no particular effect on weight:length, calcium content, or bone mineral density of femurs. It was demonstrated that SMP (0.04 to 0.40 g/d) had no positive effect on bone loss in OVX rats, probably because the heat treatment used during SMP processing caused a loss of biological activity in the protein.

  16. Anti-listerial synergism of leaf essential oil of Metasequoia glyptostroboides with nisin in whole, low and skim milks

    Institute of Scientific and Technical Information of China (English)

    Vivek K Bajpai; Jung In Yoon; Monika Bhardwaj; Sun Chul Kang

    2014-01-01

    Objective:To examine the individual and synergistic anti-listerial effect of nisin and leaf essential oil ofMetasequoia glyptostroboides(M. glyptostroboides) against one of the leading foodborne pathogensListeria monocytogenes(L. monocytogenes)ATCC19116 in milk samples. Methods:The whole(8%), low(1%) and skim(no fat content) milk samples were inoculated withL. monocytogenesATCC19116 along with leaf essential oil ofM. glyptostroboides or nisin alone as well in combinations.Results:In this study, the leaf essential oil at the concentrations of2% and5% revealed strong anti-listerial effect againstL. monocytogenesATCC19116 in all categories of milk samples.Nisin at the concentrations of250 and500IU/mL displayed a strong inhibitory effect againstATCC19116 as compared to the control group.Additionally, synergistic combinations of leaf essential oil(1%) and nisin(62.5,125,250 and500IU/mL) also had a remarkable anti-listerial synergism in all the tested milk samples including whole, low and skim milk after14 days.Conclusions:As a major finding, the leaf essential oil ofM. glyptostroboides might be a useful candidate for using in food industry to control the growth of foodborne pathogenic bacteria as confirmed by its potent anti-listerial synergistic effect with nisin againstL. monocytogenesATCC19116 in different milk samples.

  17. Utility of Milk Coagulant Enzyme of Moringa oleifera Seed in Cheese Production from Soy and Skim Milks.

    Science.gov (United States)

    Sánchez-Muñoz, María Alejandra; Valdez-Solana, Mónica Andrea; Avitia-Domínguez, Claudia; Ramírez-Baca, Patricia; Candelas-Cadillo, María Guadalupe; Aguilera-Ortíz, Miguel; Meza-Velázquez, Jorge Armando; Téllez-Valencia, Alfredo; Sierra-Campos, Erick

    2017-08-05

    In this study, the potential use of Moringa oleifera as a clotting agent of different types of milk (whole, skim, and soy milk) was investigated. M. oleifera seed extract showed high milk-clotting activity followed by flower extract. Specific clotting activity of seed extract was 200 times higher than that of flower extract. Seed extract is composed by four main protein bands (43.6, 32.2, 19.4, and 16.3 kDa). Caseinolytic activity assessed by sodium dodecyl sulphate-polyacrylamide gel electrophoresis (SDS-PAGE) and tyrosine quantification, showed a high extent of casein degradation using M. oleifera seed extract. Milk soy cheese was soft and creamy, while skim milk cheese was hard and crumbly. According to these results, it is concluded that seed extract of M. oleifera generates suitable milk clotting activity for cheesemaking. To our knowledge, this study is the first to report comparative data of M. oleifera milk clotting activity between different types of soy milk.

  18. The effect of homogenization of whole milk, skim milk and milk fat on nisin activity against Listeria innocua.

    Science.gov (United States)

    Zapico, P; de Paz, M; Medina, M; Nuñez, M

    1999-02-02

    Whole milk, skim milk and an emulsion of milk fat in water, inoculated with approx. 10(5) cfu/ml of Listeria innocua, were treated at 30 degrees C with 100 IU/ml of nisin, homogenization at 200 bar or both procedures. Nisin activity and survival of L. innocua after treatments were determined. Recovery of nisin activity from non-homogenized whole milk treated with 100 IU/ml of nisin was complete, whereas a loss of 18 to 28% of activity was detected in non-homogenized fat-in-water emulsion. Loss in nisin activity due to homogenization represented up to 64% in whole milk and 62% in fat-in-water emulsion. Nisin addition by itself achieved a reduction in L. innocua counts of 3.7-3.8 log units in whole milk and 3.6 log units in fat-in-water emulsion compared to numbers in untreated samples. When nisin-containing whole milk and fat-in-water emulsion were homogenized, L. innocua counts were only reduced by 2.6-2.9 log units and 2.5 log units, respectively, compared to numbers in untreated samples. Homogenization of nisin-containing skim milk resulted in a loss of nisin activity of 20% but achieved a reduction of 3.0 log units in L. innocua counts.

  19. Utility of Milk Coagulant Enzyme of Moringa oleifera Seed in Cheese Production from Soy and Skim Milks

    Directory of Open Access Journals (Sweden)

    María Alejandra Sánchez-Muñoz

    2017-08-01

    Full Text Available In this study, the potential use of Moringa oleifera as a clotting agent of different types of milk (whole, skim, and soy milk was investigated. M. oleifera seed extract showed high milk-clotting activity followed by flower extract. Specific clotting activity of seed extract was 200 times higher than that of flower extract. Seed extract is composed by four main protein bands (43.6, 32.2, 19.4, and 16.3 kDa. Caseinolytic activity assessed by sodium dodecyl sulphate-polyacrylamide gel electrophoresis (SDS-PAGE and tyrosine quantification, showed a high extent of casein degradation using M. oleifera seed extract. Milk soy cheese was soft and creamy, while skim milk cheese was hard and crumbly. According to these results, it is concluded that seed extract of M. oleifera generates suitable milk clotting activity for cheesemaking. To our knowledge, this study is the first to report comparative data of M. oleifera milk clotting activity between different types of soy milk.

  20. Association between SAP and FynT: Inducible SH3 domain-mediated interaction controlled by engagement of the SLAM receptor.

    Science.gov (United States)

    Chen, Riyan; Latour, Sylvain; Shi, Xiaochu; Veillette, André

    2006-08-01

    SAP is an intracellular adaptor molecule composed almost exclusively of an SH2 domain. It is mutated in patients with X-linked lymphoproliferative disease, a human immunodeficiency. Several immune abnormalities were also identified in SAP-deficient mice. By way of its SH2 domain, SAP interacts with tyrosine-based motifs in the cytoplasmic domain of SLAM family receptors. SAP promotes SLAM family receptor-induced protein tyrosine phosphorylation, due to its capacity to recruit the Src-related kinase FynT. This unusual property relies on the existence of a second binding surface in the SAP SH2 domain, centered on arginine 78 of SAP, that binds directly to the FynT SH3 domain. Herein, we wanted to further understand the mechanisms controlling the interaction between SLAM-SAP and FynT. Our experiments showed that, unlike conventional associations mediated by SH3 domains, the interaction of the FynT SH3 domain with SLAM-SAP was strictly inducible. It was absolutely dependent on engagement of SLAM by extracellular ligands. We obtained evidence that this inducibility was not due to increased binding of SLAM to SAP following SLAM engagement. Furthermore, it could occur independently of any appreciable SLAM-dependent biochemical signal. In fact, our data indicated that the induced association of the FynT SH3 domain with SLAM-SAP was triggered by a change in the conformation of SLAM-associated SAP caused by SLAM engagement. Together, these data elucidate further the events initiating SLAM-SAP signaling in immune cells. Moreover, they identify a strictly inducible interaction mediated by an SH3 domain.

  1. Interdigitated interdigital transducer for surface elastometry of soft damping tissue.

    Science.gov (United States)

    Danicki, Eugene; Nowicki, Andrzej; Tasinkevych, Yuriy

    2013-06-01

    Measurement of the shear elastic constant of soft and highly damping tissue of high Poisson ratio is quite a challenging task. It is proposed to evaluate shear wave velocity and damping of tissue by measuring the shear skimming bulk waves using one interdigitated interdigital transducer on a piezoelectric layer, such as polyvinylidene fluoride, applied to the surface of the small tissue sample.

  2. Visualization of semantic indexing similarity over MeSH.

    Science.gov (United States)

    Du, Haixia; Yoo, Terry S

    2007-10-11

    We present an interactive visualization system for the evaluation of indexing results of the MEDLINE data-base over the Medical Subject Headings (MeSH) structure in a graphical radial-tree layout. It displays indexing similarity measurements with 2D color coding and a 3D height field permitting the evaluation of the automatic Medical Text Indexer (MTI), compared with human indexers.

  3. Al-Shāṭibīs sufismekritik:

    DEFF Research Database (Denmark)

    Riexinger, Martin Thomas

    2016-01-01

    The faqīh (Islamic legal scholar) al-Shāṭibī (d. 1388) from Granada is primarily known for his innovative approach within the field of legal theory (uṣūl al-fiqh). However, he dedicated much attention to the criticism of sufism. But like other Islamic scholars who opposed Sufism he did...

  4. [Mechanism Study of the Smectite-OR-SH Compound for Reducing Cadmium Uptake by Plants in Contaminated Soils].

    Science.gov (United States)

    Zeng, Yan-jun; Zhou, Zhi-jun; Zhao, Qiu-xiang

    2015-06-01

    Adsorption and desorption experiments, pot experiments and characterization test were performed to investigate the immobilization effect and mechanism of the smectite-OR-SH compound for reducing cadmium uptake by plants in contaminated soils. The results showed that the saturated adsorption capacity for the adsorption of Cd2+ on smectite raised distinctly after functionalized. The adsorption of Cd2+ on smectite-OR-SH compound was very stable and it was difficult for Cd2+ to be desorbed from it. Crop yields promoted differently in original soil, Cd 3 mg x kg(-1) soil and Cd 10 mg x kg(-1) soil after adding the smectite-OR-SH compound. And the cadmium content of the cabbage reduced 61.00%, 62.10% and 83.73% respectively compare with the control. Characterization test analysis showed that Cd was adsorbed by the compound successfully and ligand interaction occurred between Cd and the thiol group. Floc amount on the compound surface increased correspondingly. In addition to electrostatic adsorption, ion exchange and hydroxyl ligand adsorption, the reaction mechanism of smectite-OR-SH compound with Cd was mainly sulfhydryl ligand adsorption.

  5. Palaeodemography of the Atapuerca-SH Middle Pleistocene hominid sample.

    Science.gov (United States)

    Bermúdez de Castro, J M; Nicolás, M E

    1997-01-01

    We report here on the palaeodemographic analysis of the hominid sample recovered to date from the Sima de los Huesos (SH) Middle Pleistocene cave site in the Sierra de Atapuerca (Burgos, Spain). The analysis of the mandibular, maxillary, and dental remains has made it possible to estimate that a minimum of 32 individuals, who probably belonged to the same biological population, are represented in the current SH human hypodigm. The remains of nine-individuals are assigned to males, and nine to females, suggesting that a 1:1 sex ratio characterizes this hominid sample. The survivorship curve shows a low representation of infants and children, a high mortality among the adolescents and prime-age adults, and a low older adult mortality. Longevity was probably no greater than 40 years. This mortality pattern (adolescents and adults); which in some aspects resembles that observed in Neandertals, is quite different from those reported for recent foraging human groups. The adult age-at-death distribution of the SH hominid sample appears to be neither the consequence of underaging the older adults, nor of differential preservation or of the recognition of skeletal remains. Thus if we accept that they had a life history pattern similar to that of modern humans there would appear to be a clear contradiction between the demographic distribution and the demographic viability of the population represented by the SH hominid fossils. The possible representational bias of the SH hominid sample, as well as some aspects of the reproductive biology of the Pleistocene populations are also discussed.

  6. Surface energy analysis (SEA) and rheology of powder milk dairy products

    OpenAIRE

    Lapčík Jr., Lubomír; Lapčíková, Barbora; Otyepková, Eva; Otyepka, Michal; Vlček, Jakub; Buňka, František; Salek, Richardos-Nicolaos

    2014-01-01

    Results of inverse gas chromatography adsorption/desorption experiments using selected probes on skimmed milk, whey and demineralised whey powder materials are presented. The dispersive component of surface energy was found to be dominant, indicating a low polarity character. Surface energy profiles of demineralised whey and skimmed milk showed a characteristic steep exponential decrease from approximately 170 mJ/m2 to 60 mJ/m2 and 140 mJ/m2 to 45 mJ/m2, respectively, whereas whey powder exhi...

  7. 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.

    Science.gov (United States)

    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.

  8. 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.

    Directory of Open Access Journals (Sweden)

    Jorge Enrique Hernández González

    Full Text Available 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.

  9. Structural Dynamics of the Potassium Channel Blocker ShK: SRLS Analysis of (15)N Relaxation.

    Science.gov (United States)

    Meirovitch, Eva; Tchaicheeyan, Oren; Sher, Inbal; Norton, Raymond S; Chill, Jordan H

    2015-12-10

    The 35-residue ShK peptide binds with high affinity to voltage-gated potassium channels. The dynamics of the binding surface was studied recently with (microsecond to millisecond) (15)N relaxation dispersion and (picosecond to nanosecond) (15)N spin relaxation of the N-H bonds. Relaxation dispersion revealed microsecond conformational-exchange-mediated exposure of the functionally important Y23 side chain to the peptide surface. The spin relaxation parameters acquired at 14.1 and 16.45 T have been subjected to model-free (MF) analysis, which yielded a squared generalized order parameter, S(2), of approximately 0.85 for virtually all of the N-H bonds. Only a "rigid backbone" evaluation could be inferred. We ascribe this limited information to the simplicity of MF in the context of challenging data. To improve the analysis, we apply the slowly relaxing local structure (SRLS) approach, which is a generalization of MF. SRLS describes N-H bond dynamics in ShK in terms of a local potential, u, ranging from 10 to 18.5 kBT, and a local diffusion rate, D2, ranging from 4.2 × 10(8) to 2.4 × 10(10) s(-1). This analysis shows that u is outstandingly strong for Y23 and relatively weak for K22, whereas D2 is slow for Y23 and fast for K22. These observations are relevant functionally because of the key role of the K22-Y23 dyad in ShK binding to potassium channels. The disulfide-bond network exhibits a medium-strength potential and an alternating wave-like D2 pattern. This is indicative of moderate structural restraints and motional plasticity, in support of, although not directly correlated with, the microsecond binding-related conformational exchange process detected previously. Thus, new information on functionally important residues in ShK and its overall conformational stability emerged from the SRLS analysis, as compared with the previous MF-based estimate of backbone dynamics as backbone rigidity.

  10. Rapid agonist-induced loss of sup 125 I-. beta. -endorphin opioid receptor sites in NG108-15, but not SK-N-SH neuroblastoma cells

    Energy Technology Data Exchange (ETDEWEB)

    Cone, R.I.; Lameh, J.; Sadee, W. (Univ. of California, San Francisco (United States))

    1991-01-01

    The authors have measured {mu} and {delta} opioid receptor sites on intact SK-N-SH and NG108-15 neuroblastoma cells, respectively, in culture. Use of {sup 125}I-{beta}-endorphin ({beta}E) as a tracer, together with {beta}E(6-31) to block high-affinity non-opioid binding in both cell lines, permitted the measurement of cell surface {mu} and {delta} opioid receptor sites. Labeling was at {delta} sites in NG108-15 cells and predominantly at {mu} sites in SK-N-SH cells. Pretreatment with the {mu} and {delta} agonist, DADLE, caused a rapid loss of cell surface {delta} receptor sites in NG108-15 cells, but failed to reduce significantly {mu} receptor density in SK-N-SH cells.

  11. Simultaneous determination of free calcium, magnesium, sodium and potassium ion concentrations in simulated milk ultrafiltrate and reconstituted skim milk using the Donnan Membrane Technique

    NARCIS (Netherlands)

    Gao, R.; Temminghoff, E.J.M.; Leeuwen, van H.P.; Valenberg, van H.J.F.; Eisner, M.D.; Boekel, van M.A.J.S.

    2009-01-01

    This study focused on determination of free Ca2+, Mg2+, Na+ and K+ concentrations in a series of CaCl2 solutions, simulated milk ultrafiltrate and reconstituted skim milk using a recently developed Donnan Membrane Technique (DMT). A calcium ion selective electrode was used to compare the DMT results

  12. ¬¬¬¬ SURVIVAL OF Cronobacter sakazakii IN SKIM MILK DURING SPRAY DRYING, STORAGE AND RECONSTITUTION [Ketahanan Hidup Cronobacter sakazakii dalam Susu Skim selama Proses Pengeringan Semprot, Penyimpanan dan Rekonstitusi

    Directory of Open Access Journals (Sweden)

    Lilis Nuraida1,2

    2012-12-01

    Full Text Available Cronobacter sakazakii is an emerging pathogen known to survive dry conditions and its presence in powder infant formula (PIF has been linked to several outbreaks. In Indonesia, isolation of this bacterium from various foods have been reported. The objective of this study was to determine the effect of spray drying and storage humidity on the survival of C. sakazakii YRc3a in skim milk and their viability upon reconstitution. The survival of Cronobacter during spray drying was determined by comparing the number of bacteria before and after drying. The viability of Cronobacter in spray dried skim milk (SDSM during storage was observed at weeks 1 to 8 and 12. At the same intervals, SDSM containing the pathogens was reconstituted at either 27°C or 50°C and the survivors were enumerated. The data were plotted to yield survival curves. Spray drying caused 4.19 log CFU/g reduction of Cronobacter and the bacteria experiencing drying were less sensitive to reconstitution at 50°C. During storage, the water activity of SDSM reached equilibrium at week 2 and afterwards, they started to decrease when stored at 50% or 90% RH, but maintained its viability at 70% RH. Storage at 50% and 90% RH accelerated the death rate of C. sakazakii YRc3a, resulting in the decline of the viable counts for 3 log cycles. At 50% RH, C. sakazakii Yrc3a decreased significantly, but the survivors exhibited increased heat resistance with the lowest reduction upon reconstitution at 50°C (0.16 log CFU/ml.

  13. MeSH Browser的使用方法

    Institute of Scientific and Technical Information of China (English)

    赵玲秀; 万丽娟; 吴新晖

    2002-01-01

    @@ MeSH Browser,浏览器,是在Internet网上利用电子版MeSH来确定主题词、副主题词,以便检索MEDLINE及其相关数据库的必备工具.网上电子版MeSH是由美国国立医学图书馆提供的最新版MeSH,它包括注释字顺表、树形结构表、轮排表及补充的化学记录等内容.与印刷版MeSH相比,它版本较新;包括季度更新内容,还包括主题词注释表、主题词轮排表及补充的化学记录等印刷版中没有的内容.

  14. Calibration of the SH134-20 Standard Gain Horn

    DEFF Research Database (Denmark)

    Pivnenko, Sergey; Breinbjerg, Olav

    This report documents the measurement of the linearly polarized SH134-20 Standard Gain Horn. The measurement comprises on-axis gain, on-axis polarization characteristics, and reflection coefficient at 111 frequencies in the frequency range from 22-33 GHz. The measurement was carried out at the DT......-ESA Spherical Near-Field Antenna Test Facility in December 2012 for SE Laboratories, Santa Clara, CA, USA....

  15. Antiplane response of isosceles triangular hill to incident SH waves

    Institute of Scientific and Technical Information of China (English)

    Qiu Faqiang; Liu Diankui

    2005-01-01

    In this paper, antiplane response of an isosceles triangular hill to incident SH waves is studied based on the method of complex function and by using moving coordinate system. The standing wave function, which can satisfy the governing equation and boundary condition, is provided. Furthermore, numerical examples are presented; the influences of wave number and angle of the incident waves and the angle of the hill's peak on ground motion are discussed.

  16. Influence of colloidal calcium phosphate level on the microstructure and rheological properties of rennet-induced skim milk gels

    DEFF Research Database (Denmark)

    Koutina, Glykeria; Knudsen, Jes Christian; Andersen, Ulf

    2015-01-01

    lactose, to obtain varying levels of micellar calcium and phosphorus but constant value of pH, serum and free calcium, and serum phosphorus. Bovine chymosin was added to the skim milk samples after dialysis and microstructural and rheological properties during gel formation were recorded at 30°C. Samples...... of rennet gel formation. The protein network of rennet gels after dialysis was more compact with many aggregates as demineralization decreased. The small protein particles are able to increase the potential connection points among proteins, support particle fusion and cause a compact structure....... after dialysis needed approximately 30min after the addition of chymosin to form rennet gels. In addition, low micellar calcium and phosphorus values were both found to correlate with slightly less time for the gels to be formed. This information highlights the importance of CCP in the primary phase...

  17. Improvement of frozen semen quality of Garut Sheep through the addition of α-tocopherol into yolk egg-skim milk diluent

    Directory of Open Access Journals (Sweden)

    Herdis

    2002-03-01

    Full Text Available The sperm is very fragile to lipid peroxide reaction, that it can easily broken during the process of freezing. To eliminate this consequences an antioxidant agent added into the extender. A research was done to observe the effect of antioxidant agent α-tocoferrol and butylated hydroxytoluene (BHT presence in the extender on the quality of frozen semen. Once week, semen from six male Garut sheep ages about 2.5 years old was collected using artificial vagina and egg yolk skim-milk diluent used as the extender. The semen were treated in egg yolk skim-milk diluent without antioxidant as control, in egg yolk skim-milk diluent with α- tocoferrol 0,2 g/100 ml diluent and in egg yolk skim-milk diluent with butylated hydroxytoluene 0,2 g/100 ml diluent. The after thawing observation shown that in egg yolk skim-milk diluent with α- tocoferrol had life percentage (75.0 ± 3.5% vs 64.8 ± 7.8% and membrane intact percentage (65.8 ± 6.8 % vs 55.2 ± 8.3% significantly higher than control (P<0,05 but insignificantly different from with BHT addition. The presence of α-tocoferrol in the diluent, the motility percentage consideraly higher (P<0.05 than (45.8 ± 3.8% using BHT addition (40.0 ± 4.5% but not different from control (41.7 ± 4.1%; while acrosomal intake percentage after α-tocoferrol (54.8% ± 3.3% expressively higher (p,0.05 than BHT addition (49.7 ± 3.6% or control (49.8 ± 3.5%. In conclusion the presence of α-tocoferrol in the diluent could improve the quality of Garut sheep frozen semen.

  18. Focusing phenomenon and near-trapped modes of SH waves

    Science.gov (United States)

    Chen, Jeng-Tzong; Lee, Jia-Wei; Tu, Ya-Ching

    2016-09-01

    In this study, the null-field boundary integral equation method (BIEM) and the image method are used to solve the SH wave scattering problem containing semi-circular canyons and circular tunnels. To fully utilize the analytical property of circular geometry, the polar coordinates are used to expand the closed-form fundamental solution to the degenerate kernel, and the Fourier series is also introduced to represent the boundary density. By collocating boundary points to match boundary condition on the boundary, a linear algebraic system is constructed. The unknown coefficients in the algebraic system can be easily determined. In this way, a semi-analytical approach is developed. Following the experience of near-trapped modes in water wave problems of the full plane, the focusing phenomenon and near-trapped modes for the SH wave problem of the half-plane are solved, since the two problems obey the same mathematical model. In this study, it is found that the SH wave problem containing two semi-circular canyons and a circular tunnel has the near-trapped mode and the focusing phenomenon for a special incident angle and wavenumber. In this situation, the amplification factor for the amplitude of displacement is over 300.

  19. Sh2-205: II. Its quiescent stellar formation activity

    CERN Document Server

    Romero, G A

    2009-01-01

    We present a study of active stellar forming regions in the environs of the HII region Sh2-205. The analysis is based on data obtained from point source catalogues and images extracted from 2MASS, MSX, and IRAS surveys. Complementary data are taken from CO survey. The identification of primary candidates to stellar formation activity is made following colour criteria and the correlation with molecular gas emission. A number of stellar formation tracer candidates are projected on two substructures of the HII region: SH148.83-0.67 and SH149.25-0.00. However, the lack of molecular gas related to these structures casts doubts on the nature of the sources. Additional infrared sources may be associated with the HI shell centered at (l,b) = (149\\degr 0\\arcmin, -1\\degr 30\\arcmin). The most striking active area was found in connection to the HII region LBN 148.11-0.45, where stellar formation candidates are projected onto molecular gas. The analytical model to the "collect and collapse" process shows that stellar form...

  20. Effect of argan oil on liquid storage of ram semen in Tris or skim milk based extenders.

    Science.gov (United States)

    Allai, Larbi; Druart, Xavier; Contell, Jesus; Louanjli, Noureddine; Moula, Anass Ben; Badi, Abdelmoughit; Essamadi, Abdelkhalid; Nasser, Boubker; El Amiri, Bouchra

    2015-09-01

    Due to its high antioxidant content, the argan oil could play a beneficial role in liquid storage of ram semen. The aim of this study was to investigate effects of different concentration of argan oil (ARO) on spermatologic parameters, lipid peroxidation and DNA fragmentation during liquid storage of ram semen until 48 h. Also effects of extenders and temperature on same parameters were assessed. For these aims, semen samples were collected from Boujaâd rams, extended with Tris egg yolk or skim milk extenders without (control) or supplemented with different concentrations of ARO (1%, 2%, 5% and 10% v/v) at a final concentration of 0.8 × 10(9) sperm/mL and stored until 48 h at 5 °C or 15 °C. The sperm quality assessments were performed at different intervals during storage (0, 8, 24 and 48 h). Sperm progressive motility started to decrease after 8h of storage in all temperatures--extenders combinations and dropped steadily during the 8-48 h interval. However, sperm viability, progressive motility and membrane integrity were markedly higher in ARO groups (especially in 1% in Tris and 5% in skim milk) until 24h and 48 h storage at both temperatures compared to controls. The argan oil also decreased the level of spontaneous and induced malondialdehyde (MDA) and the sperm DNA fragmentation until 48 h storage. In conclusion, it was determined that addition of argan oil to conventional extenders may improve the quality of ram semen during liquid storage in different temperatures.

  1. Effects of temperature and supplementation with skim milk powder on microbial and proteolytic properties during storage of cottage cheese.

    Science.gov (United States)

    Oh, Nam Su; Lee, Hyun Ah; Myung, Jae Hee; Joung, Jae Yeon; Lee, Ji Young; Shin, Yong Kook; Baick, Seung Chun

    2014-06-28

    The aim of this study was to determine the effects of temperature and supplementation with skim milk powder (SMP) on the microbial and proteolytic properties during the storage of cottage cheese. Cottage cheese was manufactured using skim milk with 2% SMP and without SMP as the control, and then stored at 5°C or 12°C during 28 days. The chemical composition of the cottage cheese and the survival of the cheese microbiota containing starter lactic acid bacteria (SLAB) and non-starter culture lactic acid bacteria (NSLAB) were evaluated. In addition, changes in the concentration of lactose and lactic acid were analyzed, and proteolysis was evaluated through the measurement of acid soluble nitrogen (ASN) and nonprotein nitrogen (NPN), as well as electrophoresis profile analysis. The counts of SLAB and NSLAB increased through the addition of SMP and with a higher storage temperature (12°C), which coincided with the results of the lactose decrease and lactic acid production. Collaborating with these microbial changes, of the end of storage for 28 days, the level of ASN in samples at 12°C was higher than those at 5°C. The NPN content was also progressively increased in all samples stored at 12°C. Taken together, the rate of SLAB and NSLAB proliferation during storage at 12°C was higher than at 5°C, and consequently it led to increased proteolysis in the cottage cheese during storage. However, it was relatively less affected by SMP fortification. These findings indicated that the storage temperature is the important factor for the quality of commercial cottage cheese.

  2. Microencapsulation of Lactobacillus acidophilus La-5 by spray-drying using sweet whey and skim milk as encapsulating materials.

    Science.gov (United States)

    Maciel, G M; Chaves, K S; Grosso, C R F; Gigante, M L

    2014-01-01

    The aim of this study was to evaluate the effect of encapsulating material on encapsulation yield, resistance to passage through simulated gastrointestinal conditions, and viability of Lactobacillus acidophilus La-5 during storage. Microparticles were produced from reconstituted sweet whey or skim milk (30% total solids) inoculated with a suspension of L. acidophilus La-5 (1% vol/vol) and subjected to spray-drying at inlet and outlet temperatures of 180°C and 85 to 95°C, respectively. The samples were packed, vacuum-sealed, and stored at 4°C and 25°C. Encapsulation yield, moisture content, and resistance of microencapsulated L. acidophilus La-5 compared with free cells (control) during exposure to in vitro gastrointestinal conditions (pH 2.0 and 7.0) were evaluated. Viability was assessed after 0, 7, 15, 30, 45, 60, and 90d of storage. The experiments were repeated 3 times and data were analyzed by ANOVA and Tukey test for the comparison between means. The encapsulating material did not significantly affect encapsulation yield, average diameter, or moisture of the particles, which averaged 76.58±4.72%, 12.94±0.78μm, and 4.53±0.32%, respectively. Both microparticle types were effective in protecting the probiotic during gastrointestinal simulation, and the skim milk microparticles favored an increase in viability of L. acidophilus La-5. Regardless of the encapsulating material and temperature of storage, viability of the microencapsulated L. acidophilus La-5 decreased on average 0.43 log cfu/g at the end of 90d of storage, remaining higher than 10(6)cfu/g. Copyright © 2014 American Dairy Science Association. Published by Elsevier Inc. All rights reserved.

  3. Does Discipline Only Skim the Surface? The Relationship between Teachers' Races and Student Discipline in Elementary and Secondary Schools

    Science.gov (United States)

    Sturgess, Tonya K.

    2011-01-01

    Black students have been shown to receive disproportionally more discipline in schools than their White peers. At the classroom level, differences in teacher characteristics could influence the rate at which discipline referrals are written. Classroom management skills vary between teachers based upon the strengths and weaknesses individual…

  4. Does Discipline Only Skim the Surface? The Relationship between Teachers' Races and Student Discipline in Elementary and Secondary Schools

    Science.gov (United States)

    Sturgess, Tonya K.

    2011-01-01

    Black students have been shown to receive disproportionally more discipline in schools than their White peers. At the classroom level, differences in teacher characteristics could influence the rate at which discipline referrals are written. Classroom management skills vary between teachers based upon the strengths and weaknesses individual…

  5. Intracellular cytoplasm-specific delivery of SH3 and SH2 domains of SLAP inhibits TcR-mediated signaling.

    Science.gov (United States)

    Kim, Jung-Ho; Moon, Jae-Seung; Yu, JiSang; Lee, Sang-Kyou

    2015-05-08

    Signaling events triggered by T cell receptor (TcR) stimulation are important targets for the development of common therapeutics for various autoimmune diseases. SLAP is a negative regulator of TcR-mediated signaling cascade via targeting TcR zeta chain for degradation through recruiting the ubiquitin ligase c-Cbl. In this study, we generated a transducible form of SH3 and SH2 domains of SLAP (ctSLAPΔC) which can be specifically targeted to the cytoplasm of a cell. ctSLAPΔC inhibited tyrosine phosphorylation of signaling mediators such as ZAP-70 and LAT involved in T cell activation, and effectively suppressed transcriptional activity of NFAT and NFκB upon TcR stimulation. The transduced ctSLAPΔC in T cells blocked the secretion of T cell-specific cytokines such as IL-2, IFNγ, IL-17A, and IL-4 and induced the expression of CD69 and CD25 on effector T cells without influencing the cell viability. Inhibition of TcR-mediated signaling via SLAP blocked the differentiation of naïve T cells into Th1, Th2 or Treg cells with different sensitivity, suggesting that qualitative and quantitative intensity of TcR-mediated signaling in the context of polarizing cytokines environment may be a critical factor to determine the differentiation fate of naïve T cells. These results suggest that cytoplasm-specific transduction of the SH3 and SH2 domains of SLAP has a therapeutic potential of being an immunosuppressive reagent for the treatment of various autoimmune diseases.

  6. Nonlinear Acoustics of Bounded Solid-Reflection and Refraction of Second-Order Bulk Waves(Ⅱ)——SV- or SH- Wave Incidence

    Institute of Scientific and Technical Information of China (English)

    钱祖文

    1994-01-01

    In the case of SV- or SH-wave oblique incidence,the reflection and refraction of the second-order bulk waves resulting from a plane boundary between two solid media are investigated and the mathematical expressions of them are given.It is shown that an SH-wave incidence is absolutely necessary to an overall knowledge of the relationship between the TOEs for isotropic solid.The importance of both contributions of the nonaccumulation waves and the effects of the boundary surface are indicated by numerical computation.

  7. Revised spectroscopic parameters of SH(+) from ALMA and IRAM 30m observations.

    Science.gov (United States)

    Müller, Holger S P; Goicoechea, Javier R; Cernicharo, José; Agúndez, Marcelino; Pety, Jérôme; Cuadrado, Sara; Gerin, Maryvonne; Dumas, Gaëlle; Chapillon, Edwige

    2014-09-19

    Hydrides represent the first steps of interstellar chemistry. Sulfanylium (SH(+)), in particular, is a key tracer of energetic processes. We used ALMA and the IRAM 30 m telescope to search for the lowest frequency rotational lines of SH(+) toward the Orion Bar, the prototypical photo-dissociation region illuminated by a strong UV radiation field. On the basis of previous Herschel/HIFI observations of SH(+), we expected to detect emission of the two SH(+) hyperfine structure (HFS) components of the NJ = 10-01 fine structure (FS) component near 346 GHz. While we did not observe any lines at the frequencies predicted from laboratory data, we detected two emission lines, each ~15 MHz above the SH(+) predictions and with relative intensities and HFS splitting expected for SH(+). The rest frequencies of the two newly detected lines are more compatible with the remainder of the SH(+) laboratory data than the single line measured in the laboratory near 346 GHz and previously attributed to SH(+). Therefore, we assign these new features to the two SH(+) HFS components of the NJ = 10-01 FS component and re-determine its spectroscopic parameters, which will be useful for future observations of SH(+), in particular if its lowest frequency FS components are studied. Our observations demonstrate the suitability of these lines for SH(+) searches at frequencies easily accessible from the ground.

  8. MeSH-Informed Enrichment Analysis and MeSH-Guided Semantic Similarity Among Functional Terms and Gene Products in Chicken

    Directory of Open Access Journals (Sweden)

    Gota Morota

    2016-08-01

    Full Text Available Biomedical vocabularies and ontologies aid in recapitulating biological knowledge. The annotation of gene products is mainly accelerated by Gene Ontology (GO, and more recently by Medical Subject Headings (MeSH. Here, we report a suite of MeSH packages for chicken in Bioconductor, and illustrate some features of different MeSH-based analyses, including MeSH-informed enrichment analysis and MeSH-guided semantic similarity among terms and gene products, using two lists of chicken genes available in public repositories. The two published datasets that were employed represent (i differentially expressed genes, and (ii candidate genes under selective sweep or epistatic selection. The comparison of MeSH with GO overrepresentation analyses suggested not only that MeSH supports the findings obtained from GO analysis, but also that MeSH is able to further enrich the representation of biological knowledge and often provide more interpretable results. Based on the hierarchical structures of MeSH and GO, we computed semantic similarities among vocabularies, as well as semantic similarities among selected genes. These yielded the similarity levels between significant functional terms, and the annotation of each gene yielded the measures of gene similarity. Our findings show the benefits of using MeSH as an alternative choice of annotation in order to draw biological inferences from a list of genes of interest. We argue that the use of MeSH in conjunction with GO will be instrumental in facilitating the understanding of the genetic basis of complex traits.

  9. Effect of Fortifying Camel’s Milk with Skim Milk Powder on the Physicochemical, Microbiological and Sensory Characteristics of Set Yoghurt

    Directory of Open Access Journals (Sweden)

    Mortada Mohammed Salih

    2013-06-01

    Full Text Available The present study was carried out in the milk processing unit at college of animal production Science and Technology, Sudan University of Science and Technology during January-May 2012. The effect of fortification with skim milk powder (0, 5 and 7% to the camel’s milk on the quality of yoghurt during storage was investigated. Fresh camel’s milk was purchased from Alaas farm at Khartoum North. Nine litres of raw camel’s milk were divided into three portions. The first treatment was used as control. To the other two treatments 5 and 7% of skim milk powder was added to the camels milk respectively, then the milk in each treatment was heated in a water bath at 85°C for 30 min. Milk samples were cooled to 43°C and 2% of commercial yoghurt starter culture was added and packed into plastic cups (200 g capacity in triplicates. The plastic containers were incubated at 39°C until coagulation occurred (16 h thereafter samples from different treatments were stored at 4°C for 0, 5and 10 days. Yoghurt Samples were taken for chemical, microbiological and sensory analysis.The results indicated that yoghurt treated with 7% skim milk powder had the highest viscosity value (p≤0.01 during storage period. The control yoghurt had the highest pH value (p≤0.01 during storage period in comparison with other treatments. In this study no significant differences in chemical composition of the yoghurt from different treatments during storage were observed. The yoghurt sample treated with 7% skim milk powder was significantly higher (p≤0.05 in total bacterial count (7.70×106 cfu/mL than the control yoghurt (5.29×106 cfu/mL. No variations were observed in lactic acid bacteria count. Coliforms and E.coli bacteria were not detected in tested samples. The results indicated that yoghurt treated with 7% skim milk powder had the highest (p≤0.01 flavour. Also there was significant difference (p≤0.05 in overall acceptability in tested treatments. It is concluded

  10. Composition, yield, and functionality of reduced-fat Oaxaca cheese: effects of using skim milk or a dry milk protein concentrate.

    Science.gov (United States)

    Caro, I; Soto, S; Franco, M J; Meza-Nieto, M; Alfaro-Rodríguez, R H; Mateo, J

    2011-02-01

    The effect of adding either skim milk or a commercial dry milk protein concentrate (MPC) to whole milk on the composition, yield, and functional properties of Mexican Oaxaca cheese were investigated. Five batches of Oaxaca cheeses were produced. One batch (the control) was produced from whole milk containing 3.5% fat and 9% nonfat solids (SNF). Two batches were produced from milk standardized with skim milk to 2.7 and 1.8% fat, maintaining the SNF content at 9%. In the other 2 batches, an MPC (40% protein content) was used to standardize the milk to a SNF content of 10 and 11%, maintaining the milk fat content at 3.5%. The use of either skim milk or MPC caused a significant decrease in the fat percentage in cheese. The use of skim milk or MPC showed a nonsignificant tendency to lower total solids and fat recoveries in cheese. Actual, dry matter, and moisture-adjusted cheese yields significantly decreased with skim milk addition, but increased with MPC addition. However, normalized yields adjusted to milk fat and protein reference levels did not show significant differences between treatments. Considering skim milk-added and control cheeses, actual yield increased with cheese milk fat content at a rate of 1.34 kg/kg of fat (R=0.88). In addition, cheese milk fat and SNF:fat ratio proved to be strong individual predictors of cheese moisture-adjusted yield (r(2) ≈ 0.90). Taking into account the results obtained from control and MPC-added cheeses, a 2.0-kg cheese yield increase rate per kg of milk MPC protein was observed (R=0.89), with TS and SNF being the strongest predictors for moisture adjusted yield (r(2) ≈ 0.77). Reduced-fat Oaxaca cheese functionality differed from that of controls. In unmelted reduced-fat cheeses, hardness and springiness increased. In melted reduced-fat cheeses, meltability and free oil increased, but stretchability decreased. These changes were related to differences in cheese composition, mainly fat in dry matter and calcium in SNF.

  11. Insights into Substrate Specificity of NlpC/P60 Cell Wall Hydrolases Containing Bacterial SH3 Domains

    Energy Technology Data Exchange (ETDEWEB)

    Xu, Qingping; Mengin-Lecreulx, Dominique; Liu, Xueqian W.; Patin, Delphine; Farr, Carol L.; Grant, Joanna C.; Chiu, Hsiu-Ju; Jaroszewski, Lukasz; Knuth, Mark W.; Godzik, Adam; Lesley, Scott A.; Elsliger, Marc-André; Deacon, Ashley M.; Wilson, Ian A.

    2015-09-15

    ABSTRACT

    Bacterial SH3 (SH3b) domains are commonly fused with papain-like Nlp/P60 cell wall hydrolase domains. To understand how the modular architecture of SH3b and NlpC/P60 affects the activity of the catalytic domain, three putative NlpC/P60 cell wall hydrolases were biochemically and structurally characterized. These enzymes all have γ-d-Glu-A2pm (A2pm is diaminopimelic acid) cysteine amidase (ordl-endopeptidase) activities but with different substrate specificities. One enzyme is a cell wall lysin that cleaves peptidoglycan (PG), while the other two are cell wall recycling enzymes that only cleave stem peptides with an N-terminall-Ala. Their crystal structures revealed a highly conserved structure consisting of two SH3b domains and a C-terminal NlpC/P60 catalytic domain, despite very low sequence identity. Interestingly, loops from the first SH3b domain dock into the ends of the active site groove of the catalytic domain, remodel the substrate binding site, and modulate substrate specificity. Two amino acid differences at the domain interface alter the substrate binding specificity in favor of stem peptides in recycling enzymes, whereas the SH3b domain may extend the peptidoglycan binding surface in the cell wall lysins. Remarkably, the cell wall lysin can be converted into a recycling enzyme with a single mutation.

    IMPORTANCEPeptidoglycan is a meshlike polymer that envelops the bacterial plasma membrane and bestows structural integrity. Cell wall lysins and recycling enzymes are part of a set of lytic enzymes that target covalent bonds connecting the amino acid and amino sugar building blocks of the PG network. These hydrolases are involved in processes such as cell growth and division, autolysis, invasion, and PG turnover and recycling. To avoid cleavage of unintended substrates, these enzymes have very selective substrate specificities. Our biochemical and structural

  12. Extreme population inversion in the fragments formed by UV photoinduced S-H bond fission in 2-thiophenethiol.

    Science.gov (United States)

    Ingle, Rebecca A; Karsili, Tolga N V; Dennis, Gregg J; Staniforth, Michael; Stavros, Vasilios G; Ashfold, Michael N R

    2016-04-28

    H atom loss following near ultraviolet photoexcitation of gas phase 2-thiophenethiol molecules has been studied experimentally, by photofragment translational spectroscopy (PTS) methods, and computationally, by ab initio electronic structure calculations. The long wavelength (277.5 ≥ λ(phot) ≥ 240 nm) PTS data are consistent with S-H bond fission after population of the first (1)πσ* state. The partner thiophenethiyl (R) radicals are formed predominantly in their first excited Ã(2)A' state, but assignment of a weak signal attributable to H + R(X˜(2)A'') products allows determination of the S-H bond strength, D0 = 27,800 ± 100 cm(-1) and the Ã-X˜ state splitting in the thiophenethiyl radical (ΔE = 3580 ± 100 cm(-1)). The deduced population inversion between the à and X˜ states of the radical reflects the non-planar ground state geometry (wherein the S-H bond is directed near orthogonal to the ring plane) which, post-photoexcitation, is unable to planarise sufficiently prior to bond fission. This dictates that the dissociating molecules follow the adiabatic fragmentation pathway to electronically excited radical products. π* ← π absorption dominates at shorter excitation wavelengths. Coupling to the same (1)πσ* potential energy surface (PES) remains the dominant dissociation route, but a minor yield of H atoms attributable to a rival fragmentation pathway is identified. These products are deduced to arise via unimolecular decay following internal conversion to the ground (S0) state PES via a conical intersection accessed by intra-ring C-S bond extension. The measured translational energy disposal shows a more striking change once λ(phot) ≤ 220 nm. Once again, however, the dominant decay pathway is deduced to be S-H bond fission following coupling to the (1)πσ* PES but, in this case, many of the evolving molecules are deduced to have sufficiently near-planar geometries to allow passage through the conical intersection at extended S-H bond

  13. S.H. and others v. Austria and circumvention tourism.

    Science.gov (United States)

    Glenn Cohen, I

    2012-12-01

    This commentary discusses the decision in S.H. and Others v. Austria from a political theoretical and bioethical perspective. I focus on the opinion's discussion of what I call 'circumvention tourism', travelling abroad for the purpose of circumventing domestic prohibitions, especially as to medical services. The majority opinion in the case touts Austria's allowance of circumvention tourism for reproductive technology services that are illegal on Austrian soil as a reason to find as lawful Austria's prohibition on using those services on Austrian soil. To the contrary, I show that, in many ways, permitting circumvention tourism for these services while prohibiting them domestically is deeply problematic.

  14. Novel SH-SAW gas sensor based on graphene

    Science.gov (United States)

    Nikolaou, I.; Hallil, H.; Deligeorgis, G.; Conedera, V.; Garcia, H.; Dejous, C.; Rebière, D.

    2015-05-01

    In this article, a novel gas sensor platform has been studied. Several layers of graphene have been deposited on a SH-SAW, as a sensitive layer. Innovative methods of graphene solutions have been prepared in order to explore gas sensing applications. The real time detection measurement of the coated sensor under ethanol and humidity is presented. The adsorption of vapors leads to a frequency shift of 10.5 kHz and 22.7 kHz, at exposure of 100 ppm of ethanol and 6.22% of Relative Humidity, respectively. The experiments have been realized at room temperature; rapid response and recovery time were observed.

  15. 脱脂奶溶蛋白琼脂扩散抑制试验检测兔血清中嗜水气单胞菌胞外蛋白酶的抗体%Detection of the antibody to extracellular proteases of A.hydrophillaby skim milk proteolysis agar diffusion inhabit test

    Institute of Scientific and Technical Information of China (English)

    朱杰青; 吉传义; 陆承平

    2001-01-01

    利用蛋白酶的溶蛋白特性,结合琼脂免疫扩散试验,建立了脱脂奶溶蛋白琼脂扩散抑制试验的新方法,用以检测兔血清中的嗜水气单胞菌(Aeromonas hyd rophilla)胞外蛋白酶抗体。同时与琼脂扩散免疫沉淀试验及ELISA试验进行了比较,结果显示,该方法的敏感性优于琼脂扩散免疫沉淀试验,而与ELISA试验相当。%A new method—skim milk proteolysis agar diffusion inhabit test was established according to the proteolysis character of proteases and the agar immunodiffusion test(AIDT).The new method was used to detect the antibody to extrocellular proteases of Aeromonas hydrophila from rabbit serum.And compared with the agar immunodiffusion test and the ELISA,it sh owed that the new method was more sensitive than the AIDT and equal as ELISA.

  16. Interaction of SH-SY5Y cells with nanogratings during neuronal differentiation: comparison with primary neurons.

    Science.gov (United States)

    Tonazzini, Ilaria; Cecchini, Alessandra; Elgersma, Ype; Cecchini, Marco

    2014-04-01

    Controlling neuronal cell adhesion, migration, and axonal outgrowth via contact interactions with biomaterials is a critical element for tissue engineering applications and for developing artificial neuronal interfaces. One promising approach relies on the exploitation of nanostructured surfaces. Here, the human neuroblastoma cell line SH-SY5Y is interfaced with plastic nanogratings (NGs; anisotropic topographies composed by alternating lines of grooves and ridges with sub-micrometer lateral dimension). The SH-SY5Y cells' (SHs) contact guidance is investigated under proliferating conditions and upon differentiation after treatment with retinoic acid (RA) and brain-derived neurotrophin factor (BDNF), and compared with mouse primary hippocampal neurons (HNs). Quantitative readouts are obtained by measuring changes in tubulin cytoskeleton organization and cell morphology induced by mechanotransduction. Results demonstrate that SHs effectively retrieve substrate topographical signals, in particular during differentiation. Remarkably, RA/BDNF improves SH responsiveness to NG directional cues, and significantly enhances the alignment to the NG lines. HNs behave similarly, showing a marked change in network organization if cultured on NGs. These results might help the rational engineering of neuro-regenerative scaffolds to improve peripheral nerve wound healing, as well as to investigate the basic mechanisms of neuronal wiring.

  17. Electrochemical sensing platform for L-CySH based on nearly uniform Au nanoparticles decorated graphene nanosheets.

    Science.gov (United States)

    Xu, Fugui; Wang, Fan; Yang, Duanguang; Gao, Yong; Li, Huaming

    2014-05-01

    In this study, Au nanoparticles decorated graphene nanosheets were prepared using poly(vinylpyrrolidone) (PVP) covalently functionalized graphene oxide and chloroauric acid as template and Au precursor, respectively. Both the density and the size of Au nanoparticles deposited on the surface of graphene could be adjusted by the PVP grafting density. The graphene-Au hybrid nanosheets were then applied to fabricate a highly sensitive l-cysteine (L-CySH) electrochemical sensing platform. The cyclic voltammetry results showed that the modified glassy carbon electrode with graphene-Au hybrid nanosheets exhibited strong catalytic activity toward the electrooxidation of L-CySH. The current exhibited a widely linear response ranging from 0.1 to 24 μM with a low detection limit under the optimized conditions. The detection limit of L-CySH could reach as low as 20.5 nM (S/N=3). The enhanced electrochemical performance of the fabricated sensor was attributed to the combination of the excellent conductivity of graphene and strong catalytic property of uniform Au nanoparticles.

  18. Skim Milk, Whey, and Casein Increase Body Weight and Whey and Casein Increase the Plasma C-Peptide Concentration in Overweight Adolescents12

    DEFF Research Database (Denmark)

    Arnberg, Karina; Mølgaard, Christian; Michaelsen, Kim Fleischer

    2012-01-01

    insulin, and insulin secretion estimated as the plasma C-peptide concentration in overweight adolescents. Overweight adolescents (n = 203) aged 12–15 y with a BMI of 25.4 ± 2.3 kg/m2 (mean ± SD) were randomized to 1 L/d of skim milk, whey, casein, or water for 12 wk. All milk drinks contained 35 g protein...... and with the water and pretest control groups. The plasma C-peptide concentration increased from baseline to wk 12 in the whey and casein groups and increments were greater than in the pretest control (P ... that high intakes of skim milk, whey, and casein increase BAZs in overweight adolescents and that whey and casein increase insulin secretion. Whether the effect on body weight is primary or secondary to the increased insulin secretion remains to be elucidated....

  19. Ultrafiltration of skimmed goat milk increases its nutritional value by concentrating nonfat solids such as proteins, Ca, P, Mg, and Zn.

    Science.gov (United States)

    Moreno-Montoro, Miriam; Olalla, Manuel; Giménez-Martínez, Rafael; Bergillos-Meca, Triana; Ruiz-López, María Dolores; Cabrera-Vique, Carmen; Artacho, Reyes; Navarro-Alarcón, Miguel

    2015-11-01

    Goat milk has been reported to possess good nutritional and health-promoting properties. Usually, it must be concentrated before fermented products can be obtained. The aim of this study was to compare physicochemical and nutritional variables among raw (RM), skimmed (SM), and ultrafiltration-concentrated skimmed (UFM) goat milk. The density, acidity, ash, protein, casein, whey protein, Ca, P, Mg, and Zn values were significantly higher in UFM than in RM or SM. Dry extract and fat levels were significantly higher in UFM than in SM, and Mg content was significantly higher in UFM than in RM. Ultrafiltration also increased the solubility of Ca and Mg, changing their distribution in the milk. The higher concentrations of minerals and proteins, especially caseins, increase the nutritional value of UFM, which may therefore be more appropriate for goat milk yogurt manufacturing in comparison to RM or SM.

  20. Purification of polyclonal antibodies from Cohn fraction II + III, skim milk, and whey by affinity chromatography using a hexamer peptide ligand.

    Science.gov (United States)

    Menegatti, Stefano; Naik, Amith D; Gurgel, Patrick V; Carbonell, Ruben G

    2012-11-01

    HWRGWV, a peptide that binds specifically to the Fc fragment of human immunoglobulin G (IgG), was used for the purification of IgG from Cohn fraction II + III of human plasma and from bovine skim milk and whey. The concentration of sodium chloride and sodium caprylate in the binding buffer as well as the pH of the elution buffer were optimized to achieve high IgG yield and purity. Under optimized conditions, IgG was recovered from plasma fractions with yield and purity up to 84% and 95%, respectively. IgG was also purified from skim milk with 74% yield and 92% purity and from whey with 85% yield and 93% purity. Purification experiments were also performed with Protein A resin and the results were found to be similar to those obtained with the peptide adsorbent.

  1. Molecular water motions of skim milk powder solutions during acidification studied by 17O and 1H nuclear magnetic resonance and rheology

    DEFF Research Database (Denmark)

    Møller, S M; Whittaker, A. K.; Stokes, J. R.

    2011-01-01

    The molecular motion of water was studied in glucono-δ-lactone-acidified skim milk powder (SMP) solutions with various pH values and dry matter contents. NMR relaxometry measurements revealed that lowering the pH in SMP solutions affected 17O and 1HT2 relaxation rates almost identically. Conseque......The molecular motion of water was studied in glucono-δ-lactone-acidified skim milk powder (SMP) solutions with various pH values and dry matter contents. NMR relaxometry measurements revealed that lowering the pH in SMP solutions affected 17O and 1HT2 relaxation rates almost identically....... Consequently, the present study indicates that the proteins present in the samples do not affect the 1H relaxation behavior markedly, even at relatively high SMP concentrations (1525%). Comparison of rheological measurements and NMR measurements suggested that the collapse of k-casein during acidification...

  2. GoSh: a goat and sheep ESTs database

    Directory of Open Access Journals (Sweden)

    P. Mariani

    2010-04-01

    Full Text Available The GoSh database (http://www.itb.cnr.it/gosh/ is an online resource including expressedsequence tags (ESTs from Ovis aries and Capra hircus. A total of 58,990 sheep and goat sequences were downloadedfrom GenBank and processed by a semi-automated pipeline, integrating public programs and Perl scripts.Data were collected in a MySQL database, which can be queried via a PHP-based web interface. Sequences wereassembled and a unigene dataset was defined. Three annotation procedures were carried out on all the ESTsequences and all the contig consensus sequences. A procedure was also implemented to infer statistical classificationamong Gene Ontology (GO categories from the ontology occurrences related to the sequences included in thedatabase. A number of programs were used to extract features and give significance to rough sequences. Amongthese, AutoSNP was used to perform putative SNP detection. Further analyses were performed on the GoSh dbdataset, including tandem repeats search and protein patterns identification. The web interface allows users toretrieve significant data and correspondent external links and to download selected sequences and accessory informationin different formats. The resulting web site is a resource of data and links related to goat and sheepexpressed genes.

  3. SKIM MILK POWDER, WHEY POWDER AND MILK AND WHEY MIXTURES IN POWDER PRODUCED IN MINISPRAY DRYER:ISOTHERM ANALYSIS AND APPLICATION OF THE BET MODEL

    OpenAIRE

    Perrone, Ítalo Tuler; Carvalho, Antônio Fernandes de; Pereira, João Pablo Fortes; Stringueta, Paulo César; Silva, Paulo Henrique Fonseca da

    2013-01-01

    In this study whey powders and skim milk powder were produced in laboratory scale. Water vapor sorption for each powder was measured gravimetrically. The results of the isothermal adsorption were in agreement with the BET model and the quantities of water in the monolayer, obtained by the model, were less than the total quant ities of water in the powder s. Laboratory scale production of milk and whey powders showed that increasing whey percentage in the mixture of milk and whey before drying...

  4. Inactivation effect of X-ray treatments on Cronobacter species (Enterobacter sakazakii) in tryptic soy broth, skim milk, low-fat milk and whole-fat milk.

    Science.gov (United States)

    Mahmoud, B S M

    2009-11-01

    To determine the inactivation effect of X-ray treatments on Cronobacter (E. sakazakii) in tryptic soy broth (TSB), skim milk (0% fat), low-fat milk (1% and 2%) and whole-fat milk (3.5%). X-rays were produced using the RS 2400 generator system (Rad Source Technologies Inc.). Cronobacter (in TSB), inoculated skim milk (0% fat), low-fat milk (1% and 2% fat) and whole-fat milk (3.5% fat) were treated with 0.0, 0.1, 0.5, 0.75, 1.0, 2.0, 3.0, 4.0, 5.0 and 6.0 kGy X-ray doses. Surviving bacteria in the TSB and inoculated milk, before and after treatment, were enumerated using plating method onto trypticase soy agar. Greater than 7.0-log CFU reduction in Cronobacter population was observed with 4.0, 5.0, 6.0, 6.0 and 6.0 kGy X-ray in the TSB, skim milk, 1% fat milk, 2% fat milk and 3.5% fat milk, respectively. Treatment with X-rays significantly (P industry.

  5. Production of conjugated linoleic and conjugated α-linolenic acid in a reconstituted skim milk-based medium by bifidobacterial strains isolated from human breast milk.

    Science.gov (United States)

    Villar-Tajadura, María Antonia; Rodríguez-Alcalá, Luis Miguel; Martín, Virginia; Gómez de Segura, Aránzazu; Rodríguez, Juan Miguel; Requena, Teresa; Fontecha, Javier

    2014-01-01

    Eight bifidobacterial strains isolated from human breast milk have been tested for their abilities to convert linoleic acid (LA) and α-linolenic acid (LNA) to conjugated linoleic acid (CLA) and conjugated α-linolenic acid (CLNA), respectively. These bioactive lipids display important properties that may contribute to the maintenance and improvement human health. Three selected Bifidobacterium breve strains produced CLA from LA and CLNA from LNA in MRS (160-170 and 210-230 μg mL(-1), resp.) and, also, in reconstituted skim milk (75-95 and 210-244 μg mL(-1), resp.). These bifidobacterial strains were also able to simultaneously produce both CLA (90-105 μg mL(-1)) and CLNA (290-320 μg mL(-1)) in reconstituted skim milk. Globally, our findings suggest that these bifidobacterial strains are potential candidates for the design of new fermented dairy products naturally containing very high concentrations of these bioactive lipids. To our knowledge, this is the first study describing CLNA production and coproduction of CLA and CLNA by Bifidobacterium breve strains isolated from human milk in reconstituted skim milk.

  6. Production of Conjugated Linoleic and Conjugated α-Linolenic Acid in a Reconstituted Skim Milk-Based Medium by Bifidobacterial Strains Isolated from Human Breast Milk

    Directory of Open Access Journals (Sweden)

    María Antonia Villar-Tajadura

    2014-01-01

    Full Text Available Eight bifidobacterial strains isolated from human breast milk have been tested for their abilities to convert linoleic acid (LA and α-linolenic acid (LNA to conjugated linoleic acid (CLA and conjugated α-linolenic acid (CLNA, respectively. These bioactive lipids display important properties that may contribute to the maintenance and improvement human health. Three selected Bifidobacterium breve strains produced CLA from LA and CLNA from LNA in MRS (160–170 and 210–230 μg mL−1, resp. and, also, in reconstituted skim milk (75–95 and 210–244 μg mL−1, resp.. These bifidobacterial strains were also able to simultaneously produce both CLA (90–105 μg mL−1 and CLNA (290–320 μg mL−1 in reconstituted skim milk. Globally, our findings suggest that these bifidobacterial strains are potential candidates for the design of new fermented dairy products naturally containing very high concentrations of these bioactive lipids. To our knowledge, this is the first study describing CLNA production and coproduction of CLA and CLNA by Bifidobacterium breve strains isolated from human milk in reconstituted skim milk.

  7. Genetic loss of SH2B3 in acute lymphoblastic leukemia

    Science.gov (United States)

    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.

    2013-01-01

    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. PMID:23908464

  8. Molecular Basis of Interactions Between SH3 Domain-Containing Proteins and the Proline-Rich Region of the Ubiquitin Ligase Itch.

    Science.gov (United States)

    Desrochers, Guillaume; Cappadocia, Laurent; Lussier-Price, Mathieu; Ton, Anh-Tien; Ayoubi, Riham; Serohijos, Adrian; Omichinski, James G; Angers, Annie

    2017-02-24

    The ligase Itch plays major roles in signalling pathways by inducing ubiquitylation-dependent degradation of several substrates. Substrate recognition and binding is critical for the regulation of this reaction. Like closely related ligases, Itch can interact with proteins containing a PPxY motif via its WW domains. In addition to these WW domains, Itch possesses a proline-rich region (PRR) that has been shown to interact with several Src Homology 3 (SH3) domain-containing proteins. We have previously established that despite the apparent surface uniformity and conserved fold of SH3 domains, they display different binding mechanisms and affinities for their interaction with the PRR of Itch. Here, we attempt to determine the molecular bases underlying the wide range of binding properties of the Itch PRR. Using pull-down assays combined with mass spectrometry analysis, we show that the Itch PRR preferentially forms complexes with Endophilins, Amphyphisins and Pacsins, but can also target a variety of other SH3 domain-containing proteins. In addition, we map the binding sites of these proteins using a combination of PRR sub-sequences and mutants. We find that different SH3 domains target distinct proline-rich sequences overlapping significantly. We also structurally analyze these protein complexes using crystallography and molecular modelling. These structures depict the position of Itch PRR engaged in a 1:2 protein complex with β-PIX and a 1:1 complex with the other SH3 domain-containing proteins. Taken together, these results reveal the binding preferences of the Itch PRR towards its most common SH3 domain-containing partners, and demonstrate that the PRR region is sufficient for binding.

  9. Sequencing of the mitochondrial genome of the avocado lace bug Pseudacysta perseae (Heteroptera, Tingidae) using a genome skimming approach.

    Science.gov (United States)

    Kocher, Arthur; Guilbert, Éric; Lhuillier, Émeline; Murienne, Jerôme

    2015-03-01

    Lace bugs (Tingidae) are a family of phytophagous heteropterans, some of which are important agricultural and forestry pests. They currently comprise around 2500 species distributed worldwide, for which only one mitochondrial genome has been described so far. We sequenced the complete mitochondrial genome and the nuclear ribosomal gene segment of the avocado lace bug Pseudacysta perseae using a genome skimming approach on an Illumina Hiseq 2000 platform. Fifty-four additional heteropteran mitogenomes, including the one of the sycamore lace bug Corythucha ciliata, were retrieved to allow for comparisons and phylogenetic analyses. P. perseae mitochondrial genome was determined to be 15,850 bp long, and presented the typical organisation of insect mitogenomes. The phylogenetic analysis placed P. perseae as a sister to C. ciliata but did not confirm the monophyly of Miroidae including Tingidae. Our results contradicted widely accepted phylogenetic hypothesis, which highlights the limits of analyses based on mitochondrial data only. Shotgun sequencing approaches should provide substantial improvements in harmonizing mitochondrial and nuclear databases.

  10. Virus recovering from strawberries: Evaluation of a skimmed milk organic flocculation method for assessment of microbiological contamination.

    Science.gov (United States)

    Melgaço, Fabiana Gil; Victoria, Matias; Corrêa, Adriana Abreu; Ganime, Ana Carolina; Malta, Fábio Correia; Brandão, Marcelo Luiz Lima; de Mello Medeiros, Valéria; de Oliveira Rosas, Carla; Bricio, Silvia Maria Lopes; Miagostovich, Marize Pereira

    2016-01-18

    Skimmed milk organic flocculation method was adapted, optimized and compared with polyethylene glycol (PEG) precipitation and filtration methods for recovering viruses from a strawberry matrix. Spiking experiments with norovirus genogroup II genotype 4 (NoV GII.4) and murine norovirus 1 (MNV-1) demonstrated that the organic flocculation method associated with a glycine elution buffer, filter bag and cetyltrimethylammonium bromide (CTAB) showed a recovery percentage of 2.5 and 32 times higher than PEG precipitation and filtration methodologies for NoV recovering. Furthermore, this method was used for investigating NoV and human adenoviruses (HAdVs) in 90 samples of fresh strawberries commercialized in Rio de Janeiro markets. NoV GI and GII were not detected in those samples and MNV-1, used as internal process control (IPC), was recovered in 95.5% (86) of them. HAdVs were detected in 18 (20.0%) samples and characterized by nucleotide sequencing as Human Mastadenovirus specie F and as type specie HAdV-2. Bacterial analysis did not detect Salmonella spp. and Listeria monocytogenes, however, 3.3% of fecal coliforms were detected in those samples. These results indicate the organic flocculation method as an alternative for recovering enteric viruses from strawberries, emphasizing a need for virus surveillance in food matrices.

  11. Antimicrobial activity of the Nisin Z producer Lactococcus lactis subsp. lactis Lc08 against Listeria monocytogenes in skim milk

    Directory of Open Access Journals (Sweden)

    L.M. Perin

    2013-10-01

    Full Text Available The presented study aimed to verify the effect of different pH values, enzyme solutions and heat treatments on the antimicrobial activity of the bacteriocinogenic strain Lactococcus lactis subsp. lactis Lc08 and to test their antimicrobial activity against Listeria monocytogenes in reconstituted skim milk at refrigeration temperatures. This strain was previously described as a nisin Z producer and capable of inhibiting L. monocytogenes growth in in vitro tests. The antimicrobial activity of the bacteriocin cell-free supernatant of Lc08 was sensitive to enzyme treatments (except papain. The pH values and heating (65ºC for 30min, 75ºC for 15s had no apparent effect on the antimicrobial activity of the bacteriocin produced by Lc08. Only treatment at autoclave conditions result in loss of their antimicrobial activity. Lc08 presented antimicrobial activity against L. monocytogenes in the milk system after 12h at 25ºC. No effect was found at 7ºC. The results show the application viability of the Lc08 in food systems as a biopreservative against L. monocytogenes.

  12. Viability and fertility of cooled equine semen diluted with skimmed milk or glycine egg yolk-based extenders

    Directory of Open Access Journals (Sweden)

    Guilherme Pugliesi

    2012-12-01

    Full Text Available Two semen extenders were compared for their ability to maintain viability of horse semen during 24 hours of cold preservation, and for the pregnancy rate after artificial insemination. In the experiment 1, five ejaculates from three stallions were split-diluted in either a skimmed milk-based extender (Kenney extender or a glycine egg yolk-based extender (Foote extender and cooled at 6-8 ºC for 24 hours. Semen samples stored in Kenney extender for 24 hours had higher motility and spermatic vigor compared with those stored in Foote extender. However, samples stored in Foote extender had higher number of reactive sperm by hypoosmotic test and greater viability by epifluorescence test compared with those in Kenney extender. In the experiment 2, 17 and 23 ejaculates from two stallions were split-diluted with Kenney extender and Foote extender. The sperm concentration in each extender was adjusted to 500 million viable sperms per insemination dose. Semen was cooled to 6-8 ºC and stored for 24 hours. Seventy-four cycles of crossbred mares were inseminated with either semen diluted in Kenney extender or semen diluted in Foote extender. The pregnancy rate was higher from semen diluted in Kenney extender than that from semen in Foote extender (0.553 vs. 0.306. The Kenney extender is effective in preserving the motility, vigor and fertility of stallion semen after 24 hours of cold storage, whereas the Foote extender is not acceptable.

  13. Effect of increased intake of skimmed milk, casein, whey or water on body composition and leptin in overweight adolescents

    DEFF Research Database (Denmark)

    Larnkjær, Anni; Arnberg, Karina; Michaelsen, Kim F.

    2015-01-01

     weeks before start of intervention. Outcomes included leptin and dual-energy X-ray absorptiometry scanning. The effects of the milk-based drinks on body composition and leptin were compared with baseline, pre-test control and water. RESULTS: Lean mass index (LMI) increased compared to baseline (all 95...... and leptin in overweight adolescents. METHODS: Subjects (n = 193) aged 12-15 years were randomized to drink 1 L d(-1) of skimmed milk, whey, casein (all milk-based drinks 35 g protein L(-1) ) or water for 12 weeks. Twenty participants dropped out. A pre-test control group of 32 adolescents was examined 12......% confidence intervals 0.05-0.50 kg m(-2) , all P ≤ 0.009) and the pre-test control group (0.044-0.247 kg m(-2) , P ≤ 0.002) for all four test drinks. Fat mass index (FMI) increased only for milk-based drink groups compared with baseline (0.15-0.67 kg m(-2) , P 

  14. Genome skimming reveals the origin of the Jerusalem Artichoke tuber crop species: neither from Jerusalem nor an artichoke.

    Science.gov (United States)

    Bock, Dan G; Kane, Nolan C; Ebert, Daniel P; Rieseberg, Loren H

    2014-02-01

    The perennial sunflower Helianthus tuberosus, known as Jerusalem Artichoke or Sunchoke, was cultivated in eastern North America before European contact. As such, it represents one of the few taxa that can support an independent origin of domestication in this region. Its tubers were adopted as a source of food and forage when the species was transferred to the Old World in the early 1600s, and are still used today. Despite the cultural and economic importance of this tuber crop species, its origin is debated. Competing hypotheses implicate the occurrence of polyploidization with or without hybridization, and list the annual sunflower H. annuus and five distantly related perennial sunflower species as potential parents. Here, we test these scenarios by skimming the genomes of diverse populations of Jerusalem Artichoke and its putative progenitors. We identify relationships among Helianthus taxa using complete plastomes (151 551 bp), partial mitochondrial genomes (196 853 bp) and 35S (8196 bp) and 5S (514 bp) ribosomal DNA. Our results refute the possibility that Jerusalem Artichoke is of H. annuus ancestry. We provide the first genetic evidence that this species originated recursively from perennial sunflowers of central-eastern North America via hybridization between tetraploid Hairy Sunflower and diploid Sawtooth Sunflower. © 2013 The Authors. New Phytologist © 2013 New Phytologist Trust.

  15. Rheological properties of concentrated skim milk: importance of soluble minerals in the changes in viscosity during storage.

    Science.gov (United States)

    Bienvenue, A; Jiménez-Flores, R; Singh, H

    2003-12-01

    Properties of condensed milks prior to spray drying dictate to a large extent the functionality of the resulting milk powder. Rheological properties of concentrated skim milk, with total solids content of 45% but different mineral content, were studied as a function of shear rate and storage time at 50 degrees C. These milks are proposed as a model to study the effects of minerals on rheology and age gellation of condensed milk prior to drying. During storage of the concentrated milk, the apparent viscosity, particularly after 4 h, increased markedly at all shear rates studied. The yield stress also increased steeply after 4 h of storage at 50 degrees C. The changes in apparent viscosity of concentrated milk stored for up to 4 h were largely reversible under high shear, but irreversible in samples stored for longer time. The appearance of yield stress suggested the presence of reversible flocculation arising from weak attraction between casein micelles, with a transition from reversible to irreversible aggregation during storage. Particle size analysis confirmed irreversible aggregation and fusion of casein micelles during storage. Gradual reduction of mineral content of concentrated milks resulted in a marked decrease in the apparent viscosity and casein micelle aggregation during storage, while addition of minerals to milk had the opposite effect. The results demonstrated that the soluble mineral content is very important in controlling the storage-induced changes in the rheology of concentrated milks.

  16. Effect of concentration, homogenization and stabilizing salts on heat stability and rheological properties of cow skim milk ultrafiltered retentate.

    Science.gov (United States)

    Meena, Ganga Sahay; Singh, Ashish Kumar; Borad, Sanket; Panjagari, Narender Raju

    2016-11-01

    Ultrafiltration (UF) of skimmed milk altered the composition of UF retentate and decreased the heat stability. Heat stability further reduced upon its subsequent homogenization or diafiltration. Poor heat stability of UF retentate restricts its processing at elevated temperatures. Therefore, this study was aimed to investigate the effect of protein concentration, homogenization and addition of stabilizing salts on the heat stability and rheological properties of UF retentates. Changes in the heat stability of fivefold homogenized UF retentate (5× HUFR) was studied in the pH range of 6.1-7.0. Disodium phosphate and trisodium citrate significantly increased the heat coagulation time (HCT) from 1.45 min (pH 6.41) to 120 min (at pH 6.5, 6.6, 7.0) and 80 min (pH 6.6), respectively. Significant reduction in ζ-potential of UF retentates was observed with an increase in calcium and reduction in pH during UF process. Rheological behaviour of retentates above threefold concentration exhibited Herschel-Bulkley behavior with linear increase in flow behavior index (n). Changes in the viscosity of the homogenized retentates were measured at the respective pH of maximum heat stability as a function of temperature (20-80 °C). Promising approaches that might improve the heat stability, solubility and other functional properties of protein rich powders have been discussed in this article.

  17. Addition of pectin and soy soluble polysaccharide affects the particle size distribution of casein suspensions prepared from acidified skim milk.

    Science.gov (United States)

    Liu, JinRu; Nakamura, Akihiro; Corredig, Milena

    2006-08-23

    Pectins are negatively charged polysaccharides employed as stabilizers in acidified milk dispersions, where caseins aggregate because of the low pH and serum separation needs to be prevented. The objective of this research was to study the effect of charge on the stabilizing functionality of the polysaccharide in acid milk drinks. Unstandardized pectins with various charges (as degree of esterification, DE) as well as soybean soluble polysaccharide (SSPS) were tested for their stabilizing behavior as a function of pH and concentration. Skim milk was acidified by glucono-delta-lactone and then homogenized in the presence of polysaccharide at different pH values (in the range from 4.2 to 3.0). Measurements of particle size distribution demonstrated that pectins with a DE of 71.4, 68.6, and 67.4 stabilized milk at pH > 4.0. Pectins with a lower DE (63.9%) needed a higher concentration (0.4%) at the same pH to show a monomodal distribution of particle sizes. Pectins with lower DE (milk, at pH milk dispersion was pH-dependent, and results were similar to those for samples containing pectin alone. This suggested that in the mixture, pectin dominated the behavior over SSPS, even when an excess of SSPS was added to the dispersions before homogenization.

  18. Effects of Ethanolic Ferolagu angulata Extract on Pathogenic Gastrointestinal Bacteria and Probiotic Bacteria in Skimmed Milk Medium

    Directory of Open Access Journals (Sweden)

    Reza Naghiha

    2016-12-01

    Full Text Available Background:    Due to excessive consumption of synthetic drugs, drug resistance rate of pathogenic bacteria is increasing and there is an ever-increasing need to find new safe compounds to tackle this problem. This study was conducted to investigate the consequences of chavill extract on the growth and viability of gastrointestinal pathogenic bacterium and probiotics bacteria. Methods:    The experiment contained three levels of the chavill extract concentrations (0, 1 and 3% which were added to the milk free fat in accompany with three probiotic bacteria (Lactobacillus acidophilus, Lactobacillus casei and lactobacillus plantaram and a pathogenic gastrointestinal bacterium (Salmonella typhimurium. Bacterial inoculums (1×107 CFU/ml with different concentrations of chavill extract were added to skimmed milk medium and bacteria growth were enumerated. Results:  The concentration of 1% chavill extract significantly increased the total count of probiotic bacteria compared to the control group, while the number of pathogenic bacteria was decreased. At 3% chavill extract the growth of Lactobacillus acidophilus and Lactobacillus plantaram were increased. On the other hand, it prevented the growth of Salmonella typhimurium Conclusion:   Chavill extracts would play as an alternative to antibiotics in pharmacological studies to decreases harmful bacteria and increase probiotic bacteria.

  19. Effect of starter culture and inulin addition on microbial viability, texture, and chemical characteristics of whole or skim milk Kefir

    Directory of Open Access Journals (Sweden)

    Flávia Daiana Montanuci

    2012-12-01

    Full Text Available The effect of inulin addition and starters (Kefir grains or commercial starter culture on the microbial viability, texture, and chemical characteristics of Kefir beverages prepared with whole or skim milk was evaluated during refrigerated storage. The type of starter did not influence microbial viability during the storage of the beverages, but the chemical and textural changes (decreases in pH, lactose concentration, and inulin and increased acidity, firmness, and syneresis were more pronounced in the formulations fermented with grains than those fermented with the starter culture. The addition of inulin did not influence acidity or viability of lactic acid bacteria, but in general, its effect on the survival of acetic acid bacteria, Lactococcus and yeasts, firmness, and syneresis depended on the type of milk and starter culture used. Generally, the yeast, acetic acid bacteria, and Leuconostoc counts increased or remained unchanged, while the total population of lactic acid bacteria and Lactococcus were either reduced by 1 to 2 logs or remained unchanged during storage.

  20. Multiplexing seven miRNA-Based shRNAs to suppress HIV replication.

    Science.gov (United States)

    Choi, Jang-Gi; Bharaj, Preeti; Abraham, Sojan; Ma, Hongming; Yi, Guohua; Ye, Chunting; Dang, Ying; Manjunath, N; Wu, Haoquan; Shankar, Premlata

    2015-02-01

    Multiplexed miRNA-based shRNAs (shRNA-miRs) could have wide potential to simultaneously suppress multiple genes. Here, we describe a simple strategy to express a large number of shRNA-miRs using minimal flanking sequences from multiple endogenous miRNAs. We found that a sequence of 30 nucleotides flanking the miRNA duplex was sufficient for efficient processing of shRNA-miRs. We inserted multiple shRNAs in tandem, each containing minimal flanking sequence from a different miRNA. Deep sequencing of transfected cells showed accurate processing of individual shRNA-miRs and that their expression did not decrease with the distance from the promoter. Moreover, each shRNA was as functionally competent as its singly expressed counterpart. We used this system to express one shRNA-miR targeting CCR5 and six shRNA-miRs targeting the HIV-1 genome. The lentiviral construct was pseudotyped with HIV-1 envelope to allow transduction of both resting and activated primary CD4 T cells. Unlike one shRNA-miR, the seven shRNA-miR transduced T cells nearly abrogated HIV-1 infection in vitro. Additionally, when PBMCs from HIV-1 seropositive individuals were transduced and transplanted into NOD/SCID/IL-2R γc(-/-) mice (Hu-PBL model) efficient suppression of endogenous HIV-1 replication with restoration of CD4 T cell counts was observed. Thus, our multiplexed shRNA appears to provide a promising gene therapeutic approach for HIV-1 infection.

  1. The SH2D2A gene and susceptibility to multiple sclerosis

    DEFF Research Database (Denmark)

    Lorentzen, A.R.; Smestad, C.; Lie, B.A.

    2008-01-01

    We previously reported an association between the SH2D2A gene encoding TSAd and multiple sclerosis (MS). Here a total of 2128 Nordic MS patients and 2004 controls were genotyped for the SH2D2A promoter GA repeat polymorphism and rs926103 encoding a serine to asparagine substitution at amino acid...... that the SH2D2A gene may contribute to susceptibility to MS Udgivelsesdato: 2008/7/15...

  2. Dynamics of the Tec-family tyrosine kinase SH3 domains.

    Science.gov (United States)

    Roberts, Justin M; Tarafdar, Sreya; Joseph, Raji E; Andreotti, Amy H; Smithgall, Thomas E; Engen, John R; Wales, Thomas E

    2016-04-01

    The Src Homology 3 (SH3) domain is an important regulatory domain found in many signaling proteins. X-ray crystallography and NMR structures of SH3 domains are generally conserved but other studies indicate that protein flexibility and dynamics are not. We previously reported that based on hydrogen exchange mass spectrometry (HX MS) studies, there is variable flexibility and dynamics among the SH3 domains of the Src-family tyrosine kinases and related proteins. Here we have extended our studies to the SH3 domains of the Tec family tyrosine kinases (Itk, Btk, Tec, Txk, Bmx). The SH3 domains of members of this family augment the variety in dynamics observed in previous SH3 domains. Txk and Bmx SH3 were found to be highly dynamic in solution by HX MS and Bmx was unstructured by NMR. Itk and Btk SH3 underwent a clear EX1 cooperative unfolding event, which was localized using pepsin digestion and mass spectrometry after hydrogen exchange labeling. The unfolding was localized to peptide regions that had been previously identified in the Src-family and related protein SH3 domains, yet the kinetics of unfolding were not. Sequence alignment does not provide an easy explanation for the observed dynamics behavior, yet the similarity of location of EX1 unfolding suggests that higher-order structural properties may play a role. While the exact reason for such dynamics is not clear, such motions can be exploited in intra- and intermolecular binding assays of proteins containing the domains.

  3. Multiple shRNA combinations for near-complete coverage of all HIV-1 strains

    Directory of Open Access Journals (Sweden)

    Tran Anna

    2011-01-01

    Full Text Available Abstract Background Combinatorial RNA interference (co-RNAi approaches are needed to account for viral variability in treating HIV-1 with RNAi, as single short hairpin RNAs (shRNA are rapidly rendered ineffective by resistant strains. Current work suggests that 4 simultaneously expressed shRNAs may prevent the emergence of resistant strains. Results In this study we assembled combinations of highly-conserved shRNAs to target as many HIV-1 strains as possible. We analyzed intersecting conservations of 10 shRNAs to find combinations with 4+ matching the maximum number of strains using 1220+ HIV-1 sequences from the Los Alamos National Laboratory (LANL. We built 26 combinations of 2 to 7 shRNAs with up to 87% coverage for all known strains and 100% coverage of clade B subtypes, and characterized their intrinsic suppressive activities in transient expression assays. We found that all combinations had high combined suppressive activities, though there were also large changes in the individual activities of the component shRNAs in our multiple expression cassette configurations. Conclusion By considering the intersecting conservations of shRNA combinations we have shown that it is possible to assemble combinations of 6 and 7 highly active, highly conserved shRNAs such that there is always at least 4 shRNAs within each combination covering all currently known variants of entire HIV-1 subtypes. By extension, it may be possible to combine several combinations for complete global coverage of HIV-1 variants.

  4. Structural characterization of CAS SH3 domain selectivity and regulation reveals new CAS interaction partners.

    Science.gov (United States)

    Gemperle, Jakub; Hexnerová, Rozálie; Lepšík, Martin; Tesina, Petr; Dibus, Michal; Novotný, Marian; Brábek, Jan; Veverka, Václav; Rosel, Daniel

    2017-08-14

    CAS is a docking protein downstream of the proto-oncogene Src with a role in invasion and metastasis of cancer cells. The CAS SH3 domain is indispensable for CAS-mediated signaling, but structural aspects of CAS SH3 ligand binding and regulation are not well understood. Here, we identified the consensus CAS SH3 binding motif and structurally characterized the CAS SH3 domain in complex with ligand. We revealed the requirement for an uncommon centrally localized lysine residue at position +2 of CAS SH3 ligands and two rather dissimilar optional anchoring residues, leucine and arginine, at position +5. We further expanded the knowledge of CAS SH3 ligand binding regulation by manipulating tyrosine 12 phosphorylation and confirmed the negative role of this phosphorylation on CAS SH3 ligand binding. Finally, by exploiting the newly identified binding requirements of the CAS SH3 domain, we predicted and experimentally verified two novel CAS SH3 binding partners, DOK7 and GLIS2.

  5. Interaction between human BAP31 and respiratory syncytial virus small hydrophobic (SH) protein

    Energy Technology Data Exchange (ETDEWEB)

    Li, Yan; Jain, Neeraj; Limpanawat, Suweeraya; To, Janet [School of Biological Sciences, Nanyang Technological University, 637551 (Singapore); Quistgaard, Esben M. [Department of Medical Biochemistry and Biophysics, Karolinska Institutet, Stockholm (Sweden); Nordlund, Par [School of Biological Sciences, Nanyang Technological University, 637551 (Singapore); Department of Medical Biochemistry and Biophysics, Karolinska Institutet, Stockholm (Sweden); Thanabalu, Thirumaran [School of Biological Sciences, Nanyang Technological University, 637551 (Singapore); Torres, Jaume, E-mail: jtorres@ntu.edu.sg [School of Biological Sciences, Nanyang Technological University, 637551 (Singapore)

    2015-08-15

    The small hydrophobic (SH) protein is a short channel-forming polypeptide encoded by the human respiratory syncytial virus (hRSV). Deletion of SH protein leads to the viral attenuation in mice and primates, and delayed apoptosis in infected cells. We have used a membrane-based yeast two-hybrid system (MbY2H) and a library from human lung cDNA to detect proteins that bind SH protein. This led to the identification of a membrane protein, B-cell associated protein 31 (BAP31). Transfected SH protein co-localizes with transfected BAP31 in cells, and pulls down endogenous BAP31. Titration of purified C-terminal endodomain of BAP31 against isotopically labeled SH protein in detergent micelles suggests direct interaction between the two proteins. Given the key role of BAP31 in protein trafficking and its critical involvement in pro- and anti-apoptotic pathways, this novel interaction may constitute a potential drug target. - Highlights: • A yeast two-hybrid system (MbY2H) detected BAP31 as a binder of RSV SH protein. • Transfected SH and BAP31 co-localize in lung epithelial cells. • Endogenous BAP31 is pulled down by RSV SH protein. • BAP31 endodomain interacts with the N-terminal α-helix of SH protein in micelles. • This interaction is proposed to be a potential drug target.

  6. ShRNA-targeted COMMD7 suppresses hepatocellular carcinoma growth.

    Directory of Open Access Journals (Sweden)

    Lu Zheng

    Full Text Available BACKGROUND: COMMD7 is a newly identified gene overexpressed in hepatocellular carcinoma (HCC and associated with tumor invasion and poor prognosis. We aim to examine the biological function of COMMD7 in HCC by shRNA silencing. METHODS: COMMD7 expressions were examined in human HCC cell lines HepG2, Huh7, Hep3B, HLE, HLF, SK-Hep-1 and PLC/PRF/5 cells. Recombinant pGenesil-COMMD7-shRNA was transfected into COMMD7-abundant HepG2 cells to silence COMMD7 expression. The effects of COMMD7 silencing on HepG2 cell proliferation in vitro and xenograft tumor growth in vivo were evaluated. Flow cytometry profiling was used to detect the presence of apoptosis in COMMD7-silenced HepG2 cells and to differentiate cell cycle distribution. Electrophoretic mobility shift assay and luciferase reporter assays to examine the activities of nuclear factor-kappaB (NF-κB signaling pathways in response to tumor necrosis factor (TNF-α in COMMD7-silenced HepG2 cells. RESULTS: COMMD7 expression level was abundance in HepG2 and SK-Hep-1 cells. COMMD7 was aberrantly overexpressed in HepG2 cells, whilst pGenesil-COMMD7-shRNA exhibited a maximal inhibition rate of 75%. COMMD7 silencing significantly reduced HepG2 cell proliferation and colony formation. The knockdown of COMMD7 resulted in an increased apoptosis and cell cycle arrest at S-phase. COMMD7 knockdown also exhibited an antineoplastic effect in vivo, which manifested as tumor xenograft growth retardation. COMMD7 silencing also suppressed the responsiveness of NF-κB signaling pathway to the stimulation with TNF-α in vitro. Moreover, the similar suppressive effects of COMMD7 silence on SK-Hep-1 cells were also observed. CONCLUSIONS: COMMD7 contributes to HCC progression by reducing cell apoptosis and overcoming cell cycle arrest. The proliferative and antiapoptotic effects of COMMD7 may be mediated by NF-κB signaling pathway.

  7. Cellular delivery of shRNA using aptamer-conjugated PLL-alkyl-PEI nanoparticles.

    Science.gov (United States)

    Askarian, Saeedeh; Abnous, Khalil; Taghavi, Sahar; Oskuee, Reza Kazemi; Ramezani, Mohammad

    2015-12-01

    Introduction of an efficient gene delivery vector is still the main challenge of gene therapy. Both polyethylenimine (PEI) and poly(l-lysine) (PLL) comprise disadvantages which limited their application. To explore whether their deficiencies could be compensated by preparing copolymers consisting of both PLL and PEI, we generated several combinations of PLL-alkyl-PEI copolymers conjugated to aptamer and evaluated their both gene delivery efficiency and down-regulation of Bcl-XL, an anti-apoptotic gene, in lung cancer cell line. PLL was conjugated to either 10% or 50% of PEI by grafting different percentages of PEI to alkylated-PLL as core. The properties of modified polymers including size, surface charge density, DNA condensation ability, buffering capacity and cytotoxicity were evaluated. According to transfection results, aptamer conjugated PLL-alkyl-10%-PEI (PLPE8%) was selected for further gene silencing study by plasmid shRNA. Decrease in Bcl-XL gene expression was estimated by both RT-PCR and western-blot experiments. The obtained results revealed that the new copolymers had appropriate nano-scale size (117-128 nm) even after aptamer conjugation (168-183 nm). Moreover, they exhibited increased transfection efficiencies by up to 1.8-5 folds and acceptable cytotoxicity. The apoptosis was induced in transfected cells by shRNA-aptamer-copolymer due to the down-regulation of mRNA and protein levels. This study suggested a new vector for targeted non-viral gene delivery with high transfection efficiency in lung cancer or pulmonary systems. Copyright © 2015 Elsevier B.V. All rights reserved.

  8. Cartographic Production for the FLaSH Map Study: Generation of Rugosity Grids, 2008

    Science.gov (United States)

    Robbins, Lisa L.; Knorr, Paul O.; Hansen, Mark

    2010-01-01

    Project Summary This series of raster data is a U.S. Geological Survey (USGS) Data Series release from the Florida Shelf Habitat Project (FLaSH). This disc contains two raster images in Environmental Systems Research Institute, Inc. (ESRI) raster grid format, jpeg image format, and Geo-referenced Tagged Image File Format (GeoTIFF). Data is also provided in non-image ASCII format. Rugosity grids at two resolutions (250 m and 1000 m) were generated for West Florida shelf waters to 250 m using a custom algorithm that follows the methods of Valentine and others (2004). The Methods portion of this document describes the specific steps used to generate the raster images. Rugosity, also referred to as roughness, ruggedness, or the surface-area ratio (Riley and others, 1999; Wilson and others, 2007), is a visual and quantitative measurement of terrain complexity, a common variable in ecological habitat studies. The rugosity of an area can affect biota by influencing habitat, providing shelter from elements, determining the quantity and type of living space, influencing the type and quantity of flora, affecting predator-prey relationships by providing cover and concealment, and, as an expression of vertical relief, can influence local environmental conditions such as temperature and moisture. In the marine environment rugosity can furthermore influence current flow rate and direction, increase the residence time of water in an area through eddying and current deflection, influence local water conditions such as chemistry, turbidity, and temperature, and influence the rate and nature of sedimentary deposition. State-of-the-art computer-mapping techniques and data-processing tools were used to develop shelf-wide raster and vector data layers. Florida Shelf Habitat (FLaSH) Mapping Project (http://coastal.er.usgs.gov/flash) endeavors to locate available data, identify data gaps, synthesize existing information, and expand our understanding of geologic processes in our dynamic

  9. Selective Targeting of SH2 Domain–Phosphotyrosine Interactions of Src Family Tyrosine Kinases with Monobodies

    Energy Technology Data Exchange (ETDEWEB)

    Kükenshöner, Tim; Schmit, Nadine Eliane; Bouda, Emilie; Sha, Fern; Pojer, Florence; Koide, Akiko; Seeliger, Markus; Koide, Shohei; Hantschel, Oliver

    2017-05-01

    The binding of Src-homology 2 (SH2) domains to phosphotyrosine (pY) sites is critical for the autoinhibition and substrate recognition of the eight Src family kinases (SFKs). The high sequence conservation of the 120 human SH2 domains poses a significant challenge to selectively perturb the interactions of even the SFK SH2 family against the rest of the SH2 domains. We have developed synthetic binding proteins, termed monobodies, for six of the SFK SH2 domains with nanomolar affinity. Most of these monobodies competed with pY ligand binding and showed strong selectivity for either the SrcA (Yes, Src, Fyn, Fgr) or SrcB subgroup (Lck, Lyn, Blk, Hck). Interactome analysis of intracellularly expressed monobodies revealed that they bind SFKs but no other SH2-containing proteins. Three crystal structures of monobody–SH2 complexes unveiled different and only partly overlapping binding modes, which rationalized the observed selectivity and enabled structure-based mutagenesis to modulate inhibition mode and selectivity. In line with the critical roles of SFK SH2 domains in kinase autoinhibition and T-cell receptor signaling, monobodies binding the Src and Hck SH2 domains selectively activated respective recombinant kinases, whereas an Lck SH2-binding monobody inhibited proximal signaling events downstream of the T-cell receptor complex. Our results show that SFK SH2 domains can be targeted with unprecedented potency and selectivity using monobodies. They are excellent tools for dissecting SFK functions in normal development and signaling and to interfere with aberrant SFK signaling networks in cancer cells.

  10. Study of the SH3-donain GRB2-like 2 gene expression in laryngeal carcinoma

    Institute of Scientific and Technical Information of China (English)

    SHANG Chao; FU Wei-neng; GUO Yan; HUANG Dai-fa; SUN Kai-lai

    2007-01-01

    Background Laryngeal carcinoma is a common malignant tumor of the upper respiratory tract, and in 95% of cases the tumor is laryngeal squamous cell carcinoma (LSCC). The abnormity of SH3-domain GRB2-like 2 (SH3GL2) gene was found in LSCC. In order to clarify the relationship between SH3GL2 gene and LSCC, we evaluated the expression of the SH3GL2 gene in LSCC.Method Real-time PCR, immunohistochemistry and Western blotting were used to detect the mRNA and protein expression and find the various rules of SH3GL2 gene in LSCC.Results The result of real-time PCR showed that the expression level of SH3GL2 mRNA in LSCC tissue was apparently down-regulated; immunohistochemical analysis showed that SH3GL2 protein was mainly located in cytoplasm, the rate of positive cells and SH3GL2 protein expression level were fluctuated with the pathological classification of LSCC; the result of Western blotting showed that SH3GL2 protein was down-regulated significantly in LSCC samples, especially in metastatic lymph nodes.Conclusions These results suggest that SH3GL2 is a LSCC related gene and its expression level is fluctuated with the pathological classification which indicate that SH3GL2 participates in the development and progression of LSCC. And it may be considered as a novel tumor marker to find both a new anti-oncogene and relative factors of invasion and metastasis of laryngeal carcinoma.

  11. Inhibition of hepatitis B virus and induction of hepatoma cell apoptosis by ASGPR-directed delivery of shRNAs.

    Science.gov (United States)

    Ma, Jingwei; Huang, Chunmei; Yao, Xinxin; Shi, Chuan; Sun, Lifang; Yuan, Lu; Lei, Ping; Zhu, Huifen; Liu, Hongbo; Wu, Xiongwen; Ning, Qin; Zhou, Chun; Shen, Guanxin

    2012-01-01

    Hepatitis B virus (HBV) infection is a worldwide liver disease and nearly 25% of chronic HBV infections terminate in hepatocellular carcinoma (HCC). Currently, there is no effective therapy to inhibit HBV replication and to eliminate hepatoma cells, making it highly desired to develop novel therapies for these two stages of the HBV-caused detrimental disease. Recently, short hairpin RNA (shRNA) has emerged as a potential therapy for virus-infected disease and cancer. Here, we have generated a shRNA, pGenesil-siHBV4, which effectively inhibits HBV replication in the human hepatoma cell line HepG2.2.15. The inhibitory effects of pGenesil-siHBV4 are manifested by the decrease of both the HBV mRNA level and the protein levels of the secreted HBV surface antigen (HBsAg) and HBV e antigen (HBeAg), and by the reduction of secreted HBV DNA. Using mouse hydrodynamic tail vein injection, we demonstrate that pGenesil-siHBV4 is effective in inhibiting HBV replication in vivo. Because survivin plays a key role in cancer cell escape from apoptosis, we further generated pGenesil-siSurvivin, a survivin-silencing shRNA, and showed its effect of triggering apoptosis of HBV-containing hepatoma cells. To develop targeted shRNA therapy, we have identified that as a specific binder of the asialoglycoprotein receptor (ASGPR), jetPEI-Hepatocyte delivers pGenesil-siHBV4 and pGenesil-siSurvivin specifically to hepatocytes, not other types of cells. Finally, co-transfection of pGenesil-siHBV4 and pGenesil-siSurvivin exerts synergistic effects in inducing hepatoma cell apoptosis, a novel approach to eliminate hepatoma by downregulating survivin via multiple mechanisms. The application of these novel shRNAs with the jetPEI-Hepatocyte targeting strategy demonstrates the proof-of-principle for a promising approach to inhibit HBV replication and eliminate hepatoma cells with high specificity.

  12. Inhibition of hepatitis B virus and induction of hepatoma cell apoptosis by ASGPR-directed delivery of shRNAs.

    Directory of Open Access Journals (Sweden)

    Jingwei Ma

    Full Text Available Hepatitis B virus (HBV infection is a worldwide liver disease and nearly 25% of chronic HBV infections terminate in hepatocellular carcinoma (HCC. Currently, there is no effective therapy to inhibit HBV replication and to eliminate hepatoma cells, making it highly desired to develop novel therapies for these two stages of the HBV-caused detrimental disease. Recently, short hairpin RNA (shRNA has emerged as a potential therapy for virus-infected disease and cancer. Here, we have generated a shRNA, pGenesil-siHBV4, which effectively inhibits HBV replication in the human hepatoma cell line HepG2.2.15. The inhibitory effects of pGenesil-siHBV4 are manifested by the decrease of both the HBV mRNA level and the protein levels of the secreted HBV surface antigen (HBsAg and HBV e antigen (HBeAg, and by the reduction of secreted HBV DNA. Using mouse hydrodynamic tail vein injection, we demonstrate that pGenesil-siHBV4 is effective in inhibiting HBV replication in vivo. Because survivin plays a key role in cancer cell escape from apoptosis, we further generated pGenesil-siSurvivin, a survivin-silencing shRNA, and showed its effect of triggering apoptosis of HBV-containing hepatoma cells. To develop targeted shRNA therapy, we have identified that as a specific binder of the asialoglycoprotein receptor (ASGPR, jetPEI-Hepatocyte delivers pGenesil-siHBV4 and pGenesil-siSurvivin specifically to hepatocytes, not other types of cells. Finally, co-transfection of pGenesil-siHBV4 and pGenesil-siSurvivin exerts synergistic effects in inducing hepatoma cell apoptosis, a novel approach to eliminate hepatoma by downregulating survivin via multiple mechanisms. The application of these novel shRNAs with the jetPEI-Hepatocyte targeting strategy demonstrates the proof-of-principle for a promising approach to inhibit HBV replication and eliminate hepatoma cells with high specificity.

  13. Constructing Molecular Marker Linkage Maps of Chromosome 14Sh and 22Sh and QTL Mapping for Major Traits by Use of Substitution Lines of Gossypium hirsutum L.

    Institute of Scientific and Technical Information of China (English)

    GUO Xiang-mo; LUAN Ming-bao; SAHA Sukumar; JENKINS Johnie N

    2008-01-01

    @@ CSB14Sh,which is isogenic for its recurrent parent TM-1 except for chromosome 14 short arm,was crossed with TM-1,and the F2 population was produced.A total of 3800 SSR primer pairs covering the whole genome were used to screen polymorphism among two parents,TM-1 and CSB14Sh,and their F1 progeny,which resulted in 15 polymorphic primer pairs.The 15 polymorphic primer pairs amplified 23 marker loci.

  14. CARMA2sh and ULK2 control pathogen-associated molecular patterns recognition in human keratinocytes: psoriasis-linked CARMA2sh mutants escape ULK2 censorship.

    Science.gov (United States)

    Scudiero, Ivan; Mazzone, Pellegrino; D'Andrea, Luca E; Ferravante, Angela; Zotti, Tiziana; Telesio, Gianluca; De Rubis, Gabriele; Reale, Carla; Pizzulo, Maddalena; Muralitharan, Shanmugakonar; Vito, Pasquale; Stilo, Romania

    2017-02-23

    The molecular complexes formed by specific members of the family of CARMA proteins, the CARD domain-containing adapter molecule BCL10 and MALT1 (CBM complex) represent a central hub in regulating activation of the pleiotropic transcription factor NF-κB. Recently, missense mutations in CARMA2sh have been shown to cause psoriasis in a dominant manner and with high penetrancy. Here, we demonstrate that in human keratinocytes CARMA2sh plays an essential role in the signal transduction pathway that connects pathogen-associated molecular patterns recognition to NF-κB activation. We also find that the serine/threonine kinase ULK2 binds to and phosphorylates CARMA2sh, thereby inhibiting its capacity to activate NF-κB by promoting lysosomal degradation of BCL10, which is essential for CARMA2sh-mediated NF-κB signaling. Remarkably, CARMA2sh mutants associated with psoriasis escape ULK2 inhibition. Finally, we show that a peptide blocking CARD-mediated BCL10 interactions reduces the capacity of psoriasis-linked CARMA2sh mutants to activate NF-κB. Our work elucidates a fundamental signaling mechanism operating in human keratinocytes and opens to novel potential tools for the therapeutical treatment of human skin disorders.

  15. Design of potentially active ligands for SH2 domains by molecular modeling methods

    Directory of Open Access Journals (Sweden)

    Hurmach V. V.

    2014-07-01

    Full Text Available Search for new chemical structures possessing specific biological activity is a complex problem that needs the use of the latest achievements of molecular modeling technologies. It is well known that SH2 domains play a major role in ontogenesis as intermediaries of specific protein-protein interactions. Aim. Developing an algorithm to investigate the properties of SH2 domain binding, search for new potential active compounds for the whole SH2 domains class. Methods. In this paper, we utilize a complex of computer modeling methods to create a generic set of potentially active compounds targeting universally at the whole class of SH2 domains. A cluster analysis of all available three-dimensional structures of SH2 domains was performed and general pharmacophore models were formulated. The models were used for virtual screening of collection of drug-like compounds provided by Enamine Ltd. Results. The design technique for library of potentially active compounds for SH2 domains class was proposed. Conclusions. The original algorithm of SH2 domains research with molecular docking method was developed. Using our algorithm, the active compounds for SH2 domains were found.

  16. Differential role of SH2-B and APS in regulating energy and glucose homeostasis.

    Science.gov (United States)

    Li, Minghua; Ren, Decheng; Iseki, Masanori; Takaki, Satoshi; Rui, Liangyou

    2006-05-01

    SH2-B and APS, two members of a pleckstrin homology and SH2 domain-containing adaptor family, promote both insulin and leptin signaling in a similar fashion in cultured cells. In addition, APS mediates insulin-stimulated activation of the c-Cbl/CAP/TC10 pathway in cultured adipocytes. Here we characterized genetically modified mice lacking SH2-B, APS, or both to determine the physiological roles of these two proteins in animals. Disruption of the SH2-B gene resulted in obesity, hyperglycemia, hyperinsulinemia, and glucose intolerance. Conversely, deletion of the APS gene did not alter adiposity, energy balance, and glucose metabolism. Energy intake, energy expenditure, fat content, body weight, and plasma insulin, leptin, glucose, and lipid levels were similar between APS(-/-) and WT littermates fed either normal chow or a high-fat diet. Moreover, deletion of APS failed to alter insulin and glucose tolerance. APS(-/-)/SH2-B(-/-) double knockout mice also developed energy imbalance, obesity, hyperleptinemia, hyperinsulinemia, hyperglycemia, and glucose intolerance; however, plasma leptin and insulin levels were significantly lower in APS(-/-)/SH2-B(-/-) than in SH2-B(-/-) mice. These results suggest that SH2-B, but not APS, is a key positive regulator of energy and glucose metabolism in mice.

  17. SH3 Domains Differentially Stimulate Distinct Dynamin I Assembly Modes and G Domain Activity.

    Directory of Open Access Journals (Sweden)

    Sai Krishnan

    Full Text Available Dynamin I is a highly regulated GTPase enzyme enriched in nerve terminals which mediates vesicle fission during synaptic vesicle endocytosis. One regulatory mechanism involves its interactions with proteins containing Src homology 3 (SH3 domains. At least 30 SH3 domain-containing proteins bind dynamin at its proline-rich domain (PRD. Those that stimulate dynamin activity act by promoting its oligomerisation. We undertook a systematic parallel screening of 13 glutathione-S-transferase (GST-tagged endocytosis-related SH3 domains on dynamin binding, GTPase activity and oligomerisation. No correlation was found between dynamin binding and their potency to stimulate GTPase activity. There was limited correlation between the extent of their ability to stimulate dynamin activity and the level of oligomerisation, indicating an as yet uncharacterised allosteric coupling of the PRD and G domain. We examined the two variants, dynamin Iab and Ibb, which differ in the alternately splice middle domain α2 helix. They responded differently to the panel of SH3s, with the extent of stimulation between the splice variants varying greatly between the SH3s. This study reveals that SH3 binding can act as a heterotropic allosteric regulator of the G domain via the middle domain α2 helix, suggesting an involvement of this helix in communicating the PRD-mediated allostery. This indicates that SH3 binding both stabilises multiple conformations of the tetrameric building block of dynamin, and promotes assembly of dynamin-SH3 complexes with distinct rates of GTP hydrolysis.

  18. Revised spectroscopic parameters of SH$^+$ from ALMA and IRAM 30 m observations

    CERN Document Server

    Müller, Holger S P; Cernicharo, José; Agúndez, Marcelino; Pety, Jérôme; Cuadrado, Sara; Gerin, Maryvonne; Dumas, Gaelle; Chapillon, Edwige

    2014-01-01

    Hydrides represent the first steps of interstellar chemistry. Sulfanylium (SH$^+$), in particular, is a key tracer of energetic processes. We used ALMA and the IRAM 30 m telescope to search for the lowest frequency rotational lines of SH$^+$ toward the Orion Bar, the prototypical photo-dissociation region illuminated by a strong UV radiation field. On the basis of previous $Herschel$/HIFI observations of SH$^+$, we expected to detect emission of the two SH$^+$ hyperfine structure (HFS) components of the $N_J = 1_0 - 0_1$ fine structure (FS) component near 346 GHz. While we did not observe any lines at the frequencies predicted from laboratory data, we detected two emission lines, each $\\sim$15 MHz above the SH$^+$ predictions and with relative intensities and HFS splitting expected for SH$^+$. The rest frequencies of the two newly detected lines are more compatible with the remainder of the SH$^+$ laboratory data than the single line measured in the laboratory near 346 GHz and previously attributed to SH$^+$....

  19. A simple and robust vector-based shRNA expression system used for RNA interference.

    Directory of Open Access Journals (Sweden)

    Xue-jun Wang

    Full Text Available BACKGROUND: RNA interference (RNAi mediated by small interfering RNAs (siRNAs or short hairpin RNAs (shRNAs has become a powerful genetic tool for conducting functional studies. Previously, vector-based shRNA-expression strategies capable of inducing RNAi in viable cells have been developed, however, these vector systems have some disadvantages, either because they were error-prone or cost prohibitive. RESULTS: In this report we described the development of a simple, robust shRNA expression system utilizing 1 long oligonucleotide or 2 short oligonucleotides for half the cost of conventional shRNA construction methods and with a >95% cloning success rate. The shRNA loop sequence and stem structure were also compared and carefully selected for better RNAi efficiency. Furthermore, an easier strategy was developed based on isocaudomers which permit rapid combination of the most efficient promoter-shRNA cassettes. Finally, using this method, the conservative target sites for hepatitis B virus (HBV knockdown were systemically screened and HBV antigen expression shown to be successfully suppressed in the presence of connected multiple shRNAs both in vitro and in vivo. CONCLUSION: This novel design describes an inexpensive and effective way to clone and express single or multiple shRNAs from the same vector with the capacity for potent and effective silencing of target genes.

  20. Assigning categorical information to Japanese medical terms using MeSH and MEDLINE.

    Science.gov (United States)

    Onogi, Yuzo

    2007-01-01

    This paper reports on the assigning of MeSH (Medical Subject Headings) categories to Japanese terms in an English-Japanese dictionary using the titles and abstracts of articles indexed in MEDLINE. In a previous study, 30,000 of 80,000 terms in the dictionary were mapped to MeSH terms by normalized comparison. It was reasoned that if the remaining dictionary terms appeared in MEDLINE-indexed articles that are indexed using MeSH terms, then relevancies between the dictionary terms and MeSH terms could be calculated, and thus MeSH categories assigned. This study compares two approaches for calculating the weight matrix. One is the TF*IDF method and the other uses the inner product of two weight matrices. About 20,000 additional dictionary terms were identified in MEDLINE-indexed articles published between 2000 and 2004. The precision and recall of these algorithms were evaluated separately for MeSH terms and non-MeSH terms. Unfortunately, the precision and recall of the algorithms was not good, but this method will help with manual assignment of MeSH categories to dictionary terms.

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

    Science.gov (United States)

    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 ( 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

  2. Scattering of SH-wave from interface cylindrical elastic inclusion with a semicircular disconnected curve

    Institute of Scientific and Technical Information of China (English)

    ZHAO Jia-xi; QI Hui; SU Sheng-wei

    2008-01-01

    Scattering of SH wave from an interface cylindrical elastic inclusion with a semicircular disconnected curve is investigated.The solution of dynamic stress concentration factor is given using the Gteen's function and the method of complex variable functions.First,the space is divided into upper and lower parts along the interface.In the lower half space,a suitable Green's function for the problem is constructed.It is an essential solution of the displacement field for an elastic half space with a semi-cylindrical hill of cylindrical elastic inclusion while bearing out-plane harmonic line source load at the horizontal surface.Thus,the semicircular disconnected curve can be constructed when the two parts are bonded and continuous on the interface loading the undetermined anti-plane forces on the horizontal surfaces.Also,the expressions of displacement and stress fields are obtained in this situation.Finally,examples and results of dynamic stress concentration factor are given.Influences of the cylindrical inclusion and the difierence parameters of the two mediators are discussed.

  3. Four mutations in SH2 and SH3 domains of Bruton`s tyrosine kinase (BTK) resulting in classic X-linked agammaglobulinemia (XLA)

    Energy Technology Data Exchange (ETDEWEB)

    Chen, S.H.; Zhang, M.; Zhu, Q.; Scott, C.R.; Och, H.D. [Univ. of Washington, Seattle, WA (United States)

    1994-09-01

    XLA is an X-linked immunodeficient disease in man resulted from mutations in the BTK gene. BTK contains a unique amino-region of unknown function, SH2 and SH3 (src homology) domains, and a carboxyl-terminal kinase (SH1) domain. We have studied the normal genomic organizations of the SH2 and SH3 domains and found the regions containing 6 exons are about 3000 bp in length. We also carried out sequence analyses of cDNA and genomic DNA of XLA patients to identify mutations. Four of fourteen families with XLA were found to have mutations within the regions. (1) A point mutation G to T in codon 240 resulted in a stop codon. (2) A transition mutation (g to a) at first nucleotide of intron 8 resulted in exon 8 skipping, missing 21 codons and shorter polypeptide but with normal kinase activity and ATP binding ability. (3) An a to t transversion at one of the invariant dinucleotides (ag) of the 3{prime} end of intron 11 resulted in alternative splicing at a position 13 nucleotides downstream from the normal one. The mutation produced mRNA with 13 nucleotide deletion and presumably resulted in a frameshift at codon 372 leading to a stop codon at 398. (4) A 16 nucleotide duplication (1248 to 1263 of the cDNA sequence) consistently present in mRNA of three brothers with XLA. However, genomic sequence of patient DNA of the regions did not reveal the anormaly. The observation that mutations within SH2 and SH3 causing severe B-cell defects typical for XLA suggests that these two domains are crucial for the function of BTK, possibly by regulating the interaction of cytoplasmic proteins involved in signal transduction.

  4. Analysis and Simulation of the Transmission Distortions of the Mobile Digital Television DVB-SH Part 2: Satellite Mode DVB-SH-B with TDM; Part 2: Satellite Mode DVB-SH-B with TDM

    Directory of Open Access Journals (Sweden)

    L. Polak

    2012-04-01

    Full Text Available This paper deals with the second part of the latest digital TV standard DVB-SH (Digital Video Broadcasting – Satellite to Handhelds with focus on utilization of its advantages for the next generation of mobile TV broadcasting. In the second part the simulation model of DVB-SH-B, which is using satellite configuration with TDM (Time Division Multiplexing transmission mode, is presented. The work is especially focused on the description of TDM system configuration. Dependences of BER on C/N ratio for all used types of modulations are compared in the Gaussian (AWGN channel, which is generally used in DVB-SH/S2 standards for exploring of the transmission distortions. Moreover, in case of QPSK modulation, the data transmission was explored in the Ricean fading channel. Finally, achieved results are evaluated and clearly discussed.

  5. Skim milk, whey, and casein increase body weight and whey and casein increase the plasma C-peptide concentration in overweight adolescents.

    Science.gov (United States)

    Arnberg, Karina; Mølgaard, Christian; Michaelsen, Kim Fleischer; Jensen, Signe Marie; Trolle, Ellen; Larnkjær, Anni

    2012-12-01

    In adults, dietary protein seems to induce weight loss and dairy proteins may be insulinotropic. However, the effect of milk proteins in adolescents is unclear. The objective was to test whether milk and milk proteins reduce body weight, waist circumference, homeostatic model assessment, plasma insulin, and insulin secretion estimated as the plasma C-peptide concentration in overweight adolescents. Overweight adolescents (n = 203) aged 12-15 y with a BMI of 25.4 ± 2.3 kg/m(2) (mean ± SD) were randomized to 1 L/d of skim milk, whey, casein, or water for 12 wk. All milk drinks contained 35 g protein/L. Before randomization, a subgroup of adolescents (n = 32) was studied for 12 wk before the intervention began as a pretest control group. The effects of the milk-based test drinks were compared with baseline (wk 0), the water group, and the pretest control group. Diet and physical activity were registered. Outcomes were BMI-for-age Z-scores (BAZs), waist circumference, plasma insulin, homeostatic model assessment, and plasma C-peptide. We found no change in BAZ in the pretest control and water groups, whereas it was greater at 12 wk in the skim milk, whey, and casein groups compared with baseline and with the water and pretest control groups. The plasma C-peptide concentration increased from baseline to wk 12 in the whey and casein groups and increments were greater than in the pretest control (P milk or water group. These data suggest that high intakes of skim milk, whey, and casein increase BAZs in overweight adolescents and that whey and casein increase insulin secretion. Whether the effect on body weight is primary or secondary to the increased insulin secretion remains to be elucidated.

  6. -SH groups and glutathione in cancer patient's blood.

    Science.gov (United States)

    della Rovere, F; Granata, A; Saija, A; Broccio, M; Tomaino, A; Zirilli, A; De Caridi, G; Broccio, G

    2000-01-01

    As reported in previous investigations, erythrocytes are the elements of peripheral blood most affected by free radical activity in the pathogenesis of cancer. In these studies, the level of sulphydrilic groups and reduced glutathione were assayed in the erythrocytes and plasma, while their successful scavenger activity against cell membrane oxidation and peroxidation has already been established. In subjects with cancer, the levels of -SH groups (p < 0.002) and reduced glutathione in both plasma and erythrocytes (p < 0.0001) were shown be a statistically significantly decreased compared to healthy controls. These differences were related to the defence of the hematic tissue against free radical activity. A similar pattern has also been reported when studying vitamin A and E content in the peripheral blood of cancer patients. The role of oxido-reduction phenomena in this disease is discussed, as well as the importance of reducing the oxido-peroxidation involvement of tissues and cell elements. The study of the GSH/GSSG ratio in order to determine the stage of the disease would be useful and might represent a systemic marker for cancerous lesions.

  7. Viral delivery of shRNA to amygdala neurons leads to neurotoxicity and deficits in Pavlovian fear conditioning.

    Science.gov (United States)

    de Solis, Christopher A; Holehonnur, Roopashri; Banerjee, Anwesha; Luong, Jonathan A; Lella, Srihari K; Ho, Anthony; Pahlavan, Bahram; Ploski, Jonathan E

    2015-10-01

    The use of viral vector technology to deliver short hairpin RNAs (shRNAs) to cells of the nervous system of many model organisms has been widely utilized by neuroscientists to study the influence of genes on behavior. However, there have been numerous reports that delivering shRNAs to the nervous system can lead to neurotoxicity. Here we report the results of a series of experiments where adeno-associated viruses (AAV), that were engineered to express shRNAs designed to target known plasticity associated genes (i.e. Arc, Egr1 and GluN2A) or control shRNAs that were designed not to target any rat gene product for depletion, were delivered to the rat basal and lateral nuclei of the amygdala (BLA), and auditory Pavlovian fear conditioning was examined. In our first set of experiments we found that animals that received AAV (3.16E13-1E13 GC/mL; 1 μl/side), designed to knockdown Arc (shArc), or control shRNAs targeting either luciferase (shLuc), or nothing (shCntrl), exhibited impaired fear conditioning compared to animals that received viruses that did not express shRNAs. Notably, animals that received shArc did not exhibit differences in fear conditioning compared to animals that received control shRNAs despite gene knockdown of Arc. Viruses designed to harbor shRNAs did not induce obvious morphological changes to the cells/tissue of the BLA at any dose of virus tested, but at the highest dose of shRNA virus examined (3.16E13 GC/mL; 1 μl/side), a significant increase in microglia activation occurred as measured by an increase in IBA1 immunoreactivity. In our final set of experiments we infused viruses into the BLA at a titer of (1.60E+12 GC/mL; 1 μl/side), designed to express shArc, shLuc, shCntrl or shRNAs designed to target Egr1 (shEgr1), or GluN2A (shGluN2A), or no shRNA, and found that all groups exhibited impaired fear conditioning compared to the group which received a virus that did not express an shRNA. The shEgr1 and shGluN2A groups exhibited gene

  8. Therapeutic Effects of Sodium Hyaluronate on Ocular Surface Damage Induced by Benzalkonium Chloride Preserved Anti-glaucoma Medications

    Directory of Open Access Journals (Sweden)

    Xing Liu

    2015-01-01

    Conclusions: SH significantly improved both symptoms and signs of ocular surface damage in patients with BAC-preserved anti-glaucoma medications treatment. SH could be proposed as a new attempt to reduce ocular surface toxicity, and alleviate symptoms of ocular surface damage in BAC-preserved anti-glaucoma medications treatment.

  9. Source locations of teleseismic P, SV, and SH waves observed in microseisms recorded by a large aperture seismic array in China

    Science.gov (United States)

    Liu, Qiaoxia; Koper, Keith D.; Burlacu, Relu; Ni, Sidao; Wang, Fuyun; Zou, Changqiao; Wei, Yunhao; Gal, Martin; Reading, Anya M.

    2016-09-01

    Transversely polarized seismic waves are routinely observed in ambient seismic energy across a wide range of periods, however their origin is poorly understood because the corresponding source regions are either undefined or weakly constrained, and nearly all models of microseism generation incorporate a vertically oriented single force as the excitation mechanism. To better understand the origin of transversely polarized energy in the ambient seismic wavefield we make the first systematic attempt to locate the source regions of teleseismic SH waves observed in microseismic (2.5-20 s) noise. We focus on body waves instead of surface waves because the source regions can be constrained in both azimuth and distance using conventional array techniques. To locate microseismic sources of SH waves (as well as SV and P waves) we continuously backproject the vertical, radial, and transverse components of the ambient seismic wavefield recorded by a large-aperture array deployed in China during 2013-2014. As expected, persistent P wave sources are observed in the North Atlantic, North Pacific, and Indian Oceans, mainly at periods of 2.5-10 s, in regions with the strong ocean wave interactions needed to produce secondary microseisms. SV waves are commonly observed to originate from locations indistinguishable from the P wave sources, but with smaller signal-to-noise ratios. We also observe SH waves with about half or less the signal-to-noise ratio of SV waves. SH source regions are definitively located in deep water portions of the Pacific, away from the sloping continental shelves that are thought to be important for the generation of microseismic Love waves, but nearby regions that routinely generate teleseismic P waves. The excitation mechanism for the observed SH waves may therefore be related to the interaction of P waves with small-wavelength bathymetric features, such as seamounts and basins, through some sort of scattering process.

  10. A "classical" homodimeric erythropoietin receptor is essential for the antiapoptotic effects of erythropoietin on differentiated neuroblastoma SH-SY5Y and pheochromocytoma PC-12 cells.

    Science.gov (United States)

    Um, Moonkyoung; Gross, Alec W; Lodish, Harvey F

    2007-03-01

    The hematopoietic cytokine erythropoietin (Epo) exerts cytoprotective effects on several types of neuronal cells both in vivo and in culture. Detailed molecular mechanisms underlying this phenomenon have not been elucidated and even the identity of the cytoprotective Epo receptors in neuronal cells is controversial. Here we show that Epo prevents staurosporine-induced apoptosis of differentiated human neuroblastoma SH-SY5Y cells, and activates the STAT5, AKT and MAPK signaling pathways. Differentiated SH-SY5Y cells have fewer than 50 high affinity Epo surface binding sites per cell, which could not be detected by standard assays measuring binding of 125I-labeled Epo. However, by measuring endocytosis of 125I-Epo, we could reliably quantify very small numbers of high-affinity Epo surface binding sites. Using SH-SY5Y cells stably expressing an Epo receptor (EpoR) shRNA and thus lacking detectable EpoR expression, we show that high affinity binding of Epo to these neuronal cells is mediated by the hematopoietic EpoR, and that this EpoR is also essential for the antiapoptotic activity of Epo. In contrast, a mutant Epo that has an intact binding site 1 but a non-functional binding site 2 and hence binds only to one cell surface EpoR molecule ("site 2" Epo mutant) displays significantly lower antiapoptotic activity than wild-type Epo. Furthermore, expression of the GM-CSF/IL-3/IL-5 receptor common beta chain, which was proposed to be responsible for the cytoprotective activity of Epo on certain types of neuronal cells, was undetectable in differentiated SH-SY5Y cells. Epo also alleviated staurosporine-induced apoptosis of rat PC-12 pheochromocytoma cells while the R103A "site 2" Epo mutant did not, and we could not detect expression of the common beta chain in PC-12 cells. Together our results indicate that Epo exerts its antiapoptotic effects on differentiated SH-SY5Y and PC-12 cells through the standard stoichiometry of one molecule of Epo binding to two EpoR subunits

  11. Synthetic Pre-miRNA-Based shRNA as Potent RNAi Triggers

    Directory of Open Access Journals (Sweden)

    Kazuya Terasawa

    2011-01-01

    Full Text Available RNA interference (RNAi is a powerful tool for studying gene function owing to the ease with which it can selectively silence genes of interest, and it has also attracted attention because of its potential for therapeutic applications. Chemically synthesized small interfering RNAs (siRNAs and DNA vector-based short hairpin RNAs (shRNAs are now widely used as RNAi triggers. In contrast to expressed shRNAs, the use of synthetic shRNAs is limited. Here we designed shRNAs modeled on a precursor microRNA (pre-miRNA and evaluated their biological activity. We demonstrated that chemically synthetic pre-miRNA-based shRNAs have more potent RNAi activity than their corresponding siRNAs and found that their antisense strands are more efficiently incorporated into the RNA-induced silencing complex. Although greater off-target effects and interferon responses were induced by shRNAs than by their corresponding siRNAs, these effects could be overcome by simply using a lower concentration or by optimizing and chemically modifying shRNAs similar to synthetic siRNAs. These are challenges for the future.

  12. Synergistic Effect of SH003 and Doxorubicin in Triple-negative Breast Cancer.

    Science.gov (United States)

    Woo, Sang-Mi; Kim, Ah Jeong; Choi, Youn Kyung; Shin, Young Cheol; Cho, Sung-Gook; Ko, Seong-Gyu

    2016-11-01

    Triple-negative breast cancer (TNBC) is highly aggressive, resulting in poor prognosis. Chemotherapy of TNBC relies on anti-cancer agents with strong cytotoxicity, but it causes several side effects with recurrence. While combinational approaches of chemotherapeutics have been highlighted as a new treatment strategy for TNBC to reduce side effects, combinations of anti-cancer agents with herbal medicines have not been reported. We recently reported that newly modified traditional Chinese medicine named SH003 inhibited TNBC growth. Considering a combinational strategy for TNBC treatment, we further studied synergistic effects of SH003 with various anti-cancer drugs in TNBC treatment. Here, we demonstrate that SH003 shows a synergistic effect with doxorubicin on TNBC treatment. Our in vitro cell viability assays revealed that SH003 and doxorubicin showed a synergistic effect in the well-defined TNBC cell line, MDA-MB-231. Moreover, we found that the combinational treatment caused Caspase-dependent apoptotic cell death. Our in vivo mouse xenograft tumor growth assays confirmed that combinational treatment of SH003 with doxorubicin repressed MDA-MB-231 tumor growth with no weight loss. Therefore, we conclude that the combinational treatment of SH003 with doxorubicin shows the synergism in TNBC treatment, and suggest that SH003 can be used together with conventional anti-cancer drugs in chemotherapeutic approaches. Copyright © 2016 John Wiley & Sons, Ltd. Copyright © 2016 John Wiley & Sons, Ltd.

  13. HBV X protein interacts with cytoskeletal signaling proteins through SH3 binding.

    Science.gov (United States)

    Feng, Huixing; Tan, Tuan Lin; Niu, Dandan; Chen, Wei Ning

    2010-01-01

    The aim of this study was to investigate interactions between cellular SH3-containing proteins and the proline-rich domain in Hepatitis B Virus (HBV) X protein (HBx) The proline-rich domain of HBx (amino acids 19-58) as well as the relevant site-directed mutagenesis (proline to alanine residues) were cloned into pGEX-5X-1 and expressed as GST-PXXP and GST-AXXA probes. Panomics SH3 domain arrays were probed using both GST-PXXP and GST-AXXA to identify potential interacting SH3 domain containing proteins. The specific interactions were confirmed by the immunoprecipitation of the full-length SH3 domain-containing protein. We report here the binding assay which demonstrated interaction between PXXP domain in HBx and the SH3-domain containing proteins, in particular various signaling proteins involved in cytoskeletal reorganization. Our findings were consistent with similar virus-host interactions via SH3 binding for other viruses such as hepatitis C virus (HCV) and human immunodeficiency virus (HIV) Further characterization of the proline-rich binding to SH3 domains could yield important information for the design of novel therapeutic measures against downstream disease causative effects of HBx in the liver cells.

  14. Construction of a Hep-2 cell line stably transfected with Livin shRNA.

    Science.gov (United States)

    Wang, S L; Deng, W T; Wen, G F; Li, C W; Zeng, Y J

    2016-01-01

    The aim of this study was to construct a eukaryotic expression plasmid with a short hairpin RNA (shRNA) targeting Livin in order to obtain a stably transfected Hep-2 cell line with a reduced expression of Livin. The shRNA targeting Livin mRNA was designed, and a shRNA plasmid and a negative control plasmid were constructed. After amplification in E. coli, restriction endonuclease digestion and sequence confirmation, the plasmids were transfected into Hep-2 cells using Lipofectamine 2000. The stably transfected cell line was screened using G418, and inhibition of Livin mRNA and protein levels were detected using real-time PCR and western blotting, respectively. pGenesil-Livin-shRNA eukaryotic expression plasmid was successfully constructed and identified by sequencing. Green fluorescent protein (GFP) expression was observed in Hep-2 cells transfected with shRNA plasmids by fluorescence microscopy. The expression levels of Livin mRNA and protein decreased significantly in Hep-2 cells transfected with the shRNA recombinant plasmid. The mRNA level was reduced by 47.17 %, and the protein level was reduced by 34.25 %. The shRNA eukaryotic expression plasmid targeting Livin was successfully constructed, which could significantly inhibit the expression of Livin in laryngeal cancer Hep-2 cells. This provides a basis for future research on the function of Livin in Hep-2 cells, and gene therapy for laryngeal cancer.

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

    Science.gov (United States)

    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.

  16. A primer on using pooled shRNA libraries for functional genomic screens

    Institute of Scientific and Technical Information of China (English)

    Guang Hu; Ji Luo

    2012-01-01

    The discovery of RNA interference (RNAi) has revolutionized genetic analysis in mammalian cells.Loss-of-function RNAi screens enable rapid,functional annotation of the genome.Of the various RNAi approaches,pooled shRNA libraries have received considerable attention because of their versatility.A number of genome-wide shRNA libraries have been constructed against the human and mouse genomes,and these libraries can be readily applied to a variety of screens to interrogate the function of human and mouse genes in an unbiased fashion.We provide an introduction to the technical aspects of using pooled shRNA libraries for genetic screens.

  17. Improve intra-uterine insemination in rabbits using ultra-high temperature skim milk as extender to keep semen at room temperature.

    Science.gov (United States)

    Hozbor, F; Ledesma, A; Manes, J; Ríos, G L; Kaiser, G; Cano, A; Luciano, C; Alberio, R

    2016-03-01

    Two experiments were carried out to examine in vitro quality and in vivo fertility of rabbit semen diluted in ultra-high temperature (UHT) skim milk. In the first experiment, pooled ejaculates of 10 adult rabbits were divided in three aliquots. Each aliquot was diluted in saline solution, TrisC or UHTm extender and kept at room temperature for 24 h. Sperm quality assessment was performed during all the incubation periods. In the second experiment, 27 adult rabbit does were inseminated with semen incubated for 5 h. Embryo recovery was performed 96 h after insemination. Results showed that treatments diluted in UHTm registered the highest values of spermatozoon with total motility, intact and functional plasma membrane and greater number of embryos recovered in rabbit does. We conclude that UHT skim milk would be a good extender for improved intra-uterine insemination in rabbits and to keep sperm cells for several hours at room temperature. © 2015 Blackwell Verlag GmbH.

  18. Effects of partially replacing skimmed milk powder with dairy ingredients on rheology, sensory profiling, and microstructure of probiotic stirred-type yogurt during cold storage.

    Science.gov (United States)

    Marafon, A P; Sumi, A; Granato, D; Alcântara, M R; Tamime, A Y; Nogueira de Oliveira, M

    2011-11-01

    This study aimed to evaluate the quality of stirred-type skim milk probiotic yogurt fortified by partially replacing skim milk powder (SMP) with whey protein concentrate (WPC) and sodium caseinate (Na-CN) during cold storage for 28 d compared with nonfortified yogurt. The rheological properties (as measured using dynamic oscillation) and sensory profiles of probiotic yogurts were greatly enhanced when SMP (i.e., 45%) was replaced with WPC and Na-CN. Higher values of mechanical parameters related to storage and loss modulus and consistent microstructure were found in the fortified yogurts. The acidification profile was not affected by supplementation of the solids in the milk base, and the viable counts of probiotic microbiota were high and satisfactory. These positive characteristics of probiotic yogurts were maintained until the end of the storage period. The microstructure of the fortified yogurt showed some differences compared with the nonfortified product, which were due to changes in chemical composition of the milk base in addition to the colloidal characteristics of the product.

  19. Evaluation of Tris-citric acid, skim milk and sodium citrate extenders for liquid storage of Punjab Urial (Ovis vignei punjabiensis) spermatozoa.

    Science.gov (United States)

    Rakha, Bushra A; Hussain, Iftikhar; Akhter, Shamim; Ullah, Nemat; Andrabi, Syed M H; Ansari, Muhammad S

    2013-09-01

    The Punjab Urial (Ovis vignei punjabiensis) is an endangered subspecie of ovidae, distributed as small scattered populations in the forest belt of the Himalayan foothills of Pakistan and in the areas enclosed by the Indus and the Jhelum rivers. The present study was conducted to evaluate the liquid storage of Punjab Urial spermatozoa in different extenders for use in future in situ conservation activities. Semen was collected by electro-ejaculation from three captive Punjab Urial rams. Suitable ejaculates of individual animals were pooled and divided into three aliquots for dilution with the experimental extenders (Tris-citric acid, skim milk and sodium citrate) at 37°C. Extended semen was cooled from 37°C to 5°C in 2h, and stored for three days at 5°C. Sperm motility (%), viability (%; live/dead), acrosome integrity (%) and plasma membrane integrity (%) were assessed on days 1, 2 and 3 of storage. On day 1, sperm motility, viability as well as acrosome and plasma membrane integrity were similar (p>0.05) in all three experimental extenders. On day 2, sperm motility, viability, acrosome and plasma membrane integrity were higher (psodium citrate based extender. On day 3 of storage, the values of motility, viability and acrosome integrity were higher (psodium citrate based extenders. In conclusion, Tris-citric acid extender appears to be a better option compared with skim milk and sodium citrate extenders for liquid storage of Punjab Urial semen.

  20. Surface Integral Method for the Second Harmonic Generation in Metal Nanoparticles

    CERN Document Server

    Forestiere, Carlo; Miano, Giovanni

    2013-01-01

    Second harmonic (SH) radiation in metal nanoparticles is generated by both nonlocal-bulk and local-surface SH sources, induced by the electromagnetic field at the fundamental frequency. We propose a surface integral equation (SIE) method for evaluating the SH radiation generated by metal nanoparticles with arbitrary shapes, considering both the local-surface and nonlocal-bulk SH sources. We demonstrate that the contribution of the nonlocal-bulk SH source to the SH electromagnetic field can be rigorously taken into account through an equivalent surface magnetic current. We numerically solve the SIE problem by using the Galerkin method and the Rao-Wilton-Glisson basis functions in the framework of the distribution theory. The accuracy of the proposed method is verified by comparison with the SH-Mie formulation in the case of SH generation from a spherical nanoparticle. As an example of a complex-shaped particle, we investigate the SH radiation generated from a triangular nano-prism. The method paves the way for...

  1. Propagation characteristics of SH wave in an mm2 piezoelectric layer on an elastic substrate

    Directory of Open Access Journals (Sweden)

    Yanping Kong

    2015-09-01

    Full Text Available We investigate the propagation characteristics of shear horizontal (SH waves in a structure consisting of an elastic substrate and an mm2 piezoelectric layer with different cut orientations. The dispersion equations are derived for electrically open and shorted conditions on the free surface of the piezoelectric layer. The phase velocity and electromechanical coupling coefficient are calculated for a layered structure with a KNbO3 layer perfectly bonded to a diamond substrate. The dispersion curves for the electrically shorted boundary condition indicate that for a given cut orientation, the phase velocity of the first mode approaches the B-G wave velocity of the KNbO3 layer, while the phase velocities of the higher modes tend towards the limit velocity of the KNbO3 layer. For the electrically open boundary condition, the asymptotic phase velocities of all modes are the limit velocity of the KNbO3 layer. In addition, it is found that the electromechanical coupling coefficient strongly depends on the cut orientation of the KNbO3 crystal. The obtained results are useful in device applications.

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

    Science.gov (United States)

    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.

  3. Development of an SH-SAW sensor for detection of DNA immobilization and hybridization

    Science.gov (United States)

    Roh, Yongrae; Woo, Jeongdong; Hur, Youngjune; Pak, Yukeun E.

    2005-05-01

    We have developed SH (shear horizontal) surface acoustic wave (SAW) sensors for detection of the immobilization and hybrdization of DNA (deoxyribonucleic acid) on the gold coated delay line of transverse SAW devices. The experiments of DNA immobilization and hybridization were performed with 15-mer oligonucleotides (probe and complementary target DNA). The sensor consists of twin SAW delay line oscillators (sensing channel and reference channel) operating at 100 MHz fabricated on 36° rotated Y-cut X-propagation LiTaO3 piezoelectric single crystals. The relative change in the frequency of the two oscillators was monitored to detect the immobilization of probe DNA with thiol group on the Au coated delay line and the hybridization between target DNA and immobilized probe DNA in a pH 7.4 PBS (phosphate buffered saline) solution. The measurement results showed a good response of the sensor to the mass loading effects of the DNA immobilization and hybridization with the sensitivity up to 1.5 ng/ml/Hz.

  4. Acquiring Plausible Predications from MEDLINE by Clustering MeSH Annotations.

    Science.gov (United States)

    Miñarro-Giménez, Jose Antonio; Kreuzthaler, Markus; Bernhardt-Melischnig, Johannes; Martínez-Costa, Catalina; Schulz, Stefan

    2015-01-01

    The massive accumulation of biomedical knowledge is reflected by the growth of the literature database MEDLINE with over 23 million bibliographic records. All records are manually indexed by MeSH descriptors, many of them refined by MeSH subheadings. We use subheading information to cluster types of MeSH descriptor co-occurrences in MEDLINE by processing co-occurrence information provided by the UMLS. The goal is to infer plausible predicates to each resulting cluster. In an initial experiment this was done by grouping disease-pharmacologic substance co-occurrences into six clusters. Then, a domain expert manually performed the assignment of meaningful predicates to the clusters. The mean accuracy of the best ten generated biomedical facts of each cluster was 85%. This result supports the evidence of the potential of MeSH subheadings for extracting plausible medical predications from MEDLINE.

  5. Propagation, reflection, and transmission of SH-waves in slightly compressible, finitely deformed elastic media

    Institute of Scientific and Technical Information of China (English)

    M. CHATTERJEE; A. CHATTOPADHYAY

    2015-01-01

    The propagation, reflection, and transmission of SH waves in slightly com-pressible, finitely deformed elastic media are considered in this paper. The dispersion relation for SH-wave propagation in slightly compressible, finitely deformed layer over-lying a slightly compressible, finitely deformed half-space is derived. The present paper also deals with the reflection and refraction (transmission) phenomena due to the SH wave incident at the plane interface between two distinct slightly compressible, finitely deformed elastic media. The closed form expressions for the amplitude ratios of reflection and refraction coefficients of the reflected and refracted SH waves are obtained from suit-able boundary conditions. For the numerical discussions, we consider the Neo-Hookean form of a strain energy function. The phase speed curves, the variations of reflection, and transmission coefficients with the angle of incidence, and the plots of the slowness sections are presented by means of graphs.

  6. Global SH-wave propagation in a 2D whole Moon model using the parallel hybrid PSM/FDM method

    Science.gov (United States)

    Jiang, Xianghua; Wang, Yanbin; Qin, Yanfang; Takenaka, Hiroshi

    2015-06-01

    We present numerical modeling of SH-wave propagation for the recently proposed whole Moon model and try to improve our understanding of lunar seismic wave propagation. We use a hybrid PSM/FDM method on staggered grids to solve the wave equations and implement the calculation on a parallel PC cluster to improve the computing efficiency. Features of global SH-wave propagation are firstly discussed for a 100-km shallow and 900-km deep moonquakes, respectively. Effects of frequency range and lateral variation of crust thickness are then investigated with various models. Our synthetic waveforms are finally compared with observed Apollo data to show the features of wave propagation that were produced by our model and those not reproduced by our models. Our numerical modeling show that the low-velocity upper crust plays significant role in the development of reverberating wave trains. Increasing frequency enhances the strength and duration of the reverberations. Surface multiples dominate wavefields for shallow event. Core-mantle reflections can be clearly identified for deep event at low frequency. The layered whole Moon model and the low-velocity upper crust produce the reverberating wave trains following each phases consistent with observation. However, more realistic Moon model should be considered in order to explain the strong and slow decay scattering between various phases shown on observation data.

  7. Joint analysis of shear wave velocity from SH-wave refraction and MASW techniques for SPT-N estimation

    Directory of Open Access Journals (Sweden)

    Sawasdee Yordkayhun

    2014-06-01

    Full Text Available Horizontally polarized shear wave (SH refraction and multichannel analysis of surface wave (MASW methods have been carried out in Hatyai City, southern Thailand, a pilot study for site classification, part of the National Earthquake Hazards Reduction Program (NEHRP. The objectives of this study are the comparison of the efficiencies of different shear wave velocity (Vs determination techniques and the use of Vs measurements of the prediction of standard penetration resistance (SPT-N. Good correlation between all Vs profiles and SPT-N values and local lithology are observed. However, there are systematic differences between SH-refraction based-Vs and MASW based-Vs, which might be explained by possible converted waves, limitations of the assumptions used, poor quality of the acquired data, and limitations of the inversion procedures of the methods applied. From the integrated use of Vs from both methods an empirical formula to describe the correlation between Vs and SPT-N values has been proposed and can be used to estimate geotechnical parameters in areas where no borehole or geophysical investigation exist.

  8. P(VDF-TrFE)/BaTiO3 Nanoparticle Composite Films Mediate Piezoelectric Stimulation and Promote Differentiation of SH-SY5Y Neuroblastoma Cells.

    Science.gov (United States)

    Genchi, Giada Graziana; Ceseracciu, Luca; Marino, Attilio; Labardi, Massimiliano; Marras, Sergio; Pignatelli, Francesca; Bruschini, Luca; Mattoli, Virgilio; Ciofani, Gianni

    2016-07-01

    Poly(vinylidene fluoride-trifluoroethylene, P(VDF-TrFE)) and P(VDF-TrFE)/barium titanate nanoparticle (BTNP) films are prepared and tested as substrates for neuronal stimulation through direct piezoelectric effect. Films are characterized in terms of surface, mechanical, and piezoelectric features before in vitro testing on SH-SY5Y cells. In particular, BTNPs significantly improve piezoelectric properties of the films (4.5-fold increased d31 ). Both kinds of films support good SH-SY5Y viability and differentiation. Ultrasound (US) stimulation is proven to elicit Ca(2+) transients and to enhance differentiation in cells grown on the piezoelectric substrates. For the first time in the literature, this study demonstrates the suitability of polymer/ceramic composite films and US for neuronal stimulation through direct piezoelectric effect.

  9. The insertion and H2 elimination reactions of H2GeFMgF germylenoid with RH (R = Cl, SH, PH2)

    Science.gov (United States)

    Zhang, Ming-Xia; Yan, Bing-Fei; Li, Wen-Zuo; Li, Qing-Zhong; Cheng, Jian-Bo

    2017-09-01

    In present paper, the insertion and H2 elimination reactions of H2GeFMgF germylenoid with RH (R = Cl, SH, PH2) were investigated by means of B3LYP and QCISD calculation methods. One transition state and one intermediate were found along the potential energy surface in each insertion reaction, while for the H2 elimination reactions, only one transition state was found between the reactants and products in each reaction process. Both for the insertion and H2 elimination reactions, RH reactivity increases in the following order: H-Cl > H-SH > H-PH2. The insertion and H2 elimination reactions were compared, and the results demonstrated that the H2 elimination should be more favorable than the corresponding insertion. The solvent effects on these two types of reactions were considered. The calculated results indicated that the solvents could accelerate the reactions by reducing their barrier heights.

  10. Adenovirus-mediated shRNA interference against HSV-1 replication in vitro.

    Science.gov (United States)

    Song, Bo; Liu, Xinjing; Wang, Qingzhi; Zhang, Rui; Yang, Ting; Han, Zhiqiang; Xu, Yuming

    2016-12-01

    The UL29 and UL28 proteins encoded by herpes simplex virus type 1 (HSV-1) are critical for its replication and packaging, respectively. Research has demonstrated that synthesized siRNA molecules targeting the UL29 gene are able to suppress HSV-2 replication and the UL28-null HSV-1 gene cannot form infectious viruses in vitro. Silencing the UL28 and UL29 genes by RNAi might lead to the development of novel antiviral agents for the treatment of HSV-1 infections. Two kinds of short hairpin RNAs (shRNAs) targeting the UL29 and UL28 genes were chemically synthesized and then delivered into cells by a replication-defective human adenovirus type 5 (Adv5) vector. (-) shRNAs targeting none of the genome of HSV-1 were used as the control. Vero cells were inoculated with Ad-UL28shRNA or Ad-UL29shRNA at a multiplicity of infection (MOI) of 100 and challenged 24 h later with HSV-1 at an MOI of 0.01 to inhibit HSV-1 replication, as measured by the level of the corresponding RNA and proteins. In addition, the amount of progeny virus was assessed at daily intervals. The antiviral effects of Ad-shRNAs at ongoing HSV-1 infection were explored at 12 h after inoculation of the HSV-1. The results showed that the shRNAs delivered by Adv5 significantly suppressed HSV-1 replication in vitro, as determined by the levels of viral RNA transcription, viral protein synthesis, and viral production. The Ad-UL28shRNA and Ad-UL29shRNA suppressed the replication of HSV-1, respectively, compared with the control group (P HSV-1 infection (P HSV-1 infection.

  11. Cherubism Gene Sh3bp2 is Important for Optimal Bone Formation, Osteoblast Differentiation and Function

    Science.gov (United States)

    Mukherjee, Padma M.; Wang, Chiachien J.; Chen, I-Ping; Jafarov, Toghrul; Olsen, Bjorn R.; Ueki, Yasuyoshi; Reichenberger, Ernst J.

    2012-01-01

    Introduction Cherubism is a human genetic disorder that causes bilateral symmetrical enlargement of the maxilla and mandible in children. It is caused by mutations in SH3BP2. The exact pathogenesis of the disorder is an area of active research. Sh3bp2 knock-in mice were developed by introducing a Pro416Arg mutation (Pro418Arg in humans) in the mouse genome. The osteoclast phenotype of this mouse model was recently described. Methods We examined the bone phenotype of the cherubism mouse model, the role of Sh3bp2 during bone formation, osteoblast differentiation and osteoblast function. Results We observed delays in early postnatal development of homozygous Sh3bp2KI/KI mice. Sh3bp2KI/KI mice exhibit increased growth plate thickness and significantly decreased trabecular bone thickness and reduced bone mineral density. Histomorphometric and μ-CT analyses reveal bone loss in cranial and appendicular skeleton. Sh3bp2KI/KI mice also exhibit a significant decrease in osteoid formation that indicates a defect in osteoblast function. Calvarial osteoblast cell cultures exhibit a decrease in alkaline phosphatase expression and mineralization suggesting reduced differentiation potential. Gene expression of osteoblast differentiation markers like collagen type-I, alkaline phosphatase and osteocalcin are decreased in osteoblast cultures from Sh3bp2KI/KI mice. Conclusions These data suggest that Sh3bp2 function regulates bone homeostasis not only through osteoclast-specific effects but also through effects on osteoblast differentiation and function. PMID:20691350

  12. Src binds cortactin through an SH2 domain cystine-mediated linkage.

    Science.gov (United States)

    Evans, Jason V; Ammer, Amanda G; Jett, John E; Bolcato, Chris A; Breaux, Jason C; Martin, Karen H; Culp, Mark V; Gannett, Peter M; Weed, Scott A

    2012-12-15

    Tyrosine-kinase-based signal transduction mediated by modular protein domains is critical for cellular function. The Src homology (SH)2 domain is an important conductor of intracellular signaling that binds to phosphorylated tyrosines on acceptor proteins, producing molecular complexes responsible for signal relay. Cortactin is a cytoskeletal protein and tyrosine kinase substrate that regulates actin-based motility through interactions with SH2-domain-containing proteins. The Src kinase SH2 domain mediates cortactin binding and tyrosine phosphorylation, but how Src interacts with cortactin is unknown. Here we demonstrate that Src binds cortactin through cystine bonding between Src C185 in the SH2 domain within the phosphotyrosine binding pocket and cortactin C112/246 in the cortactin repeats domain, independent of tyrosine phosphorylation. Interaction studies show that the presence of reducing agents ablates Src-cortactin binding, eliminates cortactin phosphorylation by Src, and prevents Src SH2 domain binding to cortactin. Tandem MS/MS sequencing demonstrates cystine bond formation between Src C185 and cortactin C112/246. Mutational studies indicate that an intact cystine binding interface is required for Src-mediated cortactin phosphorylation, cell migration, and pre-invadopodia formation. Our results identify a novel phosphotyrosine-independent binding mode between the Src SH2 domain and cortactin. Besides Src, one quarter of all SH2 domains contain cysteines at or near the analogous Src C185 position. This provides a potential alternative mechanism to tyrosine phosphorylation for cysteine-containing SH2 domains to bind cognate ligands that may be widespread in propagating signals regulating diverse cellular functions.

  13. Dental size variation in the Atapuerca-SH Middle Pleistocene hominids.

    Science.gov (United States)

    Bermúdez de Castro, J M; Sarmiento, S; Cunha, E; Rosas, A; Bastir, M

    2001-09-01

    The Middle Pleistocene Atapuerca-Sima de los Huesos (SH) site in Spain has yielded the largest sample of fossil hominids so far found from a single site and belonging to the same biological population. The SH dental sample includes a total of 452 permanent and deciduous teeth, representing a minimum of 27 individuals. We present a study of the dental size variation in these hominids, based on the analysis of the mandibular permanent dentition: lateral incisors, n=29; canines, n=27; third premolars, n=30; fourth premolars, n=34; first molars, n=38; second molars, n=38. We have obtained the buccolingual diameter and the crown area (measured on occlusal photographs) of these teeth, and used the bootstrap method to assess the amount of variation in the SH sample compared with the variation of a modern human sample from the Museu Antropologico of the Universidade of Coimbra (Portugal). The SH hominids have, in general terms, a dental size variation higher than that of the modern human sample. The analysis is especially conclusive for the canines. Furthermore, we have estimated the degree of sexual dimorphism of the SH sample by obtaining male and female dental subsamples by means of sexing the large sample of SH mandibular specimens. We obtained the index of sexual dimorphism (ISD=male mean/female mean) and the values were compared with those obtained from the sexed modern human sample from Coimbra, and with data found in the literature concerning several recent human populations. In all tooth classes the ISD of the SH hominids was higher than that of modern humans, but the differences were generally modest, except for the canines, thus suggesting that canine size sexual dimorphism in Homo heidelbergensis was probably greater than that of modern humans. Since the approach of sexing fossil specimens has some obvious limitations, these results should be assessed with caution. Additional data from SH and other European Middle Pleistocene sites would be necessary to test

  14. Spectral theory of differential operators M. Sh. Birman 80th anniversary collection

    CERN Document Server

    Suslina, T

    2009-01-01

    This volume is dedicated to Professor M. Sh. Birman in honor of his eightieth birthday. It contains original articles in spectral and scattering theory of differential operators, in particular, Schrodinger operators, and in homogenization theory. All articles are written by members of M. Sh. Birman's research group who are affiliated with different universities all over the world. A specific feature of the majority of the papers is a combination of traditional methods with new modern ideas.

  15. Sh2-205: Three independent HII regions or only one?

    Science.gov (United States)

    Romero, G. A.; Cappa, C. E.

    Resumen: We present a study of the HII region Sh2-205 and its environs, based on data obtained from the CGPS, 12CO observations and MSX. We find that Sh2-205 can be separated in three independent optical structures: SH149.25-0.0, SH148.83-0.67, and LBN148.11-0.45. The derived spectral indices show the thermal nature of SH148.83-0.67 and LBN148.11-0.45. The morphology of SH148.83-0.67, both in optical and in radio, along with the energetic requirements indicate that this feature is an interstellar bubble powered by the UV photons of HD24431 (O9 III). LBN148.11-0.45 has the morphology of a classical HII region and their ionizing sources remain uncertain. Dust and molecular gas are found related to LBN148.11-0.45. Particularly, a photodissociation region is detected surrounding the central part of this HII region at infrared wavelengths.

  16. Efficient shRNA-mediated inhibition of gene expression in zebrafish.

    Science.gov (United States)

    De Rienzo, Gianluca; Gutzman, Jennifer H; Sive, Hazel

    2012-09-01

    Despite the broad repertoire of loss of function (LOF) tools available for use in the zebrafish, there remains a need for a simple and rapid method that can inhibit expression of genes at later stages. RNAi would fulfill that role, and a previous report (Dong et al. 2009) provided encouraging data. The goal of this study was to further address the ability of expressed shRNAs to inhibit gene expression. This included quantifying RNA knockdown, testing specificity of shRNA effects, and determining whether tissue-specific LOF could be achieved. Using an F0 transgenic approach, this report demonstrates that for two genes, wnt5b and zDisc1, each with described mutant and morphant phenotypes, shRNAs efficiently decrease endogenous RNA levels. Phenotypes elicited by shRNA resemble those of mutants and morphants, and are reversed by expression of cognate RNA, further demonstrating specificity. Tissue-specific expression of zDisc1 shRNAs in F0 transgenics demonstrates that conditional LOF can be readily obtained. These results suggest that shRNA expression presents a viable approach for rapid inhibition of zebrafish gene expression.

  17. Discovery of interstellar mercapto radicals (SH) with the GREAT instrument on SOFIA

    CERN Document Server

    Neufeld, D A; Gerin, M; Godard, B; Herbst, E; Forêts, G Pineau des; Vasyunin, A I; Güsten, R; Wiesemeyer, H; Ricken, O

    2012-01-01

    We report the first detection of interstellar mercapto radicals, obtained along the sight-line to the submillimeter continuum source W49N. We have used the GREAT instrument on SOFIA to observe the 1383 GHz Doublet Pi 3/2 J = 5/2 - 3/2 lambda doublet in the upper sideband of the L1 receiver. The resultant spectrum reveals SH absorption in material local to W49N, as well as in foreground gas, unassociated with W49N, that is located along the sight-line. For the foreground material at velocities in the range 37 - 44 km/s with respect to the local standard of rest, we infer a total SH column density ~ 2.6 E+12 cm-2, corresponding to an abundance of ~ 7 E-9 relative to H2, and yielding an SH/H2S abundance ratio ~ 0.13. The observed SH/H2S abundance ratio is much smaller than that predicted by standard models for the production of SH and H2S in turbulent dissipation regions and shocks, and suggests that the endothermic neutral-neutral reaction SH + H2 -> H2S + H must be enhanced along with the ion-neutral reactions...

  18. Analysis of respiratory syncytial virus F, G, and SH proteins in cell fusion.

    Science.gov (United States)

    Heminway, B R; Yu, Y; Tanaka, Y; Perrine, K G; Gustafson, E; Bernstein, J M; Galinski, M S

    1994-05-01

    Recombinant expression of the human respiratory syncytial virus (RSV) fusion (F) glycoprotein, receptor-binding glycoprotein (G), and small hydrophobic (SH) protein was performed to determine the role(s) of these proteins in syncytia formation. These studies used a vaccinia virus expressing the bacteriophage (T7) RNA polymerase gene and plasmid vectors containing the RSV genes under the control of a T7 promoter. Within the context of this expression system, expression of any individual RSV gene, or coexpression of F+G genes, did not elicit the formation of syncytia. However, at plasmid input levels which were 10-fold higher than those normally used, coexpression of F+G induced low but detectable levels of cell fusion. In contrast, coexpression of F, G, and SH together elicited extensive cell fusion resembling that of an authentically infected cell monolayer. In addition, coexpression of F and SH elicited significant cell fusion, although to a lesser extent than was observed when G was included. Cell fusion induced by coexpression of F+SH was found to be specific to the RSV proteins, since coexpression of SH with the analogous F proteins from human parainfluenza virus type 3, human parainfluenza virus type 2, Sendai virus, or simian virus type 5 (SV5) did not elicit cell fusion. Finally, coexpression of the SV5 SH protein with the RSV or SV5 glycoproteins also failed to induce syncytia, suggesting type-specific restrictions between the two sets of viral proteins.

  19. Constant serum levels of secreted asialoglycoprotein receptor sH2a and decrease with cirrhosis

    Institute of Scientific and Technical Information of China (English)

    Ron Benyair; Maria Kondratyev; Elena Veselki; Sandra Tolchinsky; Marina Shenkman; Yoav Lurie; Gerardo Z Lederkremer

    2011-01-01

    AIM: To investigate the existence and levels of sH2a, a soluble secreted form of the asialoglycoprotein receptor in human serum.METHODS: Production of recombinant sH2a and development of a monoclonal antibody and an enzyme-linked immunosorbent assay (ELISA).This assay was used to determine the presence and concentration of sH2a in human sera of individuals of both sexes and a wide range of ages.RESULTS: The recombinant protein was produced successfully and a specific ELISA assay was developed. The levels of sH2a in sera from 62 healthy individuals varied minimally (147 ± 19 ng/mL).In contrast, 5 hepatitis C patients with cirrhosis showed much decreased sH2a levels (50 ± 9 ng/mL).CONCLUSION: Constant sH2a levels suggest constitutive secretion from hepatocytes in healthy individuals.This constant level and the decrease with cirrhosis suggest a diagnostic potential.

  20. Bone marrow transplantation improves autoinflammation and inflammatory bone loss in SH3BP2 knock-in cherubism mice.

    Science.gov (United States)

    Yoshitaka, Teruhito; Kittaka, Mizuho; Ishida, Shu; Mizuno, Noriyoshi; Mukai, Tomoyuki; Ueki, Yasuyoshi

    2015-02-01

    Cherubism (OMIM#118400) is a genetic disorder in children characterized by excessive jawbone destruction with proliferation of fibro-osseous lesions containing a large number of osteoclasts. Mutations in the SH3-domain binding protein 2 (SH3BP2) are responsible for cherubism. Analysis of the knock-in (KI) mouse model of cherubism showed that homozygous cherubism mice (Sh3bp2(KI/KI)) spontaneously develop systemic autoinflammation and inflammatory bone loss and that cherubism is a TNF-α-dependent hematopoietic disorder. In this study, we investigated whether bone marrow transplantation (BMT) is effective for the treatment of inflammation and bone loss in Sh3bp2(KI/KI) mice. Bone marrow (BM) cells from wild-type (Sh3bp2(+/+)) mice were transplanted to 6-week-old Sh3bp2(KI/KI) mice with developing inflammation and to 10-week-old Sh3bp2(KI/KI) mice with established inflammation. Six-week-old Sh3bp2(KI/KI) mice transplanted with Sh3bp2(+/+) BM cells exhibited improved body weight loss, facial swelling, and survival rate. Inflammatory lesions in the liver and lung as well as bone loss in calvaria and mandibula were ameliorated at 10weeks after BMT compared to Sh3bp2(KI/KI) mice transplanted with Sh3bp2(KI/KI) BM cells. Elevation of serum TNF-α levels was not detected after BMT. BMT was effective for up to 20weeks in 6-week-old Sh3bp2(KI/KI) mice transplanted with Sh3bp2(+/+) BM cells. BMT also ameliorated the inflammation and bone loss in 10-week-old Sh3bp2(KI/KI) mice. Thus our study demonstrates that BMT improves the inflammation and bone loss in cherubism mice. BMT may be effective for the treatment of cherubism patients.

  1. Analysis and Simulation of the Transmission Distortions of the Mobile Digital Television DVB-SH Part 1: Terrestrial Mode DVB-SH-A with OFDM

    Directory of Open Access Journals (Sweden)

    L. Polak

    2011-12-01

    Full Text Available This paper deals with the latest digital TV standard DVB-SH (Digital Video Broadcasting - Satellite to Handhelds with focus on utilization of its advantages for the next generation of mobile TV broadcasting. The whole paper consists of two parts. In this first part, after the brief introduction to DVB-SH and related last works review, the simulation model of DVB-SH-A, which is using terrestrial configuration with OFDM transmission mode, is presented. The work is especially focused on the description of new type of forward error correction and system configuration of the DVB-SH-A mode. For the analysis and simulation of the transmission, the original scheme of turbo encoder was modified in this paper. Application for simulation of the transmission in mobile and portable fading transmission channels was developed in MATLAB. Dependences of BER on C/N ratio for all types of payload modulation are compared with focus on mobile TV services availability. Finally, the achieved results are evaluated and clearly discussed.

  2. Characterization of molecular recognition of STAT3 SH2 domain inhibitors through molecular simulation.

    Science.gov (United States)

    Park, In-Hee; Li, Chenglong

    2011-01-01

    Signal transducer and activator of transcription 3 (STAT3) is an anti-cancer target protein due to its over-activation in tumor cells. The Tyr705-phosphorylated (pTyr) STAT3 binds to the pTyr-recognition site of its Src Homology 2 (SH2) domain of another STAT3 monomer to form a homo-dimer, which then causes cellular anti-apoptosis, proliferation, and tumor invasion. Recently, many STAT3 SH2 dimerization inhibitors have been discovered via both computational and experimental methods. To systematically assess their binding affinities and specificities, for eight representative inhibitors, we utilized molecular docking, molecular dynamics simulation, and ensuing energetic analysis to compare their binding characteristics. The inhibitors' binding free energies were calculated via MMPB(GB)SA, and the STAT3 SH2 binding "hot spots" were evaluated through binding energy decomposition and hydrogen bond (H-bond) distribution analysis. Several conclusions can be drawn: (1) the overall enthalpy-entropy compensation paradigm is preserved for the STAT3 SH2/ligand binding thermodynamics; (2) at one end of the binding spectrum, two compounds bind to SH2 due to their minimum entropic penalties that result from their relative rigidities and increased dynamics of SH2 upon their binding; at the other end of the binding spectrum, one compound shows a typical weak binder behavior due to its loose binding in the SH2's strongest enthalpy-contributing binding subsite; (3) hydrogen bonding seems a strong indicator to evaluate the SH2/ligand binding potency, which echoes a finding that CH/π non-classical H-bond is responsible for some pTyr peptides binding to their corresponding SH2 domains; (4) STAT3 SH2 domain possesses three binding "hot spots": pTyr705-binding pocket with polar residues and contributing the largest binding enthalpy (two-thirds); Leu706 subsite which is the most dynamic and hardest to target; a hydrophobic side pocket which is unique to STAT3 and very targetable, which

  3. Optimization of duplex stability and terminal asymmetry for shRNA design.

    Directory of Open Access Journals (Sweden)

    Olga V Matveeva

    Full Text Available Prediction of efficient oligonucleotides for RNA interference presents a serious challenge, especially for the development of genome-wide RNAi libraries which encounter difficulties and limitations due to ambiguities in the results and the requirement for significant computational resources. Here we present a fast and practical algorithm for shRNA design based on the thermodynamic parameters. In order to identify shRNA and siRNA features universally associated with high silencing efficiency, we analyzed structure-activity relationships in thousands of individual RNAi experiments from publicly available databases (ftp://ftp.ncbi.nlm.nih.gov/pub/shabalin/siRNA/si_shRNA_selector/. Using this statistical analysis, we found free energy ranges for the terminal duplex asymmetry and for fully paired duplex stability, such that shRNAs or siRNAs falling in both ranges have a high probability of being efficient. When combined, these two parameters yield a approximately 72% success rate on shRNAs from the siRecords database, with the target RNA levels reduced to below 20% of the control. Two other parameters correlate well with silencing efficiency: the stability of target RNA and the antisense strand secondary structure. Both parameters also correlate with the short RNA duplex stability; as a consequence, adding these parameters to our prediction scheme did not substantially improve classification accuracy. To test the validity of our predictions, we designed 83 shRNAs with optimal terminal asymmetry, and experimentally verified that small shifts in duplex stability strongly affected silencing efficiency. We showed that shRNAs with short fully paired stems could be successfully selected by optimizing only two parameters: terminal duplex asymmetry and duplex stability of the hypothetical cleavage product, which also relates to the specificity of mRNA target recognition. Our approach performs at the level of the best currently utilized algorithms that take

  4. 脱脂乳发酵体系中混合乳酸菌的HPLC研究%HPLC study of mixed lactic acid bacteria cultured in skim milk

    Institute of Scientific and Technical Information of China (English)

    张天亮; 王霞; 饶平凡

    2012-01-01

    研究了对脱脂乳发酵体系中Hansen DVS发酵后混合乳酸菌的HPLC分析过程中,不同色谱条件对分离效采的影响.确立了最佳色谱条件:样品上样于Toyopearl TSKgel SuperQ-650c强阴离子交换树脂柱,以浓度为0.02mol/L哌嗪-HC1缓冲液平衡,洗脱盐浓度为1.0 mol/L的NaCl,洗脱梯度为0~0.75 mol/L曲NaCl线性梯度洗脱30 min,再经浓度为0.75~1 mol/L的NaCl线性梯度洗脱10 min以 及及浓度为1 mol/L的NaCl洗脱10min,流速定为1 mL/min;并对脱脂乳中不同培养时间的Hansen DVS混合乳酸菌进行了色谱表征.首次对脱脂乳发酵体系中混合乳酸菌的HPLC分析最佳色谱条件的建立,为深入研究发酵过程中乳酸菌混合菌群的动态变化提供了一种快速有效的方法.%The influence of isolation effect of diferent chromatographic conditions of mixed lactic add bacteria cultured in skim milk by high performance ion exchange chromatography was scudied.The optimum chromatographic conditions were determined. The sample was applied to the chromatography column packed with Toyopearl SuperQ-650c anton resin,equilibrated with 0.02 mol/L piperazin—hydrochloric acid bufer (pH=7.0),and elunon salt 1 mol/L NaCl.eluted with the gradient of 0-75% NaCl/30 min, then 75%~100% NaCl/10 min followed by 100% NaCl eluted for 10 min at the flow rate 1 mL/min.Under these conditions,mixed lactic add bacteria were properly isolateAAnd the mixed lactic acid bacteria cultured in skim milk for different time were characterized. The establishment of the HPLC analysis on mixed lactic add bacteria cultured in skim milk for the first time helps to investigate the dynamic changes of mixed lactic acid bacteria during fermentation.

  5. Characterization of near infrared spectral variance in the authentication of skim and nonfat dry milk powder collection using ANOVA-PCA, Pooled-ANOVA, and partial least squares regression

    Science.gov (United States)

    Forty-one samples of skim milk powder (SMP) and non-fat dry milk (NFDM) from 8 suppliers, 13 production sites, and 3 processing temperatures were analyzed by NIR diffuse reflectance spectrometry over a period of three days. NIR reflectance spectra (1700-2500 nm) were converted to pseudo-absorbance ...

  6. From Binding-Induced Dynamic Effects in SH3 Structures to Evolutionary Conserved Sectors.

    Directory of Open Access Journals (Sweden)

    Ana Zafra Ruano

    2016-05-01

    Full Text Available Src Homology 3 domains are ubiquitous small interaction modules known to act as docking sites and regulatory elements in a wide range of proteins. Prior experimental NMR work on the SH3 domain of Src showed that ligand binding induces long-range dynamic changes consistent with an induced fit mechanism. The identification of the residues that participate in this mechanism produces a chart that allows for the exploration of the regulatory role of such domains in the activity of the encompassing protein. Here we show that a computational approach focusing on the changes in side chain dynamics through ligand binding identifies equivalent long-range effects in the Src SH3 domain. Mutation of a subset of the predicted residues elicits long-range effects on the binding energetics, emphasizing the relevance of these positions in the definition of intramolecular cooperative networks of signal transduction in this domain. We find further support for this mechanism through the analysis of seven other publically available SH3 domain structures of which the sequences represent diverse SH3 classes. By comparing the eight predictions, we find that, in addition to a dynamic pathway that is relatively conserved throughout all SH3 domains, there are dynamic aspects specific to each domain and homologous subgroups. Our work shows for the first time from a structural perspective, which transduction mechanisms are common between a subset of closely related and distal SH3 domains, while at the same time highlighting the differences in signal transduction that make each family member unique. These results resolve the missing link between structural predictions of dynamic changes and the domain sectors recently identified for SH3 domains through sequence analysis.

  7. Mutations in SH3PXD2B cause Borrone dermato-cardio-skeletal syndrome.

    Science.gov (United States)

    Wilson, Gabrielle R; Sunley, Jasmine; Smith, Katherine R; Pope, Kate; Bromhead, Catherine J; Fitzpatrick, Elizabeth; Di Rocco, Maja; van Steensel, Maurice; Coman, David J; Leventer, Richard J; Delatycki, Martin B; Amor, David J; Bahlo, Melanie; Lockhart, Paul J

    2014-06-01

    Borrone Dermato-Cardio-Skeletal (BDCS) syndrome is a severe progressive autosomal recessive disorder characterized by coarse facies, thick skin, acne conglobata, dysmorphic facies, vertebral abnormalities and mitral valve prolapse. We identified a consanguineous kindred with a child clinically diagnosed with BDCS. Linkage analysis of this family (BDCS1) identified five regions homozygous by descent with a maximum LOD score of 1.75. Linkage analysis of the family that originally defined BDCS (BDCS3) identified an overlapping linkage peak at chromosome 5q35.1. Sequence analysis identified two different homozygous mutations in BDCS1 and BDCS3, affecting the gene encoding the protein SH3 and PX domains 2B (SH3PXD2B), which localizes to 5q35.1. Western blot analysis of patient fibroblasts derived from affected individuals in both families demonstrated complete loss of SH3PXD2B. Homozygosity mapping and sequence analysis in a second published BDCS family (BDCS2) excluded SH3PXD2B. SH3PXD2B is required for the formation of functional podosomes, and loss-of-function mutations in SH3PXD2B have recently been shown to underlie 7 of 13 families with Frank-Ter Haar syndrome (FTHS). FTHS and BDCS share some overlapping clinical features; therefore, our results demonstrate that a proportion of BDCS and FTHS cases are allelic. Mutations in other gene(s) functioning in podosome formation and regulation are likely to underlie the SH3PXD2B-mutation-negative BDSC/FTHS patients.

  8. Modified gateway system for double shRNA expression and Cre/lox based gene expression

    Directory of Open Access Journals (Sweden)

    Leung Lisa

    2011-03-01

    Full Text Available Abstract Background The growing need for functional studies of genes has set the stage for the development of versatile tools for genetic manipulations. Results Aiming to provide tools for high throughput analysis of gene functions, we have developed a modified short hairpin RNA (shRNA and gene expression system based on Gateway Technology. The system contains a series of entry and destination vectors that enables easy transfer of shRNA or cDNA into lentiviral expression systems with a variety of selection or marker genes (i.e. puromycin, hygromycin, green fluorescent protein-EGFP, yellow fluorescent protein-YFP and red fluorescent protein-dsRed2. Our shRNA entry vector pENTR.hU6.hH1 containing two tandem human shRNA expression promoters, H1 and U6, was capable of co-expressing two shRNA sequences simultaneously. The entry vector for gene overexpression, pENTR.CMV.ON was constructed to contain CMV promoter with a multiple cloning site flanked by loxP sites allowing for subsequent Cre/lox recombination. Both shRNA and cDNA expression vectors also contained attL sites necessary for recombination with attR sites in our destination expression vectors. As proof of principle we demonstrate the functionality and efficiency of this system by testing expression of several cDNA and shRNA sequences in a number of cell lines. Conclusion Our system is a valuable addition to already existing library of Gateway based vectors and can be an essential tool for many aspects of gene functional studies.

  9. From Binding-Induced Dynamic Effects in SH3 Structures to Evolutionary Conserved Sectors.

    Science.gov (United States)

    Zafra Ruano, Ana; Cilia, Elisa; Couceiro, José R; Ruiz Sanz, Javier; Schymkowitz, Joost; Rousseau, Frederic; Luque, Irene; Lenaerts, Tom

    2016-05-01

    Src Homology 3 domains are ubiquitous small interaction modules known to act as docking sites and regulatory elements in a wide range of proteins. Prior experimental NMR work on the SH3 domain of Src showed that ligand binding induces long-range dynamic changes consistent with an induced fit mechanism. The identification of the residues that participate in this mechanism produces a chart that allows for the exploration of the regulatory role of such domains in the activity of the encompassing protein. Here we show that a computational approach focusing on the changes in side chain dynamics through ligand binding identifies equivalent long-range effects in the Src SH3 domain. Mutation of a subset of the predicted residues elicits long-range effects on the binding energetics, emphasizing the relevance of these positions in the definition of intramolecular cooperative networks of signal transduction in this domain. We find further support for this mechanism through the analysis of seven other publically available SH3 domain structures of which the sequences represent diverse SH3 classes. By comparing the eight predictions, we find that, in addition to a dynamic pathway that is relatively conserved throughout all SH3 domains, there are dynamic aspects specific to each domain and homologous subgroups. Our work shows for the first time from a structural perspective, which transduction mechanisms are common between a subset of closely related and distal SH3 domains, while at the same time highlighting the differences in signal transduction that make each family member unique. These results resolve the missing link between structural predictions of dynamic changes and the domain sectors recently identified for SH3 domains through sequence analysis.

  10. New function of the adaptor protein SH2B1 in brain-derived neurotrophic factor-induced neurite outgrowth.

    Directory of Open Access Journals (Sweden)

    Chien-Hung Shih

    Full Text Available Neurite outgrowth is an essential process for the establishment of the nervous system. Brain-derived neurotrophic factor (BDNF binds to its receptor TrkB and regulates axonal and dendritic morphology of neurons through signal transduction and gene expression. SH2B1 is a signaling adaptor protein that regulates cellular signaling in various physiological processes. The purpose of this study is to investigate the role of SH2B1 in the development of the central nervous system. In this study, we show that knocking down SH2B1 reduces neurite formation of cortical neurons whereas overexpression of SH2B1β promotes the development of hippocampal neurons. We further demonstrate that SH2B1β promotes BDNF-induced neurite outgrowth and signaling using the established PC12 cells stably expressing TrkB, SH2B1β or SH2B1β mutants. Our data indicate that overexpressing SH2B1β enhances BDNF-induced MEK-ERK1/2, and PI3K-AKT signaling pathways. Inhibition of MEK-ERK1/2 and PI3K-AKT pathways by specific inhibitors suggest that these two pathways are required for SH2B1β-promoted BDNF-induced neurite outgrowth. Moreover, SH2B1β enhances BDNF-stimulated phosphorylation of signal transducer and activator of transcription 3 at serine 727. Finally, our data indicate that the SH2 domain and tyrosine phosphorylation of SH2B1β contribute to BDNF-induced signaling pathways and neurite outgrowth. Taken together, these findings demonstrate that SH2B1β promotes BDNF-induced neurite outgrowth through enhancing pathways involved MEK-ERK1/2 and PI3K-AKT.

  11. The role of SH3GL3 in myeloma cell migration/invasion, stemness and chemo-resistance.

    Science.gov (United States)

    Chen, Ruoying; Zhao, Hong; Wu, Dan; Zhao, Chen; Zhao, Weiling; Zhou, Xiaobo

    2016-11-08

    Multiple myeloma (MM) is an incurable cancer characterized by clonal expansion of malignant plasma cells in the bone marrow and their egress into peripheral blood. The mechanisms of myeloma cells migration/invasion have remained unclear. Herein, we found SH3GL3 was highly expressed in the CD138-negative (CD138-) myeloma cells. The migration/invasion capability of CD138- cells was significantly higher than that in the CD138-positive (CD138+) cells. Silencing SH3GL3 using shRNA reduced myeloma cells migration/invasion. Conversely, overexpression of SH3GL3 increased myeloma cells migration/invasion. Moreover, SH3GL3 is also associated with the stemness and chemo-resistance of CD138- myeloma cells. Elevated expression of stem cell and multi-drug resistant markers were seen in the myeloma cells with overexpressed SH3GL3; while knocking-down SH3GL3 reduced the expression of these markers. A marked increase in p-PI3K and p-FAK was observed in the cells with overexpressed SH3GL3. To test if FAK/PI3K signaling pathway was involved in the SH3GL3-mediated myeloma cells migration, the cells transfected w/wo SH3GL3 cDNA were treated with FAK inhibitor 14 and PI3K inhibitor LY294002. Inhibition of FAK and PI3K attenuated SH3GL3-mediated migration /invasion. Our findings indicate that SH3GL3 plays an important role in myeloma cell migration/invasion, stemness and chemo-resistance. The SH3GL3-mediated myeloma cell migration/invasion is mediated by FAK/PI3K signaling pathway.

  12. Reflection seismic survey across a fault zone in the Leinetal Graben, Germany, using P- and SH-waves

    Science.gov (United States)

    Musmann, P.; Polom, U.; Buness, H.; Thomas, R.

    2012-04-01

    -waves survey. Imaging starts at a few meters below surface but only extents down to approximately 500 m depth. Compared to the P-wave survey, resolution in the near-surface domain is significantly higher, but seems to decrease more rapidly with increasing depth. Further, due to the shorter wavelength, S-wave reflection events are more affected by inhomogeneities in the subsurface resulting in less continuity of reflection events. In the ongoing project P- and SH-measurements will be compared with respect to their structural image, resolution and velocity distribution. The overall aim is to derive elastic parameters, i.e., shear and bulk moduli.

  13. Optical and Near-infrared survey of the stellar contents associated with the star-forming Complex Sh2-252

    CERN Document Server

    Jose, Jessy; Ogura, K; Samal, M R; Ojha, D K; Bhatt, B C; Chauhan, N; Eswaraiah, C; Mito, H; Kobayashi, N; Yadav, R K; 10.1111/j.1365-2966.2012.21175.x

    2013-01-01

    We present the analyses of the stellar contents associated with the HII region Sh2-252 using UBVRI photometry, slit and slitless spectroscopy along with the NIR data from 2MASS for an area ~1 degree x 1 degree. We studied the sub-regions of Sh2-252 which includes four compact-HII (CHII) regions, namely A, B, C and E and two clusters NGC 2175s and Teutsch 136 (Teu 136). Of the fifteen spectroscopically observed bright stars, eight have been identified as massive members of spectral class earlier than B3. From the spectro-photometric analyses, we derived the average distance of the region as 2.4+/-0.2 kpc and the reddening of the massive members is found to vary between 0.35 to 2.1 mag. We found that NGC 2175s and Teu 136, located towards the eastern edge of the complex are the sub-clusters of Sh2-252. The stellar surface density distribution in K-band shows clustering associated with the regions A, C, E, NGC 2175s and Teu 136. We have also identified the candidate ionizing sources of the CHII regions. 61 H_alp...

  14. Drag reductions and the air-water interface stability of superhydrophobic surfaces in rectangular channel flow

    Science.gov (United States)

    Zhang, Jingxian; Yao, Zhaohui; Hao, Pengfei

    2016-11-01

    Flow in a rectangular channel with superhydrophobic (SH) top and bottom walls was investigated experimentally. Different SH surfaces, including hierarchical structured surfaces and surfaces with different micropost sizes (width and spacing) but the same solid fraction, were fabricated and measured. Pressure loss and flow rate in the channel with SH top and bottom walls were measured, with Reynolds number changing from 700 to 4700, and the corresponding friction factor for the SH surface was calculated. The statuses of the air plastron on different SH surfaces were observed during the experiment. In our experiment, compared with the experiment for the smooth surface, drag reductions were observed for all SH surfaces, with the largest drag reduction of 42.2%. It was found that the hierarchy of the microstructure can increase the drag reduction by decreasing the solid fraction and enhancing the stability of the air-water interface. With a fixed solid fraction, the drag reduction decreases as the post size (width and spacing) increases, due to the increasing curvature and instability effects of the air-water interface. A correlation parameter between the contact angle hysteresis, the air-water interface stability, and the drag reduction of the SH surfaces was found.

  15. The composition and functional properties of whey protein concentrates produced from buttermilk are comparable with those of whey protein concentrates produced from skimmed milk.

    Science.gov (United States)

    Svanborg, Sigrid; Johansen, Anne-Grethe; Abrahamsen, Roger K; Skeie, Siv B

    2015-09-01

    The demand for whey protein is increasing in the food industry. Traditionally, whey protein concentrates (WPC) and isolates are produced from cheese whey. At present, microfiltration (MF) enables the utilization of whey from skim milk (SM) through milk protein fractionation. This study demonstrates that buttermilk (BM) can be a potential source for the production of a WPC with a comparable composition and functional properties to a WPC obtained by MF of SM. Through the production of WPC powder and a casein- and phospholipid (PL)-rich fraction by the MF of BM, sweet BM may be used in a more optimal and economical way. Sweet cream BM from industrial churning was skimmed before MF with 0.2-µm ceramic membranes at 55 to 58°C. The fractionations of BM and SM were performed under the same conditions using the same process, and the whey protein fractions from BM and SM were concentrated by ultrafiltration and diafiltration. The ultrafiltration and diafiltration was performed at 50°C using pasteurized tap water and a membrane with a 20-kDa cut-off to retain as little lactose as possible in the final WPC powders. The ultrafiltrates were subsequently spray dried, and their functional properties and chemical compositions were compared. The amounts of whey protein and PL in the WPC powder from BM (BMWPC) were comparable to the amounts found in the WPC from SM (SMWPC); however, the composition of the PL classes differed. The BMWPC contained less total protein, casein, and lactose compared with SMWPC, as well as higher contents of fat and citric acid. No difference in protein solubility was observed at pH values of 4.6 and 7.0, and the overrun was the same for BMWPC and SMWPC; however, the BMWPC made less stable foam than SMWPC.

  16. Fusion protein based on Grb2-SH2 domain for cancer therapy

    Energy Technology Data Exchange (ETDEWEB)

    Saito, Yuriko [Molecular Imaging Center, National Institute of Radiological Sciences (Japan); Graduate School of Pharmaceutical Sciences, Chiba University (Japan); Furukawa, Takako, E-mail: tfuru@nirs.go.jp [Molecular Imaging Center, National Institute of Radiological Sciences (Japan); Biomedical Imaging Research Center, University of Fukui (Japan); Arano, Yasushi [Graduate School of Pharmaceutical Sciences, Chiba University (Japan); Fujibayashi, Yasuhisa [Molecular Imaging Center, National Institute of Radiological Sciences (Japan); Biomedical Imaging Research Center, University of Fukui (Japan); Saga, Tsuneo [Molecular Imaging Center, National Institute of Radiological Sciences (Japan)

    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 phosphorylated 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.

  17. Tsubouchi Shōyō and the Beauty of Shakespeare Translation in 1900s Japan

    Directory of Open Access Journals (Sweden)

    Gallimore Daniel

    2016-06-01

    Full Text Available In a recent study of Shakespeare translation in Japan, the translator and editor Ōba Kenji (141 expresses his preference for the early against the later translations of Tsubouchi Shōyō (1859-1935,2 a small group of basically experimental translations for stage performance published between the years 1906 and 1913; after 1913, Shōyō set about translating the rest of the plays, which he completed in 1927. Given Shōyō’s position as the pioneer of Shakespeare translation, not to mention a dominant figure in the history of modern Japanese literature, Ōba’s professional view offers insights into Shōyō’s development that invite detailed analysis and comparison with his rhetorical theories. This article attempts to identify what Shōyō may have meant by translating Shakespeare into elegant or “beautiful” Japanese with reference to excerpts from two of his translations from the 1900s.

  18. Comparative analysis of duckweed cultivation with sewage water and SH media for production of fuel ethanol.

    Science.gov (United States)

    Yu, Changjiang; Sun, Changjiang; Yu, Li; Zhu, Ming; Xu, Hua; Zhao, Jinshan; Ma, Yubin; Zhou, Gongke

    2014-01-01

    Energy crises and environmental pollution have caused considerable concerns; duckweed is considered to be a promising new energy plant that may relieve such problems. Lemna aequinoctialis strain 6000, which has a fast growth rate and the ability to accumulate high levels of starch was grown in both Schenk & Hildebrandt medium (SH) and in sewage water (SW). The maximum growth rates reached 10.0 g DW m(-2) day(-1) and 4.3 g DW m(-2) day(-1), respectively, for the SH and SW cultures, while the starch content reached 39% (w/w) and 34% (w/w). The nitrogen and phosphorus removal rate reached 80% (SH) and 90% (SW) during cultivation, and heavy metal ions assimilation was observed. About 95% (w/w) of glucose was released from duckweed biomass hydrolysates, and then fermented by Angel yeast with ethanol yield of 0.19 g g(-1) (SH) and 0.17 g g(-1) (SW). The amylose/amylopectin ratios of the cultures changed as starch content increased, from 0.252 to 0.155 (SH) and from 0.252 to 0.174 (SW). Lemna aequinoctialis strain 6000 could be considered as valuable feedstock for bioethanol production and water resources purification.

  19. Interaction between human BAP31 and respiratory syncytial virus small hydrophobic (SH) protein.

    Science.gov (United States)

    Li, Yan; Jain, Neeraj; Limpanawat, Suweeraya; To, Janet; Quistgaard, Esben M; Nordlund, Par; Thanabalu, Thirumaran; Torres, Jaume

    2015-08-01

    The small hydrophobic (SH) protein is a short channel-forming polypeptide encoded by the human respiratory syncytial virus (hRSV). Deletion of SH protein leads to the viral attenuation in mice and primates, and delayed apoptosis in infected cells. We have used a membrane-based yeast two-hybrid system (MbY2H) and a library from human lung cDNA to detect proteins that bind SH protein. This led to the identification of a membrane protein, B-cell associated protein 31 (BAP31). Transfected SH protein co-localizes with transfected BAP31 in cells, and pulls down endogenous BAP31. Titration of purified C-terminal endodomain of BAP31 against isotopically labeled SH protein in detergent micelles suggests direct interaction between the two proteins. Given the key role of BAP31 in protein trafficking and its critical involvement in pro- and anti-apoptotic pathways, this novel interaction may constitute a potential drug target.

  20. Crystal Structure of the FERM-SH2 Module of Human Jak2.

    Directory of Open Access Journals (Sweden)

    Randall McNally

    Full Text Available Jak-family tyrosine kinases mediate signaling from diverse cytokine receptors. Binding of Jaks to their cognate receptors is mediated by their N-terminal region, which contains FERM and SH2 domains. Here we describe the crystal structure of the FERM-SH2 region of Jak2 at 3.0Å resolution. The structure reveals that these domains and their flanking linker segments interact intimately to form an integrated structural module. The Jak2 FERM-SH2 structure closely resembles that recently described for Tyk2, another member of the Jak family. While the overall architecture and interdomain orientations are preserved between Jak2 and Tyk2, we identify residues in the putative receptor-binding groove that differ between the two and may contribute to the specificity of receptor recognition. Analysis of Jak mutations that are reported to disrupt receptor binding reveals that they lie in the hydrophobic core of the FERM domain, and are thus expected to compromise the structural integrity of the FERM-SH2 unit. Similarly, analysis of mutations in Jak3 that are associated with severe combined immunodeficiency suggests that they compromise Jak3 function by destabilizing the FERM-SH2 structure.

  1. Medical Subject Headings (MeSH) for indexing and retrieving open-source healthcare data.

    Science.gov (United States)

    Marc, David T; Khairat, Saif S

    2014-01-01

    The US federal government initiated the Open Government Directive where federal agencies are required to publish high value datasets so that they are available to the public. Data.gov and the community site Healthdata.gov were initiated to disperse such datasets. However, data searches and retrieval for these sites are keyword driven and severely limited in performance. The purpose of this paper is to address the issue of extracting relevant open-source data by proposing a method of adopting the MeSH framework for indexing and data retrieval. A pilot study was conducted to compare the performance of traditional keywords to MeSH terms for retrieving relevant open-source datasets related to "mortality". The MeSH framework resulted in greater sensitivity with comparable specificity to the keyword search. MeSH showed promise as a method for indexing and retrieving data, yet future research should conduct a larger scale evaluation of the performance of the MeSH framework for retrieving relevant open-source healthcare datasets.

  2. SNCG shRNA suppressed breast cancer cell xenograft formation and growth in nude mice

    Institute of Scientific and Technical Information of China (English)

    SHEN Pei-hong; FAN Qing-xia; LI Yan-wei; ZHANG Wei; HE Xiao-kai; WANG Zhen; ZHANG Yun-han

    2011-01-01

    Background Overexpression of breast cancer-specific gene 1 (SNCG) is associated with poor prognosis in advanced breast cancer patients. This study aimed to determine the effects of SNCG knockdown in breast cancer cells by using small hairpin RNA (shRNA).Methods Four different SNCG shRNA oligonucleotides were designed and chemically synthesized to construct mammalian expression vectors. These vectors were then stably transfected into a breast cancer MCF-7 cell line to knockdown SNCG expression. After SNCG knockdown was confirmed, the stable cell lines were inoculated into nude mice. SNCG mRNA and protein expressions were analyzed by semi-quantitative reverse transcription-polymerase chain reaction (RT-PCR) and immunohistochemistry, respectively in both the stable cell lines and xenografts.Results All four SNCG shRNA constructs significantly reduced SNCG mRNA and protein levels in MCF-7 cells, as compared to the unrelated sequence control shRNA and the liposome control mice (P<0.05). SNCG-knockdown MCF-7cells formed significantly smaller tumor masses than cells expressing the unrelated sequence control or the liposome control mice (P<0.05).Conclusion SNCG shRNA effectively suppressed breast cancer cell formation in vivo and may be a useful clinical strategy to control breast cancer.

  3. Comparative analysis of duckweed cultivation with sewage water and SH media for production of fuel ethanol.

    Directory of Open Access Journals (Sweden)

    Changjiang Yu

    Full Text Available Energy crises and environmental pollution have caused considerable concerns; duckweed is considered to be a promising new energy plant that may relieve such problems. Lemna aequinoctialis strain 6000, which has a fast growth rate and the ability to accumulate high levels of starch was grown in both Schenk & Hildebrandt medium (SH and in sewage water (SW. The maximum growth rates reached 10.0 g DW m(-2 day(-1 and 4.3 g DW m(-2 day(-1, respectively, for the SH and SW cultures, while the starch content reached 39% (w/w and 34% (w/w. The nitrogen and phosphorus removal rate reached 80% (SH and 90% (SW during cultivation, and heavy metal ions assimilation was observed. About 95% (w/w of glucose was released from duckweed biomass hydrolysates, and then fermented by Angel yeast with ethanol yield of 0.19 g g(-1 (SH and 0.17 g g(-1 (SW. The amylose/amylopectin ratios of the cultures changed as starch content increased, from 0.252 to 0.155 (SH and from 0.252 to 0.174 (SW. Lemna aequinoctialis strain 6000 could be considered as valuable feedstock for bioethanol production and water resources purification.

  4. Propolis Inhibits Neurite Outgrowth in Differentiating SH-SY5Y Human Neuroblastoma Cells.

    Science.gov (United States)

    Kim, Han Bit; Yoo, Byung Sun

    2016-07-01

    Propolis is a multicomponent, active, complex resinous substance collected by honeybees from a variety of plant sources. We have studied the effect of propolis on neurite outgrowth of SH-SY5Y human neuroblastoma cells induced to differentiate by all-trans-retinoic acid (RA). Propolis, at a concentration of 3 μg/mL, had no significant effect on the viability of differentiating SH-SY5Y cells. However, the neurite outgrowth of the differentiating SH-SY5Y cells treated with propolis (0.3~3 μg/mL) for 48 hr was significantly inhibited in a dose-dependent manner. Treatment of RA-stimulated differentiating SH-SY5Y cells with 0.3 to 3 μg/mL propolis resulted in decreased level of transglutaminase and 43-kDa growth-associated protein (GAP-43) in a dose-dependent manner. The results indicate that propolis is able to inhibit neurite outgrowth of differentiating SH-SY5Y cells.

  5. Measurement of Plasma Clotting Using Shear Horizontal Surface Acoustic Wave Sensor

    Science.gov (United States)

    Nagayama, Tatsuya; Kondoh, Jun; Oonishi, Tomoko; Hosokawa, Kazuya

    2013-07-01

    The monitoring of blood coagulation is important during operation. In this study, a shear horizontal surface acoustic wave (SH-SAW) sensor is applied to monitor plasma clotting. An SH-SAW sensor with a metallized surface for mechanical perturbation detection can detect plasma clotting. As plasma clotting is a gel formation reaction, the SH-SAW sensor detects viscoelastic property changes. On the other hand, an SH-SAW sensor with a free surface for electrical perturbation detection detects only the liquid mixing effect. No electrical property changes due to plasma clotting are obtained using this sensor. A planar electrochemical sensor is also used to monitor plasma clotting. In impedance spectral analysis, plasma clotting is measured. However, in the measurement of time responses, no differences between clotting and nonclotting are obtained. Therefore, the SH-SAW sensor is useful for monitoring plasma clotting.

  6. Microbial Diversity in Hydrate-bearing and -free Seafloor Surface Sediments in the Shenhu Area, South China Sea

    Science.gov (United States)

    Su, X.

    2015-12-01

    In 2007, the China's first gas hydrate drilling expedition GMGS-1 in the Shenhu area on the northern continental slope of the South China Sea was performed (Zhang et al., 2007). Six holes (namely Sites SH1B, SH2B, SH3B, SH5B, SH5C and SH7B) were drilled, and gas hydrate samples were recovered at three sites: Sites SH2B, SH3B and SH7B. In order to investigate microbial diversity and community features in correlation to gas hydrate-bearing sediments, a study on microbial diversity in the surface sediments at hydrate-bearing sites (SH3B and SH7B) and -free sites (SH1B, SH5B, SH5C) was carried out by using 16S rRNA gene phylogenetic analysis. The phylogenetic results indicated difference in microbial communities between hydrate-bearing and -free sediments. At the gas hydrate-bearing sites, bacterial communities were dominated by Deltaproteobacteria (30.5%), and archaeal communities were dominated by Miscellaneous Crenarchaeotic Group (33.8%); In contrast, Planctomycetes was the major group (43.9%) in bacterial communities, while Marine Benthic Group-D (MBG-D) (32.4%) took up the largest proportion in the archaeal communities. Moreover, the microbial communities have characteristics different from those in other hydrate-related sediments around the world, indicating that the presence of hydrates could affect the microbial distribution and community composition. In addition, the microbial community composition in the studied sediments has its own uniqueness, which may be resulted by co-effect of geochemical characteristics and presence/absence of gas hydrates.

  7. Construction and Identification of Transforming Growth Factor-β1 shRNA Expressing Vector%转化生长因子-β1 shRNA表达载体的构建与鉴定

    Institute of Scientific and Technical Information of China (English)

    张彪; 郭凌川; 董亮; 周赟; 吴淳; 胡欣; 潘展腾; 钟良君; 王守立

    2010-01-01

    目的 构建转化生长因子(TGF)-β1短发卡RNA(shRNA)表达载体,为肿瘤生物学研究奠定方法基础.方法 根据TGF-β1的mRNA序列,运用Ambion公司的Target Finder软件筛选TGF-β1shRNA的候选点,在BglⅡ和HindⅢ位点克隆到表达载体pSUPER gfp-neo上.重组的shRNA pSUPER gfp-neo在大肠杆菌DHSa上筛选和鉴定.分别用酶联免疫吸附法(ELISA)测定和免疫荧光筛选最佳TGF-β1shRNA靶点序列.结果 ELISA和免疫荧光染色结果显示,shRNA-a、shRNA-b和shRNA-c均在不同程度上降低了靶细胞TGF-β1蛋白质表达,以shRNA-b所引起的下降最为显著(P<0.05).结论 构建的TGF-β1shRNA在肿瘤细胞中产生较好的TGF-β1沉默效果,为肿瘤生物学研究提供了一种方法.

  8. USP22 ShRNA慢病毒载体的构建及鉴定%Construction and identification of ShRNA lentivirus vector in gene USP22

    Institute of Scientific and Technical Information of China (English)

    余宏伟; 廖志伟; 庄雅靖; 喻芳; 周同冲

    2014-01-01

    目的:构建并鉴定USP22基因ShRNA慢病毒载体,为进一步研究USP22基因在鼻咽癌中的作用机制奠定基础。方法针对USP22基因的编码序列设计并合成2条特异性干扰序列,序列两端含有限制性内切酶位点HpaⅠ和X hoⅠ。寡核苷酸链退火生成寡核苷酸双链,5'端磷酸化后将含有酶切位点的寡核苷酸双链克隆到pLL3.7慢病毒表达载体。连接产物经转化、培养,提取其质粒,提取出来的质粒经HpaⅠ和XhoⅠ酶切电泳鉴定,鉴定正确的质粒进行测序。构建成功的慢病毒表达载体pLL-USP22-shRNA与包装载体质粒混匀共转染于293T细胞。通过荧光显微镜下观察绿色荧光蛋白(GFP)情况,对病毒滴度和感染效率进行检测。结果成功构建慢病毒表达载体pLL-USP22-shRNA。与包装载体质粒共转染293T细胞后测定慢病毒滴度为4×107 TU/ml。结论本实验应用相关技术成功构建USP22 ShRNA慢病毒载体,为进一步研究USP22基因的生物学功能奠定了基础。%Objective To construct and identify ShRNA lentivirus vector in gene USP22,and lay the foundation for fur-ther study of gene USP22 on mechanism of nasopharyngeal carcinoma. Methods Two special interference sequences targeting on coded sequence of gene USP22 were designed and synthesized.HpaⅠand XhoⅠas two sites of restriction enzyme were included at both ends of the sequence.Oligodeoxynucleotides was annealed to generate double strands of oligodeoxynucleotides.After 5’end phosphorylation,double strands of oligodeoxynucleotides containing restriction enzyme cutting site was cloned to pLentiLox3.7 (PLL3.7) lentiviral expression vector.The connection product was transformed and cultivated in order to extract plasmid.The extracted plasmid was identified by restriction enzyme digestion and electrophoresis,and sequencing was carried on only for correct plasmid after identification.The successfully-constructed lentiviral expression vector of p

  9. Quantifying information transfer by protein domains: Analysis of the Fyn SH2 domain structure

    DEFF Research Database (Denmark)

    Lenaerts, Tom; Ferkinghoff-Borg, Jesper; Stricher, Francois

    2008-01-01

    that directly relates protein structural dynamics to information exchange between functional sites is still lacking. Results: Here we introduce a method to analyze protein dynamics within the framework of information theory and show that signal transduction within proteins can be considered as a particular...... distal communication is achieved. We illustrate the approach by analyzing information transfer by the SH2 domain of Fyn tyrosine kinase, obtained from Monte Carlo dynamics simulations. Our analysis reveals that the Fyn SH2 domain forms a noisy communication channel that couples residues located...... by crossing the core of the SH2 domain. Conclusion: As a result, our method provides a means to directly map the exchange of biological information on the structure of protein domains, making it clear how binding triggers conformational changes in the protein structure. As such it provides a structural road...

  10. An assessment of the visibility of MeSH-indexed medical web catalogs through search engines.

    Science.gov (United States)

    Zweigenbaum, P; Darmoni, S J; Grabar, N; Douyère, M; Benichou, J

    2002-01-01

    Manually indexed Internet health catalogs such as CliniWeb or CISMeF provide resources for retrieving high-quality health information. Users of these quality-controlled subject gateways are most often referred to them by general search engines such as Google, AltaVista, etc. This raises several questions, among which the following: what is the relative visibility of medical Internet catalogs through search engines? This study addresses this issue by measuring and comparing the visibility of six major, MeSH-indexed health catalogs through four different search engines (AltaVista, Google, Lycos, Northern Light) in two languages (English and French). Over half a million queries were sent to the search engines; for most of these search engines, according to our measures at the time the queries were sent, the most visible catalog for English MeSH terms was CliniWeb and the most visible one for French MeSH terms was CISMeF.

  11. Intronic SH2D1A mutation with impaired SAP expression and agammaglobulinemia.

    Science.gov (United States)

    Recher, Mike; Fried, Ari J; Massaad, Michel J; Kim, Hye Young; Rizzini, Michela; Frugoni, Francesco; Walter, Jolan E; Mathew, Divij; Eibel, Hermann; Hess, Christoph; Giliani, Silvia; Umetsu, Dale T; Notarangelo, Luigi D; Geha, Raif S

    2013-02-01

    X-linked lymphoproliferative (XLP) disease is a primary immunodeficiency syndrome associated with the inability to control Epstein-Barr virus (EBV), lymphoma, and hypogammaglobulinemia. XLP is caused by mutations in the SH2D1A gene, which encodes the SLAM-associated protein (SAP), or in the BIRC4 gene, which encodes the X-linked inhibitor of apoptosis protein (XIAP). Here we report a patient with recurrent respiratory tract infections and early onset agammaglobulinemia who carried a unique disease-causing intronic loss-of-function mutation in SH2D1A. The intronic mutation affected SH2D1A gene transcription but not mRNA splicing, and led to markedly reduced level of SAP protein. Despite undetectable serum immunoglobulins, the patient's B cells replicated and differentiated into antibody producing cells normally in vitro.

  12. Geniposide protects human neuroblastoma SH-SY5Y cells against corticosterone-induced injury

    Institute of Scientific and Technical Information of China (English)

    Liping Chen; Fawei Wang; Miao Geng; Hongyan Chen; Dongmei Duan

    2011-01-01

    In vitro cultured human neuroblastoma SH-SY5Y cells were pretreated with 50 or 5 μg/mL geniposide for 12 hours and exposed to 400 μmol/L corticosterone. Corticosterone exposure in cultures not pretreated with geniposide resulted in inhibited cell growth, reduced cell survival, and increased P53 and P21 protein expression. However, in geniposide pretreated SH-SY5Y cells, cell viability and the number of cells in the G2 phase of the cell cycle were significantly increased, P21 and P53 protein expression was reduced, and cell apoptosis was inhibited following corticosterone exposure. These results indicate that geniposide can protect SH-SY5Y cells against high-dose corticosterone-induced injury.

  13. TRIP effect in austenitic-martensitic VNS9-Sh steel at various strain rates

    Science.gov (United States)

    Terent'ev, V. F.; Slizov, A. K.; Prosvirnin, D. V.

    2016-10-01

    The mechanical properties of austenitic-martensitic VNS9-Sh (23Kh15N5AM3-Sh) steel are studied at a static strain rate from 4.1 × 10-5 to 17 × 10-3 s-1 (0.05-20 mm/min). It is found that, as the strain rate increases, the ultimate tensile strength decreases and the physical yield strength remains unchanged (≈1400 MPa). As the strain rate increases, the yield plateau remains almost unchanged and the relative elongation decreases continuously. Because of high microplastic deformation, the conventional yield strength is lower than the physical yield strength over the entire strain rate range under study. The influence of the TRIP effect on the changes in the mechanical properties of VNS9-Sh steel at various strain rates is discussed.

  14. Isolation of a putative receptor for KDEL-tailed cysteine proteinase (SH-EP) from cotyledons of Vigna mungo seedlings.

    Science.gov (United States)

    Tsuru-Furuno, A; Okamoto, T; Minamikawa, T

    2001-10-01

    SH-EP is the major papain-type proteinase expressed in cotyledons of germinated Vigna mungo seeds. The proteinase possesses a KDEL sequence at the C-terminus although the mature form of SH-EP is localized in vacuoles. It has also been shown that the proform of SH-EP is accumulated at the edge or middle region of the endoplasmic reticulum, and the accumulated proSH-EP is directly transported to vacuoles via the KDEL-tailed cysteine proteinase-accumulating vesicle, KV. In this study, to address the transport machinery of proSH-EP through KV, putative receptor for proSH-EP was isolated from membrane proteins of cotyledons of V. mungo seedlings using a proSH-EP-immobilized column. The deduced amino acid sequence from cDNA to the protein revealed that the putative receptor for proSH-EP is a member of vacuolar sorting receptor, VSR, that is known to be localized in the Golgi-complex and/or clathrin coated vesicle. We carried out subcellular fractionation of cotyledon cells and subsequently conducted SDS-PAGE/immunoblotting and immunocytochemistry with anti-V. mungo VSR (VmVSR) or SH-EP antibody. The results showed that VmVSR is co-localized in the fraction of the gradient in which KV existed.

  15. Solution structure of tensin2 SH2 domain and its phosphotyrosine-independent interaction with DLC-1.

    Directory of Open Access Journals (Sweden)

    Kun Dai

    Full Text Available BACKGROUND: Src homology 2 (SH2 domain is a conserved module involved in various biological processes. Tensin family member was reported to be involved in tumor suppression by interacting with DLC-1 (deleted-in-liver-cancer-1 via its SH2 domain. We explore here the important questions that what the structure of tensin2 SH2 domain is, and how it binds to DLC-1, which might reveal a novel binding mode. PRINCIPAL FINDINGS: Tensin2 SH2 domain adopts a conserved SH2 fold that mainly consists of five β-strands flanked by two α-helices. Most SH2 domains recognize phosphorylated ligands specifically. However, tensin2 SH2 domain was identified to interact with nonphosphorylated ligand (DLC-1 as well as phosphorylated ligand. CONCLUSIONS: We determined the solution structure of tensin2 SH2 domain using NMR spectroscopy, and revealed the interactions between tensin2 SH2 domain and its ligands in a phosphotyrosine-independent manner.

  16. Quality of pharmacy-specific Medical Subject Headings (MeSH) assignment in pharmacy journals indexed in MEDLINE.

    Science.gov (United States)

    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 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.

  17. Study on SH-A New Efficient Flotation Reagent for Iron Ore%SH-A新型高效铁矿石浮选药剂的研究

    Institute of Scientific and Technical Information of China (English)

    上官正明

    2001-01-01

    SH-A collector is a mixture of a metal sulphonate and small quantity of additive and can be directly used in nondesliming positive flotation in alkaline medium.The tests on average hematite and hard-to-separate high ferrous ores using SH-A collector are described,which obtained iron concentrates with grades of 65.8% and 62.33% and recoveries of 78.06% and 80.48% respectively for average hematite ore and hard-to-separate high ferrous ore.%SH-A捕收剂为一种磺酸金属盐和助剂的调和物,可直接用于不脱泥碱性正浮选流程。用该捕收剂对普通赤铁矿、高亚铁难选矿选矿进行了试验。试验表明,该药剂选别普通赤铁矿、高亚铁难选矿分别获得了铁精矿品位65.80%和62.33%、回收率78.06%和80.48%的良好指标。

  18. Spectroscopic and Electrochemical Detection of Thrombin/5'-SH or 3'-SH Aptamer Immobilized on (porous) Gold Substrates

    Energy Technology Data Exchange (ETDEWEB)

    Park, Buem Jin; Sa, Young Seung; Kim, Yong Hwan; Kim, Young Hun [Kwangwoon University, Seoul (Korea, Republic of)

    2012-01-15

    Thrombin is a serine protease that catalyzes the conversion of soluble fibrinogen to insoluble fibrin, and thus induces physiological and pathological blood coagulation. Therefore, it is important to detect thrombin in blood serum for purposes of diagnosis. To achieve this goal, it has been suggested that a 15-mer aptamer strongly binds with thrombin to form a G-quartet structure of the aptamer. Generally, 5'-end thiol-functionalized aptamer has been used as an anti-thrombin binder. Herein, we evaluate the possibility of utilizing a 3'-SH aptasensor for thrombin detection using SPR spectroscopy, and compare the enhancement of the electrochemical signal of the thrombin-aptamer bound on a porous gold substrate. Although the two aptamers have similar configurations, in SPR analysis, the 3'-SH aptamer was a effective aptasensor as well as 5'-SH aptamer. Results from electrochemical analysis showed that the porous gold substrate acted as a good substrate for an aptasensor and demonstrated 5-fold enhancement of current change, as compared to gold thin film.

  19. SH radical: the key intermediate in sulfur transformation during thermal processing of coal.

    Science.gov (United States)

    Yan, Jinding; Yang, Jianli; Liu, Zhenyu

    2005-07-01

    To uncouple the complex behavior of sulfur transformation during thermal processing of coal and to elucidate the main mechanism, typical organic and inorganic sulfur compounds impregnated on or mixed with a low-ash char are studied through temperature-programmed decomposition coupled with online mass spectrum analysis (TPDMS) and followed by temperature-programmed oxidation coupled also with online mass spectrum analysis (TPOMS) in a temperature range of up to 800 degrees C. It is evident that the cleavages of Cal-S and Car-S bonds, where the subscripts al and ar stand for aliphatic and aromatic carbon, respectively, in the organic compounds result in the formation of SH radicals, which then undergo secondary reactions with the char to form various sulfur compounds such as H2S, SO2, COS, and elemental sulfur, as well as sulfur structures in the char. H2 has the ability to stabilize the -* SH radicals and weaken the interactions between the -* SH radicals and the char. For the sulfur compounds, which do not generate the *SH radical, the only sulfur products detected are those formed directly from the decomposition of the starting sulfur compounds, H2S from FeS2 in H2 or SO2 from Fe2(SO4)3 in He, for example, and no sulfur structure is formed in the char. Minerals have significant effects on the bond cleavage temperature and the reactions of the *SH radicals with the char. It is clear that the *SH radical is a key species interacting with the char to form secondary sulfur compounds, while H2S and SO2 play no role in the sulfur transformation to the carbon structure.

  20. SMA-SH: Modified Styrene-Maleic Acid Copolymer for Functionalization of Lipid Nanodiscs.

    Science.gov (United States)

    Lindhoud, Simon; Carvalho, Vanessa; Pronk, Joachim W; Aubin-Tam, Marie-Eve

    2016-04-11

    Challenges in purification and subsequent functionalization of membrane proteins often complicate their biochemical and biophysical characterization. Purification of membrane proteins generally involves replacing the lipids surrounding the protein with detergent molecules, which can affect protein structure and function. Recently, it was shown that styrene-maleic acid copolymers (SMA) can dissolve integral membrane proteins from biological membranes into nanosized discs. Within these nanoparticles, proteins are embedded in a patch of their native lipid bilayer that is stabilized in solution by the amphipathic polymer that wraps the disc like a bracelet. This approach for detergent-free purification of membrane proteins has the potential to greatly simplify purification but does not facilitate conjugation of functional compounds to the membrane proteins. Often, such functionalization involves laborious preparation of protein variants and optimization of labeling procedures to ensure only minimal perturbation of the protein. Here, we present a strategy that circumvents several of these complications through modifying SMA by grafting the polymer with cysteamine. The reaction results in SMA that has solvent-exposed sulfhydrils (SMA-SH) and allows tuning of the coverage with SH groups. Size exclusion chromatography, dynamic light scattering, and transmission electron microscopy demonstrate that SMA-SH dissolves lipid bilayer membranes into lipid nanodiscs, just like SMA. In addition, we demonstrate that, just like SMA, SMA-SH solubilizes proteoliposomes into protein-loaded nanodiscs. We covalently modify SMA-SH-lipid nanodiscs using thiol-reactive derivatives of Alexa Fluor 488 and biotin. Thus, SMA-SH promises to simultaneously tackle challenges in purification and functionalization of membrane proteins.

  1. Dexamethasone blocks the migration of the human neuroblastoma cell line SK-N-SH

    Directory of Open Access Journals (Sweden)

    L.A. Casulari

    2006-09-01

    Full Text Available Glucocorticoids (Gc influence the differentiation of neural crest-derived cells such as those composing sympathoadrenal tumors like pheochromocytomas, as well as neuroblastomas and gangliomas. In order to obtain further information on the effects of Gc on cells evolving from the neural crest, we have used the human neuroblastoma cell line SK-N-SH to analyze: 1 the presence and the binding characteristics of Gc receptors in these cells, 2 the effect of dexamethasone (Dex on the migration of SK-N-SH cells, and 3 the effect of Dex on the organization of the cytoskeleton of SK-N-SH cells. We show that: 1 receptors that bind [³H]-Dex with high affinity and high capacity (Kd of 9.6 nM, Bmax of 47 fmol/mg cytosolic protein, corresponding to 28,303 sites/cell are present in cytosolic preparations of SK-N-SH cells, and 2 treatment with Dex (in the range of 10 nM to 1 µM has an inhibitory effect (from 100% to 74 and 43%, respectively on the chemotaxis of SK-N-SH cells elicited by fetal bovine serum. This inhibition is completely reversed by the Gc receptor antagonist RU486 (1 µM, and 3 as demonstrated by fluorescent phalloidin-actin detection, the effect of Dex (100 nM on SK-N-SH cell migration is accompanied by modifications of the cytoskeleton organization that appear with stress fibers. These modifications did not take place in the presence of 1 µM RU486. The present data demonstrate for the first time that Dex affects the migration of neuroblastoma cells as well as their cytoskeleton organization by interacting with specific receptors. These findings provide new insights on the mechanism(s of action of Gc on cells originating in the neural crest.

  2. Dexamethasone blocks the migration of the human neuroblastoma cell line SK-N-SH

    Directory of Open Access Journals (Sweden)

    L.A. Casulari

    Full Text Available Glucocorticoids (Gc influence the differentiation of neural crest-derived cells such as those composing sympathoadrenal tumors like pheochromocytomas, as well as neuroblastomas and gangliomas. In order to obtain further information on the effects of Gc on cells evolving from the neural crest, we have used the human neuroblastoma cell line SK-N-SH to analyze: 1 the presence and the binding characteristics of Gc receptors in these cells, 2 the effect of dexamethasone (Dex on the migration of SK-N-SH cells, and 3 the effect of Dex on the organization of the cytoskeleton of SK-N-SH cells. We show that: 1 receptors that bind [³H]-Dex with high affinity and high capacity (Kd of 9.6 nM, Bmax of 47 fmol/mg cytosolic protein, corresponding to 28,303 sites/cell are present in cytosolic preparations of SK-N-SH cells, and 2 treatment with Dex (in the range of 10 nM to 1 µM has an inhibitory effect (from 100% to 74 and 43%, respectively on the chemotaxis of SK-N-SH cells elicited by fetal bovine serum. This inhibition is completely reversed by the Gc receptor antagonist RU486 (1 µM, and 3 as demonstrated by fluorescent phalloidin-actin detection, the effect of Dex (100 nM on SK-N-SH cell migration is accompanied by modifications of the cytoskeleton organization that appear with stress fibers. These modifications did not take place in the presence of 1 µM RU486. The present data demonstrate for the first time that Dex affects the migration of neuroblastoma cells as well as their cytoskeleton organization by interacting with specific receptors. These findings provide new insights on the mechanism(s of action of Gc on cells originating in the neural crest.

  3. MEDLINE MeSH Indexing: Lessons Learned from Machine Learning and Future Directions

    DEFF Research Database (Denmark)

    Jimeno-Yepes, Antonio; Mork, James G.; Wilkowski, Bartlomiej

    2012-01-01

    Map and a k-NN approach called PubMed Related Citations (PRC). Our motivation is to improve the quality of MTI based on machine learning. Typical machine learning approaches fit this indexing task into text categorization. In this work, we have studied some Medical Subject Headings (MeSH) recommended by MTI...... and analyzed the issues when using standard machine learning algorithms. We show that in some cases machine learning can improve the annotations already recommended by MTI, that machine learning based on low variance methods achieves better performance and that each MeSH heading presents a different behavior...

  4. Comparative Analysis of Duckweed Cultivation with Sewage Water and SH Media for Production of Fuel Ethanol

    OpenAIRE

    2014-01-01

    Energy crises and environmental pollution have caused considerable concerns; duckweed is considered to be a promising new energy plant that may relieve such problems. Lemna aequinoctialis strain 6000, which has a fast growth rate and the ability to accumulate high levels of starch was grown in both Schenk & Hildebrandt medium (SH) and in sewage water (SW). The maximum growth rates reached 10.0 g DW m−2 day−1 and 4.3 g DW m−2 day−1, respectively, for the SH and SW cultures, while the starch co...

  5. The Generation of Eukaryotic Expression Vectors of shRNA Specific for Stat6

    Institute of Scientific and Technical Information of China (English)

    2005-01-01

    1 Introduction Since RNA interference (RNAi) was first discovered in plant and the nematode Caenorhabditis elegans in 1998~([1]), it quickly became a powerful and indispensable tool in the molecular toolkit. Small interfering RNA (siRNA) that binds to specific endogenous mRNA and induce their degradation is now widely employed to inhibit protein expression at post-transcriptional level. Recently, RNAi techniques have employed short hairpin RNA (shRNA) instead of siRNA because shRNA can generate siRNA in cel...

  6. Transduction in Streptomyces hygroscopicus mediated by the temperate bacteriophage SH10.

    Science.gov (United States)

    Süss, F; Klaus, S

    1981-01-01

    The temperate actinophage SH10 mediates generalized transduction in Streptomyces hygroscopicus at low frequency. The efficiency of transduction depends on the average phage input, age of outgrowing spores of the recipient and on the selective marker. The highest EOT was found for the auxotrophic mutants 21(phe-) and 5(try-) (4.2 x 10(-6) and 2.7 x 10(-6), respectively). Transduction of the thermosensitive mutant NG14-216 ts 35 was two orders of magnitude lower (2.5 x 10(-8)). The transductant colonies segregated into stable and unstable clones. Stable transductants were never found to be lysogenic for phage SH10.

  7. Structure of the SH3 domain of human osteoclast-stimulating factor at atomic resolution

    Energy Technology Data Exchange (ETDEWEB)

    Chen, Liqing, E-mail: chenlq@uah.edu; Wang, Yujun [Laboratory for Structural Biology, University of Alabama in Huntsville, Huntsville, Alabama 35899 (United States); Department of Chemistry, University of Alabama in Huntsville, Huntsville, Alabama 35899 (United States); Graduate Program of Biotechnology, University of Alabama in Huntsville, Huntsville, Alabama 35899 (United States); Wells, David; Toh, Diana; Harold, Hunt [Laboratory for Structural Biology, University of Alabama in Huntsville, Huntsville, Alabama 35899 (United States); Zhou, Jing [Laboratory for Structural Biology, University of Alabama in Huntsville, Huntsville, Alabama 35899 (United States); Department of Chemistry, University of Alabama in Huntsville, Huntsville, Alabama 35899 (United States); Graduate Program of Biotechnology, University of Alabama in Huntsville, Huntsville, Alabama 35899 (United States); DiGiammarino, Enrico [Laboratory for Structural Biology, University of Alabama in Huntsville, Huntsville, Alabama 35899 (United States); Meehan, Edward J. [Laboratory for Structural Biology, University of Alabama in Huntsville, Huntsville, Alabama 35899 (United States); Department of Chemistry, University of Alabama in Huntsville, Huntsville, Alabama 35899 (United States); Graduate Program of Biotechnology, University of Alabama in Huntsville, Huntsville, Alabama 35899 (United States)

    2006-09-01

    The crystal structure of the SH3 domain of human osteoclast-stimulating factor has been determined and refined to the ultrahigh resolution of 1.07 Å. The structure at atomic resolution provides an accurate framework for structure-based design of its inhibitors. Osteoclast-stimulating factor (OSF) is an intracellular signaling protein, produced by osteoclasts themselves, that enhances osteoclast formation and bone resorption. It is thought to act via an Src-related signaling pathway and contains SH3 and ankyrin-repeat domains which are involved in protein–protein interactions. As part of a structure-based anti-bone-loss drug-design program, the atomic resolution X-ray structure of the recombinant human OSF SH3 domain (hOSF-SH3) has been determined. The domain, residues 12–72, yielded crystals that diffracted to the ultrahigh resolution of 1.07 Å. The overall structure shows a characteristic SH3 fold consisting of two perpendicular β-sheets that form a β-barrel. Structure-based sequence alignment reveals that the putative proline-rich peptide-binding site of hOSF-SH3 consists of (i) residues that are highly conserved in the SH3-domain family, including residues Tyr21, Phe23, Trp49, Pro62, Asn64 and Tyr65, and (ii) residues that are less conserved and/or even specific to hOSF, including Thr22, Arg26, Thr27, Glu30, Asp46, Thr47, Asn48 and Leu60, which might be key to designing specific inhibitors for hOSF to fight osteoporosis and related bone-loss diseases. There are a total of 13 well defined water molecules forming hydrogen bonds with the above residues in and around the peptide-binding pocket. Some of those water molecules might be important for drug-design approaches. The hOSF-SH3 structure at atomic resolution provides an accurate framework for structure-based design of its inhibitors.

  8. Examination of dioxin degradation conditions for geobacillus midousuji SH2B-J2

    Energy Technology Data Exchange (ETDEWEB)

    Hoshina, S. [Jikei Univ., School of Medicine, Tokyo (Japan); Ohtsuka, Y. [Forestry and Forest Products Research Instiute; Goda, H. [Towa Kagaku Co., Ltd.

    2004-09-15

    Cellular membrane degradation capability of SH2B-J2 strains for dioxin mixtures that are greater than tetra-chlorinated have been examined. Optimal temperature, reaction time, optimal pH, and heavy metal resistance of cellular membrane enzyme were investigated, to examine dioxin degradation characteristics of SH2B-J2 strains. For chlorinated dioxins, a mixture (PCDD/PCDF mix) containing 7 species of dibenzo-p-dioxins greater than tetra-chlorinated, as well as 10 isomers of dibenzofurans, was used. Using GC/MS, decrease of 17 species of dioxin isomer/congener was measured.

  9. NH4SH and cloud cover in the atmospheres of the giant planets

    Science.gov (United States)

    Ibragimov, K. Iu.; Solodovnik, A. A.

    1991-02-01

    The probability of the formation of NH4SH and (NH4)2S is examined on the basis of the Le Chatelier principle. It is shown that it is very doubtful if NH4SH can be created in the atmospheres of the giant planets in quantities sufficient for cloud formation. Thus (NH4)2S is considered as a more likely candidate for cloud formation in the atmospheres of these planets, inasmuch as the conditions for its production there are more favorable.

  10. MISSION LentiPlex pooled shRNA library screening in mammalian cells.

    Science.gov (United States)

    Coussens, Matthew J; Corman, Courtney; Fischer, Ashley L; Sago, Jack; Swarthout, John

    2011-12-21

    RNA interference (RNAi) is an intrinsic cellular mechanism for the regulation of gene expression. Harnessing the innate power of this system enables us to knockdown gene expression levels in loss of gene function studies. There are two main methods for performing RNAi. The first is the use of small interfering RNAs (siRNAs) that are chemically synthesized, and the second utilizes short-hairpin RNAs (shRNAs) encoded within plasmids. The latter can be transfected into cells directly or packaged into replication incompetent lentiviral particles. The main advantages of using lentiviral shRNAs is the ease of introduction into a wide variety of cell types, their ability to stably integrate into the genome for long term gene knockdown and selection, and their efficacy in conducting high-throughput loss of function screens. To facilitate this we have created the LentiPlex pooled shRNA library. The MISSION LentiPlex Human shRNA Pooled Library is a genome-wide lentiviral pool produced using a proprietary process. The library consists of over 75,000 shRNA constructs from the TRC collection targeting 15,000+ human genes. Each library is tested for shRNA representation before product release to ensure robust library coverage. The library is provided in a ready-to-use lentiviral format at titers of at least 5 x 10(8) TU/ml via p24 assay and is pre-divided into ten subpools of approximately 8,000 shRNA constructs each. Amplification and sequencing primers are also provided for downstream target identification. Previous studies established a synergistic antitumor activity of TRAIL when combined with Paclitaxel in A549 cells, a human lung carcinoma cell line. In this study we demonstrate the application of a pooled LentiPlex shRNA library to rapidly conduct a positive selection screen for genes involved in the cytotoxicity of A549 cells when exposed to TRAIL and Paclitaxel. One barrier often encountered with high-throughput screens is the cost and difficulty in deconvolution; we

  11. Envisioning the Shôjo Aesthetic in Illustrations of Miyazawa Kenji’s Literature.

    Directory of Open Access Journals (Sweden)

    Helen Claire Kilpatrick

    2013-01-01

    Full Text Available Despite an ever-growing body of scholarship on the shôjo (girl in manga and anime, little has been written about representations of the ‘girl’ in Japanese picture books. Shôjo literature and culture have grown exponentially in Japan since about the 1980s, but there has been a tendency in popular media to overemphasise the 'cute', disempowering aspects of the ‘girl’. By using Takahara Eiri's (1999 concept of “girl consciousness” and Honda Masuko's (1992 envisioning of the girl’s imagined freedom through a hirahira (fluttering aesthetic, notions of the powerless or mindlessly consuming shôjo can be dispelled. Such concepts help demonstrate that the girl ‘has her own creative, critical and cultural, if not social or political, power’ (Aoyama 2008: 286. This paper examines the shôjo tropes in contemporary illustrations that were produced to accompany two tales by the renowned author Miyazawa Kenji (1896-1933, Futago no Hoshi (Twin Stars and Ginga Tetsudô no Yoru (Night of the Milky Way Railway. Although Kenji (as he is known is not generally considered a shôjo author, some of his works incorporate gently transgressive shôjo themes reminiscent of, for example, Yoshiya Nobuko’s Hana Monogatari (Flower Tales from the 1920s. I argue that the current artwork of two award-winning artists, Makino Suzuko and Azuma Itsuko, reflects and enhances Kenji’s ‘girlish’ verbal images, bringing them to the fore in their accompanying imagery for Futago and Ginga by drawing on shôjo art, manga and literature. The artists thus bring into play intertextual references that occur not only across different historical temporalities but also through relations between the author, the artist, the text(s, the protagonists and the reading/viewing audience. The analysis of their striking artwork shows how they bring Kenji’s 1920s’ works firmly into the arena of the contemporary ‘girl’, expanding the abstract consciousness of the sh

  12. Protein aggregation and amyloid fibril formation by an SH3 domain probed by limited proteolysis.

    Science.gov (United States)

    Polverino de Laureto, Patrizia; Taddei, Niccolò; Frare, Erica; Capanni, Cristina; Costantini, Silvia; Zurdo, Jesús; Chiti, Fabrizio; Dobson, Christopher M; Fontana, Angelo

    2003-11-14

    The SH3 domains are small protein modules of 60-85 amino acid residues that are found in many proteins involved in intracellular signal transduction. The SH3 domain of the p85alpha subunit of bovine phosphatidylinositol 3'-kinase (PI3-SH3) under acidic solution adopts a compact denatured state from which amyloid fibrils are readily formed. This aggregation process has been found to be modulated substantially by solution conditions. Here, we have analyzed the conformational features of the native and acid denatured states of PI3-SH3 by limited proteolysis experiments using proteinase K and pepsin, respectively. Moreover, we have analyzed the propensity of PI3-SH3 to be hydrolyzed by pepsin at different stages in the process of aggregation and amyloid formation at pH 1.2 and 2.0 and compared the sites of proteolysis under these conditions with the conformational features of both native and aggregated PI3-SH3. The results demonstrate that the denatured state of PI3-SH3 formed at low pH is relatively resistant to proteolysis, indicating that it is partially folded. The long loop connecting beta-strands b and c in the native protein is the region in this structure most susceptible to proteolysis. Remarkably, aggregates of PI3-SH3 that are formed initially from this denatured state in acid solution display enhanced susceptibility to proteolysis of the long loop, suggesting that the protein becomes more unfolded in the early stages of aggregation. By contrast, the more defined amyloid fibrils that are formed over longer periods of time are completely resistant to proteolysis. We suggest that the protein aggregates formed initially are relatively dynamic species that are able readily to reorganize their interactions to enable formation of very well ordered fibrillar structures. In addition, the disordered and non-native character of the polypeptide chains in the early aggregates could be important in determining the high cytotoxicity that has been revealed in previous

  13. Genomic characterization of Haemophilus parasuis SH0165, a highly virulent strain of serovar 5 prevalent in China.

    Directory of Open Access Journals (Sweden)

    Zhuofei Xu

    Full Text Available Haemophilus parasuis can be either a commensal bacterium of the porcine respiratory tract or an opportunistic pathogen causing Glässer's disease, a severe systemic disease that has led to significant economical losses in the pig industry worldwide. We determined the complete genomic sequence of H. parasuis SH0165, a highly virulent strain of serovar 5, which was isolated from a hog pen in North China. The single circular chromosome was 2,269,156 base pairs in length and contained 2,031 protein-coding genes. Together with the full spectrum of genes detected by the analysis of metabolic pathways, we confirmed that H. parasuis generates ATP via both fermentation and respiration, and possesses an intact TCA cycle for anabolism. In addition to possessing the complete pathway essential for the biosynthesis of heme, this pathogen was also found to be well-equipped with different iron acquisition systems, such as the TonB system and ABC-type transport complexes, to overcome iron limitation during infection and persistence. We identified a number of genes encoding potential virulence factors, such as type IV fimbriae and surface polysaccharides. Analysis of the genome confirmed that H. parasuis is naturally competent, as genes related to DNA uptake are present. A nine-mer DNA uptake signal sequence (ACAAGCGGT, identical to that found in Actinobacillus pleuropneumoniae and Mannheimia haemolytica, followed by similar downstream motifs, was identified in the SH0165 genome. Genomic and phylogenetic comparisons with other Pasteurellaceae species further indicated that H. parasuis was closely related to another swine pathogenic bacteria A. pleuropneumoniae. The comprehensive genetic analysis presented here provides a foundation for future research on the metabolism, natural competence and virulence of H. parasuis.

  14. MeSH key terms for validation and annotation of gene expression clusters

    Energy Technology Data Exchange (ETDEWEB)

    Rechtsteiner, A. (Andreas); Rocha, L. M. (Luis Mateus)

    2004-01-01

    Integration of different sources of information is a great challenge for the analysis of gene expression data, and for the field of Functional Genomics in general. As the availability of numerical data from high-throughput methods increases, so does the need for technologies that assist in the validation and evaluation of the biological significance of results extracted from these data. In mRNA assaying with microarrays, for example, numerical analysis often attempts to identify clusters of co-expressed genes. The important task to find the biological significance of the results and validate them has so far mostly fallen to the biological expert who had to perform this task manually. One of the most promising avenues to develop automated and integrative technology for such tasks lies in the application of modern Information Retrieval (IR) and Knowledge Management (KM) algorithms to databases with biomedical publications and data. Examples of databases available for the field are bibliographic databases c ntaining scientific publications (e.g. MEDLINE/PUBMED), databases containing sequence data (e.g. GenBank) and databases of semantic annotations (e.g. the Gene Ontology Consortium and Medical Subject Headings (MeSH)). We present here an approach that uses the MeSH terms and their concept hierarchies to validate and obtain functional information for gene expression clusters. The controlled and hierarchical MeSH vocabulary is used by the National Library of Medicine (NLM) to index all the articles cited in MEDLINE. Such indexing with a controlled vocabulary eliminates some of the ambiguity due to polysemy (terms that have multiple meanings) and synonymy (multiple terms have similar meaning) that would be encountered if terms would be extracted directly from the articles due to differing article contexts or author preferences and background. Further, the hierarchical organization of the MeSH terms can illustrate the conceptuallfunctional relationships of genes

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

    Institute of Scientific and Technical Information of China (English)

    Zhongxian Liu; Lei Liu

    2015-01-01

    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.

  16. Photodissociation dynamics of CH{sub 3}C(O)SH in argon matrix: A QM/MM nonadiabatic dynamics simulation

    Energy Technology Data Exchange (ETDEWEB)

    Xia, Shu-Hua; Liu, Xiang-Yang; Fang, Qiu; Cui, Ganglong, E-mail: ganglong.cui@bnu.edu.cn [Key Laboratory of Theoretical and Computational Photochemistry, Ministry of Education, College of Chemistry, Beijing Normal University, Beijing 100875 (China)

    2015-11-21

    In this work, we have first employed the combined quantum mechanics/molecular mechanics (QM/MM) method to study the photodissociation mechanism of thioacetic acid CH{sub 3}C(O)SH in the S{sub 1}, T{sub 1}, and S{sub 0} states in argon matrix. CH{sub 3}C(O)SH is treated quantum mechanically using the complete active space self-consistent field and complete active space second-order perturbation theory methods; argon matrix is described classically using Lennard-Jones potentials. We find that the C-S bond fission is predominant due to its small barriers of ca. 3.0 and 1.0 kcal/mol in the S{sub 1} and T{sub 1} states. It completely suppresses the nearby C—C bond fission. After the bond fission, the S{sub 1} radical pair of CH{sub 3}CO and SH can decay to the S{sub 0} and T{sub 1} states via internal conversion and intersystem crossing, respectively. In the S{sub 0} state, the radical pair can either recombine to form CH{sub 3}C(O)SH or proceed to form molecular products of CH{sub 2}CO and H{sub 2}S. We have further employed our recently developed QM/MM generalized trajectory-based surface-hopping method to simulate the photodissociation dynamics of CH{sub 3}C(O)SH. In 1 ps dynamics simulation, 56% trajectories stay at the Franck-Condon region; the S{sub 1} C—S bond fission takes place in the remaining 44% trajectories. Among all nonadiabatic transitions, the S{sub 1} → S{sub 0} internal conversion is major (55%) but the S{sub 1} → T{sub 1} intersystem crossing is still comparable and cannot be ignored, which accounts for 28%. Finally, we have found a radical channel generating the molecular products of CH{sub 2}CO and H{sub 2}S, which is complementary to the concerted molecular channel. The present work sets the stage for simulating photodissociation dynamics of similar thio-carbonyl systems in matrix.

  17. Neurotoxin-induced DNA damage is persistentin SH-SY5Y cells and LC neurons

    Science.gov (United States)

    Wang, Yan; Musich, Phillip R.; Cui, Kui; Zou, Yue; Zhu, Meng-Yang

    2015-01-01

    Degeneration of the noradrenergic neurons has been reported in the brain of patients suffering from neurodegenerative diseases. However, their pathologic characteristics during the neurodegenerative course and underlying mechanisms remain to be elucidated. In the present study, we used the neurotoxincamptothecin (CPT)to induce the DNA damage response in neuroblastoma SH-SY5Y cells, normal fibroblast cells, and primarily cultured LC and raphe neurons to examine cellular responses and repair capabilities after neurotoxin exposure. To our knowledge, the present study is the first to show that noradrenergic SH-SY5Y cells are more sensitive to CPT-induced DNA damage and deficientin DNA repair, as compared to fibroblast cells. Furthermore, similar to SH-SY5Y cells, primarily cultured LC neurons are more sensitive to CPT-induced DNA damage and show a deficiency in repairing this damage. Moreover, while N-(2-chloroethyl)-N-ethyl-2-bromobenzylamine (DSP4) exposure also results in DNA damage in cultured LC neurons, neither CPT nor DSP4 induce DNA damage in neuronal cultures from the raphe nuclei. Taken together, noradrenergic SH-SY5Y cells and LC neurons are sensitive to CPT-induced DNA damage and exhibit a repair deficiency, providing a mechanistic explanation for the pathologic characteristics of LC degeneration when facing endogenous and environmental DNA-damaging insultsin vivo. PMID:25724887

  18. Systems analysis of quantitative shRNA-library screens identifies regulators of cell adhesion

    Directory of Open Access Journals (Sweden)

    Huang XiaoDong

    2008-06-01

    Full Text Available Abstract Background High throughput screens with RNA interference technology enable loss-of-function analyses of gene activities in mammalian cells. While the construction of genome-scale shRNA libraries has been successful, results of large-scale screening of those libraries can be difficult to analyze because of the relatively high noise levels and the fact that not all shRNAs in a library are equally effective in silencing gene expression. Results We have screened a library consisting of 43,828 shRNAs directed against 8,500 human genes for functions that are necessary in cell detachment induced by a constitutively activated c-Abl tyrosine kinase. To deal with the issues of noise and uncertainty of knockdown efficiencies, we employed an analytical strategy that combines quantitative data analysis with biological knowledge, i.e. Gene Ontology and pathway information, to increase the power of the RNAi screening technique. Using this strategy we found 16 candidate genes to be involved in Abl-induced disruption of cell adhesion, and verified that the knockdown of IL6ST is associated with enhanced cell attachment. Conclusion Our results suggest that the power of genome-wide quantitative shRNA screens can be significantly increased when analyzed using a systems biology-based approach to identify functional gene networks.

  19. Creatures of Myth and Modernity: Representations of Shōjō in the Meiji Era

    Directory of Open Access Journals (Sweden)

    Daniel J. Wyatt

    2017-06-01

    Full Text Available This study investigates the multiple representations of shōjō in the translated literature and print media of Japan’s Meiji era. It explores the origins of the shōjō as a yōkai, or mythical being of traditional folklore and Noh theatre, through to its unveiling as a real-life creature of the modern world, as an orangutan, initially at misemono sideshows, before its introduction to the Tokyo public at the Ueno Zoo, in 1898. The zoo, as a new framework for ordering the relationship between people and the natural world, is one of the cultural systems through which knowledge of the shōjō was constructed, circulated and experienced in this period. Examining such materials, the paper reveals contesting knowledge systems that contributed to modern experience. Translation also plays an important role in this process, and the translated literature of this era is explored and foregrounded here as an active contributor to the creation and transition of knowledge of exotic animals like the shōjō in late nineteenth- and early twentieth-century Japan.

  20. Targeting the SH2-Kinase Interface in Bcr-Abl Inhibits Leukemogenesis

    Energy Technology Data Exchange (ETDEWEB)

    Grebien, Florian; Hantschel, Oliver; Wojcik, John; Kaupe, Ines; Kovacic, Boris; Wyrzucki, Arkadiusz M.; Gish, Gerald D.; Cerny-Reiterer, Sabine; Koide, Akiko; Beug, Hartmut; Pawson, Tony; Valent, Peter; Koide, Shohei; Superti-Furga, Giulio (AAS); (Mount Sinai Hospital); (Med U. Vienna); (UC); (IMP-CNRS)

    2012-10-25

    Chronic myelogenous leukemia (CML) is caused by the constitutively active tyrosine kinase Bcr-Abl and treated with the tyrosine kinase inhibitor (TKI) imatinib. However, emerging TKI resistance prevents complete cure. Therefore, alternative strategies targeting regulatory modules of Bcr-Abl in addition to the kinase active site are strongly desirable. Here, we show that an intramolecular interaction between the SH2 and kinase domains in Bcr-Abl is both necessary and sufficient for high catalytic activity of the enzyme. Disruption of this interface led to inhibition of downstream events critical for CML signaling and, importantly, completely abolished leukemia formation in mice. Furthermore, disruption of the SH2-kinase interface increased sensitivity of imatinib-resistant Bcr-Abl mutants to TKI inhibition. An engineered Abl SH2-binding fibronectin type III monobody inhibited Bcr-Abl kinase activity both in vitro and in primary CML cells, where it induced apoptosis. This work validates the SH2-kinase interface as an allosteric target for therapeutic intervention.

  1. Challenges and Opportunities for Mainstreaming Climate Change Adaptation into WaSH Development Planning in Ghana

    Science.gov (United States)

    2017-01-01

    Climate change threatens water, sanitation and hygiene (WaSH) facilities and services, as these are intimately linked to the water cycle and are vulnerable to changes in the quantity and quality of available water resources. Floods and droughts, which pollute and reduce water delivery respectively, have now become a perennial issue to deal with in the northern regions of Ghana. This study aimed to assess the degree to which climate change adaptation measures are mainstreamed into the water, sanitation and hygiene (WaSH) development planning process in Ghana. Stakeholders from government and non-government agencies were interviewed to gain perspectives on the threat of climate change, the inclusion of climate change in WaSH planning and the barriers preventing mainstreaming. Despite awareness of climate change, adaptation measures have not been considered, and the immediate WaSH needs remain the priority. Overall, stakeholders felt the adaptive capacity of the Municipality was low and that mainstreaming has not yet occurred. Despite the lack of progress, there are great opportunities for mainstreaming climate change adaptation into planning through increasing awareness and capacity, legislative and institutional changes and the development of participatory systems to provide early warning systems and disaster risk analyses that will inform future planning. PMID:28698518

  2. Fast evaluation of complete synthetic SH seismograms based on asymptotic mode theory

    NARCIS (Netherlands)

    Bastians, M.W.J.M.

    1986-01-01

    In this thesis we have developed an asymptotic mode theory with the following features. 1) Complete synthetic SH seismograms can be evaluated for both realistic models of Earth and crust. 2) The method is of practical value and can be used even on small computers wi th reasonable computation times o

  3. shRNA-armed conditionally replicative adenoviruses: a promising approach for cancer therapy

    Science.gov (United States)

    Zhang, Jie; Ding, Meng; Xu, Kai; Mao, Lijun; Zheng, Junian

    2016-01-01

    The small-interfering RNAs (siRNAs) have been employed to knockdown the expression of cancer-associated genes and shown some promise in cancer therapy. However, synthetic siRNA duplexes or plasmid mediated delivery of siRNAs have several problems, such as short half-life, low transfection efficiency and cytotoxicity associated with transfection. Conditionally replicating adenovirus (CRAds) as the delivery vector for short hairpin RNAs (shRNAs) could overcome these limitations and have shown augmented anti-tumor effects in experimental studies and preclinical trials. In this review, we summarize recent progress in the development of CRAds-shRNA for cancer treatment. Combination of CRAds-shRNA with chemotherapeutics, radiation, dendritic cells, monoclonal antibodies and small-molecule inhibitors will be necessary to eradicate cancer cells and cancer stem cells and achieve superior outcomes. The use of CRAd platform for efficient delivery of shRNAs and foreign genes will open a new avenue for cancer therapy. PMID:26980708

  4. A two step hardware design method using CλaSH

    NARCIS (Netherlands)

    Wester, Rinse; Baaij, C.P.R.; Kuper, Jan

    2012-01-01

    In order to effectively utilize the growing number of resources available on FPGAs, higher level abstraction mechanisms are needed to deal with increasing complexity resulting from large designs. Functional hardware description languages, like the CλaSH HDL, offer adequate abstraction mechanisms

  5. Molecular dynamics simulations from putative transition states of alpha-spectrin SH3 domain

    NARCIS (Netherlands)

    Periole, Xavier; Vendruscolo, Michele; Mark, Alan E.

    2007-01-01

    A series of molecular dynamics simulations in explicit solvent were started from nine structural models of the transition state of the SH3 domain of alpha-spectrin, which were generated by Lindorff Larsen et al. (Nat Struct Mol Biol 2004;11:443-449) using molecular dynamics simulations in which expe

  6. Publication trends in the medical informatics literature: 20 years of "Medical Informatics" in MeSH

    Directory of Open Access Journals (Sweden)

    LaVallie Donna L

    2009-01-01

    Full Text Available Abstract Background The purpose of this study is to identify publication output, and research areas, as well as descriptively and quantitatively characterize the field of medical informatics through publication trend analysis over a twenty year period (1987–2006. Methods A bibliometric analysis of medical informatics citations indexed in Medline was performed using publication trends, journal frequency, impact factors, MeSH term frequencies and characteristics of citations. Results There were 77,023 medical informatics articles published during this 20 year period in 4,644 unique journals. The average annual article publication growth rate was 12%. The 50 identified medical informatics MeSH terms are rarely assigned together to the same document and are almost exclusively paired with a non-medical informatics MeSH term, suggesting a strong interdisciplinary trend. Trends in citations, journals, and MeSH categories of medical informatics output for the 20-year period are summarized. Average impact factor scores and weighted average impact factor scores increased over the 20-year period with two notable growth periods. Conclusion There is a steadily growing presence and increasing visibility of medical informatics literature over the years. Patterns in research output that seem to characterize the historic trends and current components of the field of medical informatics suggest it may be a maturing discipline, and highlight specific journals in which the medical informatics literature appears most frequently, including general medical journals as well as informatics-specific journals.

  7. Comparing CλaSH and VHDL by implementing a dataflow processor

    NARCIS (Netherlands)

    Niedermeier, Anja; Wester, Rinse; Baaij, Christiaan; Kuper, Jan; Smit, Gerard

    2010-01-01

    As embedded systems are becoming increasingly complex, the design process and verification have become very time-consuming. Additionally, specifying hardware manually in a low-level hardware description language like VHDL is usually an error-prone task. In our group, a tool (the ClaSH compiler) was

  8. On the Performance of Medical Information Retrieval using MeSH Terms – A Survey

    Directory of Open Access Journals (Sweden)

    Swetha S

    2014-09-01

    Full Text Available Internet users have increased everywhere. Searching and retrieving documents is a common thing nowadays. Retrieving related documents from the search engines are difficult task. To retrieve correct documents, knowledge about the search topic is essential. Even though separate search engines are there to retrieve medical documents the users are not familiar with MeSH terms (Medical Subject Heading. So, both the search browser and the MeSH terms have to be integrated to make the search effective and efficient. To implement this integration, SimpleMed and MeSHMed were introduced. The MeSH terms have to be ranked to know how frequently it has been used and to know the importance of the MeSH terms. To rank it a semi – automated tool called MeSHy was developed. The terms were extracted, filtered, ranked and displayed to the user. Classifiers have to be constructed to label the documents as health and non – health. Three strategies were used to classify them. The errors that are commonly done by the users have to be found out. It was calculated based on the queries presented by the user to the search browser.

  9. Physical properties of the Sh2-104 HII region as seen by Herschel

    CERN Document Server

    Rodón, J A; Baluteau, J -P; Anderson, L D; Polehampton, E; Abergel, A; Motte, F; Bontemps, S; Ade, P; André, P; Arab, H; Beichman, C; Bernard, J -P; Blagrave, K; Boulanger, F; Cohen, M; Compiegne, M; Cox, P; Dartois, E; Davis, G; Emery, R; Fulton, T; Gry, C; Habart, E; Halpern, M; Huang, M; Joblin, C; Jones, S C; Kirk, J; Lagache, G; Lin, T; Madden, S; Makiwa, G; Martin, P; Miville-Deschênes, M -A; Molinari, S; Moseley, H; Naylor, D; Okumura, K; Orieux, F; Gonçalvez, D Pinheiro; Rodet, T; Russeil, D; Saraceno, P; Sidher, S; Spencer, L; Swinyard, B; Ward-Thompson, D; White, G

    2010-01-01

    Context: Sh2-104 is a Galactic H ii region with a bubble morphology, detected at optical and radio wavelengths. It is considered the first observational confirmation of the collect-and-collapse model of triggered star-formation. Aims: We aim to analyze the dust and gas properties of the Sh2-104 region to better constrain its effect on local future generations of stars. In addition, we investigate the relationship between the dust emissivity index {\\beta} and the dust temperature, T_dust. Methods: Using Herschel PACS and SPIRE images at 100, 160, 250, 350 and 500 {\\mu}m we determine T_dust and {\\beta} throughout Sh2-104, fitting the spectral energy distributions (SEDs) obtained from aperture photometry. With the SPIRE Fourier transform spectrometer (FTS) we obtained spectra at different positions in the Sh2-104 region. We detect J-ladders of CO and 13CO, with which we derive the gas temperature and column density. We also detect proxies of ionizing flux as the [NII] 3P1-3P0 and [CI] 3P2-3P1 transitions. Result...

  10. Structure of the SH3 domain of rat endophilin A2

    OpenAIRE

    Loll, Patrick J.; Swain, Evelyn; Chen, Yuan; Turner, Brian T.; Zhang, Ji-fang

    2008-01-01

    The crystal structure of the SH3 domain of rat endophilin A2 has been determined by the multiwavelength anomalous dispersion method and refined at a resolution of 1.70 Å to R and R free values of 0.196 and 0.217, respectively.

  11. [Constructing recombinant plasmid pSH-CUP and knockout of acid trehalase gene in baker's yeast].

    Science.gov (United States)

    He, Dongqin; Xiao, Dongguang; Lv, Ye

    2008-02-01

    The ATH1 gene encoded acid trehalase in Saccharomyces cerevisiae. The gene disruption cassette combined the heterologous dominant kan(r) resistance marker with a Cre/loxP-mediated marker removal procedure. The gene disruption cassette was produced by PCR using the same long oligonucleotides comprising 50 nucleotides that annealed to sites upstream or downstream of the genomic target sequence to be deleted. After transformation of the linear disruption cassettes with a Cre/loxP-mediated marker into the cells of Saccharomyces cerevisiae BY-6, selected transformants were checked by PCR for correct the integration of the cassette and concurrent deletion of the chromosomal target sequence. The copper-resistance gene (CUP1-MT1) was cloned into pSH47, which yielded pSH-CUP. The recombinant plasmid pSH-CUP was transformed into the cells of Saccharomyces cerevisiae BY-6(delta ATH1, G418(r)), and transformants were selected for copper resistance. Upon expression of the Cre recombinase results in removal of the kan(r) gene, leaving behind a single loxP site at the chromosomal locus. Construction of the recombinant plasmid pSH-CUP avoided inserting non-yeast gene and made the loxP - kanMX - loxP gene disruption cassette more conventional for eukaryotic organism gene disruption.

  12. Espermatozoides caprinos criopreservados em meio à base de leite desnatado acrescido de glutationa reduzida Goat spermatozoa after freezing in skimmed-milk extender supplemented with reduced glutathione

    Directory of Open Access Journals (Sweden)

    Adriana Trindade Soares

    2011-11-01

    Full Text Available Visando avaliar o efeito da adição de glutationa reduzida (GSH ao diluente de congelação de sêmen caprino à base de leite desnatado, utilizou-se sêmen de cinco reprodutores Boer. Após colheita e avaliação, procedeu-se à formação do pool dos ejaculados e diluição em leite desnatado e glicerol 7%, acrescido de antioxidantes: G1 Controle; G2 GSH 2mM mL-1; G3 GSH 5mM mL-1 e G4 GSH 7mM mL-1. As amostras foram congeladas em palhetas (0,25mL e armazenadas a -196°C. Após descongelação, avaliou-se a integridade de membrana plasmática (iMP e acrossomal (iAc, potencial de membrana mitocondrial (PMM, cinética e ultraestrutura. Os grupos Controle e GSH (2, 5 e 7mM mL-1 não diferiram (P>0,05 em iMP, iAc, PMM e cinética. Na análise ultraestrutural, os porcentuais de membrana plasmática (cabeça e cauda e acrossoma íntegros não diferiram (P>0,05 entre grupos. Todavia, o grupo Controle apresentou maior porcentual (PAiming to evaluate in vitro effect of different concentrations of glutathione reduced (GSH in skimmed-milk and glycerol 7% it was used semen from five Boer bucks. After collect and evaluation, a pool of samples was diluted in skimmed-milk and glycerol 7% plus antioxidant: G1 Control; G2 GSH 2mM mL-1; G3 GSH 5mM mL-1 and G4 GSH 7mM mL-1. Samples were frozen in straws (0.25mL and stored at -196°C. After thawing, samples were subjected to integrity of the plasma membrane (iMP and acrosomal (iAc, mitochondrial membrane potential (MMP, kinematic and ultrastructure analysis. Control and GSH (2, 5 and 7mM mL-1 groups did no differ (P>0.05 in iMP, iAc, PMM and kinematic parameters. In the ultrastructural analysis, percentages of acrosome and plasma membrane (tail and head region intact did not differ (P>0.05 between groups. However, Control group had higher percentage (P<0.05 of gametes with intact axonemes than those of GSH (2, 5 and 7mM mL-1 groups. Higher percentage (P<0.05 of sperms with intact mitochondrias were observed on

  13. Short amino acid stretches can mediate amyloid formation in globular proteins: the Src homology 3 (SH3) case.

    Science.gov (United States)

    Ventura, Salvador; Zurdo, Jesús; Narayanan, Saravanakumar; Parreño, Matilde; Mangues, Ramón; Reif, Bernd; Chiti, Fabrizio; Giannoni, Elisa; Dobson, Christopher M; Aviles, Francesc X; Serrano, Luis

    2004-05-11

    Protein misfolding and deposition underlie an increasing number of debilitating human disorders. We have shown that model proteins unrelated to disease, such as the Src homology 3 (SH3) domain of the p58alpha subunit of bovine phosphatidyl-inositol-3'-kinase (PI3-SH3), can be converted in vitro into assemblies with structural and cytotoxic properties similar to those of pathological aggregates. By contrast, homologous proteins, such as alpha-spectrin-SH3, lack the capability of forming amyloid fibrils at a measurable rate under any of the conditions we have so far examined. However, transplanting a small sequence stretch (6 aa) from PI3-SH3 to alpha-spectrin-SH3, comprising residues of the diverging turn and adjacent RT loop, creates an amyloidogenic protein closely similar in its behavior to the original PI3-SH3. Analysis of specific PI3-SH3 mutants further confirms the involvement of this region in conferring amyloidogenic properties to this domain. Moreover, the inclusion in this stretch of two consensus residues favored in SH3 sequences substantially inhibits aggregation. These findings show that short specific amino acid stretches can act as mediators or facilitators in the incorporation of globular proteins into amyloid structures, and they support the suggestion that natural protein sequences have evolved in part to code for structural characteristics other than those included in the native fold, such as avoidance of aggregation.

  14. Construction of shRNA of Fulminant Hepatitis Related Gene mfgl2 and Investigation of Its Biological Effects in vitro

    Institute of Scientific and Technical Information of China (English)

    2007-01-01

    This study was designed to explore the RNA interference technique in inhibition of the expression of the mouse fibrinogen like protein 2 (mfgl2), which has been reported to be involved in the development a variety of diseases including fulminant viral hepatitis. A plasmid named p-mfgl2shRNA,complementary to the sequence of mfgl2 was constructed, while another short hairpin RNA (shRNA)which was a mutated form of the mfgl2shRNA sequences was used as a control. A plasmid named pEGFP-mfgl2 expressing the mfgl2-EGFP fusion protein was also constructed for the screening of the effect of p-mfgl2shRNA on mfgl2 expression. By cotransfection of p-mfgl2shRNA and pEGFP-mfgl2 or pcDNA3.1-mfgl2 expression construct into CHO cells or HeLa cells, the inhibition of mfgl2 expression by mfgl2shRNA was analyzed by direct observation through fluorescent microscopy, FACS, RT-PCR and immunohistochemistry staining. The experiments showed the significant inhibitory effect of p-mfgl2shRNA on mfgl2 expression at 48h post-transfection in both CHO and Hela cell lines with the inhibitory efficiency as high as 80.1%. The study demonstrated that the construct of p-mfgl2shRNA successfully interfered with the mfgl2 expression in vitro.

  15. Effects of depleting ionic strength on (31)P nuclear magnetic resonance spectra of micellar casein during membrane separation and diafiltration of skim milk.

    Science.gov (United States)

    Boiani, Mattia; McLoughlin, Padraig; Auty, Mark A E; FitzGerald, Richard J; Kelly, Phil M

    2017-09-01

    Membrane separation processes used in the concentration and isolation of micellar casein-based milk proteins from skim milk rely on extensive permeation of its soluble serum constituents, especially lactose and minerals. Whereas extensive literature exists on how these processes influence the gross composition of milk proteins, we have little understanding of the effects of such ionic depletion on the core structural unit of micellar casein [i.e., the casein phosphate nanocluster (CPN)]. The (31)P nuclear magnetic resonance (NMR) is an analytical technique that is capable of identifying soluble and organic forms of phosphate in milk. Thus, our objective was to investigate changes to the (31)P NMR spectra of skim milk during microfiltration (MF) and diafiltration (DF) by tracking movements in different species of phosphate. In particular, we examined the peak at 1.11 ppm corresponding to inorganic phosphate in the serum, as well as the low-intensity broad signal between 1.5 and 3.0 ppm attributed to casein-associated phosphate in the retentate. The MF concentration and DF using water caused a shift in the relevant (31)P NMR peak that could be minimized if orthophosphate was added to the DF water. However, this did not resolve the simultaneous change in retentate pH and increased solubilization of micellar casein protein. The addition of calcium in combination with orthophosphate prevented micellar casein solubilization and simultaneously contributed to preservation of the CPN structure, except for overcorrection of retentate pH in the acidic direction. A more complex DF solution, involving a combination of phosphate, calcium, and citrate, succeeded in both CPN and micellar casein structure preservation while maintaining retentate pH in the region of the original milk pH. The combination of (31)P NMR as an analytical technique and experimental probe during MF/DF processes provided useful insights into changes occurring to CPN while retaining the micellar state of

  16. Inhibition and Promotion of Pyrolysis by Hydrogen Sulfide (H2S) and Sulfanyl Radical (SH).

    Science.gov (United States)

    Zeng, Zhe; Altarawneh, Mohammednoor; Oluwoye, Ibukun; Glarborg, Peter; Dlugogorski, Bogdan Z

    2016-11-17

    This study resolves the interaction of sulfanyl radical (SH) with aliphatic (C1-C4) hydrocarbons, using CBS-QB3 based calculations. We obtained the C-H dissociation enthalpies and located the weakest link in each hydrocarbon. Subsequent computations revealed that, H abstraction by SH from the weakest C-H sites in alkenes and alkynes, except for ethylene, appears noticeably exothermic. Furthermore, abstraction of H from propene, 1-butene, and iso-butene displays pronounced spontaneity (i.e., ΔrG° < -20 kJ mol(-1) between 300-1200 K) due to the relatively weak allylic hydrogen bond. However, an alkyl radical readily abstracts H atom from H2S, with H2S acting as a potent scavenger for alkyl radicals in combustion processes. That is, these reactions proceed in the opposite direction than those involving SH and alkene or alkyne species, exhibiting shallow barriers and strong spontaneity. Our findings demonstrate that the documented inhibition effect of hydrogen sulfide (H2S) on pyrolysis of alkanes does not apply to alkenes and alkynes. During interaction with hydrocarbons, the inhibitive effect of H2S and promoting interaction of SH radical depend on the reversibility of the H abstraction processes. For the three groups of hydrocarbon, Evans-Polanyi plots display linear correlations between the bond dissociation enthalpies of the abstracted hydrogens and the relevant activation energies. In the case of methane, we demonstrated that the reactivity of SH radicals toward abstracting H atoms exceeds that of HO2 but falls below those of OH and NH2 radicals.

  17. A computerized English-Spanish correlation index to five biomedical library classification schemes based on MeSH.

    Science.gov (United States)

    Muench, E V

    1971-07-01

    A computerized English/Spanish correlation index to five biomedical library classification schemes and a computerized English/Spanish, Spanish/English listings of MeSH are described. The index was accomplished by supplying appropriate classification numbers of five classification schemes (National Library of Medicine; Library of Congress; Dewey Decimal; Cunningham; Boston Medical) to MeSH and a Spanish translation of MeSH The data were keypunched, merged on magnetic tape, and sorted in a computer alphabetically by English and Spanish subject headings and sequentially by classification number. SOME BENEFITS AND USES OF THE INDEX ARE: a complete index to classification schemes based on MeSH terms; a tool for conversion of classification numbers when reclassifying collections; a Spanish index and a crude Spanish translation of five classification schemes; a data base for future applications, e.g., automatic classification. Other classification schemes, such as the UDC, and translations of MeSH into other languages can be added.

  18. Genome-Wide Prediction of SH2 Domain Targets Using Structural Information and the FoldX Algorithm

    DEFF Research Database (Denmark)

    Sanchez, Ignacio E.; Beltrao, Pedro; Stricher, Francois;

    2008-01-01

    validated the predictions using literature-derived SH2 interactions and a probabilistic score obtained from a naive Bayes integration of information on coexpression, conservation of the interaction in other species, shared interaction partners, and functions. We show how our predictions lead to a new......Current experiments likely cover only a fraction of all protein-protein interactions. Here, we developed a method to predict SH2-mediated protein-protein interactions using the structure of SH2-phosphopeptide complexes and the FoldX algorithm. We show that our approach performs similarly...... to experimentally derived consensus sequences and substitution matrices at predicting known in vitro and in vivo targets of SH2 domains. We use our method to provide a set of high-confidence interactions for human SH2 domains with known structure filtered on secondary structure and phosphorylation state. We...

  19. Characterization of Near-Infrared Spectral Variance in the Authentication of Skim and Nonfat Dry Milk Powder Collection Using ANOVA-PCA, Pooled-ANOVA, and Partial Least-Squares Regression

    OpenAIRE

    Harnly, James M.; Peter de B. Harrington; Botros, Lucy L.; Jablonski, Joseph; Chang, Claire; Bergana, Marti Mamula; Wehling, Paul; Downey, Gerard; Potts, Alan R.; Moore, Jeffrey C.

    2014-01-01

    Forty-one samples of skim milk powder (SMP) and nonfat dry milk (NFDM) from 8 suppliers, 13 production sites, and 3 processing temperatures were analyzed by NIR diffuse reflectance spectrometry over a period of 3 days. NIR reflectance spectra (1700–2500 nm) were converted to pseudoabsorbance and examined using (a) analysis of variance-principal component analysis (ANOVA-PCA), (b) pooled-ANOVA based on data submatrices, and (c) partial least-squares regression (PLSR) coupled with pooled-ANOVA....

  20. Functional analysis of SH3 domain containing ring finger 2 during the myogenic differentiation of quail myoblast cells

    Directory of Open Access Journals (Sweden)

    Si Won Kim

    2017-08-01

    Full Text Available Objective Owing to the public availability of complete genome sequences, including avian species, massive bioinformatics analyses may be conducted for computational gene prediction and the identification of gene regulatory networks through various informatics tools. However, to evaluate the biofunctional activity of a predicted target gene, in vivo and in vitro functional genomic analyses should be a prerequisite. Methods Due to a lack of quail genomic sequence information, we first identified the partial genomic structure and sequences of the quail SH3 domain containing ring finger 2 (SH3RF2 gene. Subsequently, SH3RF2 was knocked out using clustered regularly interspaced short palindromic repeat/Cas9 technology and single cell-derived SH3RF2 mutant sublines were established to study the biofunctional activity of SH3RF2 in quail myoblast (QM7 cells during muscle differentiation. Results Through a T7 endonuclease I assay and genotyping analysis, we established an SH3RF2 knockout (KO QM7#4 subline with 61 and 155 nucleotide deletion mutations in SH3RF2. After the induction of myotube differentiation, the expression profiles were analyzed and compared between regular QM7 and SH3RF2 KO QM7#4 cells by global RNA sequencing and bioinformatics analysis. Conclusion We did not detect any statistically significant role of SH3RF2 during myotube differentiation in QM7 myoblast cells. However, additional experiments are necessary to examine the biofunctional activity of SH3RF2 in cell proliferation and muscle growth.

  1. 携带DNMT3b-shRNA干扰序列真核表达载体的构建及筛选%Construction and Selection of Eukaryotic Expression Vectors Carrying shRNA Targeting DNMT3b

    Institute of Scientific and Technical Information of China (English)

    张士龙; 曾甫清; 彭世波; 汪良

    2009-01-01

    目的:构建携带针对靶基因DNA甲基转移酶3b(DNA methyltransferase 3b,DNMT3b)mRNA的shRNA真核表达载体,并从构建成功的重组质粒中筛选出沉默效应最强的干扰质粒.方法:以基因DNMT3bmRNA为靶序列设计三条shRNA序列,应用基因重组技术将其克隆到真核表达载体pGensil-1中,构建重组质粒pGensil-1-DNMT3b-shRNA1、pGensil-1-DNMT3b-shRNA2、pGensil-1-DNMT3b-shRNA3;经酶切鉴定和测序分析后,将重组质粒分别转染T24细胞中,应用RT-PCR和Western-blot检测各组质粒对DNMT3bmRNA和蛋白的表达抑制情况,并筛选最有效的干扰序列.结果:各重组质粒经酶切鉴定和测序分析显示插入完全正确.RT-PCR结果经图像分析,shRNA1、shRNA2和shRNA3对DNMT3bmRNA的抑制率分别为20.44%、79.91%和54.48%;Western blot结果经图像分析,shRNA1、shRNA2和shRNA3对DNMT3b蛋白的抑制率分别为17.27%、77.74%和56.79%.结论:成功构建了质粒pGensi1-1-DNMT3b-shRNA(1,2,3),并筛选出pGensil-1-DNMT3b-shRNA2为沉默效应最强的质粒.

  2. Ground motions around a semi-circular valley partially filled with an inclined alluvial layer under SH-polarized excitation

    Science.gov (United States)

    Chang, Kao-Hao; Tsaur, Deng-How; Wang, Jeen-Hwa

    2014-12-01

    A simplified mathematical model, composed of a semi-circular valley partially filled with an inclined alluvial layer under plane SH-wave incidence, is presented. To evaluate the site response theoretically, a rigorous series solution is derived via the region-matching technique. For angular wavefunctions constrained by an inclined free surface, the original form of Graf's addition formula is recast to arbitrarily shift the local coordinate system. The valley geometry, filling material, angle of incidence, and wave frequency are taken as significant parameters in exploring the site effect on ground motions. Also included are the frequency- and time-domain computations. Two canonical cases, the semi-circular vacant canyon and the fully filled semi-circular alluvial valley, with exact analytical solutions, and the partly horizontally filled case previously studied, are taken to be particular cases of the proposed general model. Steady-state results show that the peak amplitudes of motion may increase at low frequencies when the filling layer inclines to the illuminated region. At low-grazing incidence, the phenomenon of wave focusing becomes evident on the shadow side of the filling layer. Transient-state simulations elucidate how a sequence of surface waves travel on the topmost alluvium along opposite directions and interfere with multiple reflected waves within the filling layer.

  3. SCATTERING OF SH-WAVES BY AN INTERACTING INTERFACE LINEAR CRACK AND A CIRCULAR CAVITY NEAR BIMATERIAL INTERFACE

    Institute of Scientific and Technical Information of China (English)

    LIU Diankui; LIN Hong

    2004-01-01

    An analytical method is developed for scattering of SH-waves and dynamic stress concentration by an interacting interface crack and a circular cavity near bimaterial interface. A suitable Green's function is contructed, which is the fundamental solution of the displacement field for an elastic half space with a circular cavity impacted by an out-plane harmonic line source loading at the horizontal surface. First, the bimaterial media is divided into two parts along the horizontal interface, one is an elastic half space with a circular cavity and the other is a complete half space.Then the problem is solved according to the procedure of combination and by the Green's function method. The horizontal surfaces of the two half spaces are loaded with undetermined anti-plane forces in order to satisfy continuity conditions at the linking section, or with some forces to recover cracks by means of crack-division technique. A series of Fredholm integral equations of first kind for determining the unknown forces can be set up through continuity conditions as expressed in terms of the Green's function. Moreover, some expressions are given in this paper, such as dynamic stress intensity factor (DSIF) at the tip of the interface crack and dynamic stress concentration factor (DSCF) around the circular cavity edge. Numerical examples are provided to show the influences of the wave numbers,the geometrical location of the interface crack and the circular cavity, and parameter combinations of different media upon DSIF and DSCF.

  4. Studies of surfaces using optical second-harmonic generation

    Energy Technology Data Exchange (ETDEWEB)

    Tom, H.W.K.

    1984-04-01

    The experiments reported in this thesis demonstrate the use of second-harmonic generation (SHG) and sum-frequency generation (SFG) in reflection from surfaces to study various surface properties. The experiments firmly establish SHG as a viable new surface probe that complements existing surface probes in ultrahigh vacuum environments and is in many ways unique for studying interfaces between dense media. Surface structural symmetry can be revealed through the anisotropy in the SH signal from the surface as the sample is rotated about its normal. The form of this anisotropy is derived in theory and verified with an experiment on the Si(100) and (111) surfaces. The SHG and SFG signals from molecules adsorbed on noninteracting substrates have a direct relationship to the number, average orientation, and spectroscopic properties of the molecules. The SH intensity was used to measure the isotherm for adsorption of p-nitrobenzoic acid from ethanolic solution to fused silica. Experiments performed on a strongly-interacting well-characterized Rh(111) surface in ultrahigh vacuum establish the sensitivity of the SH probe in corroboration with other surface probes. For the first time, the SH coverage-dependence was fit by theory in a quantitative way for the case of O-atom adsorption. The sensitivity of SH to adsorption at different sites was established for CO on top- and bridge-sites. SHG was shown to be surface specific in that the SHG from alkali metal surfaces originates from the first two monolayers. SH sensitivity to the adsorption of catalytically-important hydrocarbons and to chemical processes such as benzene dehydrogenation was also demonstrated. 122 references, 27 figures, 2 tables.

  5. Enterococcus faecalis strains from food, environmental, and clinical origin produce ACE-inhibitory peptides and other bioactive peptides during growth in bovine skim milk.

    Science.gov (United States)

    Gútiez, Loreto; Gómez-Sala, Beatriz; Recio, Isidra; del Campo, Rosa; Cintas, Luis M; Herranz, Carmen; Hernández, Pablo E

    2013-08-16

    Enterococcus faecalis isolates from food and environmental origin were evaluated for their angiotensin-converting enzyme (ACE)-inhibitory activity (ACE-IA) after growth in bovine skim milk (BSM). Most (90% active) but not all (10% inactive) E. faecalis strains produced BSM-derived hydrolysates with high ACE-IA. Known ACE-inhibitory peptides (ACE-IP) and an antioxidant peptide were identified in the E. faecalis hydrolysates by reversed-phase high-performance liquid chromatography-tandem mass spectrometry (RP-HPLC-MS/MS). Antimicrobial activity against Pediococcus damnosus CECT4797 and Listeria ivanovii CECT913 was also observed in the E. faecalis hydrolysates. The incidence of virulence factors in the E. faecalis strains with ACE-IA and producers of ACE-IP was variable but less virulence factors were observed in the food and environmental strains than in the clinical reference strains. Pulsed-field gel electrophoresis (PFGE) and multilocus sequence typing (MLST) based analysis demonstrated that food and environmental E. faecalis strains were genetically different from those of clinical origin. When evaluated, most E. faecalis strains of clinical origin also originated BSM-derived hydrolysates with high ACE-IA due to the production of ACE-IP. Accordingly, the results of this work suggest that most E. faecalis strains of food, environmental and clinical origin produce BSM-derived bioactive peptides with human health connotations and potential biotechnological applications.

  6. The pH induced sol-gel transition in skim milk revisited. A detailed study using time-resolved light and x-ray scattering experiments.

    Science.gov (United States)

    Moitzi, Christian; Menzel, Andreas; Schurtenberger, Peter; Stradner, Anna

    2011-03-15

    We present a detailed study of the evolution of the size, structure and stability of casein micelles upon acidification of skim milk typically applied in yogurt-making processes using a combination of time-resolved light and small-angle X-ray scattering experiments. While most of the available light scattering studies on casein acidification have been restricted to transparent and therefore highly diluted samples, we now profit from a newly developed multiangle 3D light scattering instrument, which allows for time-resolved measurements in highly turbid samples. Our experiments clearly demonstrate the presence of two parallel pH-dependent processes, micellar reassembly and aggregation. Using a systematic investigation of the effect of casein concentration, acidification rate, and ionic strength, we are able to decouple these two processes and obtain detailed information about the pH-induced restructuration of the casein micelle structure that occurs prior to destabilization. Moreover, our experiments also unambiguously demonstrate that these micellar reassembly processes are highly concentration dependent, and that typical light scattering studies conducted under highly diluted conditions are resulting in findings that may not be relevant for the situation encountered in industrial processes at higher concentrations. Experiments conducted with covalently cross-linked micelles, where the pH-induced reassembly has been suppressed, further confirm our findings.

  7. Effect of yogurt and bifidus yogurt fortified with skim milk powder, condensed whey and lactose-hydrolysed condensed whey on serum cholesterol and triacylglycerol levels in rats.

    Science.gov (United States)

    Beena, A; Prasad, V

    1997-08-01

    The possible hypocholesterolaemic properties of milk and fermented milk products have been investigated in groups of albino rats given a basal diet, basal diet plus cholesterol, and basal diet plus cholesterol together with whole milk or standard or bifidus yogurt. The yogurts were fortified with skim milk powder, condensed whey or lactose-hydrolysed condensed whey. After 30 d, triacylglycerols, total cholesterol, HDL-cholesterol and LDL-cholesterol were measured in serum. Whole milk and ordinary yogurt had no hypocholesterolaemic effect, but standard yogurt containing lactose-hydrolysed condensed whey and all bifidus yogurts lowered serum cholesterol. In general, yogurts changed HDL-cholesterol little, but tended to raise triacylglycerols. There was marked lowering of LDL-cholesterol in rats given either type of yogurt fortified with whey proteins. This study has demonstrated in a rat model that bifidus yogurts and yogurts fortified with whey proteins can reduce total and LDL-cholesterol, and suggests that if they have the same effect in human subjects they have potential value in cholesterol-lowering diets.

  8. Short-chain fatty acids produced by synbiotic mixtures in skim milk differentially regulate proliferation and cytokine production in peripheral blood mononuclear cells.

    Science.gov (United States)

    Asarat, M; Apostolopoulos, V; Vasiljevic, T; Donkor, O

    2015-01-01

    Short chain fatty acids (SCFAs) are major products of prebiotic fermentation and confer human health benefits such as immune-regulation. In this study, reconstituted skim milk supplemented with prebiotics (RSMP) including inulin, hi-maize or β-glucan was fermented by probiotic strains of Lactobacillus spp. and Bifidobacteria spp. After 24 h of fermentation, probiotics growth and SCFAs production were investigated and the produced SCFAs were extracted. Inulin and Lactobacillus rhamnosus GG ATCC 53013 (LGG) combination released highest concentrations of SCFAs compared to LGG and hi-maize or β-glucan. Extracted SCFAs were then used for in vitro immune modulation study in human peripheral blood mononuclear cells (PBMCs). In lipopolysaccharide (LPS)-stimulated PBMCs, SCFAs particularly butyrate down-regulated tumor necrosis factor alpha, interleukin (IL)-12, interferon gamma (IFN-γ) and transforming growth factor beta-1 (TGF-β1), and up-regulated IL-4, IL-10, while no significant effect was noted in non-LPS-stimulated PBMCs. The results indicate that SCFAs regulated cytokine milieu in LPS-stimulated PBMCs to anti-inflammatory cytokines.

  9. Proteolytic activity of protease produced by Pseudomonas fluorescens IB 2312 in skimmed milk subject to the process of high pressure homogenization

    Directory of Open Access Journals (Sweden)

    Claudia Regina Gonçalves Pinho

    2014-08-01

    Full Text Available The presence of thermoresistant proteases produced by psychrotrophic microorganisms have been identified as a limiting factor of the UHT milk shelflife, causing undesirable changes in milk products. High pressure homogenization (HPH processing is a non-thermal method of food preservation, able to promotes the microbiological safety and inactivation of some enzymes. Thus, this work assessed the proteolytic activity of protease produced by Pseudomonas fluorescens in skim milk subjected to high pressure homogenization process. The milk samples were added by the protease enzymatic extract (10% v/v and subjected to pressures up to 300 MPa. The assays showed that pressures on the order of 300 MPa caused a 72.5% reduction in proteolytic activity. Therefore, the process at high pressures resulted in significant inactivation of this thermoresistent enzyme, which possibly favors the shelf-life extension of the UHT milk and also limits the yield and quality loss of cheeses due to undesirable sensory changes in flavor and texture caused by this enzyme.

  10. Improving clarity and stability of skim milk powder dispersions by dissociation of casein micelles at pH 11.0 and acidification with citric acid.

    Science.gov (United States)

    Pan, Kang; Zhong, Qixin

    2013-09-25

    Casein micelles in milk cause turbidity and have poor stability at acidic conditions. In this study, skim milk powder dispersions were alkalized to pH 10.0 or 11.0, corresponding to reduced particle mass. In the following acidification with hydrochloric or citric acid, the re-formation of casein particles was observed. The combination of treatment at pH 11.0 and acidification with citric acid resulted in dispersions with the lowest turbidity and smallest particles, which enabled translucent dispersions at pH 5.5-7.0, corresponding to discrete nanoparticles. The concentration of ionic calcium was lower when acidified with citric acid than hydrochloric acid, corresponding to smaller particles with less negative zeta potential. The pH 11.0 treatment followed by acidification with citric acid also resulted in smaller particles than the simple chelating effects (directly implementing sodium citrate). The produced casein nanoparticles with reduced dimensions can be used for beverage and other novel applications.

  11. A skim milk stabilized water vaccine for Newcastle disease (B1-type LaSota): its effectiveness under modern commercial cage layer methods of delivery.

    Science.gov (United States)

    Woodward, H L; Tudor, D C

    1975-05-01

    For flock vaccination, B1-type LaSota Newcastle disease water vaccine was used in chicken under commercial cage layer conditions using two different methods, Swish Corporation pipes and cups, and stainless stell troughs, in an effort to determine their effectiveness. The concentration of virus in trough and cup samples collected at the beginning and the end of the lines were the same except in one instance where little or no virus was transported to the end of the trough. Satisfactory results were obtained when the test was repeated a year later. Serum HI titers determined before and after vaccination demonstrated adequate flock serum titers and indicated that both methods of application were reasonably effective. In laboratory trials, different water pipes (black, polyvinyl chloride pipe and Hart cups, green, polyvinyl chloride pipe and Swish cups, and old, rusty, galvanized pipe) normally used in cage operations were tested. Our findings indicated that dried skim milk powder (DSMP) was essential in stabilizing vaccine virus in the containers tested and that an adequate vaccine virus concentration was maintained in the three types of pipe tested when DSMP was used. Without DSMP the vaccine titers were adversely affected.

  12. ROCK1 and ROCK2 silencing by ShRNA in rat cardiomyocytes%ShRNA对大鼠心肌细胞ROCK1和ROCK2表达的沉默作用

    Institute of Scientific and Technical Information of China (English)

    丁浩; 李菊香; 孙国芳; 洪葵; 程晓曙

    2011-01-01

    背景:已有研究发现,ROCK1和ROCK2参与了细胞的凋亡过程,由此假设下调ROCK1和ROCK2表达能抑制心肌细胞凋亡.目的:验证ROCK1-shRNA和ROCK2-shRNA转染能否有效沉默大鼠心肌细胞内ROCK1和ROCK2基因的表达,并筛选沉默效率最高的shRNA.方法:以ROCK1和ROCK2为靶基因,分别构建了3个特异性shRNA重组质粒,转染这些shRNA后观察其对SD大鼠心肌细胞中ROCK1和ROCK2的沉默作用,并筛选出沉默效率最佳的shRNA.结果与结论:Western Blot结果显示,与对照组相比,3个重组质粒ROCK1-shRNA和ROCK2-shRNA的转染均能明显降低SD大鼠心肌细胞中ROCK1和ROCK2的表达(P < 0.05或P < 0.01),其中ROCK1-shRNA1和ROCK2-shRNA2的沉默效率最高(P < 0.05),分别为(82.15±7.53)%和(89.42±5.81)%.这表明ROCK1-shRNA和ROCK2-shRNA转染能有效沉默大鼠心肌细胞内ROCK1和ROCK2基因的表达,并筛选出了沉默效率最高的shRNA.%BACKGROUND: Previous studies have proved that Rho-associated coiled-coilproteinkinase(ROCK) 1 and ROCK2 invoke indown-regulating the expression ofROCKI andROCK2.OBJECT FVE: To verify whether the transfection of ROCK1-short hairpin R HA (ShRHA) and ROCK2-shRHA can effective^silence the expressions ofROCKI and ROCK2 inrat car d io my ocytes and to screen for the shR HA with the best silencingeffeciency.METHODS: Three specific recombinant plasmids of ROC K1-shRH A and ROCK2-shRHA were coretructed and identifiedrespectively. Silencing effects of ROCK1 and ROCK2 in SD rat myocardial cells were assessed after shRHA trarEfection. Andthe shRHA with the best silencing eff I cie n cy w as selected among these shRHAs.RESULTS AHD COHCL USIOHS: Western blot results showed that, compared with the control groups, the transfection of allthree recombinant plasmids of ROCK1-shRHAs and ROCK2-shRHAs inhibited the expressions of ROCK1 and ROCK2significantly^ < 0.05 or P < 0.01). Among these shRHAs. ROCK1-shRHA1 and ROCK2-shRHA2 showed the best silencingefficiency of

  13. An RNAi in silico approach to find an optimal shRNA cocktail against HIV-1.

    Science.gov (United States)

    Méndez-Ortega, María C; Restrepo, Silvia; Rodríguez-R, Luis M; Pérez, Iván; Mendoza, Juan C; Martínez, Andrés P; Sierra, Roberto; Rey-Benito, Gloria J

    2010-12-20

    HIV-1 can be inhibited by RNA interference in vitro through the expression of short hairpin RNAs (shRNAs) that target conserved genome sequences. In silico shRNA design for HIV has lacked a detailed study of virus variability constituting a possible breaking point in a clinical setting. We designed shRNAs against HIV-1 considering the variability observed in naïve and drug-resistant isolates available at public databases. A Bioperl-based algorithm was developed to automatically scan multiple sequence alignments of HIV, while evaluating the possibility of identifying dominant and subdominant viral variants that could be used as efficient silencing molecules. Student t-test and Bonferroni Dunn correction test were used to assess statistical significance of our findings. Our in silico approach identified the most common viral variants within highly conserved genome regions, with a calculated free energy of ≥ -6.6 kcal/mol. This is crucial for strand loading to RISC complex and for a predicted silencing efficiency score, which could be used in combination for achieving over 90% silencing. Resistant and naïve isolate variability revealed that the most frequent shRNA per region targets a maximum of 85% of viral sequences. Adding more divergent sequences maintained this percentage. Specific sequence features that have been found to be related with higher silencing efficiency were hardly accomplished in conserved regions, even when lower entropy values correlated with better scores. We identified a conserved region among most HIV-1 genomes, which meets as many sequence features for efficient silencing. HIV-1 variability is an obstacle to achieving absolute silencing using shRNAs designed against a consensus sequence, mainly because there are many functional viral variants. Our shRNA cocktail could be truly effective at silencing dominant and subdominant naïve viral variants. Additionally, resistant isolates might be targeted under specific antiretroviral selective

  14. An RNAi in silico approach to find an optimal shRNA cocktail against HIV-1

    Directory of Open Access Journals (Sweden)

    Mendoza Juan C

    2010-12-01

    Full Text Available Abstract Background HIV-1 can be inhibited by RNA interference in vitro through the expression of short hairpin RNAs (shRNAs that target conserved genome sequences. In silico shRNA design for HIV has lacked a detailed study of virus variability constituting a possible breaking point in a clinical setting. We designed shRNAs against HIV-1 considering the variability observed in naïve and drug-resistant isolates available at public databases. Methods A Bioperl-based algorithm was developed to automatically scan multiple sequence alignments of HIV, while evaluating the possibility of identifying dominant and subdominant viral variants that could be used as efficient silencing molecules. Student t-test and Bonferroni Dunn correction test were used to assess statistical significance of our findings. Results Our in silico approach identified the most common viral variants within highly conserved genome regions, with a calculated free energy of ≥ -6.6 kcal/mol. This is crucial for strand loading to RISC complex and for a predicted silencing efficiency score, which could be used in combination for achieving over 90% silencing. Resistant and naïve isolate variability revealed that the most frequent shRNA per region targets a maximum of 85% of viral sequences. Adding more divergent sequences maintained this percentage. Specific sequence features that have been found to be related with higher silencing efficiency were hardly accomplished in conserved regions, even when lower entropy values correlated with better scores. We identified a conserved region among most HIV-1 genomes, which meets as many sequence features for efficient silencing. Conclusions HIV-1 variability is an obstacle to achieving absolute silencing using shRNAs designed against a consensus sequence, mainly because there are many functional viral variants. Our shRNA cocktail could be truly effective at silencing dominant and subdominant naïve viral variants. Additionally, resistant

  15. Enhanced salt sensitivity following shRNA silencing of neuronal TRPV1 in rat spinal cord

    Institute of Scientific and Technical Information of China (English)

    Shuang-quan YU; Donna H WANG

    2011-01-01

    Aim: To investigate the effects of selective knockdown of TRPV1 channels in the lower thoracic and upper lumbar segments of spinal cord, dorsal root ganglia (DRG) and me senteric arteries on rat blood pressure responses to high salt intake.Methods: TRPV1 short-hairpin RNA (shRNA) was delivered using intrathecal injection (6 μg.kg1-d-1, for 3 d). Levels of TRPV1 and tyrosine hydroxylase expression were determined by Western blot analysis. Systolic blood pressure and mean arterial pressure (MAP) were examined using tail-cuff and direct arterial measurement, respectively.Results: In rats injected with control shRNA, high-salt diet (HS) caused higher systolic blood pressure compared with normal-salt diet(NS) (HS:149±4 mmHg; NS:126±2 mmHg, P<0.05). Intrathecal injection of TRPV1 shRNA significantly increased the systolic blood pressure in both HS rats and NS rats (HS:169±3 mmHg; NS:139±2 mmHg). The increases was greater in HS rats than in NS rats (HS:13.9%±1.8%; NS: 9.8±0.7, P<0.05). After TRPV1 shRNA treatment, TRPV1 expression in the dorsal horn and DRG of T8-L3 segments and in mesenteric arteries was knocked down to a greater extent in HS rats compared with NS rats. Blockade of α1-adrenoceptors abolished the TRPV1 shRNA-induced pressor effects. In rats injected with TRPV1 shRNA, level of tyrosine hydroxylase in mesenteric arteries was increased to a greater extent in HS rats compared with NS rats.Conclusion: Selective knockdown of TRPV1 expression in the lower thoracic and upper lumbar segments of spinal cord, DRG, and mesenteric arteries enhanced the prohypertensive effects of high salt intake, suggesting that TRPV1 channels in these sites protect against increased salt sensitivity, possibly via suppression of sympatho-excitatory responses.

  16. Uranium mill tailings remedial action program. Radiological survey of Shiprock vicinity property SH03, Shiprock, NM, July-November 1982

    Energy Technology Data Exchange (ETDEWEB)

    Flynn, K F; Justus, A L; Sholeen, C M; Smith, W H; Wynveen, R A

    1984-04-01

    A comprehensive survey of the vicinity property designated as SH03 was conducted on an intermittent basis from July 26 to November 11, 1982. At the time of the survey, three structures were located on the property - a residential trailer, the main structure, and an old gas pump housing. The lands surrounding the structures were either sparsely covered with arid vegetation or paved. The assessment activities included determination of indoor and outdoor surface radiation levels, for both fixed and removable contamination, through direct instrument and smear (indoor only) surveys; measurement of ambient external penetrating radiation levels at 1-meter heights; and analyses of air, soil, and other material samples. No evidence of radioactive contamination was found inside the trailer. However, the results of the radiological assessment did indicate the occurrence of elevated levels of gamma, surface alpha, and radon daughter radioactivity within the main structure. The short-term radon daughter measurements exceeded the limit of 0.02 Working Level for average annual concentration including background. The assessment also indicated elevated levels of radioactivity in the outdoor environs, encompassing about 32,000 ft/sup 2/ of the grounds adjacent to and surrounding the main structure on the east, south, and west sides. The contamination appeared to be due to the presence of unprocessed uranium ore. Analysis of surface soil samples collected from the environs indicated radium concentrations in excess of the limit of 5 pCi/g above background specified in the EPA Standard. Subsurface soil sampling was not conducted, and thus the vertical extent of the radiological contamination is not known. Since the surface soil contamination levels exceeded the limits specified in the EPA Standard, remedial action for this vicinity site should be considered.

  17. IL-6调节MPP+处理的SH-SY5Y细胞的ERK分泌%IL-6 modulates pERK secretion of SH-SY5Y cells treated by MPP+

    Institute of Scientific and Technical Information of China (English)

    李学忠; 陈强; 沈卉君; 庄原苏; 周小平

    2012-01-01

    Objective To observe the effects of IL-6 on the survival and the expression of extracellular regulated protein kinases ( pERK) of SH-SY5Y cells treated by l-methyl-4-phenylpyridinium(MPP+ ). Methods The SH-SY5Y cells treated by MPP+ were intervened with IL-6 and mophological changes and the expression and location of pERK were observed. Results After treated by MPP+ , the viability of SH-SY5Y cells decreased and the expression of pERK elevated, which peaked in 24 h and mainly located in the cytoplasm. After adminstration of IL-6, the expression of pERK was increased and peaked in 6 h and mainly located in the nucleus. IL-6 reduced the apoptosis of MPP+-treated SH-SY5Y cells and promoted the secretion of pERK, which was downregulated by EPK inhibitor U0126 in vitro. Conclusions IL-6 can regulate the exprsssion of pERK, decrease MPP+-induced cell injury and promote SH-SY5Y cell survival.%目的 观察IL-6对1-甲基-4-苯基吡啶(MPP+)处理的SH-SY5Y细胞的生长和pERK的影响.方法 对MPP+处理的SH-SY5Y细胞进行IL-6干预,观察细胞结构形态的改变以及pERK的含量变化和定位.结果 MPP+处理的SH-SY5Y细胞系细胞活力下降;细胞系pERK上升,高峰在24 h,主要定位于胞浆;IL-6干预的SH-SY5Y细胞系pERK上升,高峰在6h,多定位于胞核.IL-6可以降低MPP+处理的SH-SY5Y细胞系的凋亡,使pERK分泌高峰提前;加用ERK抑制剂U0126可以下调IL-6对Mpp+处理的SH-SY5Y细胞系的影响.结论 IL-6可以通过调节pERK,减少MPP+诱导的细胞损伤,促进SH-SY5Y细胞的存活.

  18. 人神经菌毛素-1基因shRNA慢病毒载体的构建%Construction of recombinant lentiviral vector containing shRNA for human neuropilin-1 gene

    Institute of Scientific and Technical Information of China (English)

    郑见宝; 耿智敏; 陈强; 王林

    2012-01-01

    AIM; To construct and identify a recombi-nant lentiviral vector containing shRNA for human neuropilin-1 (NRP-1) gene. METHODS: Four shRNA targeting the NRP-1 mRNA were designed to construct the pGCSIL-RFP-shNRP1 lentivirus vectors. The positive clone was chosen and confirmed by PCR and DNA sequencing. 293T cells were cotransfected with pGCSIL-RFP-shNRP1, pHelperl.0 and pHelper 2.0 to package the lentivirus and the titer of the virus was tested. After lentivirus-shRNA and over-expression plasmid containing NRP-1 were transfected into 293T cells, Western blotting was used to determine the expression of Flag gene in order to observe the inhibited efficacy of relative NRP-1 expression. RESULTS: PCR analysis and DNA sequencing demonstrated that the shRNA sequence was consistent with the human NRP-1. The titer of the recombinant lentiviral vector was 1×10-9 Tu/mL The relative expression of NRP-1 protein in the transfected cells significantly decreased after treated with lentiviral-shRNA. CONCLUSION: We have constructed successfully the effective recombinant lentiviral vector containing shRNA for human NRP-1 gene.%目的:构建并鉴定靶向人神经菌毛素-1(NRP-1)基因的小发卡RNA的慢病毒载体.方法:针对NRP-1mRNA设计了4条shRNA,并构建pGCSIL-RFP-shNRP1慢病毒质粒,PCR扩增阳性克隆并测序鉴定.用pGCSIL-RFP-shNRP1、pHelper1.0和pHelper2.0质粒共转染293T细胞包装产生慢病毒,测定病毒滴度.将慢病毒干扰RNA及含有NRP-1过表达载体共转染293T细胞,Western blot法检测Flag表达,观察NRP-1蛋白相对表达抑制效果.结果:PCR和测序结果与设计的干扰序列一致,病毒滴度达1×109 Tu/mL.转染细胞中NRP-1蛋白相对表达显著降低.结论:成功构建了高效率的人NRP-1基因shRNA慢病毒载体.

  19. BAR-SH3 sorting nexins are conserved interacting proteins of Nervous wreck that organize synapses and promote neurotransmission.

    Science.gov (United States)

    Ukken, Fiona P; Bruckner, Joseph J; Weir, Kurt L; Hope, Sarah J; Sison, Samantha L; Birschbach, Ryan M; Hicks, Lawrence; Taylor, Kendra L; Dent, Erik W; Gonsalvez, Graydon B; O'Connor-Giles, Kate M

    2016-01-01

    Nervous wreck (Nwk) is a conserved F-BAR protein that attenuates synaptic growth and promotes synaptic function in Drosophila. In an effort to understand how Nwk carries out its dual roles, we isolated interacting proteins using mass spectrometry. We report a conserved interaction between Nwk proteins and BAR-SH3 sorting nexins, a family of membrane-binding proteins implicated in diverse intracellular trafficking processes. In mammalian cells, BAR-SH3 sorting nexins induce plasma membrane tubules that localize NWK2, consistent with a possible functional interaction during the early stages of endocytic trafficking. To study the role of BAR-SH3 sorting nexins in vivo, we took advantage of the lack of genetic redundancy in Drosophila and employed CRISPR-based genome engineering to generate null and endogenously tagged alleles of SH3PX1. SH3PX1 localizes to neuromuscular junctions where it regulates synaptic ultrastructure, but not synapse number. Consistently, neurotransmitter release was significantly diminished in SH3PX1 mutants. Double-mutant and tissue-specific-rescue experiments indicate that SH3PX1 promotes neurotransmitter release presynaptically, at least in part through functional interactions with Nwk, and might act to distinguish the roles of Nwk in regulating synaptic growth and function.

  20. The SH3 domain of UNC-89 (obscurin) interacts with paramyosin, a coiled-coil protein, in Caenorhabditis elegans muscle

    Science.gov (United States)

    Qadota, Hiroshi; Mayans, Olga; Matsunaga, Yohei; McMurry, Jonathan L.; Wilson, Kristy J.; Kwon, Grace E.; Stanford, Rachel; Deehan, Kevin; Tinley, Tina L.; Ngwa, Verra M.; Benian, Guy M.

    2016-01-01

    UNC-89 is a giant polypeptide located at the sarcomeric M-line of Caenorhabditis elegans muscle. The human homologue is obscurin. To understand how UNC-89 is localized and functions, we have been identifying its binding partners. Screening a yeast two-hybrid library revealed that UNC-89 interacts with paramyosin. Paramyosin is an invertebrate-specific coiled-coil dimer protein that is homologous to the rod portion of myosin heavy chains and resides in thick filament cores. Minimally, this interaction requires UNC-89’s SH3 domain and residues 294–376 of paramyosin and has a KD of ∼1.1 μM. In unc-89 loss-of-function mutants that lack the SH3 domain, paramyosin is found in accumulations. When the SH3 domain is overexpressed, paramyosin is mislocalized. SH3 domains usually interact with a proline-rich consensus sequence, but the region of paramyosin that interacts with UNC-89’s SH3 is α-helical and lacks prolines. Homology modeling of UNC-89’s SH3 suggests structural features that might be responsible for this interaction. The SH3-binding region of paramyosin contains a “skip residue,” which is likely to locally unwind the coiled-coil and perhaps contributes to the binding specificity. PMID:27009202

  1. Indexing Publicly Available Health Data with Medical Subject Headings (MeSH): An Evaluation of Term Coverage.

    Science.gov (United States)

    Marc, David T; Zhang, Rui; Beattie, James; Gatewood, Laël C; Khairat, Saif S

    2015-01-01

    As part of the Open Government Initiative, the United States federal government published datasets to increase collaboration, transparency, consumer participation, and research, and are available online at HealthData.gov. Currently, HealthData.gov does not adequately support the accessibility goal of the Open Government Initiative due to issues of retrieving relevant data because of inadequately cataloguing and lack of indexing with a standardized terminology. Given the commonalities between the HealthData.gov and MEDLINE metadata, Medical Subject Headings (MeSH) may offer an indexing solution, but there needs to be a formal evaluation of the efficacy of MeSH for covering the dataset concepts. The purpose of this study was to determine if MeSH adequately covers the HealthData.gov concepts. The noun and noun phrases from the HealthData.gov metadata were extracted and mapped to MeSH using MetaMap. The frequency of no exact, partical and no matches with MeSH terms were determined. The results of this study revealed that about 70% of the HealthData.gov concepts partially or exactly matched MeSH terms. Therefore, MeSH may be a favorable terminology for indexing the HealthData.gov datasets.

  2. Giant-Planet Chemistry: Ammonium Hydrosulfide (NH4SH), Its IR Spectra and Thermal and Radiolytic Stabilities

    Science.gov (United States)

    Loeffler, Mark J.; Hudson, Reggie L.; Chanover, Nancy J.; Simon, Amy A.

    2015-01-01

    Here we present our recent studies of proton-irradiated and unirradiated ammonium hydrosulfide, NH4SH, a compound predicted to be an important tropospheric cloud component of Jupiter and other giant planets. We irradiated both crystalline and amorphous NH4SH at 10-160 K and used IR spectroscopy to observe and identify reaction products in the ice, specifically NH3 and long-chained sulfur-containing ions. Crystalline NH4SH was amorphized during irradiation at all temperatures studied with the rate being the fastest at the lowest temperatures. Irradiation of amorphous NH4SH at approximately 10-75 K showed that 60-80% of the NH4 + remained when equilibrium was reached, and that NH4SH destruction rates were relatively constant within this temperature range. Irradiations at higher temperatures produced different dose dependence and were accompanied by pressure outbursts that, in some cases, fractured the ice. The thermal stability of irradiated NH4SH was found to be greater than that of unirradiated NH4SH, suggesting that an irradiated giant-planet cloud precipitate can exist at temperatures and altitudes not previously considered.

  3. Giant-Planet Chemistry: Ammonium Hydrosulfide (NH4SH), Its IR Spectra and Thermal and Radiolytic Stabilities

    Science.gov (United States)

    Loeffler, Mark J.; Hudson, Reggie L.; Chanover, Nancy J.; Simon, Amy A.

    2015-01-01

    Here we present our recent studies of proton-irradiated and unirradiated ammonium hydrosulfide, NH4SH, a compound predicted to be an important tropospheric cloud component of Jupiter and other giant planets. We irradiated both crystalline and amorphous NH4SH at 10-160 K and used IR spectroscopy to observe and identify reaction products in the ice, specifically NH3 and long-chained sulfur-containing ions. Crystalline NH4SH was amorphized during irradiation at all temperatures studied with the rate being the fastest at the lowest temperatures. Irradiation of amorphous NH4SH at approximately 10-75 K showed that 60-80% of the NH4 + remained when equilibrium was reached, and that NH4SH destruction rates were relatively constant within this temperature range. Irradiations at higher temperatures produced different dose dependence and were accompanied by pressure outbursts that, in some cases, fractured the ice. The thermal stability of irradiated NH4SH was found to be greater than that of unirradiated NH4SH, suggesting that an irradiated giant-planet cloud precipitate can exist at temperatures and altitudes not previously considered.

  4. Internalization and down-regulation of mu opioid receptors by endomorphins and morphine in SH-SY5Y human neuroblastoma cells.

    Science.gov (United States)

    Horner, Kristen A; Zadina, James E

    2004-12-03

    The human neuroblastoma cell line, SH-SY5Y, was used to examine the effects of morphine and the endogenous opioid peptides, endomorphin-1 (EM-1) and endomorphin-2 (EM-2), on mu opioid receptor (MOR) internalization and down-regulation. Treatment for 24 h with EM-1, EM-2 or morphine at 100 nM, 1 microM and 10 microM resulted in a dose-dependent down-regulation of mu receptors. Exposure of cells to 10 microM EM-1 for 2.5, 5 and 24 h resulted in a time-dependent down-regulation of mu receptors. Down-regulation of mu receptors by morphine and EM-1 was blocked by treatment with hypertonic sucrose, consistent with an endocytosis-dependent mechanism. Sensitive cell-surface binding studies with a radiolabeled mu antagonist revealed that morphine was able to induce internalization of mu receptors naturally expressed in SH-SY5Y cells. EM-1 produced a more rapid internalization of mu receptors than morphine, but hypertonic sucrose blocked the internalization induced by each of these agonists. This study demonstrates that, like morphine, the endomorphins down-regulate mu opioid receptors in a dose- and time-dependent manner. This study also demonstrates that morphine, as well as EM-1, can induce rapid, endocytosis-dependent internalization of mu opioid receptors in SH-SY5Y cells. These results may help elucidate the ability of mu agonists to regulate the number and responsiveness of their receptors.

  5. Loss of Sh3gl2/Endophilin A1 Is a Common Event in Urothelial Carcinoma that Promotes Malignant Behavior

    Directory of Open Access Journals (Sweden)

    Shyama Majumdar

    2013-07-01

    Full Text Available Urothelial carcinoma (UC causes substantial morbidity and mortality worldwide. However, the molecular mechanisms underlying urothelial cancer development and tumor progression are still largely unknown. Using informatics analysis, we identified Sh3gl2 (endophilin A1 as a bladder urothelium-enriched transcript. The gene encoding Sh3gl2 is located on chromosome 9p, a region frequently altered in UC. Sh3gl2 is known to regulate endocytosis of receptor tyrosine kinases implicated in oncogenesis, such as the epidermal growth factor receptor (EGFR and c-Met. However, its role in UC pathogenesis is unknown. Informatics analysis of expression profiles as well as immunohistochemical staining of tissue microarrays revealed Sh3gl2 expression to be decreased in UC specimens compared to nontumor tissues. Loss of Sh3gl2 was associated with increasing tumor grade and with muscle invasion, which is a reliable predictor of metastatic disease and cancer-derived mortality. Sh3gl2 expression was undetectable in 19 of 20 human UC cell lines but preserved in the low-grade cell line RT4. Stable silencing of Sh3gl2 in RT4 cells by RNA interference 1 enhanced proliferation and colony formation in vitro, 2 inhibited EGF-induced EGFR internalization and increased EGFR activation, 3 stimulated phosphorylation of Src family kinases and STAT3, and 4 promoted growth of RT4 xenografts in subrenal capsule tissue recombination experiments. Conversely, forced re-expression of Sh3gl2 in T24 cells and silenced RT4 clones attenuated oncogenic behaviors, including growth and migration. Together, these findings identify loss of Sh3gl2 as a frequent event in UC development that promotes disease progression.

  6. Effect of an imperfect interface on the SH wave propagating in a cylindrical piezoelectric sensor.

    Science.gov (United States)

    Li, Yong-Dong; Yong Lee, Kang

    2010-04-01

    Under harsh in situ conditions, the interface in piezoelectric sensors may be damaged mechanically and/or electrically. The damaged interface would in turn affect the electromechanical behaviors of the sensors. The purpose of the present work is to study the effect of the imperfect interface on SH wave propagating in a cylindrical piezoelectric sensor. The dispersion relations of SH wave are derived analytically and the phase velocity are obtained numerically. Parametric studies on the phase velocity indicate that the mechanical imperfection may reduce the phase velocity under certain circumstances; however, the electrical imperfection has no obvious effect on the phase velocity in any cases; with the thickness of the piezoelectric layer increasing, the phase velocity may increase, decrease or keep unchanged, depending on the combination of the values of the wave number and the mechanical imperfection parameter.

  7. The role of JDP2 in the differentiation of neuroblastoma SH-SY5Y cells

    Institute of Scientific and Technical Information of China (English)

    2008-01-01

    c-Jun dimerization protein JDP2 is a member of the AP-1 family that serves as a repressor in genetranscription. To study the role of JDP2 in neuroblastoma cells, we have established a stably transfected SH-SY5Y cell line that carries jdp2 gene. Our results showed that JDP2 could promote neuronal differentiation of SH-SY5Y cells. The SY5Y-JDP2 cells exhibited lower percentage of cells in S phase and retarded growth rate than its parental cells that were accompanied by a higher expression of p21 and an intense reduction of the cyclin D1. In conclusion, the inhibitory role of JDP2 on neuroblastoma cell growth could be critical for the cells to be withdrawn from cell cycle and to proceed differentiation.

  8. Detection of Phaeocystis globosa using sandwich hybridization integrated with nuclease protection assay (NPA-SH)

    Institute of Scientific and Technical Information of China (English)

    ZHEN Yu; MI Tiezhu; YU Zhigang

    2008-01-01

    Phaeocystis globosa Scherffel is one of the common harmful algae species in coastal waters of the southeastern China. In this study, sandwich hybridization integrated with nuclease protection assay (NPA-SH) was used to qualitatively and quantitatively detect P. globosa. Results showed that this method had good applicability and validity in analyzing the samples from laboratory cultures and from fields. The linear regression equation for P. globosa was obtained, and the lowest detection number of cells was 1.8×104 cells. Statistics showed that there was no distinct difference between the results of detecting the microalgae by NPA-SH and traditional microscopy. This technique has good reliability, accuracy, and can give a remarkably high sample processing rate. Sandwich hybridization integrated with nuclease protection assay will provide an efficient alternative to microscopic method for monitoring and investigating the bloom of P. globosa.

  9. Angular dependence of the ultrasonic SH wave velocity in rolled metal sheets

    Science.gov (United States)

    Sayers, C. M.; Proudfoot, G. G.

    THE ULTRASONIC SH wave technique is a promising method for separating out the effects of texture and stress on the ultrasonic velocity, and allows the texture and stress to be determined separately. ALEN and LANGMAN (1985) have reported measurements of the angular dependence of the SH wave velocity in several unstressed rolled metal sheets of aluminium, stainless steel, copper and brass. In this paper neutron diffraction measurements of the texture of several of these sheets are presented, and parameters entering into an expansion of the crystallite orientation distribution function are determined. These are in good agreement with the values obtained by fitting the ultrasonic results to theory. The validity of the first order expression for the effect of texture is assessed, and the contribution due to beam skewing is calculated.

  10. The complete mitochondrial genome of the acid-tolerant fungus Penicillium ShG4C

    Directory of Open Access Journals (Sweden)

    Andrey V. Mardanov

    2016-12-01

    Full Text Available Complete mitochondrial genome of the acid-tolerant fungus Penicillium ShG4C, isolated from oxidized sediments of an abandoned polymetallic mine site, has been sequenced using high-throughput sequencing approach. The mitochondrial genome represents a circular DNA molecule with size of 26,725 bp. It encodes a usual set of mitochondrial genes, including 15 protein coding genes, large and small ribosomal RNAs and 27 tRNA genes. All genes are located on H-strand DNA and transcribed in one direction. Taxonomic analysis based on concatenated sequences of mitochondrial proteins confirmed taxonomic position of this fungus within the genus Penicillium. The sequence of the complete mitochondrial genome of Penicillium ShG4C was deposited in DBBJ/EMBL/GenBank under accession number KX931017.

  11. Thermal performance evaluation of the Suncatcher SH-11 (liquid) solar collector

    Science.gov (United States)

    1980-01-01

    The procedures used and the results obtained during the evaluation test program on the Solar Unlimited, Inc., Suncatcher SH-11 (liquid) solar collector are presented. The flat-plate collector case assembly is made of .08 inch aluminum 3003 H14 riveted with fiberglass board insulation. The absorber consists of collared aluminum fins mechanically bonded to 3/8 inch copper tubing and coated with 3M Nextel black. Water is used as the working fluid. The glazing is made of a single glass, 1/8 inch water white, tempered and antireflective. The collector weight is 85 pounds with overall external dimensions of about 35.4 in x 82.0 in x 4.0 in. Thermal performance data on the Solar Unlimited Suncatcher SH-11 solar collector under simulated conditions were conducted using the MSFC Solar Simulator.

  12. Protective effects of curcumin in APPswe transfected SH-SY5Y cells

    Institute of Scientific and Technical Information of China (English)

    Wenke Yin; Xiong Zhang; Yu Li

    2012-01-01

    The APPswe plasmid was transfected into the neuroblastoma cell line SH-SY5Y to establish a cell model of Alzheimer's disease. Graded concentration and time course experiments demonstrate that curcumin significantly upregulates phosphatidylinositol 3-kinase (PI3K), A kt, nuclear factor E2-related factor-2 (Nrf2), heme oxygenase 1 and ferritin expression, and that it significantly dow nregulates heme oxygenase 2, reactive oxygen species and amyloid-beta 40/42 expression. These effects of curcumin on PI3K, A kt and Nrf2 were blocked by LY294002 (PI3k inhibitor) and NF-E2-related factor-2 siRNA. The results indicate that the cytoprotection conferred by curcumin on APPswe transfected SH-SY5Y cells is mediated by its ability to regulate the balance between heme oxygenase 1 and 2 via the PI3K/Akt/Nrf2 intracellular signaling pathway.

  13. Silencing of Inducible Immunoproteasome Subunit Expression by Chemically Modified siRNA and shRNA.

    Science.gov (United States)

    Gvozdeva, Olga V; Prassolov, Vladimir S; Zenkova, Marina A; Vlassov, Valentin V; Chernolovskaya, Elena L

    2016-08-01

    Overexpression of inducible subunits of immunoproteasome is related to pathogenesis of some chronic diseases. Specific inhibition of the immunosubunits may be used for the treatment of these diseases and RNA interference is one of the potent methods used in this area. We designed 2'-O-methyl modified siRNAs with selectively protected nuclease-sensitive sites, which efficiently silence LMP2, LMP7, and MECL-1 genes expression. To provide stable long-lasting inhibition of target genes, short-hairpin RNAs (shRNA) expressed by lentiviral vectors were constructed. Our results demonstrated that chemically modified siRNAs inhibited the expression of target genes with similar efficiency or with efficiency exceeding that of corresponding shRNAs and provide silencing effect for 5 days.

  14. INDUCED STAR FORMATION IN THE HII REGION SH2-54

    Directory of Open Access Journals (Sweden)

    J. Vasquez

    2011-01-01

    Full Text Available En este trabajo presentamos un estudio multifrecuencia del medio interstelar en el entorno de la región HII Sh2-54. El gas molecular y el polvo se han analizado y descripto por medio de las observaciones milimétricas e infrarrojas, respectivamente. La emisión en 8.0 ¿Êm de Spitzer-IRAC presenta una compleja estructura filamentaria de gas fotodisociado, evidenciando la interacción entre la región HII y el gas molecular. Numerosos candidatos a objetos estelares jóvenes se encuentran proyectados sobre Sh2-54 y sus alrededores. Analizamos si la presencia de estos objetos puede ser explicada dentro de un escenario de formación estelar inducida.

  15. SH-wave propagation in the whole mantle using high-order finite differences

    OpenAIRE

    H. Igel; Michael Weber;  

    1995-01-01

    Finite-difference approximations to the wave equation in spherical coordinates are used to calculate synthetic seismograms for global Earth models. High-order finite-difference (FD) schemes were employed to obtain accurate waveforms and arrival times. Application to SH-wave propagation in the mantle shows that multiple reflections from the core-mantle boundary (CMB), with travel times of about one hour, can be modeled successfully. FD techniques, which are applicable in generally heterogeneou...

  16. Targeting the SH2-Kinase Interface in Bcr-Abl Inhibits Leukemogenesis

    OpenAIRE

    Grebien, Florian; Hantschel, Oliver; Wojcik, John; Kaupe, Ines; Kovacic, Boris; Wyrzucki, Arkadiusz M.; Gish, Gerald D.; Cerny-Reiterer, Sabine; Koide, Akiko; Beug, Hartmut; Pawson, Tony; Valent, Peter; Koide, Shohei; Superti-Furga, Giulio

    2011-01-01

    Summary Chronic myelogenous leukemia (CML) is caused by the constitutively active tyrosine kinase Bcr-Abl and treated with the tyrosine kinase inhibitor (TKI) imatinib. However, emerging TKI resistance prevents complete cure. Therefore, alternative strategies targeting regulatory modules of Bcr-Abl in addition to the kinase active site are strongly desirable. Here, we show that an intramolecular interaction between the SH2 and kinase domains in Bcr-Abl is both necessary and sufficient for hig...

  17. Regulation of lifespan, metabolism, and stress responses by the Drosophila SH2B protein, Lnk.

    Directory of Open Access Journals (Sweden)

    Cathy Slack

    2010-03-01

    Full Text Available Drosophila Lnk is the single ancestral orthologue of a highly conserved family of structurally-related intracellular adaptor proteins, the SH2B proteins. As adaptors, they lack catalytic activity but contain several protein-protein interaction domains, thus playing a critical role in signal transduction from receptor tyrosine kinases to form protein networks. Physiological studies of SH2B function in mammals have produced conflicting data. However, a recent study in Drosophila has shown that Lnk is an important regulator of the insulin/insulin-like growth factor (IGF-1 signaling (IIS pathway during growth, functioning in parallel to the insulin receptor substrate, Chico. As this pathway also has an evolutionary conserved role in the determination of organism lifespan, we investigated whether Lnk is required for normal lifespan in Drosophila. Phenotypic analysis of mutants for Lnk revealed that loss of Lnk function results in increased lifespan and improved survival under conditions of oxidative stress and starvation. Starvation resistance was found to be associated with increased metabolic stores of carbohydrates and lipids indicative of impaired metabolism. Biochemical and genetic data suggest that Lnk functions in both the IIS and Ras/Mitogen activated protein Kinase (MapK signaling pathways. Microarray studies support this model, showing transcriptional feedback onto genes in both pathways as well as indicating global changes in both lipid and carbohydrate metabolism. Finally, our data also suggest that Lnk itself may be a direct target of the IIS responsive transcription factor, dFoxo, and that dFoxo may repress Lnk expression. We therefore describe novel functions for a member of the SH2B protein family and provide the first evidence for potential mechanisms of SH2B regulation. Our findings suggest that IIS signaling in Drosophila may require the activity of a second intracellular adaptor, thereby yielding fundamental new insights into the

  18. Influencing factors of compressive strength of solidified inshore saline soil using SH lime-ash

    Institute of Scientific and Technical Information of China (English)

    覃银辉; 刘付华; 周琦

    2008-01-01

    Through unconfined compressive strength test,influencing factors on compressive strength of solidified inshore saline soil with SH lime-ash,ratio of lime-ash(1-K),quantity of lime-ash,age,degree of compression and salt content were studied.The results show that because inshore saline soil has special engineering characteristic,more influencing factors must be considered compared with ordinary soil for the perfect effect of solidifying.

  19. SH-TM mathematical analogy for the two-layer case. A magnetotellurics application

    OpenAIRE

    J. Carcione; F. Poletto

    2017-01-01

    The same mathematical formalism of the wave equation can be used to describe anelastic and electromagnetic wave propagation. In this work, we obtain the mathematical analogy for the reflection/refraction (transmission) problem of two layers, considering the presence of anisotropy and attenuation -- viscosity in the viscoelastic case and resistivity in the electromagnetic case. The analogy is illustrated for SH (shear-horizontally polarised) and TM (transverse-magnetic) waves. In particular, w...

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

    Science.gov (United States)

    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.

  1. Expression and pharmacology of endogenous Cav channels in SH-SY5Y human neuroblastoma cells.

    Directory of Open Access Journals (Sweden)

    Silmara R Sousa

    Full Text Available SH-SY5Y human neuroblastoma cells provide a useful in vitro model to study the mechanisms underlying neurotransmission and nociception. These cells are derived from human sympathetic neuronal tissue and thus, express a number of the Cav channel subtypes essential for regulation of important physiological functions, such as heart contraction and nociception, including the clinically validated pain target Cav2.2. We have detected mRNA transcripts for a range of endogenous expressed subtypes Cav1.3, Cav2.2 (including two Cav1.3, and three Cav2.2 splice variant isoforms and Cav3.1 in SH-SY5Y cells; as well as Cav auxiliary subunits α2δ1-3, β1, β3, β4, γ1, γ4-5, and γ7. Both high- and low-voltage activated Cav channels generated calcium signals in SH-SY5Y cells. Pharmacological characterisation using ω-conotoxins CVID and MVIIA revealed significantly (∼ 10-fold higher affinity at human versus rat Cav2.2, while GVIA, which interacts with Cav2.2 through a distinct pharmacophore had similar affinity for both species. CVID, GVIA and MVIIA affinity was higher for SH-SY5Y membranes vs whole cells in the binding assays and functional assays, suggesting auxiliary subunits expressed endogenously in native systems can strongly influence Cav2.2 channels pharmacology. These results may have implications for strategies used to identify therapeutic leads at Cav2.2 channels.

  2. PLAN DE MARKETING PARA UNA EMPRESA DEL SECTOR HOTELERO, SH VALENCIA PALACE

    OpenAIRE

    2015-01-01

    El presente estudio es un plan de marketing realizado por un alumno elaborando su proyecto de final de carrera, un alumno entusiasta y con inquietudes que ha realizado incontables estudios e informes acerca de una gran variedad de negocios, abarcando así varios sectores englobados en el sector servicios. En este estudio ofrecemos al hotel SH Valencia Palace una serie de propuestas de marketing que creemos convenientes realizar. Estas medidas no están dirigidas a garantizar la supervivencia...

  3. From Binding-Induced Dynamic Effects in SH3 Structures to Evolutionary Conserved Sectors

    OpenAIRE

    Ana Zafra Ruano; Elisa Cilia; Couceiro, José R.; Javier Ruiz Sanz; Joost Schymkowitz; Frederic Rousseau; Irene Luque; Tom Lenaerts

    2016-01-01

    Src Homology 3 domains are ubiquitous small interaction modules known to act as docking sites and regulatory elements in a wide range of proteins. Prior experimental NMR work on the SH3 domain of Src showed that ligand binding induces long-range dynamic changes consistent with an induced fit mechanism. The identification of the residues that participate in this mechanism produces a chart that allows for the exploration of the regulatory role of such domains in the activity of the encompassing...

  4. Involvement of gibberellins in expression of a cysteine proteinase (SH-EP) in cotyledons of Vigna mungo seedlings.

    Science.gov (United States)

    Taneyama, M; Okamoto, T; Yamane, H; Minamikawa, T

    2001-11-01

    The expression of a papain-type proteinase, designated SH-EP, in cotyledons of Vigna mungo seedlings has been shown to require some factors in the embryonic axes. Gibberellin A1 (GA(1)) and GA(20) were identified by GC-MS in embryonic axes of V. mungo seedlings. The level of accumulation of SH-EP in cotyledons of V. mungo seedlings was greatly reduced by treatment of the seeds with uniconazole-P, an inhibitor for GA biosynthesis. The reduced level of accumulation of SH-EP in cotyledons by uniconazole-P was recovered by exogenous application of GA(1) and GA(20) to the seedlings.

  5. Improved sampling and validation of frozen Gaussian approximation with surface hopping algorithm for nonadiabatic dynamics

    CERN Document Server

    Lu, Jianfeng

    2016-01-01

    In the spirit of the fewest switches surface hopping, the frozen Gaussian approximation with surface hopping (FGA-SH) method samples a path integral representation of the non-adiabatic dynamics in the semiclassical regime. An improved sampling scheme is developed in this work for FGA-SH based on birth and death branching processes. The algorithm is validated for the standard test examples of non-adiabatic dynamics.

  6. Holomorphic field realization of SH{sup c} and quantum geometry of quiver gauge theories

    Energy Technology Data Exchange (ETDEWEB)

    Bourgine, Jean-Emile [INFN Bologna, Università di Bologna,Via Irnerio 46, 40126 Bologna (Italy); Matsuo, Yutaka [Department of Physics, The University of Tokyo,Hongo 7-3-1, Bunkyo-ku, Tokyo (Japan); Zhang, Hong [Department of Physics and Center for Quantum Spacetime (CQUeST),Sogang University,35 Baekbeom-ro, Mapo-gu, Seoul 04107 (Korea, Republic of)

    2016-04-27

    In the context of 4D/2D dualities, SH{sup c} algebra, introduced by Schiffmann and Vasserot, provides a systematic method to analyse the instanton partition functions of N=2 supersymmetric gauge theories. In this paper, we rewrite the SH{sup c} algebra in terms of three holomorphic fields D{sub 0}(z), D{sub ±1}(z) with which the algebra and its representations are simplified. The instanton partition functions for arbitrary N=2 super Yang-Mills theories with A{sub n} and A{sub n}{sup (1)} type quiver diagrams are compactly expressed as a product of four building blocks, Gaiotto state, dilatation, flavor vertex operator and intertwiner which are written in terms of SH{sup c} and the orthogonal basis introduced by Alba, Fateev, Litvinov and Tarnopolskiy. These building blocks are characterized by new conditions which generalize the known ones on the Gaiotto state and the Carlsson-Okounkov vertex. Consistency conditions of the inner product give algebraic relations for the chiral ring generating functions defined by Nekrasov, Pestun and Shatashvili. In particular we show the polynomiality of the qq-characters which have been introduced as a deformation of the Yangian characters. These relations define a second quantization of the Seiberg-Witten geometry, and, accordingly, reduce to a Baxter TQ-equation in the Nekrasov-Shatashvili limit of the Omega-background.

  7. CH+ and SH+ in the diffuse interstellar medium: Tracers of turbulent dissipation

    Science.gov (United States)

    Edith, Falgarone; Benjamin, Godard; Maryvonne, Gerin; Massimo, De Luca

    2015-01-01

    Absorption spectroscopy performed with Herschel/HIFI against the dust continuum emission of bright galactic star-forming regions has allowed the detection of the ground-state transitions of several hydride cations, CH+, OH+, H2O+, and SH+ in the intervening diffuse medium. These hydrides, that need H2 to form but are also destroyed by H2, appear to be most sensitive tracers of a poorly known component of the interstellar medium (ISM): molecular gas weakly shielded from UV radiation. Among them, because their formation routes are so highly endoenergic, the CH+ and SH+ cations are proposed to be specific tracers of turbulent dissipation occurring in diffuse gas. Their elusive origin in the diffuse ISM is therefore much more than a chemical riddle: it is rooted in the physics of the diffuse ISM, its turbulent dissipation rate and connects with the far broader issue of galaxy evolution. The Herschel/HIFI observations of CH+ and SH+ are compared with the predictions of chemical models that include the non-equilibrium effects of turbulent dissipation.

  8. Emerging medical informatics research trends detection based on MeSH terms.

    Science.gov (United States)

    Lyu, Peng-Hui; Yao, Qiang; Mao, Jin; Zhang, Shi-Jing

    2015-01-01

    The aim of this study is to analyze the research trends of medical informatics over the last 12 years. A new method based on MeSH terms was proposed to identify emerging topics and trends of medical informatics research. Informetric methods and visualization technologies were applied to investigate research trends of medical informatics. The metric of perspective factor (PF) embedding MeSH terms was appropriately employed to assess the perspective quality for journals. The emerging MeSH terms have changed dramatically over the last 12 years, identifying two stages of medical informatics: the "medical imaging stage" and the "medical informatics stage". The focus of medical informatics has shifted from acquisition and storage of healthcare data by integrating computational, informational, cognitive and organizational sciences to semantic analysis for problem solving and clinical decision-making. About 30 core journals were determined by Bradford's Law in the last 3 years in this area. These journals, with high PF values, have relative high perspective quality and lead the trend of medical informatics.

  9. Selective Human Estrogen Receptor Partial Agonists (ShERPAs) for Tamoxifen-Resistant Breast Cancer.

    Science.gov (United States)

    Xiong, Rui; Patel, Hitisha K; Gutgesell, Lauren M; Zhao, Jiong; Delgado-Rivera, Loruhama; Pham, Thao N D; Zhao, Huiping; Carlson, Kathryn; Martin, Teresa; Katzenellenbogen, John A; Moore, Terry W; Tonetti, Debra A; Thatcher, Gregory R J

    2016-01-14

    Almost 70% of breast cancers are estrogen receptor α (ERα) positive. Tamoxifen, a selective estrogen receptor modulator (SERM), represents the standard of care for many patients; however, 30-50% develop resistance, underlining the need for alternative therapeutics. Paradoxically, agonists at ERα such as estradiol (E2) have demonstrated clinical efficacy in patients with heavily treated breast cancer, although side effects in gynecological tissues are unacceptable. A drug that selectively mimics the actions of E2 in breast cancer therapy but minimizes estrogenic effects in other tissues is a novel, therapeutic alternative. We hypothesized that a selective human estrogen receptor partial agonist (ShERPA) at ERα would provide such an agent. Novel benzothiophene derivatives with nanomolar potency in breast cancer cell cultures were designed. Several showed partial agonist activity, with potency of 0.8-76 nM, mimicking E2 in inhibiting growth of tamoxifen-resistant breast cancer cell lines. Three ShERPAs were tested and validated in xenograft models of endocrine-independent and tamoxifen-resistant breast cancer, and in contrast to E2, ShERPAs did not cause significant uterine growth.

  10. Laboratory Rotational Spectroscopy of the Interstellar Diatomic Hydride Ion SH+ (X 3Σ-)

    Science.gov (United States)

    Halfen, DeWayne; Ziurys, Lucy M.

    2016-06-01

    Diatomic hydride are among the most common molecular species in the interstellar medium (ISM). The low molecular mass and thus moments of inertia cause their rotational spectra to lie principally in the submillimeter and far-infrared regions. Diatomic hydrides, both neutral (MH) and ionic (MH+) forms, are also basic building blocks of interstellar chemistry. In ionic form, they may be the “hidden” carriers of refractory elements in dense gas. They are therefore extremely good targets for space-borne and airborne platforms such as Herschel, SOFIA, and SAFIR. However, in order to detect these species in the ISM, their rotational spectra must first be measured in the laboratory. To date, there is very little high resolution data available for many hydride species, in particular the ionic form. Using submillimeter/THz direct absorption methods in the Ziurys laboratory, spectra of the interstellar diatomic hydride SH+ (X 3Σ-) have been recorded. Recent work has concerned measurement of all three fine structure components of the fundamental rotational transition N = 1 ← 0 in the range 345 - 683 GHz. SH+ was generated from H2S and argon in an AC discharge. The data have been analyzed, and spectroscopic constants for this species have been refined. SH+ is found in Photon Dominated Regions (PDRs) and X-ray Dominated Regions (XDRs) and is thought to trace energetic processes in the ISM. These current measurements confirm recent observations of this species at submillimeter/THz wavelengths with ALMA and other ground-based telescopes.

  11. An S/H circuit with parasitics optimized for IF-sampling

    Science.gov (United States)

    Xuqiang, Zheng; Fule, Li; Zhijun, Wang; Weitao, Li; Wen, Jia; Zhihua, Wang; Shigang, Yue

    2016-06-01

    An IF-sampling S/H is presented, which adopts a flip-around structure, bottom-plate sampling technique and improved input bootstrapped switches. To achieve high sampling linearity over a wide input frequency range, the floating well technique is utilized to optimize the input switches. Besides, techniques of transistor load linearization and layout improvement are proposed to further reduce and linearize the parasitic capacitance. The S/H circuit has been fabricated in 0.18-μm CMOS process as the front-end of a 14 bit, 250 MS/s pipeline ADC. For 30 MHz input, the measured SFDR/SNDR of the ADC is 94.7 dB/68. 5dB, which can remain over 84.3 dB/65.4 dB for input frequency up to 400 MHz. The ADC presents excellent dynamic performance at high input frequency, which is mainly attributed to the parasitics optimized S/H circuit. Poject supported by the Shenzhen Project (No. JSGG20150512162029307).

  12. CGRP-shRNA慢病毒载体的构建与鉴定

    Institute of Scientific and Technical Information of China (English)

    韩静; 余俊达; 王伟

    2012-01-01

    目的:构建针对CGRP基因的shRNA载体并进行鉴定.方法:针对小鼠CGRP的mRNA序列,设计并合成编码的shRNA的两条寡核苷酸序列,经退火成互补双链,再克隆至质粒,构建重组体pLLU2G/CGRP,转化至stbl3细菌,挑选阳性克隆测序鉴定.慢病毒包装后,脂质体转导至neuro2A,显微镜观察荧光蛋白的表达.结果:测序证实质粒为所需的序列,脂质体转导至neuro2A 48 h后可见绿色荧光蛋白,转导率达90%.结论:成功地构建了针对CGRP基因的shRNA表达载体,为下一步进行RNAi的相关研究奠定了基础.

  13. Unveiling the birth and evolution of the HII region Sh2-173

    CERN Document Server

    Cichowolski, S; Ortega, M E; Cappa, C E; Vasquez, J

    2008-01-01

    Based on a multiwavelength study, the ISM around the HII region Sh2-173 has been analyzed. The ionized region is clearly detected in the optical and in the radio continuum images. The analysis of the HI data shows a region of low emissivity that has an excellent morphological correlation with the radio continuum emission. The HII region is partially bordered by a photodissociation region, which, in turn, is encircled by a molecular structure. Taking into account the presence of noncircular motions in the Perseus spiral arm, together with previous distance estimates for the region, we adopt a distance of 2.5 +- 0.5 kpc for Sh2-173. Seven hot stars were identified in the field of Sh2-173, being only one an O-type star. The amount of energetic photons emitted by this star is enough to keep the region ionized and heat the dust. Given that an expanding HII region may trigger star formation, a search for YSO candidates was made using different infrared point source catalogues. A population of 46 YSO candidates was ...

  14. The role of SH3BP2 in the pathophysiology of cherubism

    Directory of Open Access Journals (Sweden)

    Reichenberger Ernst J

    2012-05-01

    Full Text Available Abstract Cherubism is a rare bone dysplasia that is characterized by symmetrical bone resorption limited to the jaws. Bone lesions are filled with soft fibrous giant cell-rich tissue that can expand and cause severe facial deformity. The disorder typically begins in children at ages of 2-5 years and the bone resorption and facial swelling continues until puberty; in most cases the lesions regress spontaneously thereafter. Most patients with cherubism have germline mutations in the gene encoding SH3BP2, an adapter protein involved in adaptive and innate immune response signaling. A mouse model carrying a Pro416Arg mutation in SH3BP2 develops osteopenia and expansile lytic lesions in bone and some soft tissue organs. In this review we discuss the genetics of cherubism, the biological functions of SH3BP2 and the analysis of the mouse model. The data suggest that the underlying cause for cherubism is a systemic autoinflammatory response to physiologic challenges despite the localized appearance of bone resorption and fibrous expansion to the jaws in humans.

  15. Stochastic Gradient Descent and the Prediction of MeSH for PubMed Records.

    Science.gov (United States)

    Wilbur, W John; Kim, Won

    2014-01-01

    Stochastic Gradient Descent (SGD) has gained popularity for solving large scale supervised machine learning problems. It provides a rapid method for minimizing a number of loss functions and is applicable to Support Vector Machine (SVM) and Logistic optimizations. However SGD does not provide a convenient stopping criterion. Generally an optimal number of iterations over the data may be determined using held out data. Here we compare stopping predictions based on held out data with simply stopping at a fixed number of iterations and show that the latter works as well as the former for a number of commonly studied text classification problems. In particular fixed stopping works well for MeSH(®) predictions on PubMed(®) records. We also surveyed the published algorithms for SVM learning on large data sets, and chose three for comparison: PROBE, SVMperf, and Liblinear and compared them with SGD with a fixed number of iterations. We find SGD with a fixed number of iterations performs as well as these alternative methods and is much faster to compute. As an application we made SGD-SVM predictions for all MeSH terms and used the Pool Adjacent Violators (PAV) algorithm to convert these predictions to probabilities. Such probabilistic predictions lead to ranked MeSH term predictions superior to previously published results on two test sets.

  16. Holomorphic field realization of SH$^c$ and quantum geometry of quiver gauge theories

    CERN Document Server

    Bourgine, Jean-Emile; Zhang, Hong

    2015-01-01

    In the context of 4D/2D dualities, SH$^c$ algebra, introduced by Schiffmann and Vasserot, provides a systematic method to analyse the instanton partition functions of $\\mathcal{N}=2$ supersymmetric gauge theories. In this paper, we rewrite the SH$^c$ algebra in terms of three holomorphic fields $D_0(z)$, $D_{\\pm1}(z)$ with which the algebra and its representations are simplified. The instanton partition functions for arbitrary $\\mathcal{N}=2$ super Yang-Mills theories with $A_n$ and $A^{(1)}_n$ type quiver diagrams are compactly expressed as a product of four building blocks, Gaiotto state, dilatation, flavor vertex operator and intertwiner which are written in terms of SH$^c$ and the orthogonal basis introduced by Alba, Fateev, Litvinov and Tarnopolskiy. These building blocks are characterized by new conditions which generalize the known ones on the Gaiotto state and the Carlsson-Okounkov vertex. Consistency conditions of the inner product give algebraic relations for the chiral ring generating functions def...

  17. Hyperosmotic Stress Induces Tau Proteolysis by Caspase-3 Activation in SH-SY5Y Cells.

    Science.gov (United States)

    Olivera-Santa Catalina, Marta; Caballero-Bermejo, Montaña; Argent, Ricardo; Alonso, Juan C; Cuenda, Ana; Lorenzo, María J; Centeno, Francisco

    2016-12-01

    Tau is a microtubule-associated protein implicated in the pathogenesis of Alzheimer's disease and other related tauopathies. In this subset of neurodegenerative disorders, Tau auto-assembles into insoluble fibrils that accumulate in neurons as paired helical filaments (PHFs), promoting cellular dysfunction and cytotoxic effects. Growing evidence suggests that abnormal post-translational regulation, mainly hyperphosphorylation and aberrant cleavage, drives Tau to this pathological state. In this work we show that sorbitol-induced hyperosmotic stress promotes Tau proteolysis in SH-SY5Y neuroblastoma cells. The appearance of cleaved Tau was preceded by the activation of μ-calpain, the proteasome system and caspase-3. Tau proteolysis was completely prevented by caspase-3 inhibition but unaffected by neither the proteasome system nor μ-calpain activity blockade. Concomitantly, hyperosmotic stress induced apoptosis in SH-SY5Y cells, which was efficiently avoided by the inhibition of caspase-3 activity. Altogether, our results provide the first evidence that Tau protein is susceptible to caspase-3 proteolysis under hyperosmotic stress and suggest a positive relationship between Tau proteolysis and apoptosis in SH-SY5Y cells. J. Cell. Biochem. 117: 2781-2790, 2016. © 2016 Wiley Periodicals, Inc. © 2016 Wiley Periodicals, Inc.

  18. Neuroprotective effect of Rosmarinus officinalis extract on human dopaminergic cell line, SH-SY5Y.

    Science.gov (United States)

    Park, Se-Eun; Kim, Seung; Sapkota, Kumar; Kim, Sung-Jun

    2010-07-01

    Hydrogen peroxide (H2O2) is a major Reactive Oxygen Species (ROS), which has been implicated in many neurodegenerative conditions including Parkinson's disease (PD). Rosmarinus officinalis (R. officinalis) has been reported to have various pharmacological properties including anti-oxidant activity. In this study, we investigated the neuroprotective effects of R. officinalis extract on H2O2-induced apoptosis in human dopaminergic cells, SH-SY5Y. Our results showed that H2O2-induced cytotoxicity in SH-SY5Y cells was suppressed by treatment with R. officinalis. Moreover, R. officinalis was very effective in attenuating the disruption of mitochondrial membrane potential and apoptotic cell death induced by H2O2. R. officinalis extract effectively suppressed the up-regulation of Bax, Bak, Caspase-3 and -9, and down-regulation of Bcl-2. Pretreatment with R. officinalis significantly attenuated the down-regulation of tyrosine hydroxylase (TH), and aromatic amino acid decarboxylase (AADC) gene in SH-SY5Y cells. These findings indicate that R. officinalis is able to protect the neuronal cells against H2O2-induced injury and suggest that R. officinalis might potentially serve as an agent for prevention of several human neurodegenerative diseases caused by oxidative stress and apoptosis.

  19. SH$^c$ Realization of Minimal Model CFT: Triality, Poset and Burge Condition

    CERN Document Server

    Fukuda, Masayuki; Matsuo, Yutaka; Zhu, Rui-Dong

    2015-01-01

    Recently an orthogonal basis of $\\mathcal{W}_N$-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 $\\mathrm{SH}^{c}$ which is universal for any $N$. It includes an infinite number of commuting operators which are diagonal on the basis. In this paper, we study the level-rank duality between the minimal models from SH$^c$. 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 analysis demonstrates that $\\mathrm{SH}^{c}$ has triality symmetry for some specific choices of parameters. 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 $\\mathr...

  20. The role of SH and S-S groups in Bacillus cereus beta-amylase.

    Science.gov (United States)

    Nomura, K; Yoneda, I; Nanmori, T; Shinke, R; Morita, Y; Mikami, B

    1995-12-01

    The properties of sulfhydryl (SH) and disulfide (S-S) groups in Bacillus cereus BQ10-S1 Spo III beta-amylase have been investigated to clarify their roles in the enzyme action. Two out of three cysteine residues in B. cereus beta-amylase were found to form an S-S bond, which was found to be located between Cys91 and Cys99 by the analysis of an S-S containing peptide. The replacement of the soybean beta-amylase model around L3 loop 1 revealed that the S-S bond is located at the root of this flexible loop that moves between open and closed forms during catalysis. The analysis of fluorescence labeled peptides revealed that the remaining free SH group was Cys331. Modification of Cys331 with N-ethylmaleimide or p-chloromercuribenzoic acid (PCMB) caused inactivation of the enzyme. The rate constants for the reactions were consistent with those of Cys343 in soybean enzyme. The binding affinity of the PCMB-modified enzyme to maltose was also decreased. These results indicate that the modification of Cys331, which exists as a free SH group in B. cereus beta-amylase caused inactivation by a similar mechanism to that in the case of Cys343 in soybean beta-amylase as assumed from the sequence homology. This cysteine residue has a common role in beta-amylases irrespective their origin.

  1. Ritual Pengikut Tarekat Shâdhilîyah di Tambak Beras, Jombang-Jawa Timur

    Directory of Open Access Journals (Sweden)

    Abdullah Safik

    2015-10-01

    Full Text Available This article tries to phenomenologically examines the existence of the Shâdhilîyah tarekat supervised by KH. Djamaluddin in Tambak Beras, Jombang. The Shâdhîlîyah tarekat, that had been initiated by Abû Hasan al-Shâdhilî, is an exceptional and consistent in holding and practicing its tawhid principle as well as dhikr rituals. In Indonesia, this tarekat has rapidly evolved. One of its murshid is KH. Abdul Jalil Mustaqim in Tulungagung, the murshid to KH. Djamaluddin. The tarekat has two main doctrines, are: firstly, ‘ubûdîyah realm where its followers are obliged to phisically and mentally obey Allah swt and His messenger, i.e. the prophet Muhammad, in all their sayings and deeds. Secondly, mu‘âmalah aspect where each follower is taught to interact with other people and creatures only for the sake of Allah. It means that the tarekat is a medium of self approaching to Allah. One of special rites (khusûsîyah conducted by this tarekat is an every-Tuesday agenda where dhikr, tawassul, tahlîl, and tahmîd activities are held. Technically, a sâlik when s/he recites dhikr should be followed by breathing in which is concentrated in the navel and going on top through thoracic cavity and coming out through the mouth then retracting it back to tongue.

  2. A multiwavelength study of the star forming H Ⅱ region Sh2-82

    Institute of Scientific and Technical Information of China (English)

    Nai-Ping Yu; Jun-Jie Wang

    2012-01-01

    Based on a multiwavelength study,the interstellar medium and young stellar objects (YSOs) around the H Ⅱ region Sh2-82 have been analyzed.Two molecular clumps were found from the archival data of the Galactic Ring Survey,and using the Two Micron All-Sky Survey catalog,we found two corresponding young clusters embedded in the molecular clumps.The very good relations between CO emission,infrared shells and YSOs suggest that it is probably a triggered star formation region from the expansion of Sh2-82.We further used the data from the Galactic Legacy Infrared Mid-Plane Survey Extraordinaire from Spitzer to study the YSOs within the two clumps,confirming star formation in this region.By spectral energy distribution fits to each YSO candidate with infrared excess,we derived the slope of the initial mass function.Finally,comparing the H Ⅱ region's dynamical age and the fragmentation time of the molecular shell,we discard the "collect and collapse" process as being the triggering mechanism for YSO formation.Sh2-82 can be a mixture of other processes such as radiative-driven implosion and/or collisions with pre-existing clumps.

  3. Nanotextured Shrink Wrap Superhydrophobic Surfaces by Argon Plasma Etching

    Directory of Open Access Journals (Sweden)

    Jolie M. Nokes

    2016-03-01

    Full Text Available We present a rapid, simple, and scalable approach to achieve superhydrophobic (SH substrates directly in commodity shrink wrap film utilizing Argon (Ar plasma. Ar plasma treatment creates a stiff skin layer on the surface of the shrink film. When the film shrinks, the mismatch in stiffness between the stiff skin layer and bulk shrink film causes the formation of multiscale hierarchical wrinkles with nano-textured features. Scanning electron microscopy (SEM images confirm the presence of these biomimetic structures. Contact angle (CA and contact angle hysteresis (CAH measurements, respectively, defined as values greater than 150° and less than 10°, verified the SH nature of the substrates. Furthermore, we demonstrate the ability to reliably pattern hydrophilic regions onto the SH substrates, allowing precise capture and detection of proteins in urine. Finally, we achieved self-driven microfluidics via patterning contrasting superhydrophilic microchannels on the SH Ar substrates to induce flow for biosensing.

  4. Nanotextured Shrink Wrap Superhydrophobic Surfaces by Argon Plasma Etching.

    Science.gov (United States)

    Nokes, Jolie M; Sharma, Himanshu; Tu, Roger; Kim, Monica Y; Chu, Michael; Siddiqui, Ali; Khine, Michelle

    2016-03-14

    We present a rapid, simple, and scalable approach to achieve superhydrophobic (SH) substrates directly in commodity shrink wrap film utilizing Argon (Ar) plasma. Ar plasma treatment creates a stiff skin layer on the surface of the shrink film. When the film shrinks, the mismatch in stiffness between the stiff skin layer and bulk shrink film causes the formation of multiscale hierarchical wrinkles with nano-textured features. Scanning electron microscopy (SEM) images confirm the presence of these biomimetic structures. Contact angle (CA) and contact angle hysteresis (CAH) measurements, respectively, defined as values greater than 150° and less than 10°, verified the SH nature of the substrates. Furthermore, we demonstrate the ability to reliably pattern hydrophilic regions onto the SH substrates, allowing precise capture and detection of proteins in urine. Finally, we achieved self-driven microfluidics via patterning contrasting superhydrophilic microchannels on the SH Ar substrates to induce flow for biosensing.

  5. SH2-B β在肥胖小鼠下丘脑和肺内表达及作用%Expression of SH2-B β in hypothalamus and lung of obese mice

    Institute of Scientific and Technical Information of China (English)

    齐金萍; 王效杰; 金韵; 关宝丽

    2012-01-01

    目的 探讨高脂饮食诱导肥胖小鼠下丘脑及肺内SH2-B β表达与肥胖和炎症之间关系.方法 c57BL/6小鼠45只,随机分为对照组和肥胖组,对照组20只,肥胖组25只;高脂饮食制备肥胖模型.利用免疫组织化学法,测定各组小鼠肺内SH2-B β表达变化;western blot检测下丘脑SH2-B 3蛋白变化;应用小鼠肺功能仪检测气道阻力变化.结果 肥胖小鼠肺内可见大量炎性细胞浸入,气道上皮及炎性细胞均高表达SH2-B β,肥胖组小鼠肺内SH2-B β平均光密度值为(0.685±0.025),明显高于对照组的(0.127 ±0.019)(t =56.19,P<0.01),下丘脑SH2-B β免疫阳性产物平均光密度值为(0.686±0.016),明显低于对照组的(2.487±0.014)(t=267.88,P<0.01);肥胖组小鼠气道阻力较对照组明显增高(P<0.01).结论 高脂饮食可使小鼠下丘脑内SH2-B β表达下调近而导致肥胖;肺内气道上皮和炎性细胞SH2-B β过表达使气道阻力增加.%Objective To compare the difference in sre homology 2 domain(SH2-B) β expression in hypothalamus and lung between diet-induced obese mice and normal mice(NC) ,and to explore the association of SH2-B β and obesity and inflammation. Methods Forty-five C57BL/6 mice(male) aged 6 weeks were randomized to a standard rodent chow (NC, n = 20) or to a high fat diet chow (HFD, n = 25). Western blot was used to detect SH2-B β expression in hypothalamus and immunohistory was adopted to detect SH2-B β expression in lung. By means of animal lung function analysis system,the changes of the airway resistance was investigated. Results Immunohistochemistry detection demonstrated that more imflammatory cells were in the lung in obese mice than NC group, and the mean optic density (MOD) (0. 685 ±0. 025) of SH2-B p positive substance in the airway epithelium and imflammatory cells of the obese mice was much higher than those of NC group(0. 127 ±0. 019) (P <0. 01). Western blot results demonstrated that the mean ratio of SH2-B

  6. Autophagy regulates chlorpyrifos-induced apoptosis in SH-SY5Y cells

    Energy Technology Data Exchange (ETDEWEB)

    Park, Jae Hyeon [Department of Pharmacology, College of Medicine, Hanyang University (Korea, Republic of); Hanyang Biomedical Research Institute, Seoul (Korea, Republic of); Graduate School of Biomedical Science and Engineering, Hanyang University, Seoul (Korea, Republic of); Lee, Jeong Eun [Department of Pharmacology, College of Medicine, Hanyang University (Korea, Republic of); Hanyang Biomedical Research Institute, Seoul (Korea, Republic of); Shin, In Chul [Department of Pharmacology, College of Medicine, Hanyang University (Korea, Republic of); Koh, Hyun Chul, E-mail: hckoh@hanyang.ac.kr [Department of Pharmacology, College of Medicine, Hanyang University (Korea, Republic of); Hanyang Biomedical Research Institute, Seoul (Korea, Republic of); Graduate School of Biomedical Science and Engineering, Hanyang University, Seoul (Korea, Republic of)

    2013-04-01

    Recent studies have shown that up-regulation of autophagy may be a tractable therapeutic intervention for clearing disease-causing proteins, including α-synuclein, ubiquitin, and other misfolded or aggregated proteins in pesticide-induced neurodegeneration. In a previous study, we reported that chlorpyrifos (CPF)-induced mitochondria-dependent apoptosis is mediated through reactive oxygen species in SH-SY5Y cells. In this study, we explored a novel pharmacotherapeutic approach to prevent CPF neurotoxicity involving the regulation of autophagy. We investigated the modulation of CPF-induced apoptosis according to autophagy regulation. We found that CPF induced apoptosis in SH-SY5Y cells, as demonstrated by the activation of caspase-3 and nuclear condensation. In addition, we observed that cells treated with CPF underwent autophagic cell death by monitoring the expression of LC3-II and p62. Pretreatment with the autophagy inducer rapamycin significantly enhanced the cell viability of CPF-exposed cells, and the enhancement of cell viability was partially due to alleviation of CPF-induced apoptosis via a decrease in levels of cleaved caspase-3. Specifically, rapamycin pretreatment decreased Bax and increased Bcl-2 expression in mitochondria. In addition, rapamycin significantly decreased cytochrome c release in from mitochondria into the cytosol. However, pretreatment of cells with the autophagy inhibitor, 3-methyladenine (3MA), remarkably increased CPF toxicity in these cells; this with correlated with increased expression of Bax and decreased expression of Bcl-2 in mitochondria. Our results suggest that CPF-induced cytotoxicity is modified by autophagy regulation and that rapamycin protects against CPF-induced apoptosis by enhancing autophagy. Pharmacologic induction of autophagy by rapamycin may be a useful treatment strategy in neurodegenerative disorders. - Highlights: ► Chlorpyrifos (CPF) is cytotoxic to SH-SY5Y cells ► CPF-induced cytotoxicity is mediated by

  7. Nature, raison et nation dans le modernisme shï'ite de l'Inde britannique

    Directory of Open Access Journals (Sweden)

    Michel Boivin

    2009-05-01

    Full Text Available Comme dans le reste du monde musulman, la domination coloniale sur le sous-continent indien a provoqué des interrogations. La recherche des causes de cette domination a fait émerger un aggiomamento et si la réflexion de penseurs comme Sayyid Ahmad Khân (1817-1898 a été largement analysée, on connaît moins le rôle joué par les penseurs shî'ites comme Sayyid Amîr’Alî (1849-1928, un shî'ite ithnâ 'asharî, ou Sultân Muhammad Shâh Aghâ Khân (1877-1957, shî'ite ismâ'îlî. Pour ces auteurs, qui répondent souvent à des polémistes chrétiens, le message coranique se répartit en deux catégories fondamentales : les versets « éternels », relatifs aux fondements de la foi (unicité de Dieu, et les versets « temporaires », ceux qui ont été édictés pour répondre à des questions ponctuelles qui se posaient à l'époque du Prophète. Ce faisant, ils élaborent une conception libérale et séculariste de l'islam qui fait émerger un rationalisme islamique. Sur le plan politique, s'ils participèrent activement aux premières associations de défense des intérêts des Musulmans, ils ne parvinrent pas à penser la nation musulmane de l'Inde, bien que Sultân Muhammad Shâh Âghâ Khân ait accueilli avec enthousiasme la création du Pakistan.

  8. High-resolution FUSE and HST ultraviolet spectroscopy of the white dwarf central star of Sh 2-216

    CERN Document Server

    Rauch, T; Werner, K; Kruk, J W; Oliveira, C M; Putte, D Vande; Mignani, R P; Kerber, F

    2007-01-01

    LS V +4621 is the DAO-type central star of the planetary nebula Sh 2-216. We perform a comprehensive spectral analysis of high-resolution, high-S/N ultraviolet observations obtained with FUSE and STIS aboard the HST as well as the optical spectrum of LS V +4621 by means of state-of-the-art NLTE model-atmosphere techniques in order to compare its photospheric properties to theoretical predictions from stellar evolution theory as well as from diffusion calculations. From the N IV - NV, O IV - O VI, Si IV - Si V, and Fe V - Fe VII ionization equilibria, we determined an effective temperature of 95 +/- 2 kK with high precision. The surface gravity is log g = 6.9 +/- 0.2. An unexplained discrepancy appears between the spectroscopic distance d = 224 +46/-58 pc and the parallax distance d = 129 +6/-5 pc of LS V +4621. For the first time, we have identified Mg IV and Ar VI absorption lines in the spectrum of a hydrogen-rich central star and determined the Mg and Ar abundances as well as the individual abundances of i...

  9. Differential trafficking of Src, Lyn, Yes and Fyn is specified by the state of palmitoylation in the SH4 domain.

    Science.gov (United States)

    Sato, Izumi; Obata, Yuuki; Kasahara, Kousuke; Nakayama, Yuji; Fukumoto, Yasunori; Yamasaki, Takahito; Yokoyama, Kazunari K; Saito, Takashi; Yamaguchi, Naoto

    2009-04-01

    Src-family tyrosine kinases (SFKs), which participate in a variety of signal transduction events, are known to localize to the cytoplasmic face of the plasma membrane through lipid modification. Recently, we showed that Lyn, an SFK member, is exocytosed to the plasma membrane via the Golgi region along the secretory pathway. We show here that SFK trafficking is specified by the palmitoylation state. Yes is also a monopalmitoylated SFK and is biosynthetically transported from the Golgi pool of caveolin to the plasma membrane. This pathway can be inhibited in the trans-Golgi network (TGN)-to-cell surface delivery by temperature block at 19 degrees C or dominant-negative Rab11 GTPase. A large fraction of Fyn, a dually palmitoylated SFK, is directly targeted to the plasma membrane irrespective of temperature block of TGN exit. Fyn(C6S), which lacks the second palmitoylation site, is able to traffic in the same way as Lyn and Yes. Moreover, construction of Yes(S6C) and chimeric Lyn or Yes with the Fyn N-terminus further substantiates the importance of the dual palmitoylation site for plasma membrane targeting. Taken together with our recent finding that Src, a nonpalmitoylated SFK, is rapidly exchanged between the plasma membrane and late endosomes/lysosomes, these results suggest that SFK trafficking is specified by the palmitoylation state in the SH4 domain.

  10. Diet preference and meal patterns of weanling pigs offered diets containing either spray-dried porcine plasma or dried skim milk.

    Science.gov (United States)

    Ermer, P M; Miller, P S; Lewis, A J

    1994-06-01

    Preference tests and meal pattern analyses were conducted to examine the feed intake response of weanling pigs to spray-dried porcine plasma (SDPP). In Exp. 1, 36 weanling pigs (mean +/- SD; 6.2 +/- .8 kg and 26 d of age) were allowed to choose between a SDPP diet (8.5% SDPP, 20% dried whey, 10% lactose, and .13% DL-methionine) and a dried skim milk (DSM) diet (20% each of DSM and dried whey) throughout 21 d postweaning. Twenty-eight pigs preferred the SDPP diet and seven pigs preferred the DSM diet. Preference for SDPP became apparent by d 2 (60% of total feed consumption) and increased (P Average daily feed consumption was 371 and 172 g for the SDPP and DSM diets, respectively (P meal patterns of 16 weanling pigs (mean +/- SD; 7.2 +/- .3 kg and 26 d of age) offered either the SDPP or the DSM diet were examined in Exp. 2. On d 3, 7, and 14 postweaning, feeding behavior was observed continuously for 18 h (0600 to 2400). Time spent consuming feed and time between periods of feeding were recorded. Although the difference was not significant, pigs fed the SDPP diet consumed 27 and 6% (P = .38) more feed than pigs fed the DSM diet during the first 7 d and during the entire 21-d period, respectively. This difference was reflected in increased (P .10) on meal size, the number of meals, or the percentage of time spent consuming feed. Weanling pigs prefer diets containing SDPP to those containing DSM, and the increased consumption of diets containing SDPP may be due to greater palatability.

  11. Genes involved in lactose catabolism and organic acid production during growth of Lactobacillus delbrueckii UFV H2b20 in skimmed milk.

    Science.gov (United States)

    Do Carmo, A P; De Oliveira, M N V; Da Silva, D F; Castro, S B; Borges, A C; De Carvalho, A F; De Moraes, C A

    2012-03-01

    There are three main reasons for using lactic acid bacteria (LAB) as starter cultures in industrial food fermentation processes: food preservation due to lactic acid production; flavour formation due to a range of organic molecules derived from sugar, lipid and protein catabolism; and probiotic properties attributed to some strains of LAB, mainly of lactobacilli. The aim of this study was to identify some genes involved in lactose metabolism of the probiotic Lactobacillus delbrueckii UFV H2b20, and analyse its organic acid production during growth in skimmed milk. The following genes were identified, encoding the respective enzymes: ldh - lactate dehydrogenase, adhE - Ldb1707 acetaldehyde dehydrogenase, and ccpA-pepR1 - catabolite control protein A. It was observed that L. delbrueckii UFV H2b20 cultivated in different media has the unexpected ability to catabolyse galactose, and to produce high amounts of succinic acid, which was absent in the beginning, raising doubts about the subspecies in question. The phylogenetic analyses showed that this strain can be compared physiologically to L. delbrueckii subsp. bulgaricus and L. delbrueckii subsp. lactis, which are able to degrade lactose and can grow in milk. L. delbrueckii UFV H2b20 sequences have grouped with L. delbrueckii subsp. bulgaricus ATCC 11842 and L. delbrueckii subsp. bulgaricus ATCC BAA-365, strengthening the classification of this probiotic strain in the NCFM group proposed by a previous study. Additionally, L. delbrueckii UFV H2b20 presented an evolutionary pattern closer to that of probiotic Lactobacillus acidophilus NCFM, corroborating the suggestion that this strain might be considered as a new and unusual subspecies among L. delbrueckii subspecies, the first one identified as a probiotic. In addition, its unusual ability to metabolise galactose, which was significantly consumed in the fermentation medium, might be exploited to produce low-browning probiotic Mozzarella cheeses, a desirable property

  12. Comparison of heat and pressure treatments of skim milk, fortified with whey protein concentrate, for set yogurt preparation: effects on milk proteins and gel structure.

    Science.gov (United States)

    Needs, E C; Capellas, M; Bland, A P; Manoj, P; MacDougal, D; Paul, G

    2000-08-01

    Heat (85 degrees C for 20 min) and pressure (600 MPa for 15 min) treatments were applied to skim milk fortified by addition of whey protein concentrate. Both treatments caused > 90 % denaturation of beta-lactoglobulin. During heat treatment this denaturation took place in the presence of intact casein micelles; during pressure treatment it occurred while the micelles were in a highly dissociated state. As a result micelle structure and the distribution of beta-lactoglobulin were different in the two milks. Electron microscopy and immunolabelling techniques were used to examine the milks after processing and during their transition to yogurt gels. The disruption of micelles by high pressure caused a significant change in the appearance of the milk which was quantified by measurement of the colour values L*, a* and b*. Heat treatment also affected these characteristics. Casein micelles are dynamic structures, influenced by changes to their environment. This was clearly demonstrated by the transition from the clusters of small irregularly shaped micelle fragments present in cold pressure-treated milk to round, separate and compact micelles formed on warming the milk to 43 degrees C. The effect of this transition was observed as significant changes in the colour indicators. During yogurt gel formation, further changes in micelle structure, occurring in both pressure and heat-treated samples, resulted in a convergence of colour values. However, the microstructure of the gels and their rheological properties were very different. Pressure-treated milk yogurt had a much higher storage modulus but yielded more readily to large deformation than the heated milk yogurt. These changes in micelle structure during processing and yogurt preparation are discussed in terms of a recently published micelle model.

  13. Characterization of the efficiency and uncertainty of skimmed milk flocculation for the simultaneous concentration and quantification of water-borne viruses, bacteria and protozoa.

    Science.gov (United States)

    Gonzales-Gustavson, Eloy; Cárdenas-Youngs, Yexenia; Calvo, Miquel; da Silva, Marcelle Figueira Marques; Hundesa, Ayalkibet; Amorós, Inmaculada; Moreno, Yolanda; Moreno-Mesonero, Laura; Rosell, Rosa; Ganges, Llilianne; Araujo, Rosa; Girones, Rosina

    2017-03-01

    In this study, the use of skimmed milk flocculation (SMF) to simultaneously concentrate viruses, bacteria and protozoa was evaluated. We selected strains of faecal indicator bacteria and pathogens, such as Escherichia coli and Helicobacter pylori. The viruses selected were adenovirus (HAdV 35), rotavirus (RoV SA-11), the bacteriophage MS2 and bovine viral diarrhoea virus (BVDV). The protozoa tested were Acanthamoeba, Giardia and Cryptosporidium. The mean recoveries with q(RT)PCR were 66% (HAdV 35), 24% (MS2), 28% (RoV SA-11), 15% (BVDV), 60% (E. coli), 30% (H. pylori) and 21% (Acanthamoeba castellanii). When testing the infectivity, the mean recoveries were 59% (HAdV 35), 12% (MS2), 26% (RoV SA-11) and 0.7% (BVDV). The protozoa Giardia lamblia and Cryptosporidium parvum were studied by immunofluorescence with recoveries of 18% and 13%, respectively. Although q(RT)PCR consistently showed higher quantification values (as expected), q(RT)PCR and the infectivity assays showed similar recoveries for HAdV 35 and RoV SA-11. Additionally, we investigated modelling the variability and uncertainty of the recovery with this method to extrapolate the quantification obtained by q(RT)PCR and estimate the real concentration. The 95% prediction intervals of the real concentration of the microorganisms inoculated were calculated using a general non-parametric bootstrap procedure adapted in our context to estimate the technical error of the measurements. SMF shows recoveries with a low variability that permits the use of a mathematical approximation to predict the concentration of the pathogen and indicator with acceptable low intervals. The values of uncertainty may be used for a quantitative microbial risk analysis or diagnostic purposes. Copyright © 2017 The Author(s). Published by Elsevier B.V. All rights reserved.

  14. Egg quality and productive performance of laying hens fed different levels of skimmed milk powder added to a diet containing Lactobacillus acidophilus.

    Science.gov (United States)

    Cesari, V; Mangiagalli, M G; Giardini, A; Galimberti, P; Carteri, S; Gallazzi, D; Toschi, I

    2014-05-01

    The current trial was carried out on a commercial poultry farm to study the effect of skim milk powder (SMP) added to a diet containing Lactobacillus acidophilus on performance and egg quality of laying hens from 20 to 49 wk of age. A total of 2,400 Hy-Line W-36 laying hens were housed in 600 unenriched cages (4 hens each) located over 4 tier levels. Animals were assigned to 1 of 3 experimental treatments (0, 3, and 4). The laying hens assigned to treatments 3 and 4 received a diet enriched respectively with 3 and 4% SMP, whereas the animals in treatment 0 were fed a diet without SMP. All diets, moreover, were supplemented with L. acidophilus D2/CSL. Hen performance was determined throughout the experimental period and egg quality was measured on 30 eggs per treatment every week. Results showed that productive performance in terms of egg production, egg weight, and feed conversion ratio was not influenced by SMP at 3 or 4% of the diet. Egg quality was significantly affected by SMP included at 3 or 4% of the diet. Eggs from treatments 3 and 4, in fact, displayed higher shell thickness than those from treatment 0 (P < 0.0001). Likewise, specific gravity, Haugh unit, and shell percentage were significantly affected by the addition of SMP. In conclusion, in our study, SMP added to a diet containing L. acidophilus had no significant effects on the productive parameters of hens during the laying period, whereas significant improvements were found in certain egg quality characteristics.

  15. Antioxidative and neuroprotective activities of peanut sprout extracts against oxidative stress in SK-N-SH cells

    Directory of Open Access Journals (Sweden)

    Pranee Lertkaeo

    2017-01-01

    Conclusions: PSE has neuroprotective activities against oxidative stress in SK-N-SH cells induced by PQ, suggesting that PSE is a highly promising agent in the prevention of neurodegenerative diseases such as Alzheimer's disease and Parkinson's disease.

  16. Propagation of SH waves in a piezoelectric/piezomagnetic plate: Effects of interfacial imperfection couplings and the related physical mechanisms

    Energy Technology Data Exchange (ETDEWEB)

    Wei, Hong-Xing [Beijing Advanced Innovation Center for Imaging Technology, Capital Normal University, Beijing 100048 (China); Li, Yong-Dong, E-mail: LYDbeijing@163.com [Beijing Advanced Innovation Center for Imaging Technology, Capital Normal University, Beijing 100048 (China); Department of Mechanical Engineering, Academy of Armored Force Engineering, Beijing 100072 (China); Xiong, Tao [Department of Mechanical Engineering, Academy of Armored Force Engineering, Beijing 100072 (China); Guan, Yong [Beijing Advanced Innovation Center for Imaging Technology, Capital Normal University, Beijing 100048 (China)

    2016-09-07

    The problem of dispersive SH wave in a piezoelectric/piezomagnetic plate that contains an imperfect interface is considered in the present work. An imperfection coupling model is adopted to describe the magnetic, electric and mechanical imperfections on the interface. A transcendental dispersion equation is derived and numerically solved to get the phase velocity. The validity of the numerical procedure is verified in a degenerated case. The effects of the coupled interfacial imperfections on the dispersion behavior of SH waves are discussed in detail and the related underlying physical mechanisms are explained. - Highlights: • SH-wave is investigated in a multiferroic plate with coupled interfacial imperfections. • SH-wave is affected by both interfacial imperfections and their inter-couplings. • Physical mechanisms of the effects are explained via energy transformations.

  17. Designing Ago2-specific siRNA/shRNA to Avoid Competition with Endogenous miRNAs.

    Science.gov (United States)

    Ma, Hongming; Zhang, Junli; Wu, Haoquan

    2014-07-15

    Relatively large amounts of transfected siRNA can compete for Ago proteins and thus compromise endogenous miRNA function, potentially leading to toxicities. Here, we show that shRNA can also perturb endogenous miRNA function similarly. More importantly, we also show that the problem can be solved by designing shRNAs in the context of pre-miR-451 structure with completely complementary stem, which significantly improves the Ago2 specificity. This shRNA was shown to be Ago2-specific, and maintain target-silencing ability while avoiding competition with endogenous miRNAs by not competing for Agos 1, 3, and 4. We conclude that modified pre-miR-451 structure provides a general platform to design shRNAs that significantly reduce perturbation of miRNA function.

  18. A Young Eclipsing Binary and its Luminous Neighbors in the Embedded Star Cluster Sh 2-252E

    CERN Document Server

    Lester, Kathryn V; Guo, Zhao

    2016-01-01

    We present a photometric and light curve analysis of an eccentric eclipsing binary in the K2 Campaign 0 field that resides in Sh 2-252E, a young star cluster embedded in an H II region. We describe a spectroscopic investigation of the three brightest stars in the crowded aperture to identify which is the binary system. We find that none of these stars are components of the eclipsing binary system, which must be one of the fainter nearby stars. These bright cluster members all have remarkable spectra: Sh 2-252a (EPIC 202062176) is a B0.5 V star with razor sharp absorption lines, Sh 2-252b is a Herbig A0 star with disk-like emission lines, and Sh 2-252c is a pre-main sequence star with very red color.

  19. ANKRD54 preferentially selects Bruton's Tyrosine Kinase (BTK) from a Human Src-Homology 3 (SH3) domain library.

    Science.gov (United States)

    Gustafsson, Manuela O; Mohammad, Dara K; Ylösmäki, Erkko; Choi, Hyunseok; Shrestha, Subhash; Wang, Qing; Nore, Beston F; Saksela, Kalle; Smith, C I Edvard

    2017-01-01

    Bruton's Tyrosine Kinase (BTK) is a cytoplasmic protein tyrosine kinase with a fundamental role in B-lymphocyte development and activation. The nucleocytoplasmic shuttling of BTK is specifically modulated by the Ankyrin Repeat Domain 54 (ANKRD54) protein and the interaction is known to be exclusively SH3-dependent. To identify the spectrum of the ANKRD54 SH3-interactome, we applied phage-display screening of a library containing all the 296 human SH3 domains. The BTK-SH3 domain was the prime interactor. Quantitative western blotting analysis demonstrated the accuracy of the screening procedure. Revealing the spectrum and specificity of ANKRD54-interactome is a critical step toward functional analysis in cells and tissues.

  20. Is TNF-a-targeted short hairpin RNA (shRNA) a novel potential therapeutic tool in psoriasis treatment?

    DEFF Research Database (Denmark)

    Stenderup, Karin; Jakobsen, Maria; Rosada, Cecilia

    2008-01-01

      TNF-α is a well known target in psoriasis treatment and biological treatments targeting TNF-a are already clinically used against psoriasis and psoriasis arthritis. Attention is however given to a novel therapeutic tool: RNA interference that controls gene silencing. This study investigates...... the efficiency of targeting TNF-a with specific short hairpin RNA (shRNA) and explores its potential in treating psoriasis. ShRNAs targeting human TNF-α mRNA were generated. Their efficiency in down-regulating TNF-a protein expression was evaluated using a Renilla luciferase screening-assay and a transient co......-transfection assay. The expression cassette encoding the most efficient TNF-a shRNA was inserted into a lentiviral vector, allowing proficient gene delivery. The lentiviral vector is integrated into the host genome and establishes life-long infection and persistent shRNA expression. The lentiviral vector expressing...

  1. MeSH--a unique partnership. An interview with Eugene E. Loubier, President, Franklin Medical Center, Greenfield, Massachusetts.

    Science.gov (United States)

    Loubier, E E

    1984-10-01

    HCSM's interview this month is with Eugene E. Loubier, FACHA, President of Franklin Medical Center, Greenfield, Massachusetts. This 162-bed facility is the first to start formally a MeSH plan, a unique medical staff/hospital joint venture or partnership. Through MeSH, the hospital and its medical staff have created a new corporation, equally owned by the hospital and the medical staff members participating in the MeSH. This corporation is responsible for areas where the economic interests of the physicians and the hospitals overlap. Instead of each party independently pursuing economic opportunities that might impact the other party, the MeSH can, as a whole, undertake the venture.

  2. A Novel Heterozygous Mutation in the STAT1 SH2 Domain Causes Chronic Mucocutaneous Candidiasis, Atypically Diverse Infections, Autoimmunity, and Impaired Cytokine Regulation

    Science.gov (United States)

    Meesilpavikkai, Kornvalee; Dik, Willem A.; Schrijver, Benjamin; Nagtzaam, Nicole M. A.; van Rijswijk, Angelique; Driessen, Gertjan J.; van der Spek, Peter J.; van Hagen, P. Martin; Dalm, Virgil A. S. H.

    2017-01-01

    Chronic mucocutaneous candidiasis (CMC) is a primary immunodeficiency characterized by persistent or recurrent skin and mucosal surface infections with Candida species. Different gene mutations leading to CMC have been identified. These include various heterozygous gain-of-function (GOF) mutations in signal transducer and activator of transcription 1 (STAT1) that are not only associated with infections but also with autoimmune manifestations. Recently, two STAT1 GOF mutations involving the Src homology 2 (SH2) domain have been reported, while so far, over 50 mutations have been described mainly in the coiled coil and the DNA-binding domains. Here, we present two members of a Dutch family with a novel STAT1 mutation located in the SH2 domain. T lymphocytes of these patients revealed STAT1 hyperphosphorylation and higher expression of STAT1 target genes. The clinical picture of CMC in our patients could be explained by diminished production of interleukin (IL)-17 and IL-22, cytokines important in the protection against fungal infections.

  3. Swimming with ShARCS: Comparison of On-sky Sensitivity With Model Predictions for ShaneAO on the Lick Observatory 3-meter Telescope

    CERN Document Server

    Srinath, Srikar; Rockosi, Constance; Kupke, Renate; Gavel, Donald; Cabak, Gerald; Cowley, David; Peck, Michael; Ratliff, Christopher; Gates, Elinor; Peck, Michael; Dillon, Daren; Norton, Andrew; Reining, Marc

    2014-01-01

    The Lick Observatory's Shane 3-meter telescope has been upgraded with a new infrared instrument (ShARCS - Shane Adaptive optics infraRed Camera and Spectrograph) and dual-deformable mirror adaptive optics (AO) system (ShaneAO). We present first-light measurements of imaging sensitivity in the Ks band. We compare measured results to predicted signal-to-noise ratio and magnitude limits from modeling the emissivity and throughput of ShaneAO and ShARCS. The model was validated by comparing its results to the Keck telescope adaptive optics system model and then by estimating the sky background and limiting magnitudes for IRCAL, the previous infra-red detector on the Shane telescope, and comparing to measured, published results. We predict that the ShaneAO system will measure lower sky backgrounds and achieve 20\\% higher throughput across the $JHK$ bands despite having more optical surfaces than the current system. It will enable imaging of fainter objects (by 1-2 magnitudes) and will be faster to reach a fiducial ...

  4. Solution structure of the human BTK SH3 domain complexed with a proline-rich peptide from p120cbl

    Energy Technology Data Exchange (ETDEWEB)

    Tzeng, S.-R.; Lou, Y.-C.; Pai, M.-T.; Jain, Moti L.; Cheng, J.-W. [National Tsing Hua University, Division of Structural Biology and Biomedical Science, Department of Life Science (China)

    2000-04-15

    X-linked agammaglobulinemia (XLA), an inherited disease, is caused by mutations in the Bruton's tyrosine kinase (BTK). The absence of functional BTK leads to failure of B cell differentiation which incapacitates antibody production in XLA patients leading to, sometimes lethal, bacterial infections. Point mutation in the BTK gene that leads to deletion of C-terminal 14 aa residues of BTK SH3 domain was found in one patient family. To understand the role of BTK in B cell development, we have determined the solution structure of BTK SH3 domain complexed with a proline-rich peptide from the protein product of c-cbl protooncogene (p120{sup cbl}). Like other SH3 domains, BTK SH3 domain consists of five {beta}-strands packed in two {beta}-sheets forming a {beta}-barrel-like structure. The rmsd calculated from the averaged coordinates for the BTK SH3 domain residues 218-271 and the p120{sup cbl} peptide residues 6-12 of the complex was 0.87 A ({+-}0.16 A) for the backbone heavy atoms (N, C, and C{sub {alpha}}) and 1.64 A ({+-}0.16 A) for all heavy atoms. Based on chemical shift changes and inter-molecular NOEs, we have found that the residues located in the RT loop, n-Src loop and helix-like loop between {beta}4 and {beta}5 of BTK SH3 domain are involved in ligand binding. We have also determined that the proline-rich peptide from p120{sup cbl} binds to BTK SH3 domain in a class I orientation. These results correlate well with our earlier observation that the truncated BTK SH3 domain (deletion of {beta}4, {beta}5 and the helix-like loop) exhibits weaker affinity for the p120{sup cbl} peptide. It is likely that the truncated SH3 domain fails to present to the ligand the crucial residues in the correct context and hence the weaker binding. These results delineate the importance of the C-terminus in the binding of SH3 domains and also indicate that improper folding and the altered binding behavior of mutant BTK SH3 domain likely lead to XLA.

  5. Optimization of fermentation process in skim milk with ST-ⅢLactobacillus plantarum%植物乳杆菌ST-Ⅲ脱脂乳的发酵工艺优化

    Institute of Scientific and Technical Information of China (English)

    华宝珍; 李莎; 徐爱才; 徐志平; 马成杰

    2014-01-01

    Fermented milk is increasingly used as a carrier of probiotics for their potential health functions. Because the concentration of viable probiotics is the key factor to health functions, it should be higher than the recommended concentration for probiotics (106 CFU/g). However, there are many products with low viability of probiotics in the market. It is very important and necessary for the milk industry to increase the count of viable probiotics in yogurt. In addition, survival during the passage through the gastrointestinal tract is generally considered a key feature for probiotics to preserve their expected health functions. However, the traditional yogurt starters (Streptococcus thermophilus and Lactobacillus bulgaricus) have weak tolerance to acid and bile salt and hence limit therapeutic effects. Lactobacillus plantarum has been demonstrated that it can survive in the human intestine and tolerate acid and bile salt. Moreover, it has a lot of precious therapeutic effects, such as precipitating and assimilating cholesterols, lowering blood sugar, diminishing inflammation and improving immunity. Hence, L.plantarumhas become one of research hotspots in recent years. Lactobacillus plantarum ST-Ⅲ strain (CGMCC No.0847) is a probiotics and has ability to tolerate acid and bile salts as well as grow in the lower intestinal tract. It also be proved to have ability to precipitate and assimilate cholesterols in vitro andin vivo. However L.plantarumST-Ⅲ strain is auxotrophic and has weak ability to grow in skim milk and clot milk by acidification. In this study, to increase the concentration of viableL.plantarumST-Ⅲ and elucidate the factors restricting growth ofL.plantarumST-Ⅲ in skim milk, the fermentation conditions were researched and optimized. The effects of soybean polypeptide concentration, manganese gluconate concentration, inoculum size of S. thermophilus and fermentation temperature on the pH and living cell count ofL.plantarumST-Ⅲ of fermented milk

  6. 人AQP1-shRN A 表达质粒载体的构建与筛选%Construction and screening of human AQP1 shRNA expression vectors

    Institute of Scientific and Technical Information of China (English)

    李卓; 康炜; 辛娜; 田宇; 李建华

    2015-01-01

    Objective To construct and screen effective shRNA expression vectors targeting human AQP1 gene ,and evaluate the interference efficiency of the AQP1 shRNA recombinant plasmids ,thus provide basis for further exploration on the effect and mechanism of AQP1 gene on human breast cancer cells .Methods Four pairs of shRNA sequences targeting human AQP1 gene were designed and synthesized ,and then inserted into the GV115 vector .AQP1 shRNA and control shRNA plasmids were trans‐fected into human breast cancer MCF‐7 cells .The expression of AQP1 mRNA and protein were detected by real time PCR(RT‐PCR) and Western blot to evaluate the interfering efficiency .Results RT‐PCR demonstrated that AQP1 was expressed in human breast cancer MCF‐7 cells .Sequencing showed that the shRNA vectors targeting AQP1 were successfully constructed .48 h after the AQP1 shRNA transfection ,AQP1 mRNA and protein expression levels in MCF‐7 cells were reduced to a significant degree ,and the AQP1 shRNA 4 plasmid vector could inhibit the AQP1 most efficiently .Conclusion The AQP1 shRNA recombinant plasmids vectors were successfully constructed and can significantly inhibit the expression of AQP1 in MCF‐7 human breast cancer cells .%目的:构建针对人水通道蛋白1(AQP1)基因的shRNA表达质粒载体,并验证其干扰效果,为进一步探讨AQP1基因对人乳腺癌细胞的作用及机制建立基础。方法设计合成4对针对人AQP1基因不同位点的shRNA片段,通过DNA重组技术将其插入载体GV115中,构建AQP1‐shRNA重组质粒,转染人乳腺癌MCF‐7细胞,并通过实时荧光定量 PCR(RT‐PCR)和Western blot法检测干扰效率。结果 RT‐PCR法证实AQP1在乳腺癌 MCF‐7细胞中有表达。测序验证表明4对靶向AQP1‐shRNA表达载体均构建成功。4组干扰载体能够从基因和蛋白表达水平不同程度抑制 AQP1表达,其中以AQP1‐shRNA 4对AQP1的干扰效率最强。结论成功

  7. SH-Wave at a Plane Interface between Homogeneous and Inhomogeneous Fibre-Reinforced Elastic Half-Spaces

    Directory of Open Access Journals (Sweden)

    C. Zorammuana

    2015-01-01

    Full Text Available The problem of reflection and refraction of SH-waves at a plane interface between the homogeneous and inhomogeneous fibre-reinforced elastic half-spaces has been investigated. Amplitude and energy ratios corresponding to the reflected and refracted SH-waves are derived using appropriate boundary conditions. These ratios are computed numerically for a particular model and the results are depicted graphically.

  8. Screening for coding variants in FTO and SH2B1 genes in Chinese patients with obesity.

    Directory of Open Access Journals (Sweden)

    Zhaojing Zheng

    Full Text Available OBJECTIVE: To investigate potential functional variants in FTO and SH2B1 genes among Chinese children with obesity. METHODS: Sanger sequencing of PCR products of all FTO and SH2B1 exons and their flanking regions were performed in 338 Chinese Han children with obesity and 221 age- and sex-matched lean controls. RESULTS: A total of seven and five rare non-synonymous variants were identified in FTO and SH2B1, respectively. The overall frequencies of FTO and SH2B1 rare non-synonymous variants were similar in obese and lean children (2.37% and 0.90% vs. 1.81% and 1.36%, P>0.05. However, four out of the seven variants in FTO were novel and all were unique to obese children (p>0.05. None of the novel variants was consistently being predicted to be deleterious. Four out of five variants in SH2B1 were novel and one was unique to obese children (p>0.05. One variant (L293R that was consistently being predicted as deleterious in SH2B1 gene was unique to lean control. While rare missense mutations were more frequently detected in girls from obesity as well as lean control than boys, the difference was not statistically significant. In addition, it's shown that the prevalence of rare missense mutations of FTO as well as SH2B1 was similar across different ethnic groups. CONCLUSION: The rare missense mutations of FTO and SH2B1 did not confer risks of obesity in Chinese Han children in our cohort.

  9. Screening for Coding Variants in FTO and SH2B1 Genes in Chinese Patients with Obesity

    Science.gov (United States)

    Huang, Xiaodong; Yang, Peirong; Li, Juan; Ding, Yu; Yao, Ru-en; Geng, Juan; Shen, Yongnian; Shen, Yiping; Fu, Qihua; Yu, Yongguo

    2013-01-01

    Objective To investigate potential functional variants in FTO and SH2B1 genes among Chinese children with obesity. Methods Sanger sequencing of PCR products of all FTO and SH2B1 exons and their flanking regions were performed in 338 Chinese Han children with obesity and 221 age- and sex-matched lean controls. Results A total of seven and five rare non-synonymous variants were identified in FTO and SH2B1, respectively. The overall frequencies of FTO and SH2B1 rare non-synonymous variants were similar in obese and lean children (2.37% and 0.90% vs. 1.81% and 1.36%, P>0.05). However, four out of the seven variants in FTO were novel and all were unique to obese children (p>0.05). None of the novel variants was consistently being predicted to be deleterious. Four out of five variants in SH2B1 were novel and one was unique to obese children (p>0.05). One variant (L293R) that was consistently being predicted as deleterious in SH2B1 gene was unique to lean control. While rare missense mutations were more frequently detected in girls from obesity as well as lean control than boys, the difference was not statistically significant. In addition, it's shown that the prevalence of rare missense mutations of FTO as well as SH2B1 was similar across different ethnic groups. Conclusion The rare missense mutations of FTO and SH2B1 did not confer risks of obesity in Chinese Han children in our cohort. PMID:23825611

  10. A multiwavelength study of star formation in the vicinity of Galactic HII region Sh2-100

    OpenAIRE

    Samal, M. R.; Pandey, A. K.; Ojha, D. K.; Ghosh, S K; Kulkarni, V. K.; Kusakabe, N.; Tamura, M.; Bhatt, B. C.; Thompson, M A; Sagar, R

    2010-01-01

    We present multiwavelength investigation of morphology, physical-environment, stellar contents and star formation activity in the vicinity of star-forming region Sh 2-100. It is found that the Sh 2-100 region contains seven HII regions of ultracompact and compact nature. The present estimation of distance for three HII regions, along with the kinematic distance for others, suggests that all of them belong to the same molecular cloud complex. Using NIR photometry, we identified the most probab...

  11. Enhanced CH₄ Recovery Induced via Structural Transformation in the CH₄/CO₂ Replacement That Occurs in sH Hydrates.

    Science.gov (United States)

    Lee, Yohan; Kim, Yunju; Seo, Yongwon

    2015-07-21

    The CH4/CO2 replacement that occurs in sH hydrates is investigated, with a primary focus on the enhanced CH4 recovery induced via structural transformation with a CO2 injection. In this study, neohexane (NH) is used as a liquid hydrocarbon guest in the sH hydrates. Direct thermodynamic measurements and spectroscopic identification are investigated to reveal the replacement process for recovering CH4 and simultaneously sequestering CO2 in the sH (CH4 + NH) hydrate. The hydrate phase behavior and the (13)C NMR and Raman spectroscopy results of the CH4 + CO2 + NH systems demonstrate that CO2 functions as a coguest of sH hydrates in CH4-rich conditions, and that the structural transition of sH to sI hydrates occurs in CO2-rich conditions. CO2 molecules are found to preferentially occupy the medium 4(3)5(6)6(3) cages of sH hydrates or the large 5(12)6(2) cages of sI hydrates during the replacement. Due to the favorable structural transition and resulting re-establishment of guest distributions, approximately 88% of the CH4 is recoverable from sH (CH4 + NH) hydrates with a CO2 injection. The hydrate dissociation and subsequent reformation caused by the structural transformation of sH to sI is also confirmed using a high-pressure microdifferential scanning calorimeter through the detection of the significant heat flows generated during the replacement.

  12. Codelivery of SH-aspirin and curcumin by mPEG-PLGA nanoparticles enhanced antitumor activity by inducing mitochondrial apoptosis.

    Science.gov (United States)

    Zhou, Lin; Duan, Xingmei; Zeng, Shi; Men, Ke; Zhang, Xueyan; Yang, Li; Li, Xiang

    2015-01-01

    Natural product curcumin (Cur) and H2S-releasing prodrug SH-aspirin (SH-ASA) are potential anticancer agents with diverse mechanisms, but their clinical application prospects are restricted by hydrophobicity and limited efficiency. In this work, we coencapsulated SH-ASA and Cur into methoxy poly(ethylene glycol)-poly (lactide-coglycolide) (mPEG-PLGA) nanoparticles through a modified oil-in-water single-emulsion solvent evaporation process. The prepared SH-ASA/Cur-coloaded mPEG-PLGA nanoparticles had a mean particle size of 122.3±6.8 nm and were monodispersed (polydispersity index =0.179±0.016) in water, with high drug-loading capacity and stability. Intriguingly, by treating with SH-ASA/Cur-coloaded mPEG-PLGA nanoparticles, obvious synergistic anticancer effects on ES-2 and SKOV3 human ovarian carcinoma cells were observed in vitro, and activation of the mitochondrial apoptosis pathway was indicated. Our results demonstrated that SH-ASA/Cur-coloaded mPEG-PLGA nanoparticles could have potential clinical advantages for the treatment of ovarian cancer.

  13. HUMAN PAPILLOMAVIRUS TYPE 16 L1 PROTEIN CAN BE EXPRESSED IN LIVE ATTENUATED SHIGELLA FLEXNERI 5A STRAIN SH42

    Institute of Scientific and Technical Information of China (English)

    Qu Xinzhong; Yang Xiaofeng; Zheng Jin; Wang Kai; Si Lüsheng; Wang Yili

    2005-01-01

    Objective Attenuated strains of Shigella are attractive live vaccine candidates for eliciting mucosal immune responses which is a suitable carrier for the prophylactic human papillomaviruses (HPV) vaccine development, To examine the potential of a live Shigella based prophylactic HPV vaccine, HPV16L1should be expressed in attenuated shigella strain. Methods A Shigella large invasive plasmid (icsA/virG) based prokaryotic expression plasmid pHS3199 was constructed. HPV16L1 gene was inserted into plasmid pHS3199 to form pHS3199-HPV16 L1 construct, and pHS3199-hpv16L1 was electroporated into a live attenuated shigella strain sh42. The expression of HPV16L1 protein was demonstrated by Western blotting with monoclonal antibody to HPV16L1, The genetic stability of recombinant strain sh42-HPV16 L1 was monitored by consecutive passage culture. Invasive ability of sh42-HPV16L1 was evaluated by Hela cell infection assay. Results HPV16 L1 protein can be expressed in recombinant strain sh42-HPV16 L1, and the protein stably expressed over 140 generations. The invasive ability of sh42-HPV16L1 was diminished dramatically compared to its parent strain, but not abolished completely. Conclusion HPV16L1 protein was constitutively expressed in the attenuated strain of shigella flexneri sh42, and maintained partial invasive ability. Our strategy may represent a promising vaccine candidate against genital HPV16 infection.

  14. “Girls are dancin’”: shōjo culture and feminism in contemporary Japanese art

    Directory of Open Access Journals (Sweden)

    Emily Jane Wakeling

    2011-12-01

    Full Text Available This article explores the gender-transgressive expressions found in shōjo culture in order to highlight the potential for feminist analysis in the prevalence of the shōjo motif in contemporary Japanese art. Shōjo culture is a fascinating cultural space, within contemporary Japanese culture, which fosters creative expressions of gender that negate or make complex hegemonic categories. Departing from stereotypes of Japanese girls, this article will pay particular interest to an emerging wave of figurative contemporary art practices in which the figure of the shōjo is utilised for a new generation of feminist critique. Aoshima Chiho, Kunikata Mahomi, Takano Aya, Sawada Tomoko and Yanagi Miwa are among the current artists who feature the shōjo motif in contexts that foreground female subjectivities found paralleled in shōjo culture. These works will then be contextualised in the greater picture of current trends and themes in global contemporary feminist art.

  15. RNAi Codex: a portal/database for short-hairpin RNA (shRNA) gene-silencing constructs.

    Science.gov (United States)

    Olson, A; Sheth, N; Lee, J S; Hannon, G; Sachidanandam, R

    2006-01-01

    Use of RNA interference (RNAi) in forward genetic screens is proliferating. Currently, short-interfering RNAs (siRNAs) and short-hairpin RNAs (shRNAs) are being used to silence genes to tease out functional information. It is becoming easier to harness RNAi to silence specific genes, owing to the development of libraries of readymade shRNA and siRNA gene-silencing constructs by using a variety of sources. RNAi Codex, which consists of a database of shRNA related information and an associated website, has been developed as a portal for publicly available shRNA resources and is accessible at http://codex.cshl.org. RNAi Codex currently holds data from the Hannon-Elledge shRNA library and allows the use of biologist-friendly gene names to access information on shRNA constructs that can silence the gene of interest. It is designed to hold user-contributed annotations and publications for each construct, as and when such data become available. We will describe features of RNAi Codex and explain the use of the tool.

  16. Plasmid-based Survivin shRNA and GRIM-19 carried by attenuated Salmonella suppresses tumor cell growth

    Institute of Scientific and Technical Information of China (English)

    Yan-Bo Liu1; De-Qi Xu; Ling Zhang1; Ya-Xiong Guo; Li-Fang Gao; Xi-Chun Liu; Li-Juan Zhao; Bao-Feng Guo; Li-Jing Zhao; Xue-Jian Zhao

    2012-01-01

    Persistent activation of Survivin and its overexpression contribute to the formation,progression and metastasis of several different tumor types.Therefore,Survivin is an ideal target for RNA interference mediated-growth inhibition.Blockade of Survivin using specific short hairpin RNAs (shRNA) can significantly reduce prostate tumor growth.RNA interference does not fully ablate target gene expression,owing to the idiosyncrasies associated with shRNAs and their targets.To enhance the therapeutic efficacy of Survivin-specific shRNA,we employed a combinatorial expression of Survivin-specific shRNA and gene associated with retinoid-interferon-induced mortality-19 (GRIM-19).Then,the GRIM-19 coding sequences and Survivin-specific shRNAs were used to create a dual expression plasmid vector and were carried by an attenuated strain of Salmonella enteric serovar typhimurium (S.typhimurium) to treat prostate cancer in vitroand in vivo.We found that the co-expressed Survivin-specific shRNA and GRIM-19synergistically and more effectively inhibited prostate tumor proliferation and survival,when compared with treatment with either single agent alone in vitro and in vivo.This study has provided a novel cancer gene therapeutic approach for prostate cancer.

  17. Adenovirus vectors lacking virus-associated RNA expression enhance shRNA activity to suppress hepatitis C virus replication

    Science.gov (United States)

    Pei, Zheng; Shi, Guoli; Kondo, Saki; Ito, Masahiko; Maekawa, Aya; Suzuki, Mariko; Saito, Izumu; Suzuki, Tetsuro; Kanegae, Yumi

    2013-12-01

    First-generation adenovirus vectors (FG AdVs) expressing short-hairpin RNA (shRNA) effectively downregulate the expressions of target genes. However, this vector, in fact, expresses not only the transgene product, but also virus-associated RNAs (VA RNAs) that disturb cellular RNAi machinery. We have established a production method for VA-deleted AdVs lacking expression of VA RNAs. Here, we showed that the highest shRNA activity was obtained when the shRNA was inserted not at the popularly used E1 site, but at the E4 site. We then compared the activities of shRNAs against hepatitis C virus (HCV) expressed from VA-deleted AdVs or conventional AdVs. The VA-deleted AdVs inhibited HCV production much more efficiently. Therefore, VA-deleted AdVs were more effective than the currently used AdVs for shRNA downregulation, probably because of the lack of competition between VA RNAs and the shRNAs. These VA-deleted AdVs might enable more effective gene therapies for chronic hepatitis C.

  18. Recognition and identification of active components from Radix Bupleuri using human neuroblastoma SH-SY5Y cells.

    Science.gov (United States)

    Zhang, Yan; Liu, Feihu; Zhang, Xiaohong; Xu, Tanghui; Quan, Wei; Wang, Hui; Shi, Jianguo; Dai, Zunxiao; Wu, Bin; Wu, Qiangju

    2016-03-01

    The aim of the study was to screen active components of Radix Bupleuri (a traditional Chinese herb) and discover novel anti-schizophrenic candidate drugs using human neuroblastoma SH-SY5Y cells. SH-SY5Y cells were used for preparation of the stationary phase in the cell membrane chromatography model. Retention components by the SH-SY5Y/CMC model were collected and then analyzed by GC/MS under the optimized conditions in offline conditions. After investigating the suitability and reliability of the SH-SY5Y/CMC method using amisulpride and haloperidol as standard compounds, this method was applied to screening active components from the extracts of Radix Bupleuri. Retention components of SH-SY5Y/CMC model were saikosaponin A, saikosaponin B1, saikosaponin B2, saikosaponin C and saikosaponin D, which were identified by the GC/MS method. In vitro pharmacological trials-MTT, saikosaponin B1, saikosaponin B2 and saikosaponin C could protect SY5Y cells. The protective effects of saikosaponin B1 and saikosaponin C were concentration dependent. Saikosaponin A and saikosaponin D inhibited cell viability at concentrations >30 µg/mL (p components from Radix Bupleuri, accurately identified them and determined their different effects on SH-SY5Y cells. Saikosaponin B1, saikosaponin B2 and saikosaponin C may be anti-schizophrenic candidate drugs.

  19. Yes-associated protein and p53-binding protein-2 interact through their WW and SH3 domains.

    Science.gov (United States)

    Espanel, X; Sudol, M

    2001-04-27

    To understand the role of the Yes-associated protein (YAP), binding partners of its WW1 domain were isolated by a yeast two-hybrid screen. One of the interacting proteins was identified as p53-binding protein-2 (p53BP-2). YAP and p53BP-2 interacted in vitro and in vivo using their WW1 and SH3 domains, respectively. The YAP WW1 domain bound to the YPPPPY motif of p53BP-2, whereas the p53BP-2 SH3 domain interacted with the VPMRLR sequence of YAP, which is different from other known SH3 domain-binding motifs. By mutagenesis, we showed that this unusual SH3 domain interaction was due to the presence of three consecutive tryptophans located within the betaC strand of the SH3 domain. A point mutation within this triplet, W976R, restored the binding selectivity to the general consensus sequence for SH3 domains, the PXXP motif. A constitutively active form of c-Yes was observed to decrease the binding affinity between YAP and p53BP-2 using chloramphenicol acetyltransferase/enzyme-linked immunosorbent assay, whereas the overexpression of c-Yes did not modify this interaction. Since overexpression of an activated form of c-Yes resulted in tyrosine phosphorylation of p53BP-2, we propose that the p53BP-2 phosphorylation, possibly in the WW1 domain-binding motif, might negatively regulate the YAP.p53BP-2 complex.

  20. Anticancer activity of NOB1-targeted shRNA combination with TRAIL in epithelial ovarian cancer cells.

    Science.gov (United States)

    Lin, Yang; Xu, Tianmin; Teng, Hong; Cui, Manhua

    2015-01-01

    Tumor necrosis factor-related apoptosis-inducing ligand (TRAIL) based strategy is a promising targeted therapeutic approach for the treatment of ovarian cancer. However, the effectiveness of the treatment remains limited due to the inherent or acquired resistance of tumor cells to TRAIL. Our previously study demonstrated that downregulation of NOB1 (NIN1/RPN12 binding protein 1 homolog) expression by a lentiviral short hairpin RNA (shRNA) delivery system (Lv/sh-NOB1) suppressed ovarian cancer growth. Here, Lv/sh-NOB1 and TRAIL were combined and tested the effects of this combination on ovarian cancer cells to identify more effective therapeutics against ovarian cancer by several in vitro experiments. Tumor growth ability in SKVO3 xenograft nude mice was also determined to define this combination treatment effect in tumorigenesis in vivo. In vitro assay showed that Lv/sh-NOB1 in combination with TRAIL treatment in ovarian cancer cell synergistically suppressed the proliferation and colony formation, as well as induced cell apoptosis and increased the activity of caspase-3, -8 and -9. In vivo assay showed that Lv/sh-NOB1 combination with TRAIL synergistically suppressed tumor growth of nude mice model. Importantly, we found that downregulation of NOB1 could upregulate DR5 expression and active MAPK pathway, which might contribute to increase sensitivity TRAIL to ovarian cancer cells. These findings suggested that Lv/sh-NOB1 combination with TRAIL treatment may be a potential treatment approach for ovarian cancer.